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 (3,077) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 51,307 75,671 117
Proteins 34,813 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)cellular component organization or biogenesis0.0008960Least InformativeDirect
Biological Process (BP)developmental process0.0050610Least InformativeInherited
Biological Process (BP)localization0.10950Least InformativeInherited
Biological Process (BP)regulation of cellular process0.038740.02158Least InformativeInherited
Biological Process (BP)multicellular organismal process0.0030160Least InformativeInherited
Biological Process (BP)single-organism cellular process0.0030540Least InformativeInherited
Biological Process (BP)response to stimulus0.59853.874e-12Least InformativeInherited
Biological Process (BP)single-organism developmental process0.057880Moderately InformativeInherited
Biological Process (BP)anatomical structure morphogenesis0.22872.605e-06Moderately InformativeInherited
Biological Process (BP)cellular localization0.030761.31e-12Moderately InformativeInherited
Biological Process (BP)system process0.0024731.604e-14Moderately InformativeInherited
Biological Process (BP)signal transduction0.2920.0004557Moderately InformativeInherited
Biological Process (BP)growth0.00031246.28e-06InformativeDirect
Biological Process (BP)transmission of nerve impulse0.00095340InformativeDirect
Biological Process (BP)organelle localization0.001072.102e-09InformativeInherited
Biological Process (BP)vesicle-mediated transport0.03730.8244InformativeInherited
Biological Process (BP)cell-cell signaling0.0028950InformativeInherited
Biological Process (BP)intracellular signal transduction0.0016022.55e-12InformativeInherited
Biological Process (BP)small GTPase mediated signal transduction1.841e-052.501e-06Highly InformativeDirect
Biological Process (BP)establishment of vesicle localization4.691e-051.552e-05Highly InformativeDirect
Biological Process (BP)developmental growth0.00083840.005287Highly InformativeInherited
Biological Process (BP)synaptic vesicle localization1.228e-070.008857Highly InformativeInherited
Molecular Function (MF)binding1.665e-070Least InformativeDirect
Cellular Component (CC)intracellular non-membrane-bounded organelle0.0098740Least InformativeInherited
Cellular Component (CC)intracellular organelle part0.42611Least InformativeInherited
Cellular Component (CC)membrane0.0023990Least InformativeInherited
Cellular Component (CC)plasma membrane part2.184e-070Moderately InformativeDirect
Cellular Component (CC)cytoskeleton2.289e-050Moderately InformativeDirect
Cellular Component (CC)cell projection0.00088290Moderately InformativeDirect
Cellular Component (CC)basolateral plasma membrane0.00019292.422e-12Highly 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) multicellular organismal process 0 Least Informative Direct
Biological Process (BP) single-organism cellular process 0 Least Informative Direct
Biological Process (BP) developmental process 0 Least Informative Direct
Biological Process (BP) localization 0 Least Informative Direct
Biological Process (BP) response to stimulus 3.874e-12 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) nitrogen compound 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 0.02158 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) system process 1.604e-14 Moderately Informative Direct
Biological Process (BP) regulation of localization 5.305e-06 Moderately Informative Direct
Biological Process (BP) cellular localization 1.31e-12 Moderately Informative Direct
Biological Process (BP) single-organism developmental process 0 Moderately Informative Direct
Biological Process (BP) organelle organization 2.475e-07 Moderately Informative Direct
Biological Process (BP) anatomical structure morphogenesis 2.605e-06 Moderately Informative Direct
Biological Process (BP) signal transduction 0.0004557 Moderately Informative Direct
Biological Process (BP) regulation of signal transduction 0.0004066 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) macromolecule localization 0 Moderately Informative Direct
Biological Process (BP) regulation of catalytic activity 0 Moderately Informative Direct
Biological Process (BP) tissue development 7.636e-08 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 3.417e-07 Moderately Informative Direct
Biological Process (BP) nucleobase-containing small molecule metabolic process 0.0003871 Moderately Informative Direct
Biological Process (BP) regulation of programmed cell death 1 Moderately Informative Inherited
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 0.03369 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.1387 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 1 Moderately Informative Inherited
Biological Process (BP) multi-organism 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 protein modification 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) regulation of developmental process 0.001152 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 cellular process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.861 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.1711 Moderately Informative Inherited
Biological Process (BP) reproduction 0.007003 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.1458 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) cellular component biogenesis 0.00125 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 0.009835 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) growth 6.28e-06 Informative Direct
Biological Process (BP) transmission of nerve impulse 0 Informative Direct
Biological Process (BP) organelle localization 2.102e-09 Informative Direct
Biological Process (BP) intracellular signal transduction 2.55e-12 Informative Direct
Biological Process (BP) cell-cell signaling 0 Informative Direct
Biological Process (BP) cytoskeleton organization 0 Informative Direct
Biological Process (BP) actin filament-based process 0 Informative Direct
Biological Process (BP) tissue morphogenesis 0 Informative Direct
Biological Process (BP) regulation of nucleoside metabolic process 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) regulation of cell development 3.11e-14 Informative Direct
Biological Process (BP) embryonic morphogenesis 3.939e-14 Informative Direct
Biological Process (BP) positive regulation of transport 1.033e-13 Informative Direct
Biological Process (BP) epithelium development 2.875e-13 Informative Direct
Biological Process (BP) regulation of anatomical structure morphogenesis 5.317e-13 Informative Direct
Biological Process (BP) regulation of cellular component biogenesis 1.878e-11 Informative Direct
Biological Process (BP) regulation of nucleotide catabolic process 4.587e-11 Informative Direct
Biological Process (BP) localization of cell 9.988e-10 Informative Direct
Biological Process (BP) cellular component movement 1.203e-09 Informative Direct
Biological Process (BP) cellular component morphogenesis 3.729e-08 Informative Direct
Biological Process (BP) regulation of nervous system development 5.975e-08 Informative Direct
Biological Process (BP) secretion by cell 6.594e-08 Informative Direct
Biological Process (BP) sensory organ development 6.744e-08 Informative Direct
Biological Process (BP) cell projection organization 2.576e-06 Informative Direct
Biological Process (BP) phosphorylation 3.343e-06 Informative Direct
Biological Process (BP) microtubule-based process 6.362e-05 Informative Direct
Biological Process (BP) regulation of ion transport 0.0001766 Informative Direct
Biological Process (BP) regulation of anatomical structure size 0.0009586 Informative Direct
Biological Process (BP) generation of neurons 0.002424 Informative Inherited
Biological Process (BP) regulation of protein phosphorylation 0.008525 Informative Inherited
Biological Process (BP) regulation of kinase activity 0.07212 Informative Inherited
Biological Process (BP) positive regulation of protein metabolic process 0.2332 Informative Inherited
Biological Process (BP) positive regulation of phosphate metabolic process 1 Informative Inherited
Biological Process (BP) regulation of locomotion 0.07539 Informative Inherited
Biological Process (BP) regulation of cellular component movement 0.116 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 1 Informative Inherited
Biological Process (BP) response to wounding 0.02439 Informative Inherited
Biological Process (BP) regulation of protein localization 0.8368 Informative Inherited
Biological Process (BP) regulation of intracellular transport 1 Informative Inherited
Biological Process (BP) negative regulation of signaling 0.006241 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.02411 Informative Inherited
Biological Process (BP) membrane organization 0.02807 Informative Inherited
Biological Process (BP) anion transport 0.6122 Informative Inherited
Biological Process (BP) nitrogen compound transport 0.01081 Informative Inherited
Biological Process (BP) cellular response to nitrogen compound 0.7739 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 1 Informative Inherited
Biological Process (BP) protein complex assembly 0.2701 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 0.02155 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 1 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.04789 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) muscle structure development 1 Informative Inherited
Biological Process (BP) muscle tissue development 1 Informative Inherited
Biological Process (BP) sexual reproduction 0.003926 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 0.02568 Informative Inherited
Biological Process (BP) regulation of system process 0.001601 Informative Inherited
Biological Process (BP) regulation of intracellular protein kinase cascade 0.5048 Informative Inherited
Biological Process (BP) single organism reproductive process 0.004838 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 1 Informative Inherited
Biological Process (BP) organ morphogenesis 0.005404 Informative Inherited
Biological Process (BP) proteolysis 0.001202 Informative Inherited
Biological Process (BP) protein catabolic process 0.0477 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 0.8995 Informative Inherited
Biological Process (BP) response to nutrient levels 1 Informative Inherited
Biological Process (BP) single-organism behavior 0.2419 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.2584 Informative Inherited
Biological Process (BP) cellular response to endogenous stimulus 1 Informative Inherited
Biological Process (BP) dephosphorylation 0.2559 Informative Inherited
Biological Process (BP) cell death 0.911 Informative Inherited
Biological Process (BP) gland development 1 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.2009 Informative Inherited
Biological Process (BP) lipid localization 1 Informative Inherited
Biological Process (BP) positive regulation of hydrolase activity 0.006862 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 0.004029 Informative Inherited
Biological Process (BP) cellular process involved in reproduction 0.1317 Informative Inherited
Biological Process (BP) regulation of hormone levels 1 Informative Inherited
Biological Process (BP) central nervous system development 0.9762 Informative Inherited
Biological Process (BP) vesicle-mediated transport 0.8244 Informative Inherited
Biological Process (BP) organic acid transport 0.07882 Informative Inherited
Biological Process (BP) regulation of cell cycle 0.4873 Informative Inherited
Biological Process (BP) immune response 1 Informative Inherited
Biological Process (BP) immune effector process 0.7284 Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 0.004602 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.7708 Informative Inherited
Biological Process (BP) cell activation 1 Informative Inherited
Biological Process (BP) small GTPase mediated signal transduction 2.501e-06 Highly Informative Direct
Biological Process (BP) establishment of vesicle localization 1.552e-05 Highly Informative Direct
Biological Process (BP) neurotransmitter transport 0 Highly Informative Direct
Biological Process (BP) cell junction organization 0 Highly Informative Direct
Biological Process (BP) establishment or maintenance of cell polarity 0 Highly Informative Direct
Biological Process (BP) cell adhesion 2.204e-13 Highly Informative Direct
Biological Process (BP) morphogenesis of embryonic epithelium 4.768e-12 Highly Informative Direct
Biological Process (BP) regulation of transmembrane transport 6.792e-12 Highly Informative Direct
Biological Process (BP) regulation of neurotransmitter levels 1.433e-11 Highly Informative Direct
Biological Process (BP) cellular process involved in reproduction in multicellular organism 4.847e-10 Highly Informative Direct
Biological Process (BP) stress-activated protein kinase signaling cascade 1.199e-08 Highly Informative Direct
Biological Process (BP) negative regulation of cell cycle 1.613e-08 Highly Informative Direct
Biological Process (BP) multi-organism behavior 2.954e-08 Highly Informative Direct
Biological Process (BP) regulation of transmission of nerve impulse 3.69e-08 Highly Informative Direct
Biological Process (BP) MAPK cascade 4.114e-08 Highly Informative Direct
Biological Process (BP) regulation of vesicle-mediated transport 3.633e-07 Highly Informative Direct
Biological Process (BP) negative regulation of locomotion 8.242e-07 Highly Informative Direct
Biological Process (BP) wound healing 1.075e-06 Highly Informative Direct
Biological Process (BP) epithelial cell development 1.231e-06 Highly Informative Direct
Biological Process (BP) signal release 1.293e-06 Highly Informative Direct
Biological Process (BP) negative regulation of cellular component movement 2.07e-06 Highly Informative Direct
Biological Process (BP) regulation of membrane potential 2.536e-06 Highly Informative Direct
Biological Process (BP) actin filament-based movement 3.069e-06 Highly Informative Direct
Biological Process (BP) negative regulation of cell proliferation 5.236e-06 Highly Informative Direct
Biological Process (BP) regulation of transporter activity 5.676e-06 Highly Informative Direct
Biological Process (BP) exocytosis 3.429e-05 Highly Informative Direct
Biological Process (BP) inner ear development 5.9e-05 Highly Informative Direct
Biological Process (BP) amide transport 6.494e-05 Highly Informative Direct
Biological Process (BP) monoamine transport 7.546e-05 Highly Informative Direct
Biological Process (BP) regulation of protein kinase B signaling cascade 0.0001098 Highly Informative Direct
Biological Process (BP) eye morphogenesis 0.0001671 Highly Informative Direct
Biological Process (BP) neural tube development 0.0003751 Highly Informative Direct
Biological Process (BP) regulation of neuron projection development 0.0005093 Highly Informative Direct
Biological Process (BP) regulation of cell morphogenesis involved in differentiation 0.0007883 Highly Informative Direct
Biological Process (BP) positive regulation of cell migration 1 Highly Informative Inherited
Biological Process (BP) positive regulation of cell differentiation 0.0577 Highly Informative Inherited
Biological Process (BP) positive regulation of programmed cell death 0.007011 Highly Informative Inherited
Biological Process (BP) positive regulation of protein kinase activity 0.02143 Highly Informative Inherited
Biological Process (BP) cellular response to growth factor stimulus 0.007643 Highly Informative Inherited
Biological Process (BP) positive regulation of intracellular transport 1 Highly Informative Inherited
Biological Process (BP) positive regulation of protein transport 1 Highly Informative Inherited
Biological Process (BP) regulation of intracellular protein transport 0.09126 Highly Informative Inherited
Biological Process (BP) cell growth 0.007848 Highly Informative Inherited
Biological Process (BP) post-embryonic organ development 0.9826 Highly Informative Inherited
Biological Process (BP) regulation of organ morphogenesis 0.001059 Highly Informative Inherited
Biological Process (BP) renal system development 0.02935 Highly Informative Inherited
Biological Process (BP) cellular response to organic cyclic compound 0.7063 Highly Informative Inherited
Biological Process (BP) response to purine-containing compound 0.1225 Highly Informative Inherited
Biological Process (BP) cell proliferation 0.1361 Highly Informative Inherited
Biological Process (BP) branching morphogenesis of an epithelial tube 0.4571 Highly Informative Inherited
Biological Process (BP) cell fate commitment 0.5963 Highly Informative Inherited
Biological Process (BP) cell division 0.2706 Highly Informative Inherited
Biological Process (BP) microtubule cytoskeleton organization 0.9588 Highly Informative Inherited
Biological Process (BP) sensory perception 1 Highly Informative Inherited
Biological Process (BP) negative regulation of cell differentiation 1 Highly Informative Inherited
Biological Process (BP) regulation of mononuclear cell proliferation 0.01239 Highly Informative Inherited
Biological Process (BP) neuron projection development 1 Highly Informative Inherited
Biological Process (BP) cell part morphogenesis 1 Highly Informative Inherited
Biological Process (BP) chemotaxis 0.001078 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 1 Highly Informative Inherited
Biological Process (BP) developmental growth 0.005287 Highly Informative Inherited
Biological Process (BP) muscle fiber development 0.8746 Highly Informative Inherited
Biological Process (BP) muscle organ development 0.9591 Highly Informative Inherited
Biological Process (BP) post-embryonic development 1 Highly Informative Inherited
Biological Process (BP) female gamete generation 0.003999 Highly Informative Inherited
Biological Process (BP) regulation of cellular response to stress 0.35 Highly Informative Inherited
Biological Process (BP) protein ubiquitination 0.3397 Highly Informative Inherited
Biological Process (BP) ubiquitin-dependent protein catabolic process 0.3927 Highly Informative Inherited
Biological Process (BP) cellular response to starvation 0.6074 Highly Informative Inherited
Biological Process (BP) negative regulation of immune system process 0.2065 Highly Informative Inherited
Biological Process (BP) regulation of T cell activation 0.0335 Highly Informative Inherited
Biological Process (BP) protein dephosphorylation 0.001061 Highly Informative Inherited
Biological Process (BP) negative regulation of cytoskeleton organization 0.01229 Highly Informative Inherited
Biological Process (BP) regulation of actin cytoskeleton organization 0.2406 Highly Informative Inherited
Biological Process (BP) positive regulation of GTPase activity 0.006511 Highly Informative Inherited
Biological Process (BP) monocarboxylic acid transport 0.001278 Highly Informative Inherited
Biological Process (BP) regulation of Ras GTPase activity 0.0125 Highly Informative Inherited
Biological Process (BP) regulation of binding 1 Highly Informative Inherited
Biological Process (BP) negative regulation of multicellular organismal process 0.984 Highly Informative Inherited
Biological Process (BP) transmembrane receptor protein tyrosine kinase signaling pathway 0.9439 Highly Informative Inherited
Biological Process (BP) hormone transport 0.01216 Highly Informative Inherited
Biological Process (BP) actin filament organization 0.003839 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.9265 Highly Informative Inherited
Biological Process (BP) synaptic vesicle localization 0.008857 Highly Informative Inherited
Biological Process (BP) vesicle organization 0.008885 Highly Informative Inherited
Biological Process (BP) developmental maturation 0.2655 Highly Informative Inherited
Biological Process (BP) amino acid transport 0.03229 Highly Informative Inherited
Biological Process (BP) dicarboxylic acid transport 0.05991 Highly Informative Inherited
Biological Process (BP) G-protein coupled receptor signaling pathway 0.5135 Highly Informative Inherited
Biological Process (BP) cell projection assembly 0.1338 Highly Informative Inherited
Biological Process (BP) leukocyte mediated immunity 0.03683 Highly Informative Inherited
Biological Process (BP) epithelial tube formation 0.00856 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) hydrolase activity 0.9996 Least Informative Inherited
Molecular Function (MF) structural molecule activity 3.638e-12 Moderately Informative Direct
Molecular Function (MF) enzyme regulator activity 1.037e-09 Moderately Informative Direct
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 0.01842 Moderately Informative Inherited
Molecular Function (MF) anion binding 0.014 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 1.608e-10 Informative Direct
Molecular Function (MF) peptidase activity 2.425e-08 Informative Direct
Molecular Function (MF) cytoskeletal protein binding 2.276e-06 Informative Direct
Molecular Function (MF) receptor binding 0.0001174 Informative Direct
Molecular Function (MF) kinase activity 0.0007763 Informative Direct
Molecular Function (MF) nucleotide binding 0.8492 Informative Inherited
Molecular Function (MF) lipid binding 0.2334 Informative Inherited
Molecular Function (MF) phosphatase activity 0.105 Informative Inherited
Molecular Function (MF) nucleoside-triphosphatase activity 1 Informative Inherited
Molecular Function (MF) nucleobase-containing compound kinase activity 0 Highly Informative Direct
Molecular Function (MF) channel regulator activity 4.974e-08 Highly Informative Direct
Molecular Function (MF) phosphoprotein phosphatase activity 0.0006904 Highly Informative Direct
Molecular Function (MF) protein complex binding 0.5843 Highly Informative Inherited
Molecular Function (MF) guanyl-nucleotide exchange factor activity 0.01483 Highly Informative Inherited
Molecular Function (MF) small GTPase regulator activity 0.2505 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 0.01393 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 0.03316 Least Informative Inherited
Cellular Component (CC) plasma membrane part 0 Moderately Informative Direct
Cellular Component (CC) cytoskeleton 0 Moderately Informative Direct
Cellular Component (CC) cell projection 0 Moderately Informative Direct
Cellular Component (CC) vesicle 2.233e-07 Moderately Informative Direct
Cellular Component (CC) extracellular region part 0.869 Moderately Informative Inherited
Cellular Component (CC) organelle membrane 1 Moderately Informative Inherited
Cellular Component (CC) intrinsic to membrane 1 Moderately Informative Inherited
Cellular Component (CC) contractile fiber part 0 Informative Direct
Cellular Component (CC) cell cortex 0 Informative Direct
Cellular Component (CC) synapse part 0 Informative Direct
Cellular Component (CC) extracellular membrane-bounded organelle 5.166e-05 Informative Direct
Cellular Component (CC) coated vesicle 0.000595 Informative Direct
Cellular Component (CC) endosome 0.01103 Informative Inherited
Cellular Component (CC) neuron projection 0.1031 Informative Inherited
Cellular Component (CC) cell-cell junction 0.5611 Informative Inherited
Cellular Component (CC) actin cytoskeleton 0.4062 Informative Inherited
Cellular Component (CC) external encapsulating structure 0.04255 Informative Inherited
Cellular Component (CC) integral to membrane 0.5531 Informative Inherited
Cellular Component (CC) intrinsic to plasma membrane 1 Informative Inherited
Cellular Component (CC) basolateral plasma membrane 2.422e-12 Highly Informative Direct
Cellular Component (CC) synaptic membrane 0 Highly Informative Direct
Cellular Component (CC) adherens junction 0 Highly Informative Direct
Cellular Component (CC) cell envelope 9.924e-12 Highly Informative Direct
Cellular Component (CC) periplasmic space 3.557e-11 Highly Informative Direct
Cellular Component (CC) neuron spine 8.709e-11 Highly Informative Direct
Cellular Component (CC) cilium 3.388e-10 Highly Informative Direct
Cellular Component (CC) clathrin-coated vesicle 5.974e-10 Highly Informative Direct
Cellular Component (CC) lateral plasma membrane 9.583e-10 Highly Informative Direct
Cellular Component (CC) apical plasma membrane 1.839e-09 Highly Informative Direct
Cellular Component (CC) receptor complex 1.064e-08 Highly Informative Direct
Cellular Component (CC) external encapsulating structure part 2.767e-08 Highly Informative Direct
Cellular Component (CC) recycling endosome 1.594e-06 Highly Informative Direct
Cellular Component (CC) perinuclear region of cytoplasm 1.245e-05 Highly Informative Direct
Cellular Component (CC) membrane raft 4.421e-05 Highly Informative Direct
Cellular Component (CC) cell projection membrane 0.0002289 Highly Informative Direct
Cellular Component (CC) contractile ring 0.0003308 Highly Informative Direct
Cellular Component (CC) sperm part 0.0929 Highly Informative Inherited
Cellular Component (CC) axon part 0.6926 Highly Informative Inherited
Cellular Component (CC) dendrite 0.002438 Highly Informative Inherited
Cellular Component (CC) microvillus 0.003621 Highly Informative Inherited
Cellular Component (CC) internal side of plasma membrane 0.02978 Highly Informative Inherited
Cellular Component (CC) extrinsic to plasma membrane 0.4904 Highly Informative Inherited
Cellular Component (CC) cortical cytoskeleton 0.003256 Highly Informative Inherited
Cellular Component (CC) ion channel complex 0.003657 Highly Informative Inherited
Cellular Component (CC) integral to plasma membrane 0.03288 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 disease0.5573Moderately InformativeInherited
Disease Ontology (DO)autosomal recessive disease0.2818InformativeInherited

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.6172Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of brain morphology0.5593Moderately InformativeInherited
Phenotypic Abnormality (PA)Aplasia/Hypoplasia involving the central nervous system0.2507InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cerebrum1InformativeInherited
Phenotypic Abnormality (PA)Cerebral cortical atrophy0.0002413Highly InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype4.555e-07Least InformativeDirect
Mammalian Phenotype (MP)abnormal neuron morphology0.066Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system physiology0.5798Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system development0.7464Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal somatic nervous system morphology0.8139Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal embryogenesis/ development1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal behavior1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal hair cell morphology0.01437InformativeInherited
Mammalian Phenotype (MP)abnormal cochlear sensory epithelium morphology0.01437InformativeInherited
Mammalian Phenotype (MP)abnormal membranous labyrinth morphology0.04903InformativeInherited
Mammalian Phenotype (MP)abnormal behavioral response to xenobiotic0.08844InformativeInherited
Mammalian Phenotype (MP)abnormal neural tube morphology/development0.4235InformativeInherited
Mammalian Phenotype (MP)abnormal behavioral response to addictive substance0.0002025Highly InformativeDirect
Mammalian Phenotype (MP)craniorachischisis0.0002095Highly 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 defective0.0001837InformativeDirect

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)cell0.7287Least InformativeInherited
Zebrafish Anatomy (ZA)multi-tissue structure0.7308Least InformativeInherited
Zebrafish Anatomy (ZA)nervous system0.7552Least InformativeInherited
Zebrafish Anatomy (ZA)cavitated compound organ0.9049Least InformativeInherited
Zebrafish Anatomy (ZA)central canal3.115e-05InformativeDirect
Zebrafish Anatomy (ZA)neuroepithelial cell6.588e-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 groups0.005827Least 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 hydrolases0.000584Moderately InformativeDirect
Enzyme Commission (EC)Serine endopeptidases0InformativeDirect
Enzyme Commission (EC)Protein-tyrosine-phosphatase8.379e-10InformativeDirect
Enzyme Commission (EC)Non-specific serine/threonine protein kinase0.0002317InformativeDirect
Enzyme Commission (EC)Acting on paired donors, with incorporation or reduction of molecular oxygen0.0005017InformativeDirect
Enzyme Commission (EC)Metalloendopeptidases0.3428InformativeInherited
Enzyme Commission (EC)With NADH or NADPH as one donor, and incorporation of one atom of oxygen9.59e-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 processDifferentiation1.2e-13Moderately InformativeDirect
Biological processProtein transport1.995e-12Moderately InformativeDirect
Biological processLipid metabolism1Moderately InformativeInherited
Biological processWnt signaling pathway0InformativeDirect
Biological processNeurogenesis2.651e-14InformativeDirect
Biological processStress response1.316e-07InformativeDirect
Biological processChemotaxis1.965e-05InformativeDirect
Biological processCell adhesion4.032e-05InformativeDirect
Biological processSteroid metabolism0.0008883InformativeDirect
Biological processExocytosis0Highly InformativeDirect
Biological processCilium biogenesis/degradation1.896e-14Highly InformativeDirect
Biological processOsteogenesis2.477e-07Highly InformativeDirect
Biological processNeurotransmitter transport1.625e-06Highly InformativeDirect
Biological processCholesterol metabolism3.48e-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 vesicle5.229e-06Moderately InformativeDirect
Cellular componentEndosome6.023e-06Moderately InformativeDirect
Cellular componentGolgi apparatus0.0002791Moderately InformativeDirect
Cellular componentPeriplasm4.559e-10InformativeDirect
Cellular componentSynapse1InformativeInherited
Cellular componentTight junction0Highly InformativeDirect
Cellular componentSynaptosome1.024e-05Highly InformativeDirect
Cellular componentPostsynaptic cell membrane6.351e-05Highly InformativeDirect
Coding sequence diversityAlternative splicing7.138e-13Least InformativeDirect
DiseaseDeafness3.453e-05InformativeDirect
DomainRepeat0Least InformativeDirect
DomainTransmembrane1Least InformativeInherited
DomainCoiled coil4.292e-05Moderately InformativeDirect
DomainSH3 domain0InformativeDirect
DomainSH3-binding0.0008592InformativeDirect
DomainLIM domain0Highly InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionActin-binding0InformativeDirect
Molecular functionCalmodulin-binding0InformativeDirect
Molecular functionLipid-binding6.868e-05InformativeDirect
Molecular functionGrowth factor binding1.372e-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 kinase3.448e-08InformativeDirect
Post-translational modificationSignal transduction inhibitor9.566e-07Highly InformativeDirect
Post-translational modificationCytokine3.336e-05Highly InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationUbl conjugation1.816e-05Moderately 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) · 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) · Internal database links ]