SUPERFAMILY 1.75 HMM library and genome assignments server

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Nucleosome core histones family

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   Histone-fold [ 47112]
Superfamily:   Histone-fold [ 47113] (4)
Family:   Nucleosome core histones [ 47114] (5)


Family statistics
Genomes (506) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 15,422 50,897 62
Proteins 15,342 50,583 61


Worm Phenotype (WP)

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show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell physiology variant0.00000000000001062Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0.000000001793Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.00000002262Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.00000003724Least InformativeDirect
Worm Phenotype (WP)cell development variant0.2698Least InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0Moderately InformativeDirect
Worm Phenotype (WP)cell division variant0Moderately InformativeDirect
Worm Phenotype (WP)early embryonic lethal0Moderately InformativeDirect
Worm Phenotype (WP)germ cell development variant0.0001093Moderately InformativeDirect
Worm Phenotype (WP)pattern of transgene expression variant0.0009802Moderately InformativeDirect
Worm Phenotype (WP)movement variant0.005251Moderately InformativeInherited
Worm Phenotype (WP)cell cycle variant0.0628Moderately InformativeInherited
Worm Phenotype (WP)organ system development variant0.06343Moderately InformativeInherited
Worm Phenotype (WP)reproductive system morphology variant0.06504Moderately InformativeInherited
Worm Phenotype (WP)organism stress response variant0.15Moderately InformativeInherited
Worm Phenotype (WP)organism segment morphology variant0.2552Moderately InformativeInherited
Worm Phenotype (WP)body region morphology variant0.259Moderately InformativeInherited
Worm Phenotype (WP)cell death variant0.4925Moderately InformativeInherited
Worm Phenotype (WP)germ cell differentiation variant1Moderately InformativeInherited
Worm Phenotype (WP)cytokinesis variant emb0InformativeDirect
Worm Phenotype (WP)vesicle organization variant0InformativeDirect
Worm Phenotype (WP)cell component localization variant0InformativeDirect
Worm Phenotype (WP)avoids bacterial lawn9.394e-16InformativeDirect
Worm Phenotype (WP)meiotic chromosome organization variant0.0000000000007107InformativeDirect
Worm Phenotype (WP)life span variant0.00000000004718InformativeDirect
Worm Phenotype (WP)organism pathogen response variant0.000001904InformativeDirect
Worm Phenotype (WP)vulva morphology variant0.0005762InformativeDirect
Worm Phenotype (WP)mitosis variant0.04509InformativeInherited
Worm Phenotype (WP)diplotene progression during oogenesis variant0.2282InformativeInherited
Worm Phenotype (WP)dauer larva physiology variant1InformativeInherited
Worm Phenotype (WP)lysosome-related organelle morphology variant0Highly InformativeDirect
Worm Phenotype (WP)RAB-11 recycling endosome localization variant0Highly InformativeDirect
Worm Phenotype (WP)no induction of antimicrobial peptide expression after infection0Highly InformativeDirect
Worm Phenotype (WP)embryonic arrest0.0000000003106Highly InformativeDirect
Worm Phenotype (WP)chromosome condensation variant0.000002124Highly InformativeDirect
Worm Phenotype (WP)organism osmotic stress response variant0.007681Highly InformativeInherited
Worm Phenotype (WP)alimentary system morphology variant0.0998Highly InformativeInherited

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)development0.01979Moderately InformativeInherited
Yeast Phenotype (YP)cell cycle progression0.00006802InformativeDirect
Yeast Phenotype (YP)cell cycle progression in G2 phase0.0000000004388Highly InformativeDirect
Yeast Phenotype (YP)budding index0.000000003121Highly InformativeDirect

Document: YP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)larva0Least InformativeDirect
Fly Anatomy (FA)developing material anatomical entity0Moderately InformativeDirect

Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details) Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)root0.3098Least InformativeInherited
Plant ANatomical entity (PAN)shoot apex0.3288Least InformativeInherited
Plant ANatomical entity (PAN)portion of meristem tissue0.753Least InformativeInherited
Plant ANatomical entity (PAN)root tip0.0006523InformativeDirect
Plant ANatomical entity (PAN)lateral root primordium0.0000003089Highly InformativeDirect
Plant ANatomical entity (PAN)lateral root0.0000005644Highly InformativeDirect
Plant ANatomical entity (PAN)shoot meristem0.00005496Highly InformativeDirect
Plant ANatomical entity (PAN)apical meristem0.000141Highly InformativeDirect
Plant structure DEvelopment stage (PDE)seedling development stage0.00000001105InformativeDirect

Document: AP annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) ]

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 46 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 Histone-fold 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 · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Internal database links ]