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 (2,403) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 46,201 75,671 117
Proteins 30,781 54,468 112


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)developmental process0.0075340Least InformativeInherited
Biological Process (BP)localization0.15215.683e-13Least InformativeInherited
Biological Process (BP)regulation of cellular process0.052340.001365Least InformativeInherited
Biological Process (BP)multicellular organismal process0.0050230Least InformativeInherited
Biological Process (BP)single-organism cellular process0.0028690Least InformativeInherited
Biological Process (BP)response to stimulus0.6921.758e-05Least InformativeInherited
Biological Process (BP)regulation of signaling0.00013085.247e-11Moderately InformativeDirect
Biological Process (BP)regulation of cell communication0.00029721.343e-09Moderately InformativeDirect
Biological Process (BP)anatomical structure morphogenesis0.24561.692e-06Moderately InformativeInherited
Biological Process (BP)single-organism developmental process0.051522.823e-10Moderately InformativeInherited
Biological Process (BP)system process0.0024630Moderately InformativeInherited
Biological Process (BP)signal transduction0.30310.000759Moderately InformativeInherited
Biological Process (BP)synaptic transmission1.377e-064.954e-05InformativeDirect
Biological Process (BP)growth0.001580.0006454InformativeInherited
Biological Process (BP)vesicle-mediated transport0.039691InformativeInherited
Biological Process (BP)intracellular signal transduction0.0022699.489e-11InformativeInherited
Biological Process (BP)synaptic vesicle transport3.597e-071.528e-08Highly InformativeDirect
Biological Process (BP)small GTPase mediated signal transduction3.302e-054.882e-05Highly InformativeDirect
Biological Process (BP)developmental growth0.00068710.0005337Highly InformativeDirect
Molecular Function (MF)binding5.904e-070Least InformativeDirect
Molecular Function (MF)protein binding7.385e-100Moderately InformativeDirect
Cellular Component (CC)intracellular non-membrane-bounded organelle0.016580Least InformativeInherited
Cellular Component (CC)intracellular organelle part0.44131Least InformativeInherited
Cellular Component (CC)membrane0.0077450Least InformativeInherited
Cellular Component (CC)cytoskeleton6.346e-050Moderately InformativeDirect
Cellular Component (CC)cell projection0.00056290Moderately InformativeDirect
Cellular Component (CC)plasma membrane0.0013840Moderately InformativeInherited
Cellular Component (CC)cell junction3.607e-070InformativeDirect
Cellular Component (CC)synapse7.779e-050InformativeDirect
Cellular Component (CC)basolateral plasma membrane0.00027936.398e-14Highly InformativeDirect

Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) cellular component organization or biogenesis 0 Least Informative Direct
Biological Process (BP) single-organism cellular process 0 Least Informative Direct
Biological Process (BP) multicellular organismal process 0 Least Informative Direct
Biological Process (BP) developmental process 0 Least Informative Direct
Biological Process (BP) localization 5.683e-13 Least Informative Direct
Biological Process (BP) response to stimulus 1.758e-05 Least Informative Direct
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 0.001365 Least Informative Inherited
Biological Process (BP) regulation of signaling 5.247e-11 Moderately Informative Direct
Biological Process (BP) regulation of cell communication 1.343e-09 Moderately Informative Direct
Biological Process (BP) system process 0 Moderately Informative Direct
Biological Process (BP) single-organism developmental process 2.823e-10 Moderately Informative Direct
Biological Process (BP) organelle organization 8.712e-06 Moderately Informative Direct
Biological Process (BP) anatomical structure morphogenesis 1.692e-06 Moderately Informative Direct
Biological Process (BP) signal transduction 0.000759 Moderately Informative Direct
Biological Process (BP) macromolecule localization 0 Moderately Informative Direct
Biological Process (BP) nervous system development 4.436e-12 Moderately Informative Direct
Biological Process (BP) cellular localization 1.31e-11 Moderately Informative Direct
Biological Process (BP) tissue development 6.435e-11 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 3.62e-08 Moderately Informative Direct
Biological Process (BP) regulation of molecular function 3.85e-05 Moderately Informative Direct
Biological Process (BP) ion transport 1 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.09102 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.008782 Moderately Informative Inherited
Biological Process (BP) homeostatic process 1 Moderately Informative Inherited
Biological Process (BP) multi-organism process 1 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 1 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 1 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.1306 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 0.02043 Moderately Informative Inherited
Biological Process (BP) regulation of localization 0.001669 Moderately Informative Inherited
Biological Process (BP) regulation of nitrogen compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) cell differentiation 1 Moderately Informative Inherited
Biological Process (BP) organ development 1 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.001202 Moderately Informative Inherited
Biological Process (BP) reproduction 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.001092 Moderately Informative Inherited
Biological Process (BP) immune system process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) synaptic transmission 4.954e-05 Informative Direct
Biological Process (BP) growth 0.0006454 Informative Direct
Biological Process (BP) intracellular signal transduction 9.489e-11 Informative Direct
Biological Process (BP) cytoskeleton organization 0 Informative Direct
Biological Process (BP) actin filament-based process 0 Informative Direct
Biological Process (BP) embryonic morphogenesis 0 Informative Direct
Biological Process (BP) tissue morphogenesis 0 Informative Direct
Biological Process (BP) biological adhesion 0 Informative Direct
Biological Process (BP) positive regulation of cellular component organization 7.835e-15 Informative Direct
Biological Process (BP) secretion 2.615e-14 Informative Direct
Biological Process (BP) epithelium development 9.314e-11 Informative Direct
Biological Process (BP) regulation of anatomical structure morphogenesis 5.903e-09 Informative Direct
Biological Process (BP) locomotion 1.489e-08 Informative Direct
Biological Process (BP) positive regulation of transport 2.43e-08 Informative Direct
Biological Process (BP) sensory organ development 1.593e-07 Informative Direct
Biological Process (BP) regulation of nervous system development 3.738e-07 Informative Direct
Biological Process (BP) regulation of cell development 6.767e-07 Informative Direct
Biological Process (BP) cellular component morphogenesis 1.113e-06 Informative Direct
Biological Process (BP) regulation of cellular catabolic process 2.218e-06 Informative Direct
Biological Process (BP) regulation of cellular component biogenesis 2.467e-06 Informative Direct
Biological Process (BP) generation of neurons 2.283e-05 Informative Direct
Biological Process (BP) regulation of anatomical structure size 5.728e-05 Informative Direct
Biological Process (BP) microtubule-based process 0.0001535 Informative Direct
Biological Process (BP) cell projection organization 0.0002604 Informative Direct
Biological Process (BP) cellular membrane organization 0.0004707 Informative Direct
Biological Process (BP) regulation of ion transport 0.00144 Informative Inherited
Biological Process (BP) regulation of cellular component movement 0.1886 Informative Inherited
Biological Process (BP) regulation of locomotion 0.1027 Informative Inherited
Biological Process (BP) response to wounding 0.1186 Informative Inherited
Biological Process (BP) organ morphogenesis 0.009533 Informative Inherited
Biological Process (BP) negative regulation of signaling 0.002822 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.01155 Informative Inherited
Biological Process (BP) anion transport 0.6486 Informative Inherited
Biological Process (BP) nitrogen compound transport 0.00611 Informative Inherited
Biological Process (BP) cellular macromolecular complex assembly 1 Informative Inherited
Biological Process (BP) cell proliferation 0.08432 Informative Inherited
Biological Process (BP) tube development 0.002545 Informative Inherited
Biological Process (BP) enzyme linked receptor protein signaling pathway 0.08327 Informative Inherited
Biological Process (BP) regulation of organelle organization 1 Informative Inherited
Biological Process (BP) cell cycle process 1 Informative Inherited
Biological Process (BP) protein oligomerization 0.2398 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.4918 Informative Inherited
Biological Process (BP) regulation of cell proliferation 1 Informative Inherited
Biological Process (BP) muscle tissue development 1 Informative Inherited
Biological Process (BP) muscle structure development 1 Informative Inherited
Biological Process (BP) regulation of growth 0.1565 Informative Inherited
Biological Process (BP) regulation of system process 0.004847 Informative Inherited
Biological Process (BP) central nervous system development 1 Informative Inherited
Biological Process (BP) single-organism behavior 0.4446 Informative Inherited
Biological Process (BP) regulation of intracellular protein kinase cascade 0.6352 Informative Inherited
Biological Process (BP) regulation of mitotic cell cycle 0.9933 Informative Inherited
Biological Process (BP) cellular component movement 0.04756 Informative Inherited
Biological Process (BP) localization of cell 0.004314 Informative Inherited
Biological Process (BP) response to external stimulus 1 Informative Inherited
Biological Process (BP) proteolysis 0.001572 Informative Inherited
Biological Process (BP) protein catabolic process 0.02171 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 0.7034 Informative Inherited
Biological Process (BP) protein modification by small protein conjugation or removal 1 Informative Inherited
Biological Process (BP) dephosphorylation 0.1955 Informative Inherited
Biological Process (BP) gland development 1 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.00875 Informative Inherited
Biological Process (BP) regulation of response to stress 1 Informative Inherited
Biological Process (BP) lipid transport 0.07906 Informative Inherited
Biological Process (BP) regulation of hydrolase activity 0.007536 Informative Inherited
Biological Process (BP) positive regulation of catalytic activity 0.1352 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 1 Informative Inherited
Biological Process (BP) regulation of hormone levels 1 Informative Inherited
Biological Process (BP) vesicle-mediated transport 1 Informative Inherited
Biological Process (BP) muscle system process 1 Informative Inherited
Biological Process (BP) organic acid transport 0.04183 Informative Inherited
Biological Process (BP) single organism reproductive process 1 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 0.5856 Informative Inherited
Biological Process (BP) sexual reproduction 0.8318 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 1 Informative Inherited
Biological Process (BP) cellular process involved in reproduction 1 Informative Inherited
Biological Process (BP) immune response 1 Informative Inherited
Biological Process (BP) immune effector process 0.7927 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.9295 Informative Inherited
Biological Process (BP) chordate embryonic development 1 Informative Inherited
Biological Process (BP) cell activation 1 Informative Inherited
Biological Process (BP) synaptic vesicle transport 1.528e-08 Highly Informative Direct
Biological Process (BP) small GTPase mediated signal transduction 4.882e-05 Highly Informative Direct
Biological Process (BP) developmental growth 0.0005337 Highly Informative Direct
Biological Process (BP) neurotransmitter transport 0 Highly Informative Direct
Biological Process (BP) signal release 0 Highly Informative Direct
Biological Process (BP) protein localization to membrane 0 Highly Informative Direct
Biological Process (BP) establishment or maintenance of cell polarity 0 Highly Informative Direct
Biological Process (BP) regulation of membrane potential 6.458e-14 Highly Informative Direct
Biological Process (BP) cell adhesion 1.615e-13 Highly Informative Direct
Biological Process (BP) regulation of neurotransmitter levels 2.011e-12 Highly Informative Direct
Biological Process (BP) morphogenesis of embryonic epithelium 3.389e-11 Highly Informative Direct
Biological Process (BP) negative regulation of cell cycle 4.25e-10 Highly Informative Direct
Biological Process (BP) regulation of neuron differentiation 4.771e-10 Highly Informative Direct
Biological Process (BP) regulation of nucleoside metabolic process 2.275e-09 Highly Informative Direct
Biological Process (BP) regulation of transmembrane transport 9.047e-09 Highly Informative Direct
Biological Process (BP) negative regulation of locomotion 3.024e-08 Highly Informative Direct
Biological Process (BP) stress-activated protein kinase signaling cascade 3.316e-08 Highly Informative Direct
Biological Process (BP) negative regulation of cellular component movement 4.73e-08 Highly Informative Direct
Biological Process (BP) epithelial cell development 5.636e-08 Highly Informative Direct
Biological Process (BP) neural precursor cell proliferation 7.024e-08 Highly Informative Direct
Biological Process (BP) stem cell proliferation 7.073e-08 Highly Informative Direct
Biological Process (BP) organelle localization 3.307e-07 Highly Informative Direct
Biological Process (BP) regulation of cell projection organization 3.802e-07 Highly Informative Direct
Biological Process (BP) multi-organism behavior 1.323e-06 Highly Informative Direct
Biological Process (BP) regulation of neurological system process 1.674e-06 Highly Informative Direct
Biological Process (BP) exocytosis 2.722e-06 Highly Informative Direct
Biological Process (BP) tube formation 1.188e-05 Highly Informative Direct
Biological Process (BP) actin filament-based movement 1.817e-05 Highly Informative Direct
Biological Process (BP) wound healing 3.03e-05 Highly Informative Direct
Biological Process (BP) eye morphogenesis 3.271e-05 Highly Informative Direct
Biological Process (BP) amide transport 3.3e-05 Highly Informative Direct
Biological Process (BP) regulation of developmental growth 4.69e-05 Highly Informative Direct
Biological Process (BP) monoamine transport 5.758e-05 Highly Informative Direct
Biological Process (BP) negative regulation of cell proliferation 0.0001019 Highly Informative Direct
Biological Process (BP) regulation of cellular component size 0.000119 Highly Informative Direct
Biological Process (BP) regulation of vesicle-mediated transport 0.0002216 Highly Informative Direct
Biological Process (BP) inner ear development 0.0003381 Highly Informative Direct
Biological Process (BP) regulation of purine nucleotide catabolic process 0.0003637 Highly Informative Direct
Biological Process (BP) monocarboxylic acid transport 0.0007543 Highly Informative Direct
Biological Process (BP) regulation of cell morphogenesis 0.0009159 Highly Informative Direct
Biological Process (BP) cell growth 0.003889 Highly Informative Inherited
Biological Process (BP) post-embryonic organ development 1 Highly Informative Inherited
Biological Process (BP) regulation of organ morphogenesis 0.001075 Highly Informative Inherited
Biological Process (BP) negative regulation of signal transduction 0.7626 Highly Informative Inherited
Biological Process (BP) kidney development 0.3963 Highly Informative Inherited
Biological Process (BP) morphogenesis of a branching epithelium 1 Highly Informative Inherited
Biological Process (BP) cell fate commitment 0.1814 Highly Informative Inherited
Biological Process (BP) cell division 0.2998 Highly Informative Inherited
Biological Process (BP) protein complex localization 0.05061 Highly Informative Inherited
Biological Process (BP) microtubule cytoskeleton organization 0.8782 Highly Informative Inherited
Biological Process (BP) positive regulation of cell differentiation 0.205 Highly Informative Inherited
Biological Process (BP) regulation of lymphocyte activation 0.1548 Highly Informative Inherited
Biological Process (BP) regulation of mononuclear cell proliferation 0.0126 Highly Informative Inherited
Biological Process (BP) muscle fiber development 0.01744 Highly Informative Inherited
Biological Process (BP) muscle organ development 0.7733 Highly Informative Inherited
Biological Process (BP) post-embryonic development 1 Highly Informative Inherited
Biological Process (BP) transmembrane receptor protein tyrosine kinase signaling pathway 1 Highly Informative Inherited
Biological Process (BP) regulation of cellular response to stress 0.1459 Highly Informative Inherited
Biological Process (BP) positive regulation of growth 0.226 Highly Informative Inherited
Biological Process (BP) protein ubiquitination 0.4814 Highly Informative Inherited
Biological Process (BP) modification-dependent protein catabolic process 1 Highly Informative Inherited
Biological Process (BP) negative regulation of immune system process 0.1202 Highly Informative Inherited
Biological Process (BP) photoreceptor cell differentiation 0.005347 Highly Informative Inherited
Biological Process (BP) mitotic cell cycle 0.1644 Highly Informative Inherited
Biological Process (BP) locomotory behavior 0.08708 Highly Informative Inherited
Biological Process (BP) protein dephosphorylation 0.03339 Highly Informative Inherited
Biological Process (BP) regulation of Ras protein signal transduction 1 Highly Informative Inherited
Biological Process (BP) regulation of actin cytoskeleton organization 0.8479 Highly Informative Inherited
Biological Process (BP) negative regulation of cytoskeleton organization 0.3143 Highly Informative Inherited
Biological Process (BP) hormone transport 0.008824 Highly Informative Inherited
Biological Process (BP) actin filament organization 0.001177 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.8997 Highly Informative Inherited
Biological Process (BP) vesicle organization 0.06979 Highly Informative Inherited
Biological Process (BP) amino acid transport 0.03874 Highly Informative Inherited
Biological Process (BP) adult behavior 0.8461 Highly Informative Inherited
Biological Process (BP) learning or memory 1 Highly Informative Inherited
Biological Process (BP) germ cell development 0.7523 Highly Informative Inherited
Biological Process (BP) female gamete generation 0.8507 Highly Informative Inherited
Biological Process (BP) MAPK cascade 0.008837 Highly Informative Inherited
Biological Process (BP) G-protein coupled receptor signaling pathway 0.9027 Highly Informative Inherited
Biological Process (BP) leukocyte mediated immunity 0.0603 Highly Informative Inherited
Biological Process (BP) epithelial tube morphogenesis 1 Highly Informative Inherited
Biological Process (BP) gastrulation 1 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) protein binding 0 Moderately Informative Direct
Molecular Function (MF) structural molecule activity 1.478e-09 Moderately Informative Direct
Molecular Function (MF) enzyme regulator activity 2.895e-07 Moderately Informative Direct
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 0.02118 Moderately Informative Inherited
Molecular Function (MF) anion binding 0.6482 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) enzyme binding 1.519e-08 Informative Direct
Molecular Function (MF) peptidase activity 5.762e-07 Informative Direct
Molecular Function (MF) receptor binding 0.0004454 Informative Direct
Molecular Function (MF) kinase activity 0.0006818 Informative Direct
Molecular Function (MF) cytoskeletal protein binding 0.02684 Informative Inherited
Molecular Function (MF) lipid binding 0.2967 Informative Inherited
Molecular Function (MF) phosphoric ester hydrolase activity 0.4468 Informative Inherited
Molecular Function (MF) nucleobase-containing compound kinase activity 0 Highly Informative Direct
Molecular Function (MF) serine-type peptidase activity 3.291e-10 Highly Informative Direct
Molecular Function (MF) channel regulator activity 6.326e-06 Highly Informative Direct
Molecular Function (MF) phosphoprotein phosphatase activity 0.0008331 Highly Informative Direct
Molecular Function (MF) guanyl-nucleotide exchange factor activity 0.04108 Highly Informative Inherited
Molecular Function (MF) small GTPase regulator activity 0.5471 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 0.4423 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) protein complex 0.2458 Least Informative Inherited
Cellular Component (CC) cytoskeleton 0 Moderately Informative Direct
Cellular Component (CC) cell projection 0 Moderately Informative Direct
Cellular Component (CC) plasma membrane 0 Moderately Informative Direct
Cellular Component (CC) vesicle 0.0002656 Moderately Informative Direct
Cellular Component (CC) organelle membrane 1 Moderately Informative Inherited
Cellular Component (CC) extracellular region 1 Moderately Informative Inherited
Cellular Component (CC) intrinsic to membrane 1 Moderately Informative Inherited
Cellular Component (CC) cell junction 0 Informative Direct
Cellular Component (CC) synapse 0 Informative Direct
Cellular Component (CC) cell projection part 0 Informative Direct
Cellular Component (CC) neuron part 0 Informative Direct
Cellular Component (CC) cell cortex 0 Informative Direct
Cellular Component (CC) contractile fiber part 6.528e-14 Informative Direct
Cellular Component (CC) extracellular matrix 0.5719 Informative Inherited
Cellular Component (CC) endosome 0.4506 Informative Inherited
Cellular Component (CC) actin cytoskeleton 0.5923 Informative Inherited
Cellular Component (CC) external encapsulating structure 0.325 Informative Inherited
Cellular Component (CC) coated vesicle 0.001619 Informative Inherited
Cellular Component (CC) integral to membrane 0.7966 Informative Inherited
Cellular Component (CC) intrinsic to plasma membrane 1 Informative Inherited
Cellular Component (CC) basolateral plasma membrane 6.398e-14 Highly Informative Direct
Cellular Component (CC) synaptic membrane 0 Highly Informative Direct
Cellular Component (CC) adherens junction 0 Highly Informative Direct
Cellular Component (CC) periplasmic space 2.508e-11 Highly Informative Direct
Cellular Component (CC) cell envelope 4.458e-11 Highly Informative Direct
Cellular Component (CC) apical plasma membrane 4.043e-10 Highly Informative Direct
Cellular Component (CC) recycling endosome 8.149e-10 Highly Informative Direct
Cellular Component (CC) receptor complex 3.527e-09 Highly Informative Direct
Cellular Component (CC) external encapsulating structure part 1.67e-08 Highly Informative Direct
Cellular Component (CC) dendrite 1.915e-08 Highly Informative Direct
Cellular Component (CC) clathrin-coated vesicle 2.574e-07 Highly Informative Direct
Cellular Component (CC) perinuclear region of cytoplasm 0.0001033 Highly Informative Direct
Cellular Component (CC) nonmotile primary cilium 0.0002487 Highly Informative Direct
Cellular Component (CC) cell projection membrane 0.0002518 Highly Informative Direct
Cellular Component (CC) cilium part 0.005672 Highly Informative Inherited
Cellular Component (CC) proteinaceous extracellular matrix 0.1528 Highly Informative Inherited
Cellular Component (CC) axon part 0.5773 Highly Informative Inherited
Cellular Component (CC) cell-cell junction 0.1948 Highly Informative Inherited
Cellular Component (CC) cortical cytoskeleton 0.005865 Highly Informative Inherited
Cellular Component (CC) sarcomere 0.0725 Highly Informative Inherited
Cellular Component (CC) integral to plasma membrane 0.1312 Highly Informative Inherited
Cellular Component (CC) cell-substrate junction 1 Highly Informative Inherited

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Acting on peptide bonds (peptide hydrolases)0Least InformativeDirect
Enzyme Commission (EC)Acting on ester bonds1Least InformativeInherited
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine kinases0Moderately InformativeDirect
Enzyme Commission (EC)Serine endopeptidases0Moderately InformativeDirect
Enzyme Commission (EC)Acting on paired donors, with incorporation or red0.0003073Moderately InformativeDirect
Enzyme Commission (EC)Phosphoric monoester hydrolases0.0004756Moderately InformativeDirect
Enzyme Commission (EC)Protein-tyrosine-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 disease0.5546Moderately InformativeInherited
Disease Ontology (DO)autosomal recessive disease0.287InformativeInherited

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details) Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype7.812e-06Least InformativeDirect
Mammalian Phenotype (MP)abnormal neuron morphology0.03054Moderately InformativeInherited
Mammalian Phenotype (MP)behavior/neurological phenotype0.05452Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system physiology0.4132Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal somatic nervous system morphology0.7761Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal hair cell morphology0.03243InformativeInherited
Mammalian Phenotype (MP)abnormal cochlear sensory epithelium morphology0.03243InformativeInherited
Mammalian Phenotype (MP)abnormal membranous labyrinth morphology0.08509InformativeInherited
Mammalian Phenotype (MP)abnormal behavioral response to xenobiotic0.1675InformativeInherited
Mammalian Phenotype (MP)abnormal outer hair cell stereociliary bundle morphology0.0003796Highly InformativeDirect
Mammalian Phenotype (MP)abnormal behavioral response to addictive substance0.0009491Highly 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 defective0.0001343InformativeDirect

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)portion of tissue0.09804Least InformativeInherited
Zebrafish Anatomy (ZA)cell0.1791Least InformativeInherited
Zebrafish Anatomy (ZA)multi-tissue structure0.209Least InformativeInherited
Zebrafish Anatomy (ZA)nervous system0.2436Least InformativeInherited
Zebrafish Anatomy (ZA)cavitated compound organ0.3547Least InformativeInherited
Zebrafish Anatomy (ZA)central nervous system0.2247Moderately InformativeInherited
Zebrafish Anatomy (ZA)central canal2.742e-06Highly InformativeDirect
Zebrafish Anatomy (ZA)neuroepithelial cell7.427e-06Highly InformativeDirect
Zebrafish Anatomy (ZA)neural tube0.0006406Highly InformativeDirect

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)shoot apex0Least InformativeDirect
Plant ANatomical entity (PAN)vascular 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 groups0.00508Least 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 hydrolases0.0005128Moderately InformativeDirect
Enzyme Commission (EC)Serine endopeptidases0InformativeDirect
Enzyme Commission (EC)Protein-tyrosine-phosphatase7.689e-10InformativeDirect
Enzyme Commission (EC)Non-specific serine/threonine protein kinase0.0002294InformativeDirect
Enzyme Commission (EC)Acting on paired donors, with incorporation or reduction of molecular oxygen0.0004016InformativeDirect
Enzyme Commission (EC)Metalloendopeptidases0.328InformativeInherited
Enzyme Commission (EC)With NADH or NADPH as one donor, and incorporation of one atom of oxygen6.751e-07Highly 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 processProtein transport6.76e-13Moderately InformativeDirect
Biological processDifferentiation2.824e-10Moderately InformativeDirect
Biological processLipid metabolism1Moderately InformativeInherited
Biological processWnt signaling pathway0InformativeDirect
Biological processStress response9.03e-08InformativeDirect
Biological processNeurogenesis5.503e-07InformativeDirect
Biological processChemotaxis1.385e-05InformativeDirect
Biological processCell adhesion7.157e-05InformativeDirect
Biological processSteroid metabolism0.0008279InformativeDirect
Biological processExocytosis0Highly InformativeDirect
Biological processCilium biogenesis/degradation4.08e-15Highly InformativeDirect
Biological processOsteogenesis1.552e-07Highly InformativeDirect
Biological processNeurotransmitter transport1.474e-06Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentCytoplasm1Least InformativeInherited
Cellular componentCytoskeleton0Moderately InformativeDirect
Cellular componentCell junction0Moderately InformativeDirect
Cellular componentCell projection0Moderately InformativeDirect
Cellular componentCell membrane0Moderately InformativeDirect
Cellular componentCytoplasmic vesicle2.744e-06Moderately InformativeDirect
Cellular componentPostsynaptic cell membrane0InformativeDirect
Cellular componentPeriplasm1.399e-11InformativeDirect
Cellular componentSynapse1InformativeInherited
Cellular componentTight junction0Highly InformativeDirect
Cellular componentSynaptosome6.507e-05Highly InformativeDirect
Coding sequence diversityAlternative splicing2.84e-12Least InformativeDirect
DiseaseDeafness2.475e-05InformativeDirect
DomainRepeat0Least InformativeDirect
DomainCoiled coil6.924e-05Moderately InformativeDirect
DomainSH3 domain0InformativeDirect
DomainSH3-binding0.0008599InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionActin-binding0InformativeDirect
Molecular functionCalmodulin-binding0InformativeDirect
Molecular functionLIM domain0Highly InformativeDirect
Molecular functionGrowth factor binding1.267e-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 kinase2.642e-08InformativeDirect
Post-translational modificationSignal transduction inhibitor9.144e-07Highly InformativeDirect
Post-translational modificationCytokine2.959e-05Highly InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

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

Document: UP annotation of SCOP domains

InterPro annotation
Cross references IPR001478 SSF50156 Protein matches
Abstract

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

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


InterPro database


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

PDBeMotif resource

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

Internal database links

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


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


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


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


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

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


Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · 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 ]