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 (3,117) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 54,830 139,061 117
Proteins 37,049 105,247 112


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 process0.00017190Least InformativeDirect
Biological Process (BP)cellular component organization or biogenesis0.00023850Least InformativeDirect
Biological Process (BP)developmental process0.001430Least InformativeInherited
Biological Process (BP)localization0.043740Least InformativeInherited
Biological Process (BP)single-organism cellular process0.0063680Least InformativeInherited
Biological Process (BP)regulation of cellular process0.38950.03763Least InformativeInherited
Biological Process (BP)response to stimulus0.40542.782e-14Least InformativeInherited
Biological Process (BP)single-organism developmental process0.044790Moderately InformativeInherited
Biological Process (BP)anatomical structure morphogenesis0.13316.342e-07Moderately InformativeInherited
Biological Process (BP)cellular localization0.047245.878e-11Moderately InformativeInherited
Biological Process (BP)system process0.0026491.772e-14Moderately InformativeInherited
Biological Process (BP)signal transduction0.37640.0009133Moderately InformativeInherited
Biological Process (BP)cellular component biogenesis0.28330.0001705Moderately InformativeInherited
Biological Process (BP)growth0.0012280.0002082InformativeInherited
Biological Process (BP)organelle localization0.0012382.337e-09InformativeInherited
Biological Process (BP)synaptic transmission9.558e-070.004461InformativeInherited
Biological Process (BP)vesicle-mediated transport0.036830.7563InformativeInherited
Biological Process (BP)intracellular signal transduction0.0016716.059e-14InformativeInherited
Biological Process (BP)cell junction organization1.459e-050Highly InformativeDirect
Biological Process (BP)small GTPase mediated signal transduction1.948e-051.042e-05Highly InformativeDirect
Biological Process (BP)respiratory system development2.836e-058.135e-07Highly InformativeDirect
Biological Process (BP)developmental growth0.0014580.0151Highly InformativeInherited
Biological Process (BP)establishment of synaptic vesicle localization2.252e-070.1156Highly InformativeInherited
Molecular Function (MF)binding5.867e-080Least InformativeDirect
Cellular Component (CC)membrane0.00031460Least InformativeDirect
Cellular Component (CC)intracellular non-membrane-bounded organelle0.018170Least InformativeInherited
Cellular Component (CC)intracellular organelle part0.45791Least InformativeInherited
Cellular Component (CC)cytoskeleton4.257e-050Moderately InformativeDirect
Cellular Component (CC)plasma membrane0.00047890Moderately InformativeDirect
Cellular Component (CC)cell projection0.00085780Moderately InformativeDirect
Cellular Component (CC)cell junction7.475e-070InformativeDirect
Cellular Component (CC)basolateral plasma membrane0.00038944.085e-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 2.782e-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) protein 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 0.03763 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) system process 1.772e-14 Moderately Informative Direct
Biological Process (BP) regulation of localization 1.127e-06 Moderately Informative Direct
Biological Process (BP) macromolecule localization 0 Moderately Informative Direct
Biological Process (BP) regulation of biological quality 3.426e-09 Moderately Informative Direct
Biological Process (BP) single-organism developmental process 0 Moderately Informative Direct
Biological Process (BP) cellular localization 5.878e-11 Moderately Informative Direct
Biological Process (BP) anatomical structure morphogenesis 6.342e-07 Moderately Informative Direct
Biological Process (BP) organelle organization 3.981e-07 Moderately Informative Direct
Biological Process (BP) cellular component biogenesis 0.0001705 Moderately Informative Direct
Biological Process (BP) regulation of signal transduction 0.0003065 Moderately Informative Direct
Biological Process (BP) signal transduction 0.0009133 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 6.706e-09 Moderately Informative Direct
Biological Process (BP) tissue development 8.054e-08 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 0.0001343 Moderately Informative Direct
Biological Process (BP) nucleobase-containing small molecule metabolic process 0.0002156 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 0.03546 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.1028 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 0.6636 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.9704 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 0.04529 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.1908 Moderately Informative Inherited
Biological Process (BP) reproduction 0.01376 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 1 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.1975 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 0.006509 Moderately Informative Inherited
Biological Process (BP) immune system process 0.6946 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) growth 0.0002082 Informative Direct
Biological Process (BP) organelle localization 2.337e-09 Informative Direct
Biological Process (BP) intracellular signal transduction 6.059e-14 Informative Direct
Biological Process (BP) negative regulation of signaling 0.0001901 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 3.741e-15 Informative Direct
Biological Process (BP) regulation of cell development 1.083e-14 Informative Direct
Biological Process (BP) embryonic morphogenesis 5.737e-14 Informative Direct
Biological Process (BP) regulation of cellular component biogenesis 6.861e-14 Informative Direct
Biological Process (BP) regulation of cellular catabolic process 3.101e-13 Informative Direct
Biological Process (BP) positive regulation of transport 4.909e-13 Informative Direct
Biological Process (BP) regulation of nervous system development 8.949e-11 Informative Direct
Biological Process (BP) regulation of anatomical structure morphogenesis 2.298e-09 Informative Direct
Biological Process (BP) cellular component movement 6.544e-09 Informative Direct
Biological Process (BP) secretion by cell 1.589e-08 Informative Direct
Biological Process (BP) localization of cell 1.593e-08 Informative Direct
Biological Process (BP) sensory organ development 1.216e-07 Informative Direct
Biological Process (BP) cellular component morphogenesis 1.546e-07 Informative Direct
Biological Process (BP) regulation of vesicle-mediated transport 1.051e-06 Informative Direct
Biological Process (BP) phosphorylation 1.617e-06 Informative Direct
Biological Process (BP) regulation of system process 1.84e-06 Informative Direct
Biological Process (BP) positive regulation of hydrolase activity 2.93e-06 Informative Direct
Biological Process (BP) cellular membrane organization 3.906e-06 Informative Direct
Biological Process (BP) cell projection organization 9.446e-06 Informative Direct
Biological Process (BP) regulation of ion transport 4.979e-05 Informative Direct
Biological Process (BP) microtubule-based process 0.0001407 Informative Direct
Biological Process (BP) tube development 0.0006631 Informative Direct
Biological Process (BP) regulation of apoptotic process 0.9834 Informative Inherited
Biological Process (BP) regulation of protein phosphorylation 0.008083 Informative Inherited
Biological Process (BP) regulation of kinase activity 0.252 Informative Inherited
Biological Process (BP) positive regulation of protein modification process 0.832 Informative Inherited
Biological Process (BP) positive regulation of phosphate metabolic process 1 Informative Inherited
Biological Process (BP) regulation of locomotion 0.1289 Informative Inherited
Biological Process (BP) regulation of cellular component movement 0.1786 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 1 Informative Inherited
Biological Process (BP) response to wounding 0.04614 Informative Inherited
Biological Process (BP) regulation of intracellular transport 1 Informative Inherited
Biological Process (BP) regulation of establishment of protein localization 1 Informative Inherited
Biological Process (BP) organ morphogenesis 0.001299 Informative Inherited
Biological Process (BP) embryonic organ development 0.06007 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.001125 Informative Inherited
Biological Process (BP) generation of neurons 0.07909 Informative Inherited
Biological Process (BP) organic acid transport 0.07875 Informative Inherited
Biological Process (BP) anion transport 0.7101 Informative Inherited
Biological Process (BP) nitrogen compound transport 0.007145 Informative Inherited
Biological Process (BP) cellular response to nitrogen compound 0.7357 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 0.02775 Informative Inherited
Biological Process (BP) negative regulation of transport 0.05915 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.009991 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) muscle structure development 1 Informative Inherited
Biological Process (BP) muscle tissue development 1 Informative Inherited
Biological Process (BP) regulation of growth 0.1459 Informative Inherited
Biological Process (BP) sexual reproduction 0.0045 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 0.03218 Informative Inherited
Biological Process (BP) vesicle-mediated transport 0.7563 Informative Inherited
Biological Process (BP) regulation of intracellular protein kinase cascade 0.2225 Informative Inherited
Biological Process (BP) regulation of mitotic cell cycle 1 Informative Inherited
Biological Process (BP) single organism reproductive process 0.01706 Informative Inherited
Biological Process (BP) response to nutrient levels 1 Informative Inherited
Biological Process (BP) single-organism behavior 0.1204 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.5484 Informative Inherited
Biological Process (BP) cellular response to endogenous stimulus 1 Informative Inherited
Biological Process (BP) dephosphorylation 0.3574 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 0.01889 Informative Inherited
Biological Process (BP) lipid localization 1 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 0.01192 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 1 Informative Inherited
Biological Process (BP) cellular process involved in reproduction 0.1806 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 1 Informative Inherited
Biological Process (BP) regulation of hormone levels 1 Informative Inherited
Biological Process (BP) central nervous system development 0.5561 Informative Inherited
Biological Process (BP) peptidyl-amino acid modification 1 Informative Inherited
Biological Process (BP) mitotic cell cycle 0.2154 Informative Inherited
Biological Process (BP) synaptic transmission 0.004461 Informative Inherited
Biological Process (BP) muscle system process 0.9421 Informative Inherited
Biological Process (BP) immune effector process 0.6622 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 0.0294 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.9544 Informative Inherited
Biological Process (BP) leukocyte activation 0.05748 Informative Inherited
Biological Process (BP) cell junction organization 0 Highly Informative Direct
Biological Process (BP) small GTPase mediated signal transduction 1.042e-05 Highly Informative Direct
Biological Process (BP) respiratory system development 8.135e-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 3.605e-13 Highly Informative Direct
Biological Process (BP) morphogenesis of embryonic epithelium 6.362e-12 Highly Informative Direct
Biological Process (BP) multi-organism behavior 8.329e-12 Highly Informative Direct
Biological Process (BP) cell adhesion 2.755e-11 Highly Informative Direct
Biological Process (BP) regulation of neurotransmitter levels 3.605e-11 Highly Informative Direct
Biological Process (BP) cellular process involved in reproduction in multicellular organism 1.277e-09 Highly Informative Direct
Biological Process (BP) neural precursor cell proliferation 2.784e-09 Highly Informative Direct
Biological Process (BP) stem cell proliferation 4.468e-09 Highly Informative Direct
Biological Process (BP) regulation of protein kinase B signaling cascade 1.313e-08 Highly Informative Direct
Biological Process (BP) stress-activated protein kinase signaling cascade 1.759e-08 Highly Informative Direct
Biological Process (BP) regulation of membrane potential 2.327e-08 Highly Informative Direct
Biological Process (BP) negative regulation of cell cycle 2.638e-08 Highly Informative Direct
Biological Process (BP) MAPK cascade 8.288e-08 Highly Informative Direct
Biological Process (BP) regulation of transporter activity 3.476e-07 Highly Informative Direct
Biological Process (BP) signal release 1.221e-06 Highly Informative Direct
Biological Process (BP) negative regulation of locomotion 1.353e-06 Highly Informative Direct
Biological Process (BP) negative regulation of cell proliferation 2.562e-06 Highly Informative Direct
Biological Process (BP) negative regulation of cellular component movement 2.627e-06 Highly Informative Direct
Biological Process (BP) wound healing 4.096e-06 Highly Informative Direct
Biological Process (BP) actin filament-based movement 4.216e-06 Highly Informative Direct
Biological Process (BP) exocytosis 4.549e-06 Highly Informative Direct
Biological Process (BP) epithelial cell development 2.188e-05 Highly Informative Direct
Biological Process (BP) amide transport 2.582e-05 Highly Informative Direct
Biological Process (BP) regulation of ion homeostasis 5.691e-05 Highly Informative Direct
Biological Process (BP) monoamine transport 7.701e-05 Highly Informative Direct
Biological Process (BP) eye morphogenesis 0.0002139 Highly Informative Direct
Biological Process (BP) chemotaxis 0.0004321 Highly Informative Direct
Biological Process (BP) regulation of striated muscle tissue development 0.0007775 Highly Informative Direct
Biological Process (BP) neural tube development 0.0008994 Highly Informative Direct
Biological Process (BP) regulation of developmental growth 0.0009292 Highly Informative Direct
Biological Process (BP) positive regulation of cell migration 1 Highly Informative Inherited
Biological Process (BP) positive regulation of programmed cell death 0.01517 Highly Informative Inherited
Biological Process (BP) positive regulation of protein kinase activity 0.01181 Highly Informative Inherited
Biological Process (BP) cellular response to growth factor stimulus 0.008835 Highly Informative Inherited
Biological Process (BP) positive regulation of intracellular transport 1 Highly Informative Inherited
Biological Process (BP) regulation of intracellular protein transport 0.1239 Highly Informative Inherited
Biological Process (BP) cell growth 0.01861 Highly Informative Inherited
Biological Process (BP) post-embryonic organ development 1 Highly Informative Inherited
Biological Process (BP) regulation of organ morphogenesis 0.005005 Highly Informative Inherited
Biological Process (BP) ear development 0.1904 Highly Informative Inherited
Biological Process (BP) embryonic organ morphogenesis 0.09165 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 0.001143 Highly Informative Inherited
Biological Process (BP) response to purine-containing compound 0.17 Highly Informative Inherited
Biological Process (BP) regulation of neuron projection development 0.007025 Highly Informative Inherited
Biological Process (BP) branching morphogenesis of an epithelial tube 0.08238 Highly Informative Inherited
Biological Process (BP) negative regulation of multicellular organismal process 1 Highly Informative Inherited
Biological Process (BP) cell fate commitment 0.2982 Highly Informative Inherited
Biological Process (BP) cell division 0.08173 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 0.001403 Highly Informative Inherited
Biological Process (BP) negative regulation of cell differentiation 1 Highly Informative Inherited
Biological Process (BP) negative regulation of cell activation 0.005609 Highly Informative Inherited
Biological Process (BP) regulation of mononuclear cell proliferation 0.007287 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 0.0151 Highly Informative Inherited
Biological Process (BP) female gamete generation 0.002781 Highly Informative Inherited
Biological Process (BP) regulation of synaptic transmission 1 Highly Informative Inherited
Biological Process (BP) regulation of cellular response to stress 0.3979 Highly Informative Inherited
Biological Process (BP) circadian rhythm 0.4041 Highly Informative Inherited
Biological Process (BP) locomotory behavior 0.6747 Highly Informative Inherited
Biological Process (BP) response to drug 0.852 Highly Informative Inherited
Biological Process (BP) cellular response to starvation 0.8775 Highly Informative Inherited
Biological Process (BP) negative regulation of immune system process 0.1499 Highly Informative Inherited
Biological Process (BP) regulation of T cell activation 0.02055 Highly Informative Inherited
Biological Process (BP) protein dephosphorylation 0.002107 Highly Informative Inherited
Biological Process (BP) amino acid transport 0.03724 Highly Informative Inherited
Biological Process (BP) negative regulation of cytoskeleton organization 0.0492 Highly Informative Inherited
Biological Process (BP) regulation of actin cytoskeleton organization 0.1627 Highly Informative Inherited
Biological Process (BP) regulation of transmembrane receptor protein serine/threonine kinase signaling pathway 0.01609 Highly Informative Inherited
Biological Process (BP) positive regulation of Ras GTPase activity 0.01723 Highly Informative Inherited
Biological Process (BP) monocarboxylic acid transport 0.001472 Highly Informative Inherited
Biological Process (BP) regulation of binding 1 Highly Informative Inherited
Biological Process (BP) transmembrane receptor protein tyrosine kinase signaling pathway 0.8925 Highly Informative Inherited
Biological Process (BP) hormone transport 0.003741 Highly Informative Inherited
Biological Process (BP) actin filament organization 0.01764 Highly Informative Inherited
Biological Process (BP) pattern specification process 1 Highly Informative Inherited
Biological Process (BP) establishment of synaptic vesicle localization 0.1156 Highly Informative Inherited
Biological Process (BP) vesicle organization 0.01527 Highly Informative Inherited
Biological Process (BP) developmental maturation 0.3997 Highly Informative Inherited
Biological Process (BP) learning or memory 1 Highly Informative Inherited
Biological Process (BP) G-protein coupled receptor signaling pathway 0.4338 Highly Informative Inherited
Biological Process (BP) cell projection assembly 0.2716 Highly Informative Inherited
Biological Process (BP) leukocyte mediated immunity 0.01843 Highly Informative Inherited
Biological Process (BP) innate immune response 0.6759 Highly Informative Inherited
Biological Process (BP) regulation of endocytosis 0.01202 Highly Informative Inherited
Biological Process (BP) epithelial tube formation 0.05603 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 1 Least Informative Inherited
Molecular Function (MF) structural molecule activity 1.377e-11 Moderately Informative Direct
Molecular Function (MF) enzyme regulator activity 1.887e-09 Moderately Informative Direct
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 0.01958 Moderately Informative Inherited
Molecular Function (MF) anion binding 0.04466 Moderately Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 1 Moderately Informative Inherited
Molecular Function (MF) hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides 1 Moderately Informative Inherited
Molecular Function (MF) GTPase regulator activity 0 Informative Direct
Molecular Function (MF) enzyme binding 8.26e-09 Informative Direct
Molecular Function (MF) peptidase activity 6.688e-08 Informative Direct
Molecular Function (MF) cytoskeletal protein binding 5.24e-06 Informative Direct
Molecular Function (MF) receptor binding 0.0003309 Informative Direct
Molecular Function (MF) kinase activity 0.0007127 Informative Direct
Molecular Function (MF) nucleotide binding 0.9671 Informative Inherited
Molecular Function (MF) lipid binding 0.2748 Informative Inherited
Molecular Function (MF) phosphoric ester hydrolase activity 0.5284 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 3.572e-08 Highly Informative Direct
Molecular Function (MF) protein complex binding 0.687 Highly Informative Inherited
Molecular Function (MF) guanyl-nucleotide exchange factor activity 0.02326 Highly Informative Inherited
Molecular Function (MF) small GTPase regulator activity 0.3604 Highly Informative Inherited
Molecular Function (MF) kinase binding 0.04732 Highly Informative Inherited
Molecular Function (MF) phosphoprotein phosphatase activity 0.001255 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 0.1505 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 0.1549 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 9.864e-05 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 0.5942 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 0.000743 Informative Direct
Cellular Component (CC) endosome 0.0202 Informative Inherited
Cellular Component (CC) neuron projection 0.07869 Informative Inherited
Cellular Component (CC) actin cytoskeleton 0.5607 Informative Inherited
Cellular Component (CC) external encapsulating structure 0.342 Informative Inherited
Cellular Component (CC) integral to membrane 0.5478 Informative Inherited
Cellular Component (CC) intrinsic to plasma membrane 1 Informative Inherited
Cellular Component (CC) extracellular matrix 0.01041 Informative Inherited
Cellular Component (CC) basolateral plasma membrane 4.085e-11 Highly Informative Direct
Cellular Component (CC) adherens junction 0 Highly Informative Direct
Cellular Component (CC) cell envelope 1.978e-11 Highly Informative Direct
Cellular Component (CC) apical plasma membrane 1.07e-09 Highly Informative Direct
Cellular Component (CC) clathrin-coated vesicle 3.603e-09 Highly Informative Direct
Cellular Component (CC) receptor complex 2.215e-08 Highly Informative Direct
Cellular Component (CC) external encapsulating structure part 3.905e-08 Highly Informative Direct
Cellular Component (CC) membrane raft 3.464e-06 Highly Informative Direct
Cellular Component (CC) perinuclear region of cytoplasm 3.625e-05 Highly Informative Direct
Cellular Component (CC) cilium part 6.418e-05 Highly Informative Direct
Cellular Component (CC) cell projection membrane 7.266e-05 Highly Informative Direct
Cellular Component (CC) proteinaceous extracellular matrix 0.0003928 Highly Informative Direct
Cellular Component (CC) dendrite 0.0006475 Highly Informative Direct
Cellular Component (CC) sperm part 0.1171 Highly Informative Inherited
Cellular Component (CC) main axon 0.002496 Highly Informative Inherited
Cellular Component (CC) extrinsic to plasma membrane 0.595 Highly Informative Inherited
Cellular Component (CC) cortical cytoskeleton 0.003986 Highly Informative Inherited
Cellular Component (CC) ion channel complex 0.006421 Highly Informative Inherited
Cellular Component (CC) integral to plasma membrane 0.06928 Highly Informative Inherited
Cellular Component (CC) extracellular matrix part 0.001724 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 disease0.6153Moderately InformativeInherited
Disease Ontology (DO)autosomal recessive disease0.2682InformativeInherited

Document: DO annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype3.679e-06Least InformativeDirect
Mammalian Phenotype (MP)abnormal neuron morphology0.04958Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system physiology0.2995Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal somatic nervous system morphology0.7396Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system development0.7787Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal embryogenesis/ development1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal behavior1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cochlear sensory epithelium morphology0.006477InformativeInherited
Mammalian Phenotype (MP)abnormal hair cell morphology0.006728InformativeInherited
Mammalian Phenotype (MP)abnormal membranous labyrinth morphology0.02664InformativeInherited
Mammalian Phenotype (MP)abnormal behavioral response to xenobiotic0.08795InformativeInherited
Mammalian Phenotype (MP)abnormal neural tube morphology/development0.4056InformativeInherited
Mammalian Phenotype (MP)craniorachischisis0.0002009Highly 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 structure0.7447Least InformativeInherited
Zebrafish Anatomy (ZA)cell0.7477Least InformativeInherited
Zebrafish Anatomy (ZA)nervous system0.7718Least InformativeInherited
Zebrafish Anatomy (ZA)cavitated compound organ0.9009Least InformativeInherited
Zebrafish Anatomy (ZA)central nervous system0.4986Moderately InformativeInherited
Zebrafish Anatomy (ZA)central canal3.138e-05InformativeDirect
Zebrafish Anatomy (ZA)neuroepithelial cell6.739e-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 groups0.007848Least 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 hydrolases0.0006646Moderately InformativeDirect
Enzyme Commission (EC)Serine endopeptidases0InformativeDirect
Enzyme Commission (EC)Protein-tyrosine-phosphatase9.562e-10InformativeDirect
Enzyme Commission (EC)Non-specific serine/threonine protein kinase0.0002349InformativeDirect
Enzyme Commission (EC)Acting on paired donors, with incorporation or reduction of molecular oxygen0.0005649InformativeDirect
Enzyme Commission (EC)Metalloendopeptidases0.3852InformativeInherited
Enzyme Commission (EC)With NADH or NADPH as one donor, and incorporation of one atom of oxygen1.158e-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 processDifferentiation1.604e-13Moderately InformativeDirect
Biological processProtein transport2.238e-12Moderately InformativeDirect
Biological processLipid metabolism1Moderately InformativeInherited
Biological processWnt signaling pathway0InformativeDirect
Biological processNeurogenesis3.831e-14InformativeDirect
Biological processStress response1.54e-07InformativeDirect
Biological processChemotaxis2.404e-05InformativeDirect
Biological processCell adhesion4.404e-05InformativeDirect
Biological processSteroid metabolism0.0009844InformativeDirect
Biological processExocytosis0Highly InformativeDirect
Biological processCilium biogenesis/degradation2.653e-14Highly InformativeDirect
Biological processOsteogenesis2.471e-07Highly InformativeDirect
Biological processNeurotransmitter transport1.623e-06Highly InformativeDirect
Biological processCholesterol metabolism4.044e-05Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentCytoplasm1Least InformativeInherited
Cellular componentCytoskeleton0Moderately InformativeDirect
Cellular componentCell junction0Moderately InformativeDirect
Cellular componentCell projection0Moderately InformativeDirect
Cellular componentCell membrane0Moderately InformativeDirect
Cellular componentEndosome6.47e-06Moderately InformativeDirect
Cellular componentCytoplasmic vesicle6.552e-06Moderately InformativeDirect
Cellular componentGolgi apparatus0.0002996Moderately InformativeDirect
Cellular componentPeriplasm4.462e-10InformativeDirect
Cellular componentSynapse1InformativeInherited
Cellular componentTight junction0Highly InformativeDirect
Cellular componentSynaptosome1.056e-05Highly InformativeDirect
Cellular componentPostsynaptic cell membrane3.815e-05Highly InformativeDirect
Coding sequence diversityAlternative splicing2.32e-13Least InformativeDirect
DiseaseDeafness4.18e-05InformativeDirect
DomainRepeat0Least InformativeDirect
DomainTransmembrane1Least InformativeInherited
DomainCoiled coil5.871e-05Moderately InformativeDirect
DomainSH3 domain0InformativeDirect
DomainSH3-binding0.0008583InformativeDirect
DomainLIM domain0Highly InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionActin-binding0InformativeDirect
Molecular functionCalmodulin-binding0InformativeDirect
Molecular functionLipid-binding0.0001179InformativeDirect
Molecular functionGrowth factor binding1.373e-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 kinase3.663e-08InformativeDirect
Post-translational modificationSignal transduction inhibitor9.92e-07Highly InformativeDirect
Post-translational modificationCytokine3.333e-05Highly InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationUbl conjugation4.562e-06Moderately InformativeDirect

Document: KW 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) · Internal database links ]