SUPERFAMILY 1.75 HMM library and genome assignments server

Superfamily is undergoing a server migration - you are now browsing on the new server. Please contact us if you experience any problems.


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 (460) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 729 1,777 1
Proteins 728 1,771 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 component organization or biogenesis 0.00004638 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0.001028 Least Informative Inherited
Biological Process (BP) cellular nitrogen compound metabolic process 0.002343 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.001861 Least Informative Inherited
Biological Process (BP) macromolecule metabolic process 0.02412 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.005041 Least Informative Inherited
Biological Process (BP) biological regulation 0.03604 Least Informative Inherited
Biological Process (BP) primary metabolic process 0.1296 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.001117 Least Informative Inherited
Biological Process (BP) organelle organization 0.000000002572 Moderately Informative Direct
Biological Process (BP) gene expression 0.0004962 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0.000307 Moderately Informative Direct
Biological Process (BP) regulation of macromolecule biosynthetic process 0.0001086 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0.0003392 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 0.00009058 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.0001092 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 0.00006054 Moderately Informative Direct
Biological Process (BP) regulation of cellular biosynthetic process 0.0001683 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0.00007276 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 0.0007216 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 0.0001712 Moderately Informative Direct
Biological Process (BP) cellular component assembly 0.16 Moderately Informative Inherited
Biological Process (BP) transcription, DNA-templated 0.00000001245 Informative Direct
Biological Process (BP) regulation of transcription, DNA-templated 0.00003167 Informative Direct
Biological Process (BP) chromosome organization 0.000000000000003764 Informative Direct
Biological Process (BP) chromatin assembly or disassembly 0.0002454 Highly Informative Direct
Biological Process (BP) protein-DNA complex subunit organization 0 Highly Informative Direct
Molecular Function (MF) hydrolase activity 0.0007317 Least Informative Direct
Molecular Function (MF) hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides 0.0000002717 Moderately Informative Direct
Molecular Function (MF) ATPase activity 0.000000008634 Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.002442 Least Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 0.1164 Least Informative Inherited
Cellular Component (CC) macromolecular complex 0.006189 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.004226 Least Informative Inherited
Cellular Component (CC) nuclear part 0.00009503 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 0.0003872 Moderately Informative Direct
Cellular Component (CC) chromosome 0.00001626 Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTranscription regulation0.0000008816Moderately InformativeDirect
Cellular componentNucleus0Least InformativeDirect
DomainRepeat0.00000000006274Least InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationChromatin regulator0InformativeDirect
Post-translational modificationHelicase0.0000000000002212InformativeDirect
Post-translational modificationPhosphoprotein0.000005144Least 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 ]