SUPERFAMILY 1.75 HMM library and genome assignments server


Plexin repeat superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Small proteins [ 56992] (90)
Fold:   Trefoil/Plexin domain-like [ 57491] (3)
Superfamily:   Plexin repeat [ 103575]
Families:   Plexin repeat [ 103576] (3)


Superfamily statistics
Genomes (140) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 3,772 0 5
Proteins 3,554 0 5


Functional annotation
General category Regulation
Detailed category Receptor activity

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)single-organism cellular process00Least InformativeDirect
Biological Process (BP)regulation of cellular process00.000111Least InformativeDirect
Biological Process (BP)localization0.00064332.088e-07Least InformativeDirect
Biological Process (BP)cellular component movement9.332e-050InformativeDirect
Biological Process (BP)biological adhesion1.127e-080InformativeDirect
Biological Process (BP)locomotion3.435e-070InformativeDirect
Biological Process (BP)localization of cell2.977e-080InformativeDirect
Biological Process (BP)cell adhesion1.777e-067.915e-11Highly InformativeDirect
Cellular Component (CC)membrane0.00047810Least InformativeDirect
Cellular Component (CC)cell surface6.865e-090InformativeDirect

Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) multicellular organismal process 0 Least Informative Direct
Biological Process (BP) developmental process 0 Least Informative Direct
Biological Process (BP) single-organism cellular process 0 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.000111 Least Informative Direct
Biological Process (BP) response to stimulus 0 Least Informative Direct
Biological Process (BP) localization 2.088e-07 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0 Least Informative Direct
Biological Process (BP) regulation of metabolic process 1 Least Informative Inherited
Biological Process (BP) signal transduction 0 Moderately Informative Direct
Biological Process (BP) nervous system development 0 Moderately Informative Direct
Biological Process (BP) anatomical structure morphogenesis 1.388e-11 Moderately Informative Direct
Biological Process (BP) regulation of phosphate metabolic process 4.697e-06 Moderately Informative Direct
Biological Process (BP) regulation of localization 0 Moderately Informative Direct
Biological Process (BP) single-organism developmental process 1.447e-10 Moderately Informative Direct
Biological Process (BP) positive regulation of response to stimulus 9.908e-13 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 3.741e-08 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 4.599e-06 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 0 Moderately Informative Direct
Biological Process (BP) immune system process 0.002268 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) cellular localization 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.001402 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.006943 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 1 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 0.001715 Moderately Informative Inherited
Biological Process (BP) homeostatic process 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.02511 Moderately Informative Inherited
Biological Process (BP) organ development 1 Moderately Informative Inherited
Biological Process (BP) tissue development 0.7011 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 1 Moderately Informative Inherited
Biological Process (BP) regulation of protein phosphorylation 7.513e-06 Informative Direct
Biological Process (BP) cellular component movement 0 Informative Direct
Biological Process (BP) central nervous system development 8.962e-06 Informative Direct
Biological Process (BP) regulation of nucleoside metabolic process 1.18e-05 Informative Direct
Biological Process (BP) response to wounding 2.604e-06 Informative Direct
Biological Process (BP) embryo development ending in birth or egg hatching 0.0005011 Informative Direct
Biological Process (BP) regulation of anatomical structure morphogenesis 3.437e-11 Informative Direct
Biological Process (BP) biological adhesion 0 Informative Direct
Biological Process (BP) cell projection organization 0 Informative Direct
Biological Process (BP) regulation of cellular catabolic process 0.0004947 Informative Direct
Biological Process (BP) regulation of response to external stimulus 0 Informative Direct
Biological Process (BP) cellular component morphogenesis 0 Informative Direct
Biological Process (BP) locomotion 0 Informative Direct
Biological Process (BP) regulation of locomotion 0 Informative Direct
Biological Process (BP) single-organism behavior 0.0003496 Informative Direct
Biological Process (BP) generation of neurons 0 Informative Direct
Biological Process (BP) negative regulation of developmental process 0.0002358 Informative Direct
Biological Process (BP) negative regulation of cellular component organization 0.0001438 Informative Direct
Biological Process (BP) regulation of cellular component movement 0 Informative Direct
Biological Process (BP) organelle localization 0.0003412 Informative Direct
Biological Process (BP) localization of cell 0 Informative Direct
Biological Process (BP) regulation of nervous system development 1.834e-05 Informative Direct
Biological Process (BP) regulation of cell development 3.13e-05 Informative Direct
Biological Process (BP) regulation of anatomical structure size 9.137e-09 Informative Direct
Biological Process (BP) regulation of purine nucleotide metabolic process 6.59e-05 Informative Direct
Biological Process (BP) tissue morphogenesis 0.01966 Informative Inherited
Biological Process (BP) gland development 0.1835 Informative Inherited
Biological Process (BP) regulation of growth 0.001573 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 1 Informative Inherited
Biological Process (BP) enzyme linked receptor protein signaling pathway 1 Informative Inherited
Biological Process (BP) leukocyte activation 0.02933 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.1761 Informative Inherited
Biological Process (BP) muscle tissue development 0.4233 Informative Inherited
Biological Process (BP) regulation of cell proliferation 0.8693 Informative Inherited
Biological Process (BP) epithelium development 0.2515 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.03012 Informative Inherited
Biological Process (BP) tube development 0.002131 Informative Inherited
Biological Process (BP) cardiovascular system development 0.01908 Informative Inherited
Biological Process (BP) angiogenesis 1.206e-08 Highly Informative Direct
Biological Process (BP) regulation of cell growth 7.582e-08 Highly Informative Direct
Biological Process (BP) chemotaxis 0 Highly Informative Direct
Biological Process (BP) cell adhesion 7.915e-11 Highly Informative Direct
Biological Process (BP) regulation of cell size 0 Highly Informative Direct
Biological Process (BP) regulation of cell morphogenesis involved in differentiation 2.481e-09 Highly Informative Direct
Biological Process (BP) regulation of neuron projection development 1.261e-05 Highly Informative Direct
Biological Process (BP) regulation of cell adhesion 3.991e-05 Highly Informative Direct
Biological Process (BP) extracellular matrix organization 4.027e-06 Highly Informative Direct
Biological Process (BP) positive regulation of response to external stimulus 0 Highly Informative Direct
Biological Process (BP) carbohydrate homeostasis 0.0007911 Highly Informative Direct
Biological Process (BP) cell junction organization 5.391e-06 Highly Informative Direct
Biological Process (BP) negative regulation of locomotion 4.079e-06 Highly Informative Direct
Biological Process (BP) negative regulation of cell differentiation 0.000595 Highly Informative Direct
Biological Process (BP) negative regulation of growth 2.291e-05 Highly Informative Direct
Biological Process (BP) regulation of developmental growth 6.215e-06 Highly Informative Direct
Biological Process (BP) cell morphogenesis involved in neuron differentiation 3.722e-15 Highly Informative Direct
Biological Process (BP) cell projection morphogenesis 5.526e-13 Highly Informative Direct
Biological Process (BP) regulation of behavior 0 Highly Informative Direct
Biological Process (BP) leukocyte migration 0.0001947 Highly Informative Direct
Biological Process (BP) axon development 5.569e-09 Highly Informative Direct
Biological Process (BP) positive regulation of cell migration 0.001925 Highly Informative Inherited
Biological Process (BP) negative regulation of response to external stimulus 0.1976 Highly Informative Inherited
Biological Process (BP) transmembrane receptor protein tyrosine kinase signaling pathway 0.0197 Highly Informative Inherited
Biological Process (BP) mesenchyme development 0.002387 Highly Informative Inherited
Biological Process (BP) stem cell development 0.3698 Highly Informative Inherited
Biological Process (BP) positive regulation of epithelial cell proliferation 0.01901 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.1486 Highly Informative Inherited
Biological Process (BP) branching morphogenesis of an epithelial tube 0.1919 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) anion binding 0.05192 Moderately Informative Inherited
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 0.5901 Moderately Informative Inherited
Molecular Function (MF) receptor activity 0 Informative Direct
Molecular Function (MF) receptor binding 0 Informative Direct
Molecular Function (MF) molecular transducer activity 0 Informative Direct
Molecular Function (MF) carbohydrate derivative binding 1.832e-05 Informative Direct
Molecular Function (MF) sulfur compound binding 3.155e-06 Informative Direct
Molecular Function (MF) protein dimerization activity 0.9123 Informative Inherited
Molecular Function (MF) kinase activity 0.3982 Informative Inherited
Molecular Function (MF) phosphotransferase activity, alcohol group as acceptor 0.2897 Informative Inherited
Molecular Function (MF) heparin binding 1.817e-06 Highly Informative Direct
Molecular Function (MF) protein complex binding 1.531e-13 Highly Informative Direct
Molecular Function (MF) protein heterodimerization activity 2.087e-05 Highly Informative Direct
Molecular Function (MF) protein kinase activity 0.1036 Highly Informative Inherited
Cellular Component (CC) membrane 0 Least Informative Direct
Cellular Component (CC) protein complex 0.01327 Least Informative Inherited
Cellular Component (CC) plasma membrane 0 Moderately Informative Direct
Cellular Component (CC) intrinsic to membrane 0.0005767 Moderately Informative Direct
Cellular Component (CC) vesicle 0.0005206 Moderately Informative Direct
Cellular Component (CC) extracellular region part 1.008e-08 Moderately Informative Direct
Cellular Component (CC) cell surface 0 Informative Direct
Cellular Component (CC) integral to membrane 0 Informative Direct
Cellular Component (CC) intrinsic to plasma membrane 0.0009645 Informative Direct
Cellular Component (CC) cell leading edge 2.509e-08 Informative Direct
Cellular Component (CC) extracellular membrane-bounded organelle 2.188e-06 Informative Direct
Cellular Component (CC) adherens junction 5.112e-05 Highly Informative Direct
Cellular Component (CC) cell-substrate junction 1.299e-07 Highly Informative Direct
Cellular Component (CC) receptor complex 0 Highly Informative Direct
Cellular Component (CC) integral to plasma membrane 0.002432 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)Receptor protein-tyrosine kinase0InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)immune system disease0.06502Least InformativeInherited
Disease Ontology (DO)hypersensitivity reaction type II disease0.05949Moderately InformativeInherited
Disease Ontology (DO)skin disease0.165Moderately InformativeInherited
Disease Ontology (DO)dermatitis herpetiformis6.892e-07InformativeDirect
Disease Ontology (DO)bullous pemphigoid4.234e-05InformativeDirect

Document: DO annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype0.006191Least InformativeInherited
Mammalian Phenotype (MP)cellular phenotype0.03665Least InformativeInherited
Mammalian Phenotype (MP)abnormal eye morphology0.000523Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal neuron morphology0.001626Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal somatic nervous system morphology0.09781Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system physiology0.4935Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal brain morphology0.5368Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal retinal neuronal layer morphology0.0002365InformativeDirect
Mammalian Phenotype (MP)ectopic neuron0.001128InformativeInherited
Mammalian Phenotype (MP)abnormal metencephalon morphology0.008816InformativeInherited
Mammalian Phenotype (MP)abnormal neuron physiology0.04467InformativeInherited
Mammalian Phenotype (MP)abnormal cerebrum morphology0.3427InformativeInherited
Mammalian Phenotype (MP)ectopic cerebellar granule cells2.812e-09Highly InformativeDirect
Mammalian Phenotype (MP)abnormal retinal inner plexiform layer morphology2.451e-06Highly InformativeDirect
Mammalian Phenotype (MP)abnormal amacrine cell morphology1.272e-05Highly InformativeDirect
Mammalian Phenotype (MP)abnormal neuronal migration0.0004566Highly InformativeDirect
Mammalian Phenotype (MP)abnormal hippocampus morphology0.2857Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organ system development variant0.0003446Moderately InformativeDirect
Worm Phenotype (WP)anchor cell invasion variant2.861e-09InformativeDirect
Worm Phenotype (WP)male morphology variant5.127e-09InformativeDirect
Worm Phenotype (WP)sensillum morphology variant5.455e-07InformativeDirect
Worm Phenotype (WP)male nervous system morphology variant3.534e-10Highly InformativeDirect

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)viable0Least InformativeDirect
Fly Phenotype (FP)neuroanatomy defective0Moderately InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)organ system0Least InformativeDirect
Fly Anatomy (FA)multi-tissue structure0Least InformativeDirect
Fly Anatomy (FA)organ system subdivision0Least InformativeDirect
Fly Anatomy (FA)anatomical group0.2215Least InformativeInherited
Fly Anatomy (FA)larva0.31Least InformativeInherited
Fly Anatomy (FA)anterior-posterior subdivision of organism1Least InformativeInherited
Fly Anatomy (FA)multi-cell-component structure0Moderately InformativeDirect
Fly Anatomy (FA)adult nervous system0.08267Moderately InformativeInherited
Fly Anatomy (FA)central nervous system0.08686Moderately InformativeInherited
Fly Anatomy (FA)adult segment0.3672Moderately InformativeInherited
Fly Anatomy (FA)head0.4141Moderately InformativeInherited
Fly Anatomy (FA)synaptic neuropil block0.0005587InformativeDirect
Fly Anatomy (FA)adult cerebral ganglion0.0005919InformativeDirect
Fly Anatomy (FA)protocerebrum0.0008689InformativeDirect
Fly Anatomy (FA)larval abdomen0.0009303InformativeDirect
Fly Anatomy (FA)adult procephalic segment0.002831InformativeInherited
Fly Anatomy (FA)larval segment0.02788InformativeInherited
Fly Anatomy (FA)abdominal segment0.04108InformativeInherited

Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)genital system0Least InformativeDirect
Xenopus ANatomical entity (XAN)embryo0.5289Least InformativeInherited
Xenopus ANatomical entity (XAN)portion of tissue1Least InformativeInherited
Xenopus ANatomical entity (XAN)embryonic structure0.1646Moderately InformativeInherited
Xenopus ANatomical entity (XAN)ectoderm0.3136Moderately InformativeInherited
Xenopus ANatomical entity (XAN)cranial placode2.967e-05InformativeDirect

Document: XA annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorous-containing groups0Least InformativeDirect
Enzyme Commission (EC)Protein-tyrosine kinases0InformativeDirect
Enzyme Commission (EC)Receptor protein-tyrosine kinase0Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processDifferentiation0Moderately InformativeDirect
Biological processHost-virus interaction3.243e-05Moderately InformativeDirect
Biological processCell adhesion0InformativeDirect
Biological processNeurogenesis0InformativeDirect
Biological processAngiogenesis1.722e-12InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentCell projection1.339e-10Moderately InformativeDirect
Cellular componentEndosome8.079e-07Moderately InformativeDirect
Cellular componentCell junction6.379e-06Moderately InformativeDirect
Cellular componentSecreted2.533e-05Moderately InformativeDirect
DiseaseProto-oncogene0Moderately InformativeDirect
DomainSignal0Least InformativeDirect
DomainTransmembrane0Least InformativeDirect
DomainRepeat1.221e-15Least InformativeDirect
DomainImmunoglobulin domain0InformativeDirect
Post-translational modificationTransferase0.9458Least InformativeInherited
Post-translational modificationDevelopmental protein0Moderately InformativeDirect
Post-translational modificationReceptor0Moderately InformativeDirect
Post-translational modificationKinase2.411e-14Moderately InformativeDirect
Post-translational modificationTyrosine-protein kinase0Highly InformativeDirect
Post-translational modificationGlycoprotein0Least InformativeDirect
Post-translational modificationDisulfide bond0Least InformativeDirect
Post-translational modificationUbl conjugation4.507e-11Moderately InformativeDirect
Post-translational modificationPyrrolidone carboxylic acid0.0007154InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · 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 4 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 Plexin repeat 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 4 hidden Markov models representing the Plexin repeat 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 · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]