SUPERFAMILY 1.75 HMM library and genome assignments server

HCP-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   alpha-alpha superhelix [ 48370] (24)
Superfamily:   HCP-like [ 81901]
Families:   HCP-like [ 81902] (2)


Superfamily statistics
Genomes (2,153) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 21,711 71,958 2
Proteins 16,665 51,950 2


Functional annotation
General category Other
Detailed category Unknown function

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) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) developmental process 1 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) protein metabolic process 0.8083 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.2158 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) positive regulation of biological process 1 Least Informative Inherited
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.8914 Moderately Informative Inherited
Biological Process (BP) single-organism organelle organization 0.2928 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 0.8687 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.9403 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.3299 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 0.3155 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.7093 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 0.272 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.1613 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.624 Moderately Informative Inherited
Biological Process (BP) carbohydrate metabolic process 0.4145 Moderately Informative Inherited
Biological Process (BP) cell wall organization or biogenesis 0.0009576 Informative Direct
Biological Process (BP) cellular component morphogenesis 0.7643 Informative Inherited
Biological Process (BP) cell projection organization 0.6854 Informative Inherited
Biological Process (BP) protein catabolic process 0.0149 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 0.03408 Informative Inherited
Biological Process (BP) proteolysis 0.1961 Informative Inherited
Biological Process (BP) chromosome organization 0.04983 Informative Inherited
Biological Process (BP) cellular carbohydrate metabolic process 0.04315 Informative Inherited
Biological Process (BP) polysaccharide metabolic process 0.005625 Informative Inherited
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.7335 Informative Inherited
Biological Process (BP) positive regulation of RNA metabolic process 0.8187 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 0.8281 Informative Inherited
Biological Process (BP) positive regulation of gene expression 0.8708 Informative Inherited
Biological Process (BP) positive regulation of cellular protein metabolic process 0.1963 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.0534 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.01709 Informative Inherited
Biological Process (BP) carbohydrate biosynthetic process 0.004512 Informative Inherited
Biological Process (BP) response to endoplasmic reticulum stress 0.00003413 Highly Informative Direct
Biological Process (BP) cellular polysaccharide biosynthetic process 0.0001165 Highly Informative Direct
Biological Process (BP) cilium organization 0.0001726 Highly Informative Direct
Biological Process (BP) positive regulation of organelle organization 0.000674 Highly Informative Direct
Biological Process (BP) cell projection morphogenesis 0.3781 Highly Informative Inherited
Biological Process (BP) ubiquitin-dependent protein catabolic process 0.01087 Highly Informative Inherited
Biological Process (BP) proteasomal protein catabolic process 0.02017 Highly Informative Inherited
Biological Process (BP) protein methylation 0.001613 Highly Informative Inherited
Biological Process (BP) histone modification 0.01354 Highly Informative Inherited
Biological Process (BP) positive regulation of transcription, DNA-templated 0.7741 Highly Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) protein complex 0.4877 Least Informative Inherited
Cellular Component (CC) transferase complex 0.0000253 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 0.7165 Moderately Informative Inherited
Cellular Component (CC) nuclear part 0.7295 Moderately Informative Inherited
Cellular Component (CC) DNA-directed RNA polymerase complex 0.00000102 Informative Direct
Cellular Component (CC) chromosome 0.03463 Informative Inherited
Cellular Component (CC) nucleoplasm part 0.01474 Informative Inherited
Cellular Component (CC) chromatin 0.0003916 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)In cyclic amides0InformativeDirect
Enzyme Commission (EC)Beta-lactamase0Highly InformativeDirect

Document: EC annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype0.1147Least InformativeInherited
Mammalian Phenotype (MP)mortality/aging0.3081Least InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system development0.005055Moderately InformativeInherited
Mammalian Phenotype (MP)preweaning lethality0.1685Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal embryogenesis/ development1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neural tube morphology/development0.0002707InformativeDirect
Mammalian Phenotype (MP)embryonic lethality0.01613InformativeInherited
Mammalian Phenotype (MP)embryonic lethality during organogenesis0.002091Highly InformativeInherited

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

Document: YP 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)central nervous system0Least InformativeDirect
Xenopus ANatomical entity (XAN)cell0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)portion of tissue0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect
Xenopus ANatomical entity (XAN)gamete0Moderately InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant structure DEvelopment stage (PDE)0 seed germination stage0InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0.00004834Least InformativeDirect
Enzyme Commission (EC)Transferring phosphorous-containing groups0.04984Least InformativeInherited
Enzyme Commission (EC)Acting on carbon-nitrogen bonds, other than peptide bonds0.000000000006556Moderately InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases0.000003788Moderately InformativeDirect
Enzyme Commission (EC)In cyclic amides0Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processAntibiotic resistance0.000000000531InformativeDirect
Cellular componentMitochondrion0Moderately InformativeDirect
DomainRepeat0Least InformativeDirect
DomainTransit peptide0.0000000000006773Moderately InformativeDirect
DomainTPR repeat0Highly InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)biopolymer metabolism0.01236Least InformativeInherited
UniPathway (UP)glycan metabolism0.00000004102Moderately InformativeDirect
UniPathway (UP)protein ubiquitination0.00002704Moderately InformativeDirect
UniPathway (UP)alginate biosynthesis0.000000001426Highly InformativeDirect

Document: UP annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

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 2 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 HCP-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 2 hidden Markov models representing the HCP-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 · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]