SUPERFAMILY 1.75 HMM library and genome assignments server

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Histone deacetylase, HDAC family

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   Arginase/deacetylase [ 52767]
Superfamily:   Arginase/deacetylase [ 52768] (2)
Family:   Histone deacetylase, HDAC [ 52773] (3)


Family statistics
Genomes (1,591) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 5,138 25,431 4
Proteins 4,977 24,963 4


Enzyme Commission (EC)

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show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Acting on carbon-nitrogen bonds, other than peptid0Moderately InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)organ system cancer0.4216Least InformativeInherited
Disease Ontology (DO)disease by infectious agent0.0001548Moderately InformativeDirect
Disease Ontology (DO)hematologic cancer0.2399Moderately InformativeInherited
Disease Ontology (DO)lymphoma0.000694InformativeDirect
Disease Ontology (DO)Hodgkin's lymphoma0.00004411Highly InformativeDirect

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of the face0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the eye0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the integument0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of skeletal morphology0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of limbs0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of skull size0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the nose0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the ear0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the vertebral column0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of limb bone morphology0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the lower limb0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the upper limb0Moderately InformativeDirect
Phenotypic Abnormality (PA)Aplasia/Hypoplasia involving the central nervous system0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of higher mental function0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormal oral cavity morphology1Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal lip morphology0InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the forehead0InformativeDirect
Phenotypic Abnormality (PA)Intellectual disability0InformativeDirect
Phenotypic Abnormality (PA)Abnormality of calvarial morphology0InformativeDirect
Phenotypic Abnormality (PA)Short stature0InformativeDirect
Phenotypic Abnormality (PA)Abnormal nasal morphology0InformativeDirect
Phenotypic Abnormality (PA)Aplasia/hypoplasia of the extremities0InformativeDirect
Phenotypic Abnormality (PA)Abnormal lower limb bone morphology0InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the palm0InformativeDirect
Phenotypic Abnormality (PA)Aplasia/Hypoplasia involving bones of the feet0Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the external nose0Highly InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)cardiovascular system phenotype0.03165Least InformativeInherited
Mammalian Phenotype (MP)cellular phenotype0.2873Least InformativeInherited
Mammalian Phenotype (MP)abnormal cardiovascular system physiology0.004261Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal heart morphology0.01103Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell death0.1553Moderately InformativeInherited
Mammalian Phenotype (MP)hemorrhage0.0002892InformativeDirect
Mammalian Phenotype (MP)abnormal heart size0.3216InformativeInherited
Mammalian Phenotype (MP)enlarged heart0.01206Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism metabolism processing variant0Least InformativeDirect
Worm Phenotype (WP)larval arrest0Least InformativeDirect
Worm Phenotype (WP)sterile progeny0Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.1384Least InformativeInherited
Worm Phenotype (WP)protein expression variant0Moderately InformativeDirect
Worm Phenotype (WP)body region morphology variant0.001059Moderately InformativeInherited
Worm Phenotype (WP)organism segment morphology variant0.001059Moderately InformativeInherited
Worm Phenotype (WP)developmental morphology variant0.001064Moderately InformativeInherited
Worm Phenotype (WP)adult body morphology variant0.001069Moderately InformativeInherited
Worm Phenotype (WP)body morphology variant0.001149Moderately InformativeInherited
Worm Phenotype (WP)organ system development variant0.006569Moderately InformativeInherited
Worm Phenotype (WP)male morphology variant0.000000007204InformativeDirect
Worm Phenotype (WP)nervous system morphology variant0.0000002913InformativeDirect
Worm Phenotype (WP)vulva development variant0.0001804InformativeDirect
Worm Phenotype (WP)foraging behavior variant0.0005846InformativeDirect
Worm Phenotype (WP)organism stress response variant0.02197InformativeInherited
Worm Phenotype (WP)spontaneous mutation rate increased0.000000006601Highly InformativeDirect
Worm Phenotype (WP)organism UV response variant0.000002684Highly InformativeDirect
Worm Phenotype (WP)male ray morphology variant0.0009291Highly InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

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YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)resistance to chemicals0Least InformativeDirect

Document: YP annotation of SCOP domains

Fly Anatomy (FA)

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FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)tagma0Least InformativeDirect
Fly Anatomy (FA)larva0Least InformativeDirect
Fly Anatomy (FA)adult0Least InformativeDirect
Fly Anatomy (FA)nervous system0Least InformativeDirect
Fly Anatomy (FA)somatic cell0Least InformativeDirect
Fly Anatomy (FA)neuron0Moderately InformativeDirect

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

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ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)organism subdivision0Least InformativeDirect
Zebrafish Anatomy (ZA)multi-tissue structure0Least InformativeDirect
Zebrafish Anatomy (ZA)cavitated compound organ0Least InformativeDirect
Zebrafish Anatomy (ZA)cardiovascular system0Moderately InformativeDirect
Zebrafish Anatomy (ZA)trunk0InformativeDirect
Zebrafish Anatomy (ZA)post-vent region0InformativeDirect
Zebrafish Anatomy (ZA)vasculature0InformativeDirect

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)tissue0Least InformativeDirect
Xenopus ANatomical entity (XAN)cavitated compound organ0Least InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details) Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0Least InformativeDirect
Enzyme Commission (EC)Acting on carbon-nitrogen bonds, other than peptide bonds0Moderately InformativeDirect
Enzyme Commission (EC)In linear amides0InformativeDirect

Document: EC annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) ]

Internal database links

   
Superfamily level     Family level

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.


   
Superfamily level     Family level

Alignments of sequences to 21 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.


Superfamily level

Browse and view proteins in genomes which have different domain combinations including a Arginase/deacetylase domain.


   
Superfamily level     Family level

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.


Jump to [ Top of page · SCOP classification · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · Internal database links ]