SUPERFAMILY 1.75 HMM library and genome assignments server

Superfamily is undergoing a server migration - you are now browsing on the new server. Please contact us if you experience any problems.


PH domain-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   PH domain-like barrel [ 50728] (2)
Superfamily:   PH domain-like [ 50729] (13)
Families:   Pleckstrin-homology domain (PH domain) [ 50730] (47)
  Phosphotyrosine-binding domain (PTB) [ 50755] (12)
  Ran-binding domain [ 50764] (4)
  Enabled/VASP homology 1 domain (EVH1 domain) [ 50767] (6)
  Dcp1 [ 101836]
  Third domain of FERM [ 50776] (8)
  PreBEACH PH-like domain [ 82146] (2)
  GRAM domain [ 101839]
  TFIIH domain [ 110272] (2)
  SSRP1-like [ 141436]
  Necap1 N-terminal domain-like [ 141439]
  VPS36 N-terminal domain-like [ 141442]
  BPHL domain [ 159216] (2)


Superfamily statistics
Genomes (922) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 75,120 226,141 146
Proteins 66,982 203,244 145


Functional annotation
General category Regulation
Detailed category Signal transduction

Document:
Function annotation of SCOP domain superfamilies

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Acting on ester bonds0Least InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides1Least InformativeInherited
Enzyme Commission (EC)Phosphoric diester hydrolases0Moderately InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases0Moderately InformativeDirect
Enzyme Commission (EC)Phosphoric monoester hydrolases0.05493Moderately InformativeInherited
Enzyme Commission (EC)Phosphotransferases with an alcohol group as accep1Moderately InformativeInherited
Enzyme Commission (EC)Glycosyltransferases0.02837Moderately InformativeInherited
Enzyme Commission (EC)Phosphoinositide phospholipase C0InformativeDirect
Enzyme Commission (EC)Non-specific protein-tyrosine kinase0InformativeDirect
Enzyme Commission (EC)Protein-tyrosine-phosphatase0.00000004532InformativeDirect
Enzyme Commission (EC)Diacylglycerol kinase0Highly InformativeDirect
Enzyme Commission (EC)Acting on GTP; involved in cellular and subcellula0.00000000000001873Highly InformativeDirect
Enzyme Commission (EC)Protein kinase C0.000003652Highly InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)muscle tissue disease0.8863InformativeInherited

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 physiology0.5789Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.7395Least InformativeInherited
Phenotypic Abnormality (PA)Abnormal nervous system electrophysiology0.01364InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype0.155Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.3003Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.4439Least InformativeInherited
Mammalian Phenotype (MP)respiratory system phenotype1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood coagulation0.1398InformativeInherited
Mammalian Phenotype (MP)abnormal lung morphology1InformativeInherited
Mammalian Phenotype (MP)abnormal brain pia mater morphology0.00001074Highly InformativeDirect
Mammalian Phenotype (MP)abnormal respiratory epithelium morphology0.9304Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)blast cell physiology variant0.0000000002254Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.0000000002295Least InformativeDirect
Worm Phenotype (WP)organ system morphology variant0.000000001057Least InformativeDirect
Worm Phenotype (WP)cell morphology variant0.000000002403Least InformativeDirect
Worm Phenotype (WP)cell development variant0.000008427Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0.00002562Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.00002811Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.001486Least InformativeInherited
Worm Phenotype (WP)apoptosis variant0.0000001932Moderately InformativeDirect
Worm Phenotype (WP)body region morphology variant0.0000005761Moderately InformativeDirect
Worm Phenotype (WP)organism segment morphology variant0.0000005761Moderately InformativeDirect
Worm Phenotype (WP)developmental morphology variant0.0000005874Moderately InformativeDirect
Worm Phenotype (WP)adult body morphology variant0.0000005989Moderately InformativeDirect
Worm Phenotype (WP)body morphology variant0.0000009461Moderately InformativeDirect
Worm Phenotype (WP)protein expression variant0.000003619Moderately InformativeDirect
Worm Phenotype (WP)metabolic pathway variant0.001023Moderately InformativeInherited
Worm Phenotype (WP)movement variant0.009082Moderately InformativeInherited
Worm Phenotype (WP)neuron development variant0.08189Moderately InformativeInherited
Worm Phenotype (WP)locomotion variant0.1113Moderately InformativeInherited
Worm Phenotype (WP)drug response variant0.203Moderately InformativeInherited
Worm Phenotype (WP)nervous system morphology variant0.2917Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.8076Moderately InformativeInherited
Worm Phenotype (WP)germ cell morphology variant0.8195Moderately InformativeInherited
Worm Phenotype (WP)cell organization biogenesis variant0.9033Moderately InformativeInherited
Worm Phenotype (WP)muscle cell physiology variant0.0000000000008061InformativeDirect
Worm Phenotype (WP)brood size variant0.000001369InformativeDirect
Worm Phenotype (WP)mitochondria morphology variant0.00000182InformativeDirect
Worm Phenotype (WP)tail morphology variant0.00001443InformativeDirect
Worm Phenotype (WP)body bend variant0.00002614InformativeDirect
Worm Phenotype (WP)axon outgrowth variant0.00004036InformativeDirect
Worm Phenotype (WP)aldicarb response variant0.0000542InformativeDirect
Worm Phenotype (WP)organism pathogen response variant0.00007564InformativeDirect
Worm Phenotype (WP)protein metabolism variant0.0001699InformativeDirect
Worm Phenotype (WP)cell component localization variant0.0004479InformativeDirect
Worm Phenotype (WP)level of protein expression variant0.0007103InformativeDirect
Worm Phenotype (WP)defecation variant0.03898InformativeInherited
Worm Phenotype (WP)male mating variant0.05719InformativeInherited
Worm Phenotype (WP)positive chemotaxis variant0.06178InformativeInherited
Worm Phenotype (WP)neuron morphology variant0.1254InformativeInherited
Worm Phenotype (WP)forward locomotion variant0.2232InformativeInherited
Worm Phenotype (WP)cell stress response variant0.2859InformativeInherited
Worm Phenotype (WP)cell number increased0.4926InformativeInherited
Worm Phenotype (WP)oocyte morphology variant0.7679InformativeInherited
Worm Phenotype (WP)endocytic transport defect1InformativeInherited
Worm Phenotype (WP)gonad sheath contractions variant0.000000007988Highly InformativeDirect
Worm Phenotype (WP)growth rate variant0.000002931Highly InformativeDirect
Worm Phenotype (WP)osmotic stress response variant0.000004334Highly InformativeDirect
Worm Phenotype (WP)ovulation variant0.00001142Highly InformativeDirect
Worm Phenotype (WP)pathogen resistance increased0.00003694Highly InformativeDirect
Worm Phenotype (WP)response to injury variant0.00004548Highly InformativeDirect
Worm Phenotype (WP)endomitotic oocytes0.0001258Highly InformativeDirect
Worm Phenotype (WP)coelomocyte uptake defective0.0001516Highly InformativeDirect
Worm Phenotype (WP)extra excretory cells0.0002445Highly InformativeDirect
Worm Phenotype (WP)defecation contraction variant0.0006013Highly InformativeDirect
Worm Phenotype (WP)forward locomotion decreased0.0006472Highly InformativeDirect
Worm Phenotype (WP)drug induced gene expression variant0.0008211Highly InformativeDirect
Worm Phenotype (WP)membrane trafficking variant0.001252Highly InformativeInherited
Worm Phenotype (WP)cytoskeleton organization biogenesis variant0.07448Highly InformativeInherited
Worm Phenotype (WP)odorant positive chemotaxis variant0.1002Highly InformativeInherited
Worm Phenotype (WP)male mating defective0.1767Highly InformativeInherited
Worm Phenotype (WP)post hermaphrodite contact variant0.1867Highly InformativeInherited

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)morphology0.02795Moderately InformativeInherited
Yeast Phenotype (YP)subcellular morphology0.3789InformativeInherited

Document: YP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)organ system subdivision0.0185Least InformativeInherited
Fly Anatomy (FA)multi-tissue structure0.09283Least InformativeInherited
Fly Anatomy (FA)embryo0.107Moderately InformativeInherited
Fly Anatomy (FA)presumptive embryonic/larval system0.05515InformativeInherited
Fly Anatomy (FA)gut section0.5301InformativeInherited
Fly Anatomy (FA)embryonic foregut0.0005716Highly InformativeDirect

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details) Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)nervous system0.05999Least InformativeInherited
Xenopus ANatomical entity (XAN)cavitated compound organ0.2829Least InformativeInherited
Xenopus ANatomical entity (XAN)head0.393Least InformativeInherited
Xenopus ANatomical entity (XAN)brain0.0001211Moderately InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)sporangium0.0003839Least InformativeDirect
Plant ANatomical entity (PAN)whole plant0.03634Least InformativeInherited
Plant ANatomical entity (PAN)microsporophyll0.6566Least InformativeInherited
Plant ANatomical entity (PAN)pollen0.0003383Moderately InformativeDirect
Plant ANatomical entity (PAN)pollen tube cell0.00001548InformativeDirect
Plant structure DEvelopment stage (PDE)pollen development stage0.00004521Moderately InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorus-containing groups0Least InformativeDirect
Enzyme Commission (EC)Hydrolases0Least InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases0Moderately InformativeDirect
Enzyme Commission (EC)Phosphoric monoester hydrolases0.000007564Moderately InformativeDirect
Enzyme Commission (EC)Glycosyltransferases0.038Moderately InformativeInherited
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor1Moderately InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides1Moderately InformativeInherited
Enzyme Commission (EC)Protein-tyrosine kinases0InformativeDirect
Enzyme Commission (EC)Phosphoric diester hydrolases0InformativeDirect
Enzyme Commission (EC)Hexosyltransferases0.0000000000002914InformativeDirect
Enzyme Commission (EC)Protein-tyrosine-phosphatase0.0002058InformativeDirect
Enzyme Commission (EC)Diacylglycerol kinase (ATP)0Highly InformativeDirect
Enzyme Commission (EC)Non-specific protein-tyrosine kinase0Highly InformativeDirect
Enzyme Commission (EC)Phosphoinositide phospholipase C0Highly InformativeDirect

Document: EC annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) ]

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 129 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 PH 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 129 hidden Markov models representing the PH 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 · Functional annotation · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · Internal database links ]