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 (3,118) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 54,842 139,061 117
Proteins 37,061 105,247 112


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)multicellular organismal process0.0001740Least InformativeDirect
Biological Process (BP)cellular component organization or biogenesis0.00024810Least InformativeDirect
Biological Process (BP)developmental process0.0014510Least InformativeInherited
Biological Process (BP)localization0.044230Least InformativeInherited
Biological Process (BP)single-organism cellular process0.0063680Least InformativeInherited
Biological Process (BP)regulation of cellular process0.39260.01759Least InformativeInherited
Biological Process (BP)response to stimulus0.40771.778e-14Least InformativeInherited
Biological Process (BP)anatomical structure morphogenesis0.13465.473e-07Moderately InformativeInherited
Biological Process (BP)cellular localization0.047284e-11Moderately InformativeInherited
Biological Process (BP)system process0.0027262.458e-14Moderately InformativeInherited
Biological Process (BP)signal transduction0.37060.0002912Moderately InformativeInherited
Biological Process (BP)cellular component biogenesis0.28360.0001992Moderately InformativeInherited
Biological Process (BP)growth0.0012450.0002623InformativeInherited
Biological Process (BP)organelle localization0.0012312.852e-09InformativeInherited
Biological Process (BP)synaptic transmission9.94e-070.004813InformativeInherited
Biological Process (BP)vesicle-mediated transport0.03660.6834InformativeInherited
Biological Process (BP)intracellular signal transduction0.0016853.788e-14InformativeInherited
Biological Process (BP)cell junction organization1.454e-050Highly InformativeDirect
Biological Process (BP)small GTPase mediated signal transduction1.984e-051.409e-05Highly InformativeDirect
Biological Process (BP)respiratory system development2.806e-058.159e-07Highly InformativeDirect
Biological Process (BP)developmental growth0.001380.01285Highly InformativeInherited
Biological Process (BP)establishment of synaptic vesicle localization2.249e-070.1141Highly InformativeInherited
Molecular Function (MF)binding6.009e-080Least InformativeDirect
Cellular Component (CC)membrane0.000340Least InformativeDirect
Cellular Component (CC)intracellular non-membrane-bounded organelle0.017990Least InformativeInherited
Cellular Component (CC)intracellular organelle part0.461Least InformativeInherited
Cellular Component (CC)cytoskeleton4.238e-050Moderately InformativeDirect
Cellular Component (CC)plasma membrane0.0005120Moderately InformativeDirect
Cellular Component (CC)cell projection0.00091830Moderately InformativeDirect
Cellular Component (CC)cell junction7.828e-070InformativeDirect
Cellular Component (CC)basolateral plasma membrane0.0003784.162e-11Highly 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) multicellular organismal process 0 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0 Least Informative Direct
Biological Process (BP) developmental process 0 Least Informative Direct
Biological Process (BP) single-organism cellular process 0 Least Informative Direct
Biological Process (BP) localization 0 Least Informative Direct
Biological Process (BP) response to stimulus 1.778e-14 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 1 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 1 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.01759 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) protein metabolic process 0.9913 Least Informative Inherited
Biological Process (BP) system process 2.458e-14 Moderately Informative Direct
Biological Process (BP) regulation of localization 4.915e-07 Moderately Informative Direct
Biological Process (BP) macromolecule localization 0 Moderately Informative Direct
Biological Process (BP) regulation of biological quality 5.702e-09 Moderately Informative Direct
Biological Process (BP) cellular localization 4e-11 Moderately Informative Direct
Biological Process (BP) anatomical structure morphogenesis 5.473e-07 Moderately Informative Direct
Biological Process (BP) organelle organization 4.509e-07 Moderately Informative Direct
Biological Process (BP) cellular component biogenesis 0.0001992 Moderately Informative Direct
Biological Process (BP) regulation of signal transduction 0.0001369 Moderately Informative Direct
Biological Process (BP) signal transduction 0.0002912 Moderately Informative Direct
Biological Process (BP) regulation of catalytic activity 0 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 phosphate metabolic process 0 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 1.163e-08 Moderately Informative Direct
Biological Process (BP) tissue development 1.094e-07 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 0.0001902 Moderately Informative Direct
Biological Process (BP) nucleobase-containing small molecule metabolic process 0.0002489 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) ion transport 1 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.01556 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.1109 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 1 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.6238 Moderately Informative Inherited
Biological Process (BP) multi-organism process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular 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) regulation of nucleobase-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 1 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 1 Moderately Informative Inherited
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) positive regulation of molecular function 0.03052 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.1922 Moderately Informative Inherited
Biological Process (BP) reproduction 0.01681 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 1 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.2074 Moderately Informative Inherited
Biological Process (BP) organ development 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 0.007403 Moderately Informative Inherited
Biological Process (BP) immune system process 0.7203 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) organelle localization 2.852e-09 Informative Direct
Biological Process (BP) growth 0.0002623 Informative Direct
Biological Process (BP) intracellular signal transduction 3.788e-14 Informative Direct
Biological Process (BP) negative regulation of signaling 0.0002432 Informative Direct
Biological Process (BP) actin filament-based process 0 Informative Direct
Biological Process (BP) tissue morphogenesis 0 Informative Direct
Biological Process (BP) positive regulation of cellular component organization 0 Informative Direct
Biological Process (BP) biological adhesion 0 Informative Direct
Biological Process (BP) locomotion 0 Informative Direct
Biological Process (BP) regulation of purine nucleotide metabolic process 0 Informative Direct
Biological Process (BP) cytoskeleton organization 0 Informative Direct
Biological Process (BP) regulation of nucleoside metabolic process 0 Informative Direct
Biological Process (BP) epithelium development 3.755e-15 Informative Direct
Biological Process (BP) regulation of cell development 1.778e-14 Informative Direct
Biological Process (BP) embryonic morphogenesis 5.747e-14 Informative Direct
Biological Process (BP) regulation of cellular component biogenesis 7.996e-14 Informative Direct
Biological Process (BP) regulation of cellular catabolic process 1.904e-13 Informative Direct
Biological Process (BP) positive regulation of transport 5.256e-13 Informative Direct
Biological Process (BP) regulation of nervous system development 7.898e-11 Informative Direct
Biological Process (BP) regulation of anatomical structure morphogenesis 2.015e-09 Informative Direct
Biological Process (BP) cellular component movement 6.03e-09 Informative Direct
Biological Process (BP) secretion by cell 6.792e-09 Informative Direct
Biological Process (BP) localization of cell 1.601e-08 Informative Direct
Biological Process (BP) sensory organ development 1.445e-07 Informative Direct
Biological Process (BP) cellular component morphogenesis 1.557e-07 Informative Direct
Biological Process (BP) regulation of vesicle-mediated transport 1.842e-07 Informative Direct
Biological Process (BP) positive regulation of hydrolase activity 9.563e-07 Informative Direct
Biological Process (BP) phosphorylation 1.847e-06 Informative Direct
Biological Process (BP) regulation of system process 2.264e-06 Informative Direct
Biological Process (BP) cellular membrane organization 4.293e-06 Informative Direct
Biological Process (BP) cell projection organization 1.009e-05 Informative Direct
Biological Process (BP) proteolysis 5.973e-05 Informative Direct
Biological Process (BP) regulation of ion transport 9.61e-05 Informative Direct
Biological Process (BP) microtubule-based process 0.0001366 Informative Direct
Biological Process (BP) regulation of anatomical structure size 0.0002943 Informative Direct
Biological Process (BP) tube development 0.0006864 Informative Direct
Biological Process (BP) regulation of protein phosphorylation 0.007867 Informative Inherited
Biological Process (BP) regulation of kinase activity 0.2317 Informative Inherited
Biological Process (BP) positive regulation of protein metabolic process 0.5554 Informative Inherited
Biological Process (BP) positive regulation of phosphate metabolic process 1 Informative Inherited
Biological Process (BP) regulation of locomotion 0.1284 Informative Inherited
Biological Process (BP) regulation of cellular component movement 0.1804 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 1 Informative Inherited
Biological Process (BP) response to wounding 0.04943 Informative Inherited
Biological Process (BP) regulation of protein localization 1 Informative Inherited
Biological Process (BP) regulation of intracellular transport 1 Informative Inherited
Biological Process (BP) organ morphogenesis 0.001457 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.001369 Informative Inherited
Biological Process (BP) generation of neurons 0.08431 Informative Inherited
Biological Process (BP) organic acid transport 0.08235 Informative Inherited
Biological Process (BP) anion transport 0.7168 Informative Inherited
Biological Process (BP) nitrogen compound transport 0.001909 Informative Inherited
Biological Process (BP) cellular response to nitrogen compound 0.7624 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 organic cyclic compound 1 Informative Inherited
Biological Process (BP) response to organonitrogen compound 1 Informative Inherited
Biological Process (BP) enzyme linked receptor protein signaling pathway 0.02947 Informative Inherited
Biological Process (BP) negative regulation of transport 0.06654 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.01123 Informative Inherited
Biological Process (BP) cell cycle process 1 Informative Inherited
Biological Process (BP) negative regulation of developmental process 1 Informative Inherited
Biological Process (BP) regulation of cell proliferation 1 Informative Inherited
Biological Process (BP) regulation of cell activation 1 Informative Inherited
Biological Process (BP) muscle structure development 1 Informative Inherited
Biological Process (BP) muscle tissue development 1 Informative Inherited
Biological Process (BP) regulation of growth 0.1518 Informative Inherited
Biological Process (BP) vesicle-mediated transport 0.6834 Informative Inherited
Biological Process (BP) regulation of intracellular protein kinase cascade 0.2637 Informative Inherited
Biological Process (BP) regulation of mitotic cell cycle 1 Informative Inherited
Biological Process (BP) response to nutrient levels 1 Informative Inherited
Biological Process (BP) negative regulation of immune system process 0.1511 Informative Inherited
Biological Process (BP) single-organism behavior 0.1113 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.5502 Informative Inherited
Biological Process (BP) cellular response to endogenous stimulus 1 Informative Inherited
Biological Process (BP) dephosphorylation 0.3344 Informative Inherited
Biological Process (BP) gland development 1 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 1 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.02087 Informative Inherited
Biological Process (BP) lipid localization 1 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 0.01262 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 1 Informative Inherited
Biological Process (BP) cellular process involved in reproduction 0.1847 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 1 Informative Inherited
Biological Process (BP) central nervous system development 0.5696 Informative Inherited
Biological Process (BP) peptidyl-amino acid modification 1 Informative Inherited
Biological Process (BP) mitotic cell cycle 0.2161 Informative Inherited
Biological Process (BP) synaptic transmission 0.004813 Informative Inherited
Biological Process (BP) muscle system process 0.9358 Informative Inherited
Biological Process (BP) regulation of hormone levels 1 Informative Inherited
Biological Process (BP) sexual reproduction 0.005095 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 0.03221 Informative Inherited
Biological Process (BP) single organism reproductive process 0.01892 Informative Inherited
Biological Process (BP) immune effector process 0.6705 Informative Inherited
Biological Process (BP) immune response 1 Informative Inherited
Biological Process (BP) defense response 1 Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 0.02772 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.8878 Informative Inherited
Biological Process (BP) leukocyte activation 0.05953 Informative Inherited
Biological Process (BP) cell junction organization 0 Highly Informative Direct
Biological Process (BP) small GTPase mediated signal transduction 1.409e-05 Highly Informative Direct
Biological Process (BP) respiratory system development 8.159e-07 Highly Informative Direct
Biological Process (BP) neurotransmitter transport 0 Highly Informative Direct
Biological Process (BP) establishment or maintenance of cell polarity 0 Highly Informative Direct
Biological Process (BP) regulation of transmembrane transport 5.356e-13 Highly Informative Direct
Biological Process (BP) regulation of neurotransmitter levels 2.358e-12 Highly Informative Direct
Biological Process (BP) morphogenesis of embryonic epithelium 4.772e-12 Highly Informative Direct
Biological Process (BP) cell adhesion 2.453e-11 Highly Informative Direct
Biological Process (BP) multi-organism behavior 4.431e-11 Highly Informative Direct
Biological Process (BP) cellular process involved in reproduction in multicellular organism 2.159e-09 Highly Informative Direct
Biological Process (BP) neural precursor cell proliferation 2.793e-09 Highly Informative Direct
Biological Process (BP) stem cell proliferation 3.619e-09 Highly Informative Direct
Biological Process (BP) regulation of protein kinase B signaling cascade 1.543e-08 Highly Informative Direct
Biological Process (BP) stress-activated protein kinase signaling cascade 1.551e-08 Highly Informative Direct
Biological Process (BP) regulation of membrane potential 2.229e-08 Highly Informative Direct
Biological Process (BP) negative regulation of cell cycle 2.43e-08 Highly Informative Direct
Biological Process (BP) MAPK cascade 7.768e-08 Highly Informative Direct
Biological Process (BP) signal release 1.616e-07 Highly Informative Direct
Biological Process (BP) regulation of transporter activity 3.801e-07 Highly Informative Direct
Biological Process (BP) negative regulation of locomotion 1.141e-06 Highly Informative Direct
Biological Process (BP) amide transport 1.425e-06 Highly Informative Direct
Biological Process (BP) exocytosis 1.722e-06 Highly Informative Direct
Biological Process (BP) negative regulation of cellular component movement 2.195e-06 Highly Informative Direct
Biological Process (BP) negative regulation of cell proliferation 2.333e-06 Highly Informative Direct
Biological Process (BP) actin filament-based movement 4.2e-06 Highly Informative Direct
Biological Process (BP) positive regulation of GTPase activity 4.253e-06 Highly Informative Direct
Biological Process (BP) wound healing 4.87e-06 Highly Informative Direct
Biological Process (BP) epithelial cell development 2.434e-05 Highly Informative Direct
Biological Process (BP) regulation of ion homeostasis 6.019e-05 Highly Informative Direct
Biological Process (BP) monoamine transport 8.046e-05 Highly Informative Direct
Biological Process (BP) regulation of striated muscle cell differentiation 0.0001064 Highly Informative Direct
Biological Process (BP) eye morphogenesis 0.0002356 Highly Informative Direct
Biological Process (BP) hormone transport 0.0002357 Highly Informative Direct
Biological Process (BP) chemotaxis 0.000441 Highly Informative Direct
Biological Process (BP) negative regulation of leukocyte activation 0.0007059 Highly Informative Direct
Biological Process (BP) regulation of developmental growth 0.0008472 Highly Informative Direct
Biological Process (BP) neural tube development 0.0009026 Highly Informative Direct
Biological Process (BP) positive regulation of cell migration 1 Highly Informative Inherited
Biological Process (BP) positive regulation of programmed cell death 0.01656 Highly Informative Inherited
Biological Process (BP) positive regulation of protein kinase activity 0.01038 Highly Informative Inherited
Biological Process (BP) cellular response to growth factor stimulus 0.009402 Highly Informative Inherited
Biological Process (BP) positive regulation of intracellular transport 1 Highly Informative Inherited
Biological Process (BP) regulation of intracellular protein transport 0.1265 Highly Informative Inherited
Biological Process (BP) cell growth 0.01981 Highly Informative Inherited
Biological Process (BP) post-embryonic organ development 1 Highly Informative Inherited
Biological Process (BP) regulation of organ morphogenesis 0.00432 Highly Informative Inherited
Biological Process (BP) neuron projection development 1 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 1 Highly Informative Inherited
Biological Process (BP) cell part morphogenesis 1 Highly Informative Inherited
Biological Process (BP) renal system development 0.00111 Highly Informative Inherited
Biological Process (BP) response to purine-containing compound 0.1731 Highly Informative Inherited
Biological Process (BP) regulation of neuron projection development 0.006698 Highly Informative Inherited
Biological Process (BP) branching morphogenesis of an epithelial tube 0.0817 Highly Informative Inherited
Biological Process (BP) cell fate commitment 0.2854 Highly Informative Inherited
Biological Process (BP) cell division 0.08113 Highly Informative Inherited
Biological Process (BP) regulation of calcium ion transport 1 Highly Informative Inherited
Biological Process (BP) sensory perception 1 Highly Informative Inherited
Biological Process (BP) regulation of cell morphogenesis involved in differentiation 0.001043 Highly Informative Inherited
Biological Process (BP) negative regulation of cell differentiation 1 Highly Informative Inherited
Biological Process (BP) regulation of mononuclear cell proliferation 0.007646 Highly Informative Inherited
Biological Process (BP) ear development 0.1902 Highly Informative Inherited
Biological Process (BP) muscle fiber development 1 Highly Informative Inherited
Biological Process (BP) muscle organ development 1 Highly Informative Inherited
Biological Process (BP) post-embryonic development 1 Highly Informative Inherited
Biological Process (BP) developmental growth 0.01285 Highly Informative Inherited
Biological Process (BP) regulation of striated muscle tissue development 0.001293 Highly Informative Inherited
Biological Process (BP) regulation of synaptic transmission 1 Highly Informative Inherited
Biological Process (BP) regulation of cellular response to stress 0.4258 Highly Informative Inherited
Biological Process (BP) circadian rhythm 0.4332 Highly Informative Inherited
Biological Process (BP) locomotory behavior 0.6495 Highly Informative Inherited
Biological Process (BP) response to drug 0.8689 Highly Informative Inherited
Biological Process (BP) cellular response to starvation 0.8952 Highly Informative Inherited
Biological Process (BP) regulation of T cell activation 0.02179 Highly Informative Inherited
Biological Process (BP) protein dephosphorylation 0.002253 Highly Informative Inherited
Biological Process (BP) amino acid transport 0.06318 Highly Informative Inherited
Biological Process (BP) negative regulation of cytoskeleton organization 0.04612 Highly Informative Inherited
Biological Process (BP) regulation of actin cytoskeleton organization 0.1621 Highly Informative Inherited
Biological Process (BP) regulation of transmembrane receptor protein serine/threonine kinase signaling pathway 0.01687 Highly Informative Inherited
Biological Process (BP) monocarboxylic acid transport 0.001503 Highly Informative Inherited
Biological Process (BP) regulation of Ras GTPase activity 0.09714 Highly Informative Inherited
Biological Process (BP) regulation of binding 1 Highly Informative Inherited
Biological Process (BP) transmembrane receptor protein tyrosine kinase signaling pathway 0.8894 Highly Informative Inherited
Biological Process (BP) actin filament organization 0.0159 Highly Informative Inherited
Biological Process (BP) pattern specification process 1 Highly Informative Inherited
Biological Process (BP) establishment of synaptic vesicle localization 0.1141 Highly Informative Inherited
Biological Process (BP) vesicle organization 0.01725 Highly Informative Inherited
Biological Process (BP) learning or memory 1 Highly Informative Inherited
Biological Process (BP) female gamete generation 0.002988 Highly Informative Inherited
Biological Process (BP) G-protein coupled receptor signaling pathway 0.4302 Highly Informative Inherited
Biological Process (BP) cell projection assembly 0.2913 Highly Informative Inherited
Biological Process (BP) leukocyte mediated immunity 0.01943 Highly Informative Inherited
Biological Process (BP) innate immune response 0.6832 Highly Informative Inherited
Biological Process (BP) regulation of endocytosis 0.0136 Highly Informative Inherited
Biological Process (BP) epithelial tube formation 0.05576 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) hydrolase activity 0.9568 Least Informative Inherited
Molecular Function (MF) structural molecule activity 1.608e-11 Moderately Informative Direct
Molecular Function (MF) enzyme regulator activity 2.485e-09 Moderately Informative Direct
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 0.02057 Moderately Informative Inherited
Molecular Function (MF) anion binding 0.05102 Moderately Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 1 Moderately Informative Inherited
Molecular Function (MF) GTPase regulator activity 0 Informative Direct
Molecular Function (MF) peptidase activity 2.44e-10 Informative Direct
Molecular Function (MF) enzyme binding 1.003e-08 Informative Direct
Molecular Function (MF) cytoskeletal protein binding 4.973e-06 Informative Direct
Molecular Function (MF) receptor binding 0.0003361 Informative Direct
Molecular Function (MF) kinase activity 0.000749 Informative Direct
Molecular Function (MF) nucleotide binding 0.9768 Informative Inherited
Molecular Function (MF) lipid binding 0.2827 Informative Inherited
Molecular Function (MF) phosphoric ester hydrolase activity 0.5222 Informative Inherited
Molecular Function (MF) nucleoside-triphosphatase activity 1 Informative Inherited
Molecular Function (MF) protein domain specific binding 0 Highly Informative Direct
Molecular Function (MF) nucleobase-containing compound kinase activity 0 Highly Informative Direct
Molecular Function (MF) serine hydrolase activity 0 Highly Informative Direct
Molecular Function (MF) channel regulator activity 3.493e-08 Highly Informative Direct
Molecular Function (MF) protein complex binding 0.6924 Highly Informative Inherited
Molecular Function (MF) guanyl-nucleotide exchange factor activity 0.02326 Highly Informative Inherited
Molecular Function (MF) small GTPase regulator activity 0.3588 Highly Informative Inherited
Molecular Function (MF) kinase binding 0.04587 Highly Informative Inherited
Molecular Function (MF) phosphoprotein phosphatase activity 0.001327 Highly Informative Inherited
Cellular Component (CC) membrane 0 Least Informative Direct
Cellular Component (CC) intracellular non-membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.2579 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) protein complex 0.1609 Least Informative Inherited
Cellular Component (CC) cytoskeleton 0 Moderately Informative Direct
Cellular Component (CC) plasma membrane 0 Moderately Informative Direct
Cellular Component (CC) cell projection 0 Moderately Informative Direct
Cellular Component (CC) vesicle 0.0001585 Moderately Informative Direct
Cellular Component (CC) organelle membrane 1 Moderately Informative Inherited
Cellular Component (CC) intrinsic to membrane 1 Moderately Informative Inherited
Cellular Component (CC) extracellular region part 0.5984 Moderately Informative Inherited
Cellular Component (CC) cell junction 0 Informative Direct
Cellular Component (CC) contractile fiber part 0 Informative Direct
Cellular Component (CC) synapse part 0 Informative Direct
Cellular Component (CC) cell cortex 0 Informative Direct
Cellular Component (CC) coated vesicle 0.0008117 Informative Direct
Cellular Component (CC) endosome 0.02025 Informative Inherited
Cellular Component (CC) neuron projection 0.1899 Informative Inherited
Cellular Component (CC) actin cytoskeleton 0.7128 Informative Inherited
Cellular Component (CC) external encapsulating structure 0.3547 Informative Inherited
Cellular Component (CC) integral to membrane 0.5546 Informative Inherited
Cellular Component (CC) intrinsic to plasma membrane 1 Informative Inherited
Cellular Component (CC) extracellular matrix 0.0105 Informative Inherited
Cellular Component (CC) basolateral plasma membrane 4.162e-11 Highly Informative Direct
Cellular Component (CC) adherens junction 0 Highly Informative Direct
Cellular Component (CC) cell envelope 2.09e-11 Highly Informative Direct
Cellular Component (CC) apical plasma membrane 1.137e-09 Highly Informative Direct
Cellular Component (CC) clathrin-coated vesicle 4.412e-09 Highly Informative Direct
Cellular Component (CC) receptor complex 2.165e-08 Highly Informative Direct
Cellular Component (CC) external encapsulating structure part 3.553e-08 Highly Informative Direct
Cellular Component (CC) perinuclear region of cytoplasm 4.048e-05 Highly Informative Direct
Cellular Component (CC) cilium part 0.0001024 Highly Informative Direct
Cellular Component (CC) cell projection membrane 0.0001104 Highly Informative Direct
Cellular Component (CC) proteinaceous extracellular matrix 0.0004698 Highly Informative Direct
Cellular Component (CC) dendrite 0.000563 Highly Informative Direct
Cellular Component (CC) sperm part 0.1267 Highly Informative Inherited
Cellular Component (CC) main axon 0.001342 Highly Informative Inherited
Cellular Component (CC) extrinsic to plasma membrane 0.5915 Highly Informative Inherited
Cellular Component (CC) cortical cytoskeleton 0.006176 Highly Informative Inherited
Cellular Component (CC) ion channel complex 0.00639 Highly Informative Inherited
Cellular Component (CC) integral to plasma membrane 0.07221 Highly Informative Inherited
Cellular Component (CC) extracellular matrix part 0.002028 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-phosphatase7.522e-10InformativeDirect
Enzyme Commission (EC)With NADH or NADPH as one donor, and incorporation3.399e-07InformativeDirect
Enzyme Commission (EC)Metalloendopeptidases0.3199InformativeInherited
Enzyme Commission (EC)Nitric-oxide synthase1.896e-13Highly 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 phenotype2.627e-06Least 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 variant2.669e-06Highly InformativeDirect
Worm Phenotype (WP)cell membrane morphology variant1.647e-05Highly 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 canal2.938e-05InformativeDirect
Zebrafish Anatomy (ZA)neuroepithelial cell6.308e-05InformativeDirect

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-phosphatase9.438e-10InformativeDirect
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 oxygen1.16e-06Highly 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 transport2.249e-12Moderately InformativeDirect
Biological processLipid metabolism1Moderately InformativeInherited
Biological processWnt signaling pathway0InformativeDirect
Biological processNeurogenesis4.034e-14InformativeDirect
Biological processStress response1.672e-07InformativeDirect
Biological processChemotaxis2.381e-05InformativeDirect
Biological processCell adhesion4.432e-05InformativeDirect
Biological processSteroid metabolism0.0009711InformativeDirect
Biological processExocytosis0Highly InformativeDirect
Biological processCilium biogenesis/degradation3.188e-14Highly InformativeDirect
Biological processOsteogenesis2.453e-07Highly InformativeDirect
Biological processNeurotransmitter transport1.613e-06Highly InformativeDirect
Biological processCholesterol metabolism4.016e-05Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentCytoplasm1Least InformativeInherited
Cellular componentCytoskeleton0Moderately InformativeDirect
Cellular componentCell junction0Moderately InformativeDirect
Cellular componentCell projection0Moderately InformativeDirect
Cellular componentCell membrane0Moderately InformativeDirect
Cellular componentCytoplasmic vesicle7.026e-06Moderately InformativeDirect
Cellular componentEndosome7.092e-06Moderately InformativeDirect
Cellular componentGolgi apparatus0.0003139Moderately InformativeDirect
Cellular componentPeriplasm4.7e-10InformativeDirect
Cellular componentSynapse1InformativeInherited
Cellular componentTight junction0Highly InformativeDirect
Cellular componentSynaptosome1.007e-05Highly InformativeDirect
Cellular componentPostsynaptic cell membrane3.461e-05Highly InformativeDirect
Coding sequence diversityAlternative splicing6.481e-15Least InformativeDirect
DiseaseDeafness4.316e-05InformativeDirect
DomainRepeat0Least InformativeDirect
DomainTransmembrane1Least InformativeInherited
DomainCoiled coil6.187e-05Moderately 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 binding1.357e-13Highly 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 kinase3.697e-08InformativeDirect
Post-translational modificationSignal transduction inhibitor1.066e-06Highly InformativeDirect
Post-translational modificationCytokine3.311e-05Highly InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationUbl conjugation5.21e-06Moderately 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

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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 ]