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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 (476) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 950 986 5
Proteins 949 983 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) macromolecule metabolic process 0.0009288 Least Informative Direct
Biological Process (BP) response to stimulus 0.00006018 Least Informative Direct
Biological Process (BP) biological regulation 0.1069 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.001443 Least Informative Inherited
Biological Process (BP) cellular nitrogen compound metabolic process 0.003249 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.001323 Least Informative Inherited
Biological Process (BP) primary metabolic process 0.008927 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.001905 Least Informative Inherited
Biological Process (BP) response to stress 0.00000002003 Moderately Informative Direct
Biological Process (BP) regulation of protein metabolic process 0.002015 Moderately Informative Inherited
Biological Process (BP) regulation of cellular metabolic process 0.0193 Moderately Informative Inherited
Biological Process (BP) DNA metabolic process 0.000002801 Informative Direct
Biological Process (BP) cellular response to DNA damage stimulus 0.0007958 Informative Direct
Biological Process (BP) regulation of catabolic process 0.00000001229 Informative Direct
Biological Process (BP) regulation of proteolysis 0.000333 Informative Direct
Biological Process (BP) regulation of cellular catabolic process 0.0000001916 Highly Informative Direct
Biological Process (BP) regulation of protein catabolic process 0.000000000007178 Highly Informative Direct
Molecular Function (MF) binding 0.0001478 Least Informative Direct
Molecular Function (MF) protein binding 0.0268 Moderately Informative Inherited
Molecular Function (MF) macromolecular complex binding 0.0003954 Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.1084 Least Informative Inherited
Cellular Component (CC) protein complex 0.001871 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.4672 Least Informative Inherited
Cellular Component (CC) nuclear part 0.1265 Moderately Informative Inherited

Document: GO annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)collective phyllome structure0Least InformativeDirect
Plant ANatomical entity (PAN)cardinal part of multi-tissue plant structure0Least InformativeDirect
Plant ANatomical entity (PAN)inflorescence0Least InformativeDirect
Plant ANatomical entity (PAN)microsporophyll0Least InformativeDirect
Plant ANatomical entity (PAN)whole plant0Least InformativeDirect
Plant ANatomical entity (PAN)guard cell0Least InformativeDirect
Plant ANatomical entity (PAN)flower0Least InformativeDirect
Plant ANatomical entity (PAN)seed0Least InformativeDirect
Plant ANatomical entity (PAN)shoot axis0Least InformativeDirect
Plant ANatomical entity (PAN)portion of meristem tissue0Least InformativeDirect
Plant ANatomical entity (PAN)leaf0Least InformativeDirect
Plant ANatomical entity (PAN)root system0Least InformativeDirect
Plant ANatomical entity (PAN)megasporophyll0Least InformativeDirect
Plant ANatomical entity (PAN)cotyledon0Moderately InformativeDirect
Plant ANatomical entity (PAN)inflorescence meristem0Moderately InformativeDirect
Plant structure DEvelopment stage (PDE)LP.10 ten leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)D bilateral stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.04 four leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)C globular stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)F mature embryo stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.08 eight leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.12 twelve leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.06 six leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.02 two leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)4 leaf senescence stage0Least InformativeDirect

Document: AP annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processDNA damage0Moderately InformativeDirect
Biological processUbl conjugation pathway0.00000000005829Moderately InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentProteasome6.533e-16Highly InformativeDirect
Coding sequence diversityAlternative splicing0.00001995Least InformativeDirect
DomainRepeat0Least InformativeDirect
Post-translational modificationPhosphoprotein0.0000002735Least 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) · Arabidopsis Plant Ontology (AP) · 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) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]