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Cap-Gly domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   SH3-like barrel [ 50036] (21)
Superfamily:   Cap-Gly domain [ 74924]
Families:   Cap-Gly domain [ 74925] (10)


Superfamily statistics
Genomes (497) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 3,751 4,382 22
Proteins 2,973 3,441 22


Functional annotation
General category Processes_IC
Detailed category Transport

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) cellular component organization or biogenesis 0.0000004727 Least Informative Direct
Biological Process (BP) macromolecule metabolic process 0.38 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.06392 Least Informative Inherited
Biological Process (BP) biological regulation 0.04719 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.997 Least Informative Inherited
Biological Process (BP) primary metabolic process 0.98 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.0000000000009473 Moderately Informative Direct
Biological Process (BP) organelle organization 0.000001268 Moderately Informative Direct
Biological Process (BP) cellular localization 0.000005182 Moderately Informative Direct
Biological Process (BP) cellular protein modification process 0.0002098 Moderately Informative Direct
Biological Process (BP) regulation of localization 0.000216 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 0.2875 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 0.592 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.003775 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.02341 Moderately Informative Inherited
Biological Process (BP) single-organism transport 0.3697 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 0.8096 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) cellular developmental process 0.00213 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 0.972 Moderately Informative Inherited
Biological Process (BP) regulation of nitrogen compound metabolic process 0.9974 Moderately Informative Inherited
Biological Process (BP) regulation of molecular function 0.446 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.4206 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 0.7694 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 0.196 Moderately Informative Inherited
Biological Process (BP) regulation of cellular metabolic process 1 Moderately Informative Inherited
Biological Process (BP) response to stress 0.3446 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 0 Informative Direct
Biological Process (BP) microtubule-based process 0 Informative Direct
Biological Process (BP) regulation of cellular localization 0.00000000001179 Informative Direct
Biological Process (BP) regulation of protein localization 0.00000000006764 Informative Direct
Biological Process (BP) cytoskeleton organization 0.0000000244 Informative Direct
Biological Process (BP) positive regulation of cellular component organization 0.00006286 Informative Direct
Biological Process (BP) cell cycle process 0.0000946 Informative Direct
Biological Process (BP) positive regulation of transport 0.0002741 Informative Direct
Biological Process (BP) regulation of organelle organization 0.0002846 Informative Direct
Biological Process (BP) proteolysis 0.0004265 Informative Direct
Biological Process (BP) positive regulation of cell death 0.0009186 Informative Direct
Biological Process (BP) negative regulation of response to stimulus 0.1082 Informative Inherited
Biological Process (BP) negative regulation of transport 0.001382 Informative Inherited
Biological Process (BP) regulation of intracellular signal transduction 0.08818 Informative Inherited
Biological Process (BP) regulation of apoptotic process 0.01307 Informative Inherited
Biological Process (BP) negative regulation of signaling 0.02611 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.02886 Informative Inherited
Biological Process (BP) regulation of transcription, DNA-templated 0.7399 Informative Inherited
Biological Process (BP) negative regulation of molecular function 0.003403 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 0.008908 Informative Inherited
Biological Process (BP) peptidyl-amino acid modification 0.24 Informative Inherited
Biological Process (BP) organelle fission 0.3091 Informative Inherited
Biological Process (BP) protein folding 0.0000000001243 Highly Informative Direct
Biological Process (BP) positive regulation of cellular protein localization 0.0000000002143 Highly Informative Direct
Biological Process (BP) microtubule cytoskeleton organization 0.000000000378 Highly Informative Direct
Biological Process (BP) establishment of organelle localization 0.0000000022 Highly Informative Direct
Biological Process (BP) establishment or maintenance of cell polarity 0.0000000092 Highly Informative Direct
Biological Process (BP) lipoprotein metabolic process 0.00000001753 Highly Informative Direct
Biological Process (BP) regulation of protein import into nucleus 0.000002102 Highly Informative Direct
Biological Process (BP) negative regulation of cellular protein localization 0.000003152 Highly Informative Direct
Biological Process (BP) negative regulation of establishment of protein localization 0.00005013 Highly Informative Direct
Biological Process (BP) regulation of sequence-specific DNA binding transcription factor activity 0.0000758 Highly Informative Direct
Biological Process (BP) positive regulation of apoptotic process 0.00009535 Highly Informative Direct
Biological Process (BP) negative regulation of intracellular signal transduction 0.0003468 Highly Informative Direct
Biological Process (BP) nucleus organization 0.0006862 Highly Informative Direct
Biological Process (BP) positive regulation of organelle organization 0.2876 Highly Informative Inherited
Molecular Function (MF) binding 0.00005502 Least Informative Direct
Molecular Function (MF) hydrolase activity 0.007413 Least Informative Inherited
Molecular Function (MF) protein binding 0.0001993 Moderately Informative Direct
Molecular Function (MF) carbohydrate derivative binding 0.1394 Moderately Informative Inherited
Molecular Function (MF) metal ion binding 0.005186 Moderately Informative Inherited
Molecular Function (MF) cytoskeletal protein binding 0 Informative Direct
Molecular Function (MF) zinc ion binding 0.000002873 Informative Direct
Molecular Function (MF) peptidase activity, acting on L-amino acid peptides 0.00002869 Informative Direct
Molecular Function (MF) amide binding 0.0004409 Informative Direct
Molecular Function (MF) tubulin binding 0 Highly Informative Direct
Molecular Function (MF) glycolipid binding 0.00000000002351 Highly Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 0.00000000000000601 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.000000001799 Least Informative Direct
Cellular Component (CC) protein complex 0.0009842 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.3493 Least Informative Inherited
Cellular Component (CC) membrane 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) cytoskeleton 0 Moderately Informative Direct
Cellular Component (CC) whole membrane 0.02758 Moderately Informative Inherited
Cellular Component (CC) cell projection 0.02902 Moderately Informative Inherited
Cellular Component (CC) organelle membrane 0.4261 Moderately Informative Inherited
Cellular Component (CC) vesicle 0.005062 Moderately Informative Inherited
Cellular Component (CC) microtubule cytoskeleton 0 Informative Direct
Cellular Component (CC) membrane region 0.00004284 Informative Direct
Cellular Component (CC) cytoplasmic region 0.00008421 Informative Direct
Cellular Component (CC) endosome 0.0003947 Informative Direct
Cellular Component (CC) cell projection part 0.001216 Informative Inherited
Cellular Component (CC) cilium 0.007633 Informative Inherited
Cellular Component (CC) cytoplasmic vesicle part 0.02098 Informative Inherited
Cellular Component (CC) Golgi apparatus 0.03558 Informative Inherited
Cellular Component (CC) actin cytoskeleton 1 Informative Inherited
Cellular Component (CC) organelle subcompartment 0.002775 Informative Inherited
Cellular Component (CC) chromosome 0.02442 Informative Inherited
Cellular Component (CC) centrosome 0.000000000000001578 Highly Informative Direct
Cellular Component (CC) spindle 0.00000000001756 Highly Informative Direct
Cellular Component (CC) polymeric cytoskeletal fiber 0.00000000009643 Highly Informative Direct
Cellular Component (CC) midbody 0.0000000001975 Highly Informative Direct
Cellular Component (CC) kinetochore 0.0000005773 Highly Informative Direct
Cellular Component (CC) endosome membrane 0.000008987 Highly Informative Direct
Cellular Component (CC) early endosome 0.003275 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)Omega peptidases0Moderately InformativeDirect

Document: EC annotation of SCOP domains

Human Phenotype (HP)

(show details) Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype0.178Least InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.2624Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal spinal cord morphology0.004112InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details) Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)resistance to chemicals0Least InformativeDirect
Yeast Phenotype (YP)morphology0Moderately InformativeDirect
Yeast Phenotype (YP)cell cycle progression0.0007061InformativeDirect

Document: YP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)adult0Least InformativeDirect
Fly Anatomy (FA)nervous system0.2093Least InformativeInherited
Fly Anatomy (FA)cell0.3669Least InformativeInherited
Fly Anatomy (FA)neuron0.04074Moderately InformativeInherited
Fly Anatomy (FA)interneuron0.0003039InformativeDirect

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)nervous system0Least InformativeDirect
Zebrafish Anatomy (ZA)compound organ0Least InformativeDirect
Zebrafish Anatomy (ZA)organism subdivision0Least InformativeDirect
Zebrafish Anatomy (ZA)multi-tissue structure0Least InformativeDirect
Zebrafish Anatomy (ZA)head0Moderately InformativeDirect

Document: ZA 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)nervous system0Least InformativeDirect
Xenopus ANatomical entity (XAN)male organism0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect
Xenopus ANatomical entity (XAN)sensory system0Moderately InformativeDirect

Document: XA 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)Acting on peptide bonds (peptidases)0Moderately InformativeDirect
Enzyme Commission (EC)Omega peptidases0InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processImmunity0.0000005202Moderately InformativeDirect
Biological processUbl conjugation pathway0.00002934Moderately InformativeDirect
Biological processWnt signaling pathway0.0000000004418InformativeDirect
Biological processInnate immunity0.00000001955InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentCytoskeleton0Moderately InformativeDirect
Cellular componentCell projection0.000000000004125Moderately InformativeDirect
Cellular componentGolgi apparatus0.0001147Moderately InformativeDirect
Cellular componentMicrotubule0InformativeDirect
DomainRepeat0.0000002259Least InformativeDirect
DomainCoiled coil0.0000000000003008Moderately InformativeDirect
DomainLeucine-rich repeat0.0000000002861InformativeDirect
DomainANK repeat0.0000001098InformativeDirect
Post-translational modificationHydrolase0.9866Least InformativeInherited
Post-translational modificationProtease0.002448Moderately InformativeInherited
Post-translational modificationChaperone0InformativeDirect
Post-translational modificationThiol protease0.0000001689InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · 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 16 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 Cap-Gly domain 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 16 hidden Markov models representing the Cap-Gly domain 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-coverage) · Enzyme Commission (EC) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]