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 (454) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 722 763 1
Proteins 721 763 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) cellular aromatic compound metabolic process 0.00001214 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 0.00005886 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0.00001034 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.00003519 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.00002371 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.4259 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.001634 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.01664 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.4029 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.002468 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.0111 Least Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.00005171 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0.000000003609 Moderately Informative Direct
Biological Process (BP) regulation of macromolecule biosynthetic process 0.0000000004502 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.000000001795 Moderately Informative Direct
Biological Process (BP) organophosphate metabolic process 0.00008993 Moderately Informative Direct
Biological Process (BP) regulation of cellular biosynthetic process 0.0000000008638 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0.00002649 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 0.00004004 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 0.0008983 Moderately Informative Direct
Biological Process (BP) single-organism catabolic process 0.0004192 Moderately Informative Direct
Biological Process (BP) nucleobase-containing small molecule metabolic process 0.00001776 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 0.0001355 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 0.001704 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 0.002268 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 0.002379 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 0.002426 Moderately Informative Inherited
Biological Process (BP) cellular nitrogen compound biosynthetic process 0.002069 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0.00438 Moderately Informative Inherited
Biological Process (BP) gene expression 0.002876 Moderately Informative Inherited
Biological Process (BP) transcription, DNA-templated 0.00007023 Informative Direct
Biological Process (BP) nucleoside monophosphate metabolic process 0.000000004133 Informative Direct
Biological Process (BP) nucleoside triphosphate metabolic process 0.00000002233 Informative Direct
Biological Process (BP) purine ribonucleotide metabolic process 0.00000006374 Informative Direct
Biological Process (BP) purine ribonucleoside metabolic process 0.00000004371 Informative Direct
Biological Process (BP) organophosphate catabolic process 0.00000001885 Informative Direct
Biological Process (BP) chromosome organization 0.00001054 Informative Direct
Biological Process (BP) carbohydrate derivative catabolic process 0.00000003735 Informative Direct
Biological Process (BP) organonitrogen compound catabolic process 0.0000004257 Informative Direct
Biological Process (BP) nucleobase-containing compound catabolic process 0.001303 Informative Inherited
Biological Process (BP) nucleoside monophosphate catabolic process 0.0000000005175 Highly Informative Direct
Biological Process (BP) purine nucleoside triphosphate catabolic process 0.000000005511 Highly Informative Direct
Biological Process (BP) purine ribonucleotide catabolic process 0.000000007764 Highly Informative Direct
Biological Process (BP) ribonucleoside triphosphate catabolic process 0.000000005148 Highly Informative Direct
Biological Process (BP) purine ribonucleoside catabolic process 0.000000007019 Highly Informative Direct
Molecular Function (MF) hydrolase activity 0.00007495 Least Informative Direct
Molecular Function (MF) nucleoside-triphosphatase activity 0.00000000879 Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.0001764 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.00001611 Least Informative Direct
Cellular Component (CC) protein complex 0.8253 Least Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 0.071 Least Informative Inherited
Cellular Component (CC) nuclear part 0.00000000001256 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 0.2633 Moderately Informative Inherited
Cellular Component (CC) chromosome 0.0000001076 Informative Direct
Cellular Component (CC) chromatin 0.0003664 Highly Informative Direct
Cellular Component (CC) nuclear chromosome part 0.0007476 Highly Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTranscription regulation0.000000321Moderately InformativeDirect
Cellular componentNucleus0Least InformativeDirect
DomainRepeat0.0000000005036Least InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Molecular functionATP-binding0Moderately InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationHelicase0InformativeDirect
Post-translational modificationChromatin regulator0InformativeDirect
Post-translational modificationPhosphoprotein0.0000003526Least 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 ]