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 (2,151) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 21,620 71,958 2
Proteins 16,592 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) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) developmental process 1 Least Informative Inherited
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) protein metabolic process 0.6807 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.1622 Least Informative Inherited
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.8943 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.8032 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.3126 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 0.4811 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.4538 Moderately Informative Inherited
Biological Process (BP) carbohydrate metabolic process 0.4039 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 0.2684 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.5448 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.4799 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.03593 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.7615 Informative Inherited
Biological Process (BP) cell projection organization 0.6783 Informative Inherited
Biological Process (BP) proteolysis 0.1846 Informative Inherited
Biological Process (BP) protein catabolic process 0.004226 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 0.01245 Informative Inherited
Biological Process (BP) chromosome organization 0.04303 Informative Inherited
Biological Process (BP) cellular carbohydrate metabolic process 0.04195 Informative Inherited
Biological Process (BP) carbohydrate biosynthetic process 0.004375 Informative Inherited
Biological Process (BP) polysaccharide metabolic process 0.005538 Informative Inherited
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.717 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 0.8101 Informative Inherited
Biological Process (BP) positive regulation of nitrogen compound metabolic process 0.9185 Informative Inherited
Biological Process (BP) positive regulation of protein modification process 0.1897 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.00959 Informative Inherited
Biological Process (BP) cellular polysaccharide biosynthetic process 0.0001134 Highly Informative Direct
Biological Process (BP) response to endoplasmic reticulum stress 2.647e-05 Highly Informative Direct
Biological Process (BP) cilium organization 0.0001021 Highly Informative Direct
Biological Process (BP) cell projection morphogenesis 0.3751 Highly Informative Inherited
Biological Process (BP) ubiquitin-dependent protein catabolic process 0.00977 Highly Informative Inherited
Biological Process (BP) proteasomal protein catabolic process 0.06863 Highly Informative Inherited
Biological Process (BP) protein methylation 0.001481 Highly Informative Inherited
Biological Process (BP) histone modification 0.01478 Highly Informative Inherited
Biological Process (BP) positive regulation of organelle organization 0.001407 Highly 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 0.4076 Least Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) nuclear part 0.8798 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.8923 Moderately Informative Inherited
Cellular Component (CC) nuclear DNA-directed RNA polymerase complex 1.066e-06 Informative Direct
Cellular Component (CC) nucleoplasm part 0.09872 Informative Inherited
Cellular Component (CC) chromosome 0.03542 Informative Inherited
Cellular Component (CC) chromatin 0.0004151 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 phenotype0.1125Least InformativeInherited
Mammalian Phenotype (MP)mortality/aging0.3058Least InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system development0.00483Moderately InformativeInherited
Mammalian Phenotype (MP)preweaning lethality0.1668Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal embryogenesis/ development1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neural tube morphology/development0.0002515InformativeDirect
Mammalian Phenotype (MP)embryonic lethality0.0157InformativeInherited
Mammalian Phenotype (MP)embryonic lethality during organogenesis0.002041Highly 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)Hydrolases4.669e-05Least InformativeDirect
Enzyme Commission (EC)Transferring phosphorous-containing groups0.05008Least InformativeInherited
Enzyme Commission (EC)Acting on carbon-nitrogen bonds, other than peptide bonds5.278e-12Moderately InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases3.795e-06Moderately 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 resistance5.354e-10InformativeDirect
Cellular componentMitochondrion0Moderately InformativeDirect
DomainRepeat0Least InformativeDirect
DomainTransit peptide6.471e-13Moderately 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 metabolism4.092e-08Moderately InformativeDirect
UniPathway (UP)protein ubiquitination2.676e-05Moderately InformativeDirect
UniPathway (UP)alginate biosynthesis1.422e-09Highly 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 ]