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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 (501) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 3,804 4,382 22
Proteins 3,016 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 0.00000000294 Least Informative Direct
Biological Process (BP) biological regulation 0.03224 Least Informative Inherited
Biological Process (BP) macromolecule metabolic process 0.2491 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.02442 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.9199 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 0.1635 Least Informative Inherited
Biological Process (BP) primary metabolic process 0.8731 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.0000000000001311 Moderately Informative Direct
Biological Process (BP) cellular localization 0.00000548 Moderately Informative Direct
Biological Process (BP) organelle organization 0.000007117 Moderately Informative Direct
Biological Process (BP) regulation of localization 0.0000811 Moderately Informative Direct
Biological Process (BP) cellular protein modification process 0.00008821 Moderately Informative Direct
Biological Process (BP) single-organism transport 0.02987 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.3168 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) cellular developmental process 0.04983 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 0.9247 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.9527 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 0.6559 Moderately Informative Inherited
Biological Process (BP) nitrogen compound transport 0.008289 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 0.7965 Moderately Informative Inherited
Biological Process (BP) regulation of molecular function 0.4174 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.407 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 0.4643 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 0.1437 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.04278 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.01895 Moderately Informative Inherited
Biological Process (BP) microtubule-based process 0 Informative Direct
Biological Process (BP) regulation of cellular component biogenesis 0.000000000000001945 Informative Direct
Biological Process (BP) regulation of establishment of protein localization 0.000000000002152 Informative Direct
Biological Process (BP) regulation of cellular localization 0.000000000005069 Informative Direct
Biological Process (BP) cell cycle process 0.00000000000657 Informative Direct
Biological Process (BP) cytoskeleton organization 0.0000000001346 Informative Direct
Biological Process (BP) organelle localization 0.00000001509 Informative Direct
Biological Process (BP) supramolecular fiber organization 0.00001372 Informative Direct
Biological Process (BP) positive regulation of transport 0.000161 Informative Direct
Biological Process (BP) regulation of organelle organization 0.0002285 Informative Direct
Biological Process (BP) proteolysis 0.0003545 Informative Direct
Biological Process (BP) positive regulation of cellular component organization 0.0003714 Informative Direct
Biological Process (BP) positive regulation of cell death 0.0005599 Informative Direct
Biological Process (BP) mitotic cell cycle 0.04745 Informative Inherited
Biological Process (BP) regulation of intracellular signal transduction 0.06735 Informative Inherited
Biological Process (BP) negative regulation of signaling 0.01788 Informative Inherited
Biological Process (BP) regulation of transcription, DNA-templated 0.6763 Informative Inherited
Biological Process (BP) negative regulation of molecular function 0.002416 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.107 Informative Inherited
Biological Process (BP) regulation of apoptotic process 0.008775 Informative Inherited
Biological Process (BP) negative regulation of transport 0.00128 Informative Inherited
Biological Process (BP) regulation of peptide transport 0.05061 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 0.01116 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.02748 Informative Inherited
Biological Process (BP) peptidyl-amino acid modification 0.2245 Informative Inherited
Biological Process (BP) regulation of cell cycle 0.03153 Informative Inherited
Biological Process (BP) regulation of microtubule-based process 0 Highly Informative Direct
Biological Process (BP) regulation of protein polymerization 0 Highly Informative Direct
Biological Process (BP) establishment or maintenance of cell polarity 0.00000000000008354 Highly Informative Direct
Biological Process (BP) protein folding 0.0000000001043 Highly Informative Direct
Biological Process (BP) positive regulation of cellular protein localization 0.000000000154 Highly Informative Direct
Biological Process (BP) microtubule cytoskeleton organization 0.000000007951 Highly Informative Direct
Biological Process (BP) regulation of protein import into nucleus 0.000001302 Highly Informative Direct
Biological Process (BP) protein lipidation 0.000001462 Highly Informative Direct
Biological Process (BP) negative regulation of establishment of protein localization 0.00004479 Highly Informative Direct
Biological Process (BP) regulation of sequence-specific DNA binding transcription factor activity 0.00005697 Highly Informative Direct
Biological Process (BP) positive regulation of apoptotic process 0.00005762 Highly Informative Direct
Biological Process (BP) negative regulation of intracellular signal transduction 0.0001937 Highly Informative Direct
Biological Process (BP) nucleus organization 0.0005508 Highly Informative Direct
Biological Process (BP) negative regulation of protein complex assembly 0.0005709 Highly Informative Direct
Biological Process (BP) regulation of vesicle-mediated transport 0.0007452 Highly Informative Direct
Biological Process (BP) positive regulation of cellular component biogenesis 0.0008856 Highly Informative Direct
Biological Process (BP) negative regulation of supramolecular fiber organization 0.0009735 Highly Informative Direct
Biological Process (BP) negative regulation of intracellular transport 0.003213 Highly Informative Inherited
Biological Process (BP) positive regulation of supramolecular fiber organization 0.001183 Highly Informative Inherited
Biological Process (BP) negative regulation of cytoskeleton organization 0.02852 Highly Informative Inherited
Molecular Function (MF) binding 0.000005455 Least Informative Direct
Molecular Function (MF) hydrolase activity 0.003176 Least Informative Inherited
Molecular Function (MF) metal ion binding 0.0036 Moderately Informative Inherited
Molecular Function (MF) carbohydrate derivative binding 0.1375 Moderately Informative Inherited
Molecular Function (MF) cytoskeletal protein binding 0 Informative Direct
Molecular Function (MF) zinc ion binding 0.000001842 Informative Direct
Molecular Function (MF) peptidase activity, acting on L-amino acid peptides 0.00001525 Informative Direct
Molecular Function (MF) amide binding 0.0004466 Informative Direct
Molecular Function (MF) tubulin binding 0 Highly Informative Direct
Molecular Function (MF) glycolipid binding 0.00000000002798 Highly Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 0.000000000001307 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.0000003966 Least Informative Direct
Cellular Component (CC) macromolecular complex 0.01484 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.04779 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) membrane 1 Least Informative Inherited
Cellular Component (CC) cytoskeleton 0 Moderately Informative Direct
Cellular Component (CC) cell projection 0.006146 Moderately Informative Inherited
Cellular Component (CC) bounding membrane of organelle 0.02565 Moderately Informative Inherited
Cellular Component (CC) whole membrane 0.02657 Moderately Informative Inherited
Cellular Component (CC) vesicle 0.003026 Moderately Informative Inherited
Cellular Component (CC) organelle envelope 0.1934 Moderately Informative Inherited
Cellular Component (CC) nuclear part 1 Moderately Informative Inherited
Cellular Component (CC) supramolecular polymer 0 Informative Direct
Cellular Component (CC) microtubule cytoskeleton 0 Informative Direct
Cellular Component (CC) cytoplasmic region 0.00000000004801 Informative Direct
Cellular Component (CC) membrane region 0.00003153 Informative Direct
Cellular Component (CC) nuclear envelope 0.0002826 Informative Direct
Cellular Component (CC) endosome 0.0003061 Informative Direct
Cellular Component (CC) chromosome 0.2908 Informative Inherited
Cellular Component (CC) plasma membrane bounded cell projection part 0.003617 Informative Inherited
Cellular Component (CC) cilium 0.006238 Informative Inherited
Cellular Component (CC) Golgi apparatus 0.03464 Informative Inherited
Cellular Component (CC) cytoplasmic vesicle part 0.03449 Informative Inherited
Cellular Component (CC) actin cytoskeleton 1 Informative Inherited
Cellular Component (CC) cytoplasmic microtubule 0 Highly Informative Direct
Cellular Component (CC) spindle 0.00000000000008657 Highly Informative Direct
Cellular Component (CC) kinetochore 0.0000000000009602 Highly Informative Direct
Cellular Component (CC) midbody 0.0000000001035 Highly Informative Direct
Cellular Component (CC) endosome membrane 0.00000698 Highly Informative Direct
Cellular Component (CC) Golgi subcompartment 0.0001724 Highly Informative Direct
Cellular Component (CC) microtubule organizing center 0.000683 Highly Informative Direct

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 phenotype0.1747Least InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.2614Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal spinal cord morphology0.004186InformativeInherited

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 progression0.0007075InformativeDirect

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 system0.2198Least InformativeInherited
Fly Anatomy (FA)somatic cell0.2959Least InformativeInherited
Fly Anatomy (FA)neuron0.04329Moderately InformativeInherited
Fly Anatomy (FA)interneuron0.0003213InformativeDirect

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)visual 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 processImmunity0.0000007122Moderately InformativeDirect
Biological processUbl conjugation pathway0.0000378Moderately InformativeDirect
Biological processWnt signaling pathway0.0000000005486InformativeDirect
Biological processInnate immunity0.00000002575InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentCytoskeleton0Moderately InformativeDirect
Cellular componentCell projection0.00000000001202Moderately InformativeDirect
Cellular componentGolgi apparatus0.0001478Moderately InformativeDirect
Cellular componentMicrotubule0InformativeDirect
DomainRepeat0.0000002467Least InformativeDirect
DomainCoiled coil0.000000000000103Moderately InformativeDirect
DomainLeucine-rich repeat0.00000000002735InformativeDirect
DomainANK repeat0.0000001609InformativeDirect
Post-translational modificationHydrolase1Least InformativeInherited
Post-translational modificationProtease0.003024Moderately InformativeInherited
Post-translational modificationChaperone0InformativeDirect
Post-translational modificationThiol protease0.0000002084InformativeDirect
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 ]