SUPERFAMILY 1.75 HMM library and genome assignments server


HAND domain of the nucleosome remodeling ATPase ISWI superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   HAND domain of the nucleosome remodeling ATPase ISWI [ 101223]
Superfamily:   HAND domain of the nucleosome remodeling ATPase ISWI [ 101224]
Families:   HAND domain of the nucleosome remodeling ATPase ISWI [ 101225]


Superfamily statistics
Genomes (406) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 683 552 1
Proteins 682 552 1


Functional annotation
General category Information
Detailed category Chromatin structure

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) regulation of metabolic process 5.464e-08 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 5.651e-07 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 6.721e-07 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 1.365e-06 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 3.489e-06 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 6.757e-06 Least Informative Direct
Biological Process (BP) regulation of cellular process 1.043e-05 Least Informative Direct
Biological Process (BP) developmental process 0.0004388 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.01121 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.002589 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.01254 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.02961 Least Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 1.378e-10 Moderately Informative Direct
Biological Process (BP) regulation of cellular biosynthetic process 2.557e-10 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 4.47e-10 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 4.568e-10 Moderately Informative Direct
Biological Process (BP) organonitrogen compound catabolic process 1.895e-09 Moderately Informative Direct
Biological Process (BP) phosphate-containing compound metabolic process 3.031e-07 Moderately Informative Direct
Biological Process (BP) organelle organization 4.645e-07 Moderately Informative Direct
Biological Process (BP) organophosphate metabolic process 3.781e-06 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 5.709e-06 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 2.613e-05 Moderately Informative Direct
Biological Process (BP) organic cyclic compound catabolic process 2.995e-05 Moderately Informative Direct
Biological Process (BP) nucleobase-containing small molecule metabolic process 5.538e-05 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 7.269e-05 Moderately Informative Direct
Biological Process (BP) cellular nitrogen compound biosynthetic process 0.001856 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 0.002095 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 0.002214 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 0.002404 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0.004138 Moderately Informative Inherited
Biological Process (BP) gene expression 0.002229 Moderately Informative Inherited
Biological Process (BP) chromosome organization 7.333e-15 Informative Direct
Biological Process (BP) nucleoside monophosphate metabolic process 3.715e-12 Informative Direct
Biological Process (BP) glycosyl compound catabolic process 2.327e-11 Informative Direct
Biological Process (BP) nucleoside triphosphate metabolic process 2.8e-11 Informative Direct
Biological Process (BP) organophosphate catabolic process 4.755e-11 Informative Direct
Biological Process (BP) purine ribonucleoside metabolic process 6.348e-11 Informative Direct
Biological Process (BP) carbohydrate derivative catabolic process 1.053e-10 Informative Direct
Biological Process (BP) purine ribonucleotide metabolic process 1.064e-10 Informative Direct
Biological Process (BP) DNA metabolic process 5.248e-06 Informative Direct
Biological Process (BP) transcription, DNA-dependent 0.0001017 Informative Direct
Biological Process (BP) nucleobase-containing compound catabolic process 0.0001247 Informative Direct
Biological Process (BP) nucleoside monophosphate catabolic process 8.219e-13 Highly Informative Direct
Biological Process (BP) ATP metabolic process 1.167e-12 Highly Informative Direct
Biological Process (BP) purine ribonucleoside triphosphate catabolic process 1.065e-11 Highly Informative Direct
Biological Process (BP) purine ribonucleoside catabolic process 1.536e-11 Highly Informative Direct
Biological Process (BP) purine ribonucleotide catabolic process 1.729e-11 Highly Informative Direct
Molecular Function (MF) hydrolase activity 9.329e-06 Least Informative Direct
Molecular Function (MF) nucleoside-triphosphatase activity 9.525e-10 Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 2.716e-05 Least Informative Direct
Cellular Component (CC) intracellular organelle part 3.254e-05 Least Informative Direct
Cellular Component (CC) protein complex 5.179e-05 Least Informative Direct
Cellular Component (CC) intracellular non-membrane-bounded organelle 0.02119 Least Informative Inherited
Cellular Component (CC) nuclear part 1.84e-12 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 0.1557 Moderately Informative Inherited
Cellular Component (CC) chromosome 1.441e-08 Informative Direct
Cellular Component (CC) nuclear chromosome part 0.000438 Highly Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTranscription regulation2.751e-07Moderately InformativeDirect
Cellular componentNucleus0Least InformativeDirect
DomainRepeat4.964e-10Least InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationHelicase0InformativeDirect
Post-translational modificationChromatin regulator0InformativeDirect
Post-translational modificationPhosphoprotein3.394e-07Least InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR015194 SSF101224 Protein matches
Abstract

The HAND domain adopts a secondary structure consisting of four alpha helices, three of which (H2, H3, H4) form an L-like configuration. Helix H2 runs antiparallel to helices H3 and H4, packing closely against helix H4, whilst helix H1 reposes in the concave surface formed by these three helices and runs perpendicular to them. This domain confers DNA and nucleosome binding properties to the protein [PubMed14536084].


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 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 HAND domain of the nucleosome remodeling ATPase ISWI 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 HAND domain of the nucleosome remodeling ATPase ISWI 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 ]