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 (2,152) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 21,622 71,958 2
Proteins 16,594 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 0.7733 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.2038 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 0.8815 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 0.8565 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.9308 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.3231 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 0.3074 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.4447 Moderately Informative Inherited
Biological Process (BP) carbohydrate metabolic process 0.4022 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 0.2654 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic 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 0.5516 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.4881 Moderately Informative Inherited
Biological Process (BP) cell wall organization or biogenesis 0.000926 Informative Direct
Biological Process (BP) positive regulation of cellular component organization 0.03788 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.7514 Informative Inherited
Biological Process (BP) cell projection organization 0.6696 Informative Inherited
Biological Process (BP) protein catabolic process 0.01353 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 0.03151 Informative Inherited
Biological Process (BP) proteolysis 0.1872 Informative Inherited
Biological Process (BP) chromosome organization 0.04177 Informative Inherited
Biological Process (BP) cellular carbohydrate metabolic process 0.0426 Informative Inherited
Biological Process (BP) carbohydrate biosynthetic process 0.004436 Informative Inherited
Biological Process (BP) polysaccharide metabolic process 0.00553 Informative Inherited
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.7206 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 0.8133 Informative Inherited
Biological Process (BP) positive regulation of nucleobase-containing compound metabolic process 0.8958 Informative Inherited
Biological Process (BP) positive regulation of protein metabolic process 0.175 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.01045 Informative Inherited
Biological Process (BP) response to endoplasmic reticulum stress 3.217e-05 Highly Informative Direct
Biological Process (BP) cellular polysaccharide biosynthetic process 0.0001144 Highly Informative Direct
Biological Process (BP) cilium organization 0.0001243 Highly Informative Direct
Biological Process (BP) cell part morphogenesis 0.3893 Highly Informative Inherited
Biological Process (BP) ubiquitin-dependent protein catabolic process 0.009642 Highly Informative Inherited
Biological Process (BP) proteasomal protein catabolic process 0.01793 Highly Informative Inherited
Biological Process (BP) protein methylation 0.001504 Highly Informative Inherited
Biological Process (BP) histone modification 0.01486 Highly Informative Inherited
Biological Process (BP) positive regulation of organelle organization 0.001524 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 0.3904 Least Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) nuclear part 0.849 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.862 Moderately Informative Inherited
Cellular Component (CC) nuclear DNA-directed RNA polymerase complex 9.848e-07 Informative Direct
Cellular Component (CC) nucleoplasm part 0.09369 Informative Inherited
Cellular Component (CC) chromosome 0.03412 Informative Inherited
Cellular Component (CC) chromatin 0.0003787 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)Hydrolases4.834e-05Least InformativeDirect
Enzyme Commission (EC)Transferring phosphorous-containing groups0.04984Least InformativeInherited
Enzyme Commission (EC)Acting on carbon-nitrogen bonds, other than peptide bonds6.556e-12Moderately InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases3.788e-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 resistance5.31e-10InformativeDirect
Cellular componentMitochondrion0Moderately InformativeDirect
DomainRepeat0Least InformativeDirect
DomainTransit peptide6.773e-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 metabolism4.102e-08Moderately InformativeDirect
UniPathway (UP)protein ubiquitination2.704e-05Moderately InformativeDirect
UniPathway (UP)alginate biosynthesis1.426e-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 ]