SUPERFAMILY 1.75 HMM library and genome assignments server

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XPC-binding domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   XPC-binding domain [ 101237]
Superfamily:   XPC-binding domain [ 101238]
Families:   XPC-binding domain [ 101239] (3)


Superfamily statistics
Genomes (481) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 965 2,193 5
Proteins 964 2,184 5


Functional annotation
General category General
Detailed category Small molecule binding

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) response to stimulus 0.0003356 Least Informative Direct
Biological Process (BP) macromolecule metabolic process 0.002131 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.001842 Least Informative Inherited
Biological Process (BP) primary metabolic process 0.01937 Least Informative Inherited
Biological Process (BP) biological regulation 0.1998 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.001143 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.001255 Least Informative Inherited
Biological Process (BP) cellular nitrogen compound metabolic process 0.002174 Least Informative Inherited
Biological Process (BP) cellular response to stress 0.00000245 Moderately Informative Direct
Biological Process (BP) regulation of protein metabolic process 0.001831 Moderately Informative Inherited
Biological Process (BP) regulation of catabolic process 0.0000001839 Informative Direct
Biological Process (BP) DNA metabolic process 0.000002209 Informative Direct
Biological Process (BP) regulation of proteolysis 0.0004181 Informative Direct
Biological Process (BP) cellular response to DNA damage stimulus 0.001003 Informative Inherited
Biological Process (BP) regulation of protein catabolic process 0.00000000002686 Highly Informative Direct
Molecular Function (MF) binding 0.0001361 Least Informative Direct
Molecular Function (MF) macromolecular complex binding 0.000003132 Informative Direct
Cellular Component (CC) protein complex 0.0005148 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.07193 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.345 Least Informative Inherited
Cellular Component (CC) nuclear part 0.07133 Moderately Informative Inherited

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processDNA damage0Moderately InformativeDirect
Biological processUbl conjugation pathway0.00000000006124Moderately InformativeDirect
Biological processDNA repair0InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentProteasome6.573e-16Highly InformativeDirect
Coding sequence diversityAlternative splicing0.0000207Least InformativeDirect
DomainRepeat0Least InformativeDirect
Post-translational modificationPhosphoprotein0.0000002875Least InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR015360 SSF101238 Protein matches
Abstract

Members of this entry adopt a structure consisting of four alpha helices, arranged in an array. They bind specifically and directly to the xeroderma pigmentosum group C protein (XPC) to initiate nucleotide excision repair [PubMed15885096].


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · 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 3 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 XPC-binding 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 3 hidden Markov models representing the XPC-binding 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 · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · UniProtKB KeyWords (KW) · Internal database links ]