SUPERFAMILY 1.75 HMM library and genome assignments server

PDZ domain-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   PDZ domain-like [ 50155]
Superfamily:   PDZ domain-like [ 50156] (6)
Families:   PDZ domain [ 50157] (46)
  Tail specific protease PDZ domain [ 68933] (2)
  HtrA-like serine proteases [ 74933] (4)
  Interleukin 16 [ 50172]
  EpsC C-terminal domain-like [ 159046]
  MTH1368 C-terminal domain-like [ 159049]


Superfamily statistics
Genomes (3,119) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 55,018 139,061 117
Proteins 37,216 105,247 112


Functional annotation
General category Regulation
Detailed category Signal transduction

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Biological Process (BP)cellular component organization or biogenesis0.00026570Least InformativeDirect
Biological Process (BP)developmental process0.0014830Least InformativeInherited
Biological Process (BP)multicellular organismal process0.01340Least InformativeInherited
Biological Process (BP)localization0.050370Least InformativeInherited
Biological Process (BP)single-organism cellular process0.10090.000000000004652Least InformativeInherited
Biological Process (BP)response to stimulus0.4070.00000000000002422Least InformativeInherited
Biological Process (BP)regulation of cellular process0.45520.04479Least InformativeInherited
Biological Process (BP)anatomical structure morphogenesis0.13410.0000001782Moderately InformativeInherited
Biological Process (BP)cellular localization0.010260.00000001289Moderately InformativeInherited
Biological Process (BP)cellular component biogenesis0.27290.0001263Moderately InformativeInherited
Biological Process (BP)signal transduction0.35280.0002803Moderately InformativeInherited
Biological Process (BP)synaptic transmission0.00053190InformativeDirect
Biological Process (BP)growth0.0012320.0002414InformativeInherited
Biological Process (BP)organelle localization0.001360.00000001549InformativeInherited
Biological Process (BP)vesicle-mediated transport0.032410.5608InformativeInherited
Biological Process (BP)intracellular signal transduction0.0018630.00000000000291InformativeInherited
Biological Process (BP)cell junction organization0.0000050580Highly InformativeDirect
Biological Process (BP)small GTPase mediated signal transduction0.000019650.00000248Highly InformativeDirect
Biological Process (BP)respiratory system development0.000028730.0000005924Highly InformativeDirect
Biological Process (BP)developmental growth0.00072670.004642Highly InformativeInherited
Biological Process (BP)establishment of synaptic vesicle localization0.00000023810.01864Highly InformativeInherited
Molecular Function (MF)binding0.000000065410Least InformativeDirect
Cellular Component (CC)membrane0.00034060Least InformativeDirect
Cellular Component (CC)non-membrane-bounded organelle0.034510Least InformativeInherited
Cellular Component (CC)intracellular organelle part0.45951Least InformativeInherited
Cellular Component (CC)plasma membrane part0.000000027160Moderately InformativeDirect
Cellular Component (CC)cytoskeleton0.000045420Moderately InformativeDirect
Cellular Component (CC)membrane region0.00017540Moderately InformativeDirect
Cellular Component (CC)cell projection0.00099760Moderately InformativeDirect
Cellular Component (CC)cell junction0.00000076090InformativeDirect
Cellular Component (CC)synapse0.0000087130InformativeDirect
Cellular Component (CC)plasma membrane region0.000024740InformativeDirect
Cellular Component (CC)basolateral plasma membrane0.000000099620Highly InformativeDirect

Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) cellular component organization or biogenesis 0 Least Informative Direct
Biological Process (BP) developmental process 0 Least Informative Direct
Biological Process (BP) multicellular organismal process 0 Least Informative Direct
Biological Process (BP) localization 0 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.000000000004652 Least Informative Direct
Biological Process (BP) response to stimulus 0.00000000000002422 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 1 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.04479 Least Informative Inherited
Biological Process (BP) protein metabolic process 1 Least Informative Inherited
Biological Process (BP) positive regulation of biological process 1 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular localization 0.00000001289 Moderately Informative Direct
Biological Process (BP) single-organism organelle organization 0.000000000001724 Moderately Informative Direct
Biological Process (BP) regulation of localization 0.0000000064 Moderately Informative Direct
Biological Process (BP) macromolecule localization 0 Moderately Informative Direct
Biological Process (BP) regulation of biological quality 0.00000009979 Moderately Informative Direct
Biological Process (BP) anatomical structure morphogenesis 0.0000001782 Moderately Informative Direct
Biological Process (BP) cellular component biogenesis 0.0001263 Moderately Informative Direct
Biological Process (BP) signal transduction 0.0002803 Moderately Informative Direct
Biological Process (BP) regulation of signal transduction 0.0000783 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 0 Moderately Informative Direct
Biological Process (BP) nervous system development 0 Moderately Informative Direct
Biological Process (BP) regulation of phosphorus metabolic process 0 Moderately Informative Direct
Biological Process (BP) regulation of catalytic activity 0 Moderately Informative Direct
Biological Process (BP) tissue development 0.00000000002727 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 0.0002266 Moderately Informative Direct
Biological Process (BP) response to endogenous stimulus 1 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) organ development 1 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 1 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.03889 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 1 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.6879 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.1466 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) ion transport 1 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.001771 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.4875 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 1 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.007409 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 0.01356 Moderately Informative Inherited
Biological Process (BP) reproductive process 0.09739 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 1 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.02588 Moderately Informative Inherited
Biological Process (BP) nucleobase-containing small molecule metabolic process 0.149 Moderately Informative Inherited
Biological Process (BP) immune system process 0.7158 Moderately Informative Inherited
Biological Process (BP) defense response 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.1513 Moderately Informative Inherited
Biological Process (BP) synaptic transmission 0 Informative Direct
Biological Process (BP) growth 0.0002414 Informative Direct
Biological Process (BP) organelle localization 0.00000001549 Informative Direct
Biological Process (BP) intracellular signal transduction 0.00000000000291 Informative Direct
Biological Process (BP) negative regulation of cell communication 0.0005568 Informative Direct
Biological Process (BP) negative regulation of signaling 0.00007478 Informative Direct
Biological Process (BP) cytoskeleton organization 0 Informative Direct
Biological Process (BP) regulation of purine nucleotide metabolic process 0 Informative Direct
Biological Process (BP) biological adhesion 0 Informative Direct
Biological Process (BP) positive regulation of cellular component organization 0 Informative Direct
Biological Process (BP) epithelium development 0 Informative Direct
Biological Process (BP) regulation of nucleoside metabolic process 0 Informative Direct
Biological Process (BP) tissue morphogenesis 0 Informative Direct
Biological Process (BP) embryonic morphogenesis 0 Informative Direct
Biological Process (BP) locomotion 0 Informative Direct
Biological Process (BP) actin filament-based process 0 Informative Direct
Biological Process (BP) positive regulation of catabolic process 0.0000000000000567 Informative Direct
Biological Process (BP) regulation of cellular component biogenesis 0.0000000000001239 Informative Direct
Biological Process (BP) cellular component movement 0.0000000000001499 Informative Direct
Biological Process (BP) regulation of cell development 0.0000000000008969 Informative Direct
Biological Process (BP) regulation of cellular catabolic process 0.00000000001392 Informative Direct
Biological Process (BP) secretion by cell 0.00000000002474 Informative Direct
Biological Process (BP) positive regulation of transport 0.00000000003865 Informative Direct
Biological Process (BP) cell projection organization 0.000000000122 Informative Direct
Biological Process (BP) regulation of nervous system development 0.0000000001472 Informative Direct
Biological Process (BP) single-organism behavior 0.000000000271 Informative Direct
Biological Process (BP) regulation of anatomical structure morphogenesis 0.0000000008744 Informative Direct
Biological Process (BP) single-organism membrane organization 0.000000001134 Informative Direct
Biological Process (BP) phosphorylation 0.00000000464 Informative Direct
Biological Process (BP) localization of cell 0.000000006748 Informative Direct
Biological Process (BP) sensory organ development 0.000000014 Informative Direct
Biological Process (BP) regulation of vesicle-mediated transport 0.0000001171 Informative Direct
Biological Process (BP) single-organism cellular localization 0.0000006425 Informative Direct
Biological Process (BP) positive regulation of hydrolase activity 0.000001524 Informative Direct
Biological Process (BP) microtubule-based process 0.000001906 Informative Direct
Biological Process (BP) cellular component morphogenesis 0.00000539 Informative Direct
Biological Process (BP) cellular process involved in reproduction in multicellular organism 0.00003225 Informative Direct
Biological Process (BP) multicellular organismal reproductive process 0.0000416 Informative Direct
Biological Process (BP) proteolysis 0.00007297 Informative Direct
Biological Process (BP) regulation of anatomical structure size 0.0001492 Informative Direct
Biological Process (BP) organ morphogenesis 0.0002043 Informative Direct
Biological Process (BP) regulation of ion transport 0.0002607 Informative Direct
Biological Process (BP) sexual reproduction 0.0004821 Informative Direct
Biological Process (BP) positive regulation of developmental process 0.2182 Informative Inherited
Biological Process (BP) positive regulation of cellular protein metabolic process 0.9557 Informative Inherited
Biological Process (BP) regulation of protein phosphorylation 0.2248 Informative Inherited
Biological Process (BP) regulation of transferase activity 1 Informative Inherited
Biological Process (BP) negative regulation of multicellular organismal process 1 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 0.04133 Informative Inherited
Biological Process (BP) regulation of cellular component movement 0.1834 Informative Inherited
Biological Process (BP) regulation of locomotion 0.1357 Informative Inherited
Biological Process (BP) positive regulation of cell death 0.7467 Informative Inherited
Biological Process (BP) regulation of apoptotic process 0.9995 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.09869 Informative Inherited
Biological Process (BP) generation of neurons 0.08805 Informative Inherited
Biological Process (BP) organic acid transport 0.1272 Informative Inherited
Biological Process (BP) anion transport 0.7592 Informative Inherited
Biological Process (BP) tube development 0.01069 Informative Inherited
Biological Process (BP) cellular response to nitrogen compound 0.7635 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 1 Informative Inherited
Biological Process (BP) cellular macromolecular complex assembly 1 Informative Inherited
Biological Process (BP) response to organonitrogen compound 1 Informative Inherited
Biological Process (BP) response to organic cyclic compound 1 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 0.7897 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.001196 Informative Inherited
Biological Process (BP) regulation of protein localization 0.756 Informative Inherited
Biological Process (BP) regulation of mitotic cell cycle 0.9079 Informative Inherited
Biological Process (BP) regulation of cell cycle process 1 Informative Inherited
Biological Process (BP) cell division 0.9383 Informative Inherited
Biological Process (BP) cell cycle process 1 Informative Inherited
Biological Process (BP) regulation of cell activation 1 Informative Inherited
Biological Process (BP) negative regulation of immune system process 0.5459 Informative Inherited
Biological Process (BP) negative regulation of developmental process 1 Informative Inherited
Biological Process (BP) central nervous system development 0.5493 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 1 Informative Inherited
Biological Process (BP) neurological system process 1 Informative Inherited
Biological Process (BP) anatomical structure homeostasis 0.1375 Informative Inherited
Biological Process (BP) regulation of growth 0.1265 Informative Inherited
Biological Process (BP) negative regulation of transport 0.0973 Informative Inherited
Biological Process (BP) nitrogen compound transport 0.001145 Informative Inherited
Biological Process (BP) cellular response to external stimulus 0.7333 Informative Inherited
Biological Process (BP) response to nutrient levels 1 Informative Inherited
Biological Process (BP) dephosphorylation 0.5393 Informative Inherited
Biological Process (BP) positive regulation of phosphate metabolic process 0.8236 Informative Inherited
Biological Process (BP) positive regulation of intracellular signal transduction 1 Informative Inherited
Biological Process (BP) regulation of MAPK cascade 1 Informative Inherited
Biological Process (BP) organic hydroxy compound transport 0.0103 Informative Inherited
Biological Process (BP) lipid localization 1 Informative Inherited
Biological Process (BP) enzyme linked receptor protein signaling pathway 0.02894 Informative Inherited
Biological Process (BP) organelle assembly 0.9119 Informative Inherited
Biological Process (BP) muscle structure development 1 Informative Inherited
Biological Process (BP) regulation of hormone levels 1 Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 0.02801 Informative Inherited
Biological Process (BP) peptidyl-amino acid modification 1 Informative Inherited
Biological Process (BP) mitotic cell cycle 0.6669 Informative Inherited
Biological Process (BP) vesicle-mediated transport 0.5608 Informative Inherited
Biological Process (BP) cell proliferation 0.001256 Informative Inherited
Biological Process (BP) regulation of cell proliferation 1 Informative Inherited
Biological Process (BP) single organism reproductive process 1 Informative Inherited
Biological Process (BP) muscle system process 0.1763 Informative Inherited
Biological Process (BP) immune response 1 Informative Inherited
Biological Process (BP) immune effector process 0.6759 Informative Inherited
Biological Process (BP) regulation of secretion 1 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.8682 Informative Inherited
Biological Process (BP) leukocyte activation 0.05883 Informative Inherited
Biological Process (BP) cell junction organization 0 Highly Informative Direct
Biological Process (BP) small GTPase mediated signal transduction 0.00000248 Highly Informative Direct
Biological Process (BP) respiratory system development 0.0000005924 Highly Informative Direct
Biological Process (BP) establishment or maintenance of cell polarity 0 Highly Informative Direct
Biological Process (BP) cell adhesion 0 Highly Informative Direct
Biological Process (BP) regulation of synaptic transmission 0 Highly Informative Direct
Biological Process (BP) neurotransmitter transport 0 Highly Informative Direct
Biological Process (BP) epithelial cell development 0.000000000000003707 Highly Informative Direct
Biological Process (BP) regulation of neurotransmitter levels 0.0000000000009414 Highly Informative Direct
Biological Process (BP) morphogenesis of embryonic epithelium 0.0000000000043 Highly Informative Direct
Biological Process (BP) positive regulation of transmembrane transport 0.0000000000375 Highly Informative Direct
Biological Process (BP) multi-organism behavior 0.0000000008244 Highly Informative Direct
Biological Process (BP) response to nerve growth factor 0.000000002694 Highly Informative Direct
Biological Process (BP) neural precursor cell proliferation 0.000000003 Highly Informative Direct
Biological Process (BP) stem cell proliferation 0.000000003633 Highly Informative Direct
Biological Process (BP) regulation of membrane potential 0.00000003616 Highly Informative Direct
Biological Process (BP) positive regulation of cellular component biogenesis 0.0000002253 Highly Informative Direct
Biological Process (BP) exocytosis 0.000001772 Highly Informative Direct
Biological Process (BP) negative regulation of locomotion 0.000001835 Highly Informative Direct
Biological Process (BP) positive regulation of GTPase activity 0.000002044 Highly Informative Direct
Biological Process (BP) regulation of ion transmembrane transport 0.000003159 Highly Informative Direct
Biological Process (BP) amide transport 0.000003442 Highly Informative Direct
Biological Process (BP) actin filament-based movement 0.000003974 Highly Informative Direct
Biological Process (BP) negative regulation of cellular component movement 0.000006454 Highly Informative Direct
Biological Process (BP) negative regulation of cell proliferation 0.000006487 Highly Informative Direct
Biological Process (BP) stress-activated protein kinase signaling cascade 0.00001803 Highly Informative Direct
Biological Process (BP) neuromuscular process 0.0000297 Highly Informative Direct
Biological Process (BP) regulation of cell morphogenesis involved in differentiation 0.00009423 Highly Informative Direct
Biological Process (BP) wound healing 0.0001525 Highly Informative Direct
Biological Process (BP) signal release 0.0001909 Highly Informative Direct
Biological Process (BP) protein localization to membrane 0.0002233 Highly Informative Direct
Biological Process (BP) eye morphogenesis 0.000235 Highly Informative Direct
Biological Process (BP) hormone transport 0.0003801 Highly Informative Direct
Biological Process (BP) chemotaxis 0.0004262 Highly Informative Direct
Biological Process (BP) positive regulation of transporter activity 0.0005202 Highly Informative Direct
Biological Process (BP) neural tube development 0.0005214 Highly Informative Direct
Biological Process (BP) negative regulation of leukocyte activation 0.0007942 Highly Informative Direct
Biological Process (BP) regulation of developmental growth 0.0009027 Highly Informative Direct
Biological Process (BP) positive regulation of cell migration 1 Highly Informative Inherited
Biological Process (BP) regulation of protein serine/threonine kinase activity 1 Highly Informative Inherited
Biological Process (BP) positive regulation of protein kinase activity 0.01096 Highly Informative Inherited
Biological Process (BP) regulation of transmembrane transporter activity 0.2965 Highly Informative Inherited
Biological Process (BP) negative regulation of nervous system development 1 Highly Informative Inherited
Biological Process (BP) cellular response to growth factor stimulus 0.01038 Highly Informative Inherited
Biological Process (BP) post-embryonic organ development 1 Highly Informative Inherited
Biological Process (BP) regulation of organ morphogenesis 0.004892 Highly Informative Inherited
Biological Process (BP) regulation of transmembrane receptor protein serine/threonine kinase signaling pathway 0.0185 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 1 Highly Informative Inherited
Biological Process (BP) amino acid transport 0.06233 Highly Informative Inherited
Biological Process (BP) kidney development 0.001949 Highly Informative Inherited
Biological Process (BP) G-protein coupled receptor signaling pathway 0.4364 Highly Informative Inherited
Biological Process (BP) response to purine-containing compound 0.1723 Highly Informative Inherited
Biological Process (BP) regulation of neuron projection development 0.007212 Highly Informative Inherited
Biological Process (BP) positive regulation of neurogenesis 0.03645 Highly Informative Inherited
Biological Process (BP) neuron projection development 1 Highly Informative Inherited
Biological Process (BP) developmental growth 0.004642 Highly Informative Inherited
Biological Process (BP) regulation of actin cytoskeleton organization 0.5333 Highly Informative Inherited
Biological Process (BP) sensory perception 0.9291 Highly Informative Inherited
Biological Process (BP) negative regulation of cell differentiation 1 Highly Informative Inherited
Biological Process (BP) regulation of mononuclear cell proliferation 0.008146 Highly Informative Inherited
Biological Process (BP) ear development 0.1861 Highly Informative Inherited
Biological Process (BP) post-embryonic development 1 Highly Informative Inherited
Biological Process (BP) cell projection morphogenesis 1 Highly Informative Inherited
Biological Process (BP) establishment of synaptic vesicle localization 0.01864 Highly Informative Inherited
Biological Process (BP) regulation of endocytosis 0.02232 Highly Informative Inherited
Biological Process (BP) transmembrane receptor protein tyrosine kinase signaling pathway 0.8872 Highly Informative Inherited
Biological Process (BP) learning or memory 1 Highly Informative Inherited
Biological Process (BP) regulation of cellular response to stress 0.4674 Highly Informative Inherited
Biological Process (BP) positive regulation of growth 0.7927 Highly Informative Inherited
Biological Process (BP) regulation of cell size 1 Highly Informative Inherited
Biological Process (BP) cell fate commitment 0.2292 Highly Informative Inherited
Biological Process (BP) response to drug 0.8358 Highly Informative Inherited
Biological Process (BP) regulation of T cell activation 0.02273 Highly Informative Inherited
Biological Process (BP) protein dephosphorylation 0.002255 Highly Informative Inherited
Biological Process (BP) branching morphogenesis of an epithelial tube 0.08329 Highly Informative Inherited
Biological Process (BP) positive regulation of ion transport 0.01508 Highly Informative Inherited
Biological Process (BP) negative regulation of cytoskeleton organization 0.132 Highly Informative Inherited
Biological Process (BP) monocarboxylic acid transport 0.001508 Highly Informative Inherited
Biological Process (BP) regulation of Ras GTPase activity 0.09815 Highly Informative Inherited
Biological Process (BP) regulation of binding 1 Highly Informative Inherited
Biological Process (BP) cellular component assembly involved in morphogenesis 0.02834 Highly Informative Inherited
Biological Process (BP) actomyosin structure organization 1 Highly Informative Inherited
Biological Process (BP) actin filament organization 0.003395 Highly Informative Inherited
Biological Process (BP) vesicle organization 0.01703 Highly Informative Inherited
Biological Process (BP) negative regulation of intracellular signal transduction 0.006631 Highly Informative Inherited
Biological Process (BP) dicarboxylic acid transport 0.06817 Highly Informative Inherited
Biological Process (BP) cell growth 0.003063 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.9929 Highly Informative Inherited
Biological Process (BP) germ cell development 0.1637 Highly Informative Inherited
Biological Process (BP) female gamete generation 0.002917 Highly Informative Inherited
Biological Process (BP) columnar/cuboidal epithelial cell differentiation 0.4201 Highly Informative Inherited
Biological Process (BP) MAPK cascade 0.5932 Highly Informative Inherited
Biological Process (BP) cell projection assembly 0.3067 Highly Informative Inherited
Biological Process (BP) leukocyte mediated immunity 0.02051 Highly Informative Inherited
Biological Process (BP) innate immune response 0.6807 Highly Informative Inherited
Biological Process (BP) epithelial tube formation 0.05651 Highly Informative Inherited
Biological Process (BP) cell recognition 0.1247 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) hydrolase activity 0.9594 Least Informative Inherited
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) structural molecule activity 0.00000000001442 Moderately Informative Direct
Molecular Function (MF) enzyme regulator activity 0.04011 Moderately Informative Inherited
Molecular Function (MF) small molecule binding 1 Moderately Informative Inherited
Molecular Function (MF) carbohydrate derivative binding 1 Moderately Informative Inherited
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 0.02096 Moderately Informative Inherited
Molecular Function (MF) anion binding 0.0507 Moderately Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 1 Moderately Informative Inherited
Molecular Function (MF) peptidase activity 0.0000000002749 Informative Direct
Molecular Function (MF) enzyme binding 0.0000000124 Informative Direct
Molecular Function (MF) cytoskeletal protein binding 0.000004451 Informative Direct
Molecular Function (MF) receptor binding 0.0003123 Informative Direct
Molecular Function (MF) kinase activity 0.0007427 Informative Direct
Molecular Function (MF) protein complex binding 1 Informative Inherited
Molecular Function (MF) nucleotide binding 0.9761 Informative Inherited
Molecular Function (MF) lipid binding 0.2795 Informative Inherited
Molecular Function (MF) phosphatase activity 0.169 Informative Inherited
Molecular Function (MF) nucleoside-triphosphatase activity 1 Informative Inherited
Molecular Function (MF) nucleobase-containing compound kinase activity 0 Highly Informative Direct
Molecular Function (MF) guanyl-nucleotide exchange factor activity 0 Highly Informative Direct
Molecular Function (MF) protein domain specific binding 0 Highly Informative Direct
Molecular Function (MF) serine hydrolase activity 0 Highly Informative Direct
Molecular Function (MF) channel regulator activity 0.00000004184 Highly Informative Direct
Molecular Function (MF) actin filament binding 0.00000514 Highly Informative Direct
Molecular Function (MF) kinase binding 0.04814 Highly Informative Inherited
Molecular Function (MF) phosphoprotein phosphatase activity 0.001422 Highly Informative Inherited
Cellular Component (CC) membrane 0 Least Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) protein complex 0.04005 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.3154 Least Informative Inherited
Cellular Component (CC) plasma membrane part 0 Moderately Informative Direct
Cellular Component (CC) cytoskeleton 0 Moderately Informative Direct
Cellular Component (CC) membrane region 0 Moderately Informative Direct
Cellular Component (CC) cell projection 0 Moderately Informative Direct
Cellular Component (CC) vesicle 0.00007486 Moderately Informative Direct
Cellular Component (CC) intrinsic component of membrane 1 Moderately Informative Inherited
Cellular Component (CC) extracellular region part 0.4627 Moderately Informative Inherited
Cellular Component (CC) cell junction 0 Informative Direct
Cellular Component (CC) synapse 0 Informative Direct
Cellular Component (CC) plasma membrane region 0 Informative Direct
Cellular Component (CC) cell cortex 0 Informative Direct
Cellular Component (CC) contractile fiber part 0 Informative Direct
Cellular Component (CC) transporter complex 0.0002811 Informative Direct
Cellular Component (CC) side of membrane 1 Informative Inherited
Cellular Component (CC) endosome 0.01126 Informative Inherited
Cellular Component (CC) neuron projection 0.01644 Informative Inherited
Cellular Component (CC) actin cytoskeleton 0.7277 Informative Inherited
Cellular Component (CC) external encapsulating structure 0.3524 Informative Inherited
Cellular Component (CC) intrinsic component of plasma membrane 1 Informative Inherited
Cellular Component (CC) integral component of membrane 1 Informative Inherited
Cellular Component (CC) extracellular matrix 0.008406 Informative Inherited
Cellular Component (CC) basolateral plasma membrane 0 Highly Informative Direct
Cellular Component (CC) adherens junction 0 Highly Informative Direct
Cellular Component (CC) apical plasma membrane 0 Highly Informative Direct
Cellular Component (CC) cell envelope 0.00000000001703 Highly Informative Direct
Cellular Component (CC) receptor complex 0.00000003159 Highly Informative Direct
Cellular Component (CC) external encapsulating structure part 0.00000003484 Highly Informative Direct
Cellular Component (CC) cell projection membrane 0.00003308 Highly Informative Direct
Cellular Component (CC) extrinsic component of cytoplasmic side of plasma membrane 0.00004514 Highly Informative Direct
Cellular Component (CC) perinuclear region of cytoplasm 0.00004942 Highly Informative Direct
Cellular Component (CC) main axon 0.0002781 Highly Informative Direct
Cellular Component (CC) proteinaceous extracellular matrix 0.0003977 Highly Informative Direct
Cellular Component (CC) extracellular matrix part 0.00094 Highly Informative Direct
Cellular Component (CC) ciliary part 0.009323 Highly Informative Inherited
Cellular Component (CC) dendrite 0.002568 Highly Informative Inherited
Cellular Component (CC) cortical cytoskeleton 0.007063 Highly Informative Inherited
Cellular Component (CC) coated vesicle 0.1113 Highly Informative Inherited
Cellular Component (CC) ion channel complex 0.2952 Highly Informative Inherited
Cellular Component (CC) integral component of plasma membrane 1 Highly Informative Inherited

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Acting on peptide bonds (peptide hydrolases)0Least InformativeDirect
Enzyme Commission (EC)Acting on ester bonds1Least InformativeInherited
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine kinases0Moderately InformativeDirect
Enzyme Commission (EC)Serine endopeptidases0Moderately InformativeDirect
Enzyme Commission (EC)Acting on paired donors, with incorporation or red0.0003073Moderately InformativeDirect
Enzyme Commission (EC)Phosphoric monoester hydrolases0.0004756Moderately InformativeDirect
Enzyme Commission (EC)Protein-tyrosine-phosphatase0.0000000007522InformativeDirect
Enzyme Commission (EC)With NADH or NADPH as one donor, and incorporation0.0000003399InformativeDirect
Enzyme Commission (EC)Metalloendopeptidases0.3199InformativeInherited
Enzyme Commission (EC)Nitric-oxide synthase0.0000000000001896Highly InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)genetic disease0.6176Moderately InformativeInherited
Disease Ontology (DO)autosomal recessive disease0.2688InformativeInherited

Document: DO annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype0.000002627Least InformativeDirect
Mammalian Phenotype (MP)abnormal neuron morphology0.0536Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system physiology0.2582Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal somatic nervous system morphology0.7583Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system development0.7904Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal embryogenesis/ development1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal behavior1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal hair cell morphology0.007182InformativeInherited
Mammalian Phenotype (MP)abnormal cochlear sensory epithelium morphology0.007182InformativeInherited
Mammalian Phenotype (MP)abnormal membranous labyrinth morphology0.0269InformativeInherited
Mammalian Phenotype (MP)abnormal behavioral response to xenobiotic0.1012InformativeInherited
Mammalian Phenotype (MP)abnormal neural tube morphology/development0.4134InformativeInherited
Mammalian Phenotype (MP)craniorachischisis0.0001884Highly InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell physiology variant0.1732Least InformativeInherited
Worm Phenotype (WP)organism environmental stimulus response variant0.1942Least InformativeInherited
Worm Phenotype (WP)chemical response variant0.007436Moderately InformativeInherited
Worm Phenotype (WP)organ system development variant0.0814Moderately InformativeInherited
Worm Phenotype (WP)cell organization biogenesis variant0.3735Moderately InformativeInherited
Worm Phenotype (WP)germ cell morphology variant0.8391Moderately InformativeInherited
Worm Phenotype (WP)VPC competence variant0.004908InformativeInherited
Worm Phenotype (WP)vulva development variant0.01119InformativeInherited
Worm Phenotype (WP)cell division variant0.4874InformativeInherited
Worm Phenotype (WP)presynaptic region morphology variant0.000002669Highly InformativeDirect
Worm Phenotype (WP)cell membrane morphology variant0.00001647Highly InformativeDirect
Worm Phenotype (WP)body elongation variant0.0001852Highly InformativeDirect
Worm Phenotype (WP)endomitotic oocytes0.0002255Highly InformativeDirect
Worm Phenotype (WP)cytoskeleton organization biogenesis variant0.0002996Highly InformativeDirect
Worm Phenotype (WP)ovulation variant0.0007785Highly InformativeDirect

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)cell polarity defective0.0003721InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details) Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)multi-tissue structure0.7271Least InformativeInherited
Zebrafish Anatomy (ZA)cell0.7437Least InformativeInherited
Zebrafish Anatomy (ZA)nervous system0.7565Least InformativeInherited
Zebrafish Anatomy (ZA)cavitated compound organ0.8934Least InformativeInherited
Zebrafish Anatomy (ZA)central canal0.00002938InformativeDirect
Zebrafish Anatomy (ZA)neuroepithelial cell0.00006308InformativeDirect

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details) Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)flower0Least InformativeDirect
Plant ANatomical entity (PAN)collective phyllome structure0Least InformativeDirect
Plant ANatomical entity (PAN)shoot axis0Least InformativeDirect
Plant ANatomical entity (PAN)leaf0Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0Least InformativeDirect
Enzyme Commission (EC)Transferring phosphorous-containing groups0.007697Least InformativeInherited
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine kinases0Moderately InformativeDirect
Enzyme Commission (EC)Acting on peptide bonds (peptide hydrolases)0Moderately InformativeDirect
Enzyme Commission (EC)Phosphoric monoester hydrolases0.0006613Moderately InformativeDirect
Enzyme Commission (EC)Serine endopeptidases0InformativeDirect
Enzyme Commission (EC)Protein-tyrosine-phosphatase0.0000000009438InformativeDirect
Enzyme Commission (EC)Non-specific serine/threonine protein kinase0.0002448InformativeDirect
Enzyme Commission (EC)Acting on paired donors, with incorporation or reduction of molecular oxygen0.0005564InformativeDirect
Enzyme Commission (EC)Metalloendopeptidases0.385InformativeInherited
Enzyme Commission (EC)With NADH or NADPH as one donor, and incorporation of one atom of oxygen0.00000116Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport1Least InformativeInherited
Biological processApoptosis0Moderately InformativeDirect
Biological processDifferentiation7.057e-16Moderately InformativeDirect
Biological processProtein transport0.000000000002249Moderately InformativeDirect
Biological processLipid metabolism1Moderately InformativeInherited
Biological processWnt signaling pathway0InformativeDirect
Biological processNeurogenesis0.00000000000004034InformativeDirect
Biological processStress response0.0000001672InformativeDirect
Biological processChemotaxis0.00002381InformativeDirect
Biological processCell adhesion0.00004432InformativeDirect
Biological processSteroid metabolism0.0009711InformativeDirect
Biological processExocytosis0Highly InformativeDirect
Biological processCilium biogenesis/degradation0.00000000000003188Highly InformativeDirect
Biological processOsteogenesis0.0000002453Highly InformativeDirect
Biological processNeurotransmitter transport0.000001613Highly InformativeDirect
Biological processCholesterol metabolism0.00004016Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentCytoplasm1Least InformativeInherited
Cellular componentCytoskeleton0Moderately InformativeDirect
Cellular componentCell junction0Moderately InformativeDirect
Cellular componentCell projection0Moderately InformativeDirect
Cellular componentCell membrane0Moderately InformativeDirect
Cellular componentCytoplasmic vesicle0.000007026Moderately InformativeDirect
Cellular componentEndosome0.000007092Moderately InformativeDirect
Cellular componentGolgi apparatus0.0003139Moderately InformativeDirect
Cellular componentPeriplasm0.00000000047InformativeDirect
Cellular componentSynapse1InformativeInherited
Cellular componentTight junction0Highly InformativeDirect
Cellular componentSynaptosome0.00001007Highly InformativeDirect
Cellular componentPostsynaptic cell membrane0.00003461Highly InformativeDirect
Coding sequence diversityAlternative splicing0.000000000000006481Least InformativeDirect
DiseaseDeafness0.00004316InformativeDirect
DomainRepeat0Least InformativeDirect
DomainTransmembrane1Least InformativeInherited
DomainCoiled coil0.00006187Moderately InformativeDirect
DomainSH3 domain0InformativeDirect
DomainSH3-binding0.0008498InformativeDirect
DomainLIM domain0Highly InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionActin-binding0InformativeDirect
Molecular functionCalmodulin-binding0InformativeDirect
Molecular functionLipid-binding0.0001182InformativeDirect
Molecular functionGrowth factor binding0.0000000000001357Highly InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationDevelopmental protein0Moderately InformativeDirect
Post-translational modificationProtease0Moderately InformativeDirect
Post-translational modificationKinase1Moderately InformativeInherited
Post-translational modificationGTPase activation0InformativeDirect
Post-translational modificationGuanine-nucleotide releasing factor0InformativeDirect
Post-translational modificationSerine protease0InformativeDirect
Post-translational modificationSerine/threonine-protein kinase0.00000003697InformativeDirect
Post-translational modificationSignal transduction inhibitor0.000001066Highly InformativeDirect
Post-translational modificationCytokine0.00003311Highly InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationUbl conjugation0.00000521Moderately InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)biopolymer metabolism0Least InformativeDirect
UniPathway (UP)protein ubiquitination0Moderately InformativeDirect

Document: UP annotation of SCOP domains

InterPro annotation
Cross references IPR001478 SSF50156 Protein matches
Abstract

PDZ domains are found in diverse signaling proteins in bacteria, yeasts, plants, insects and vertebrates [PubMed9041651, PubMed9204764]. PDZ domains can occur in one or multiple copies and are nearly always found in cytoplasmic proteins. They bind either the carboxyl-terminal sequences of proteins or internal peptide sequences [PubMed9204764]. In most cases, interaction between a PDZ domain and its target is constitutive, with a binding affinity of 1 to 10 żM. However, agonist-dependent activation of cell surface receptors is sometimes required to promote interaction with a PDZ protein. PDZ domain proteins are frequently associated with the plasma membrane, a compartment where high concentrations of phosphatidylinositol 4,5-bisphosphate (PIP2) are found. Direct interaction between PIP2 and a subset of class II PDZ domains (syntenin, CASK, Tiam-1) has been demonstrated.

PDZ domains consist of 80 to 90 amino acids comprising six beta-strands (betaA to betaF) and two alpha-helices, A and B, compactly arranged in a globular structure. Peptide binding of the ligand takes place in an elongated surface groove as an antiparallel beta-strand interacts with the betaB strand and the B helix. The structure of PDZ domains allows binding to a free carboxylate group at the end of a peptide through a carboxylate-binding loop between the betaA and betaB strands.


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 79 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.


Browse and view proteins in genomes which have different domain combinations including a PDZ domain-like domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 79 hidden Markov models representing the PDZ domain-like superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]