SUPERFAMILY 1.75 HMM library and genome assignments server


HIV integrase-binding domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   N-cbl like [ 47667] (5)
Superfamily:   HIV integrase-binding domain [ 140576]
Families:   HIV integrase-binding domain [ 140577]


Superfamily statistics
Genomes (107) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 229 213 2
Proteins 229 213 2


Functional annotation
General category General
Detailed category Protein interaction

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) heterocycle metabolic process 4.811e-10 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 5.876e-10 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 1.337e-09 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 4.011e-09 Least Informative Direct
Biological Process (BP) regulation of metabolic process 1.535e-08 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 2.345e-08 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 1.278e-07 Least Informative Direct
Biological Process (BP) regulation of cellular process 2.227e-06 Least Informative Direct
Biological Process (BP) response to stimulus 1.239e-05 Least Informative Direct
Biological Process (BP) macromolecular complex subunit organization 3.749e-15 Moderately Informative Direct
Biological Process (BP) response to abiotic stimulus 3.61e-14 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 5.076e-14 Moderately Informative Direct
Biological Process (BP) gene expression 1.36e-13 Moderately Informative Direct
Biological Process (BP) cellular component biogenesis 1.977e-13 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 1.818e-12 Moderately Informative Direct
Biological Process (BP) regulation of macromolecule biosynthetic process 5.778e-11 Moderately Informative Direct
Biological Process (BP) regulation of cellular biosynthetic process 1.026e-10 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 1.744e-10 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 1.759e-10 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 2.667e-10 Moderately Informative Direct
Biological Process (BP) response to oxidative stress 0 Informative Direct
Biological Process (BP) cellular macromolecular complex assembly 0 Informative Direct
Biological Process (BP) RNA processing 0 Informative Direct
Biological Process (BP) ribonucleoprotein complex biogenesis 0 Informative Direct
Biological Process (BP) positive regulation of gene expression 1.085e-14 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 1.43e-14 Informative Direct
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 1.947e-14 Informative Direct
Biological Process (BP) positive regulation of nitrogen compound metabolic process 2.447e-14 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 3.442e-14 Informative Direct
Biological Process (BP) RNA splicing 0 Highly Informative Direct
Biological Process (BP) ribonucleoprotein complex subunit organization 0 Highly Informative Direct
Biological Process (BP) response to heat 0 Highly Informative Direct
Biological Process (BP) mRNA processing 0 Highly Informative Direct
Biological Process (BP) positive regulation of transcription, DNA-dependent 3.749e-15 Highly Informative Direct
Molecular Function (MF) binding 4.639e-05 Least Informative Direct
Molecular Function (MF) nucleic acid binding 5.241e-13 Moderately Informative Direct
Molecular Function (MF) chromatin binding 0 Informative Direct
Molecular Function (MF) DNA binding 7.453e-15 Informative Direct
Molecular Function (MF) transcription factor binding transcription factor activity 0 Highly Informative Direct
Molecular Function (MF) structure-specific DNA binding 0 Highly Informative Direct
Molecular Function (MF) transcription factor binding 7.912e-16 Highly Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 1.742e-07 Least Informative Direct
Cellular Component (CC) intracellular non-membrane-bounded organelle 1.736e-06 Least Informative Direct
Cellular Component (CC) intracellular organelle part 8.006e-05 Least Informative Direct
Cellular Component (CC) intracellular organelle lumen 4.605e-13 Moderately Informative Direct
Cellular Component (CC) nuclear part 3.192e-06 Moderately Informative Direct
Cellular Component (CC) chromosome 0 Informative Direct
Cellular Component (CC) chromatin 0 Highly Informative Direct
Cellular Component (CC) nuclear chromosome part 0 Highly Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTranscription regulation6.241e-07Moderately InformativeDirect
Cellular componentNucleus7.006e-07Least InformativeDirect
Coding sequence diversityAlternative splicing2.184e-06Least InformativeDirect
DomainCoiled coil0Moderately InformativeDirect
Molecular functionDNA-binding4.455e-06Least InformativeDirect
Post-translational modificationPhosphoprotein3.595e-08Least InformativeDirect
Post-translational modificationCitrullination1.656e-14Highly InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · 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 1 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 HIV integrase-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 1 hidden Markov models representing the HIV integrase-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 · Functional annotation · Gene Ontology (high-coverage) · UniProtKB KeyWords (KW) · Internal database links ]