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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 0 146
Proteins 66,982 0 145


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 disease0.8903InformativeInherited

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Mode of Inheritance (MI)Gonosomal inheritance0.01265InformativeInherited
Mode of Inheritance (MI)X-linked recessive inheritance0.0003858Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0.2259Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the musculature0.9231Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.9734Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of muscle morphology0.9948Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of muscle size0.5265InformativeInherited
Phenotypic Abnormality (PA)Abnormal peripheral myelination0.0003948Highly InformativeDirect
Phenotypic Abnormality (PA)Skeletal muscle atrophy0.3576Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype0.1608Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.2756Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.4536Least InformativeInherited
Mammalian Phenotype (MP)abnormal myeloid cell morphology0.6194Moderately InformativeInherited
Mammalian Phenotype (MP)respiratory system phenotype1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood coagulation0.1356InformativeInherited
Mammalian Phenotype (MP)abnormal lung morphology1InformativeInherited
Mammalian Phenotype (MP)abnormal brain pia mater morphology0.00001035Highly InformativeDirect
Mammalian Phenotype (MP)abnormal bone marrow cell morphology/development0.4782Highly InformativeInherited
Mammalian Phenotype (MP)abnormal respiratory epithelium morphology0.9275Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell physiology variant0.00000000005153Least InformativeDirect
Worm Phenotype (WP)cell morphology variant0.00000000519Least InformativeDirect
Worm Phenotype (WP)organ system morphology variant0.00000001299Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0.00002044Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.00003974Least InformativeDirect
Worm Phenotype (WP)cell development variant0.00008578Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.002383Least InformativeInherited
Worm Phenotype (WP)apoptosis variant0.0000001705Moderately InformativeDirect
Worm Phenotype (WP)protein expression variant0.000006208Moderately InformativeDirect
Worm Phenotype (WP)organism segment morphology variant0.000007226Moderately InformativeDirect
Worm Phenotype (WP)metabolic pathway variant0.001093Moderately InformativeInherited
Worm Phenotype (WP)movement variant0.08014Moderately InformativeInherited
Worm Phenotype (WP)chemical response variant0.08589Moderately InformativeInherited
Worm Phenotype (WP)cell component morphology variant0.1826Moderately InformativeInherited
Worm Phenotype (WP)germ cell morphology variant0.2918Moderately InformativeInherited
Worm Phenotype (WP)nervous system morphology variant0.4166Moderately InformativeInherited
Worm Phenotype (WP)feeding behavior variant0.6446Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.9031Moderately InformativeInherited
Worm Phenotype (WP)muscle cell physiology variant0.00000000009199InformativeDirect
Worm Phenotype (WP)mitochondria morphology variant0.000001814InformativeDirect
Worm Phenotype (WP)growth rate variant0.000002355InformativeDirect
Worm Phenotype (WP)aldicarb response variant0.00004441InformativeDirect
Worm Phenotype (WP)organism pathogen response variant0.0002835InformativeDirect
Worm Phenotype (WP)level of protein expression variant0.0004235InformativeDirect
Worm Phenotype (WP)pharyngeal pumping variant0.000485InformativeDirect
Worm Phenotype (WP)locomotor coordination variant0.005148InformativeInherited
Worm Phenotype (WP)tail morphology variant0.006286InformativeInherited
Worm Phenotype (WP)defecation variant0.03525InformativeInherited
Worm Phenotype (WP)forward locomotion variant0.212InformativeInherited
Worm Phenotype (WP)cell stress response variant0.3114InformativeInherited
Worm Phenotype (WP)organelle organization biogenesis variant0.3289InformativeInherited
Worm Phenotype (WP)cell number increased0.5521InformativeInherited
Worm Phenotype (WP)protein modification variant0.6879InformativeInherited
Worm Phenotype (WP)oocyte morphology variant0.7634InformativeInherited
Worm Phenotype (WP)chemotaxis variant0.8525InformativeInherited
Worm Phenotype (WP)endocytic transport defect1InformativeInherited
Worm Phenotype (WP)gonad sheath contractions variant0.000000007138Highly InformativeDirect
Worm Phenotype (WP)bacterially unswollen0.0000008256Highly InformativeDirect
Worm Phenotype (WP)osmotic stress response variant0.000002525Highly InformativeDirect
Worm Phenotype (WP)ovulation variant0.00001266Highly InformativeDirect
Worm Phenotype (WP)response to injury variant0.00003431Highly InformativeDirect
Worm Phenotype (WP)extra excretory cells0.00009923Highly InformativeDirect
Worm Phenotype (WP)endomitotic oocytes0.0001004Highly InformativeDirect
Worm Phenotype (WP)coelomocyte uptake defective0.0001498Highly InformativeDirect
Worm Phenotype (WP)defecation contraction variant0.000221Highly InformativeDirect
Worm Phenotype (WP)axon development variant0.0003275Highly InformativeDirect
Worm Phenotype (WP)protein phosphorylation variant0.0003965Highly InformativeDirect
Worm Phenotype (WP)forward locomotion decreased0.0005958Highly InformativeDirect
Worm Phenotype (WP)drug induced gene expression variant0.0007747Highly InformativeDirect
Worm Phenotype (WP)axon morphology variant0.003885Highly InformativeInherited
Worm Phenotype (WP)cytoskeleton organization biogenesis variant0.06621Highly InformativeInherited
Worm Phenotype (WP)post hermaphrodite contact variant0.1111Highly InformativeInherited
Worm Phenotype (WP)odorant positive chemotaxis variant0.1263Highly InformativeInherited
Worm Phenotype (WP)male mating defective0.1604Highly InformativeInherited

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)morphology0.02775Moderately InformativeInherited
Yeast Phenotype (YP)subcellular morphology0.3799InformativeInherited

Document: YP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)anatomical group0.00876Least InformativeInherited
Fly Anatomy (FA)integumentary system0.08865Least InformativeInherited
Fly Anatomy (FA)embryo0.1041Least InformativeInherited
Fly Anatomy (FA)non-connected developing system0.001264Moderately InformativeInherited
Fly Anatomy (FA)acellular anatomical structure0.004798Moderately InformativeInherited
Fly Anatomy (FA)developing embryonic structure0.01183Moderately InformativeInherited
Fly Anatomy (FA)endocuticle0.0006574InformativeDirect
Fly Anatomy (FA)presumptive embryonic/larval digestive system0.2786InformativeInherited
Fly Anatomy (FA)embryonic foregut0.0004975Highly InformativeDirect

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)organism subdivision0.7187Least InformativeInherited
Zebrafish Anatomy (ZA)multi-tissue structure0.8897Least InformativeInherited
Zebrafish Anatomy (ZA)cardiovascular system0.3286Moderately InformativeInherited
Zebrafish Anatomy (ZA)post-vent region0.2482InformativeInherited

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)nervous system0.1113Least InformativeInherited
Xenopus ANatomical entity (XAN)cavitated compound organ0.2792Least InformativeInherited
Xenopus ANatomical entity (XAN)head0.5166Least InformativeInherited
Xenopus ANatomical entity (XAN)brain0.0001471Moderately 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)sporangium0.0003822Least InformativeDirect
Plant ANatomical entity (PAN)whole plant0.03623Least InformativeInherited
Plant ANatomical entity (PAN)microsporophyll0.6563Least InformativeInherited
Plant ANatomical entity (PAN)pollen tube cell0.00001534InformativeDirect
Plant structure DEvelopment stage (PDE)pollen development stage0.00004503Moderately 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)Hydrolases0.000000000004972Least InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases0Moderately InformativeDirect
Enzyme Commission (EC)Phosphoric monoester hydrolases0.000428Moderately InformativeDirect
Enzyme Commission (EC)Glycosyltransferases0.07443Moderately 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)Hexosyltransferases0.000000000002956InformativeDirect
Enzyme Commission (EC)Protein-tyrosine-phosphatase0.00001046InformativeDirect
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

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0.00000002319Least InformativeDirect
Biological processApoptosis0Moderately InformativeDirect
Biological processDifferentiation0Moderately InformativeDirect
Biological processLipid metabolism0Moderately InformativeDirect
Biological processProtein transport0Moderately InformativeDirect
Biological processImmunity0.00000000000004731Moderately InformativeDirect
Biological processCell cycle0.02047Moderately InformativeInherited
Biological processCarbohydrate metabolism1Moderately InformativeInherited
Biological processAngiogenesis0InformativeDirect
Biological processAutophagy0InformativeDirect
Biological processEndocytosis0InformativeDirect
Biological processLipid degradation0InformativeDirect
Biological processLipid transport0InformativeDirect
Biological processNeurogenesis0InformativeDirect
Biological processSteroid metabolism0.000000000003404InformativeDirect
Biological processMitosis0.00000000003452InformativeDirect
Biological processCell adhesion0.000004976InformativeDirect
Biological processLipid biosynthesis1InformativeInherited
Biological processExocytosis0Highly InformativeDirect
Biological processPhagocytosis0Highly InformativeDirect
Biological processSteroid biosynthesis0Highly InformativeDirect
Biological processGrowth regulation0.0000000000004972Highly InformativeDirect
Biological processmRNA transport0.000000002594Highly InformativeDirect
Biological processNonsense-mediated mRNA decay0.00000002099Highly InformativeDirect
Biological processAdaptive immunity0.0000003256Highly InformativeDirect
Biological processHearing0.000004758Highly InformativeDirect
Biological processSterol biosynthesis0.00004258Highly InformativeDirect
Biological processGlucose metabolism0.000127Highly InformativeDirect
Biological processTranslocation1Highly InformativeInherited
Cellular componentMembrane0Least InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentCytoskeleton0Moderately InformativeDirect
Cellular componentGolgi apparatus0Moderately InformativeDirect
Cellular componentCell junction0Moderately InformativeDirect
Cellular componentCell projection0Moderately InformativeDirect
Cellular componentEndosome0Moderately InformativeDirect
Cellular componentCytoplasmic vesicle0Moderately InformativeDirect
Cellular componentEndoplasmic reticulum0.000007444Moderately InformativeDirect
Cellular componentChromosome0InformativeDirect
Cellular componentMicrotubule0.00000000001569InformativeDirect
Cellular componentLysosome0.0002371InformativeDirect
Cellular componentCoated pit0.0005127Highly InformativeDirect
Coding sequence diversityAlternative splicing0Least InformativeDirect
DiseaseTumor suppressor0.00003974Moderately InformativeDirect
DiseaseNeuropathy0.0002626Highly InformativeDirect
DomainRepeat0Least InformativeDirect
DomainCoiled coil0Moderately InformativeDirect
DomainZinc-finger0Moderately InformativeDirect
DomainANK repeat0InformativeDirect
DomainSH2 domain0InformativeDirect
DomainSH3 domain0InformativeDirect
DomainSH3-binding0InformativeDirect
Molecular functionZinc0.00000001345Least InformativeDirect
Molecular functionLipid-binding0Moderately InformativeDirect
Molecular functionCalcium0.00000000001193Moderately InformativeDirect
Post-translational modificationHydrolase1Least InformativeInherited
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationDevelopmental protein0Moderately InformativeDirect
Post-translational modificationKinase0.000000000000007451Moderately InformativeDirect
Post-translational modificationActin-binding0InformativeDirect
Post-translational modificationCalmodulin-binding0InformativeDirect
Post-translational modificationGTPase activation0InformativeDirect
Post-translational modificationGuanine-nucleotide releasing factor0InformativeDirect
Post-translational modificationSerine/threonine-protein kinase0InformativeDirect
Post-translational modificationTransducer0InformativeDirect
Post-translational modificationProtein phosphatase0InformativeDirect
Post-translational modificationTyrosine-protein kinase0Highly InformativeDirect
Post-translational modificationActin capping0.0000000000005004Highly InformativeDirect
Post-translational modificationSignal transduction inhibitor0.0001358Highly InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationAcetylation0.0000006372Least InformativeDirect
Post-translational modificationNitration0.0002677InformativeDirect

Document: KW 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) · UniProtKB KeyWords (KW) ]

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 94 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 94 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) · UniProtKB KeyWords (KW) · Internal database links ]