SUPERFAMILY 1.75 HMM library and genome assignments server

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Linker histone H1/H5 family

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   DNA/RNA-binding 3-helical bundle [ 46688] (14)
Superfamily:   "Winged helix" DNA-binding domain [ 46785] (84)
Family:   Linker histone H1/H5 [ 46827] (3)


Family statistics
Genomes (86) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 323 534 6
Proteins 298 518 6


Mouse Phenotype (MP)

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show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)endocrine/exocrine gland phenotype0.1249Least InformativeInherited
Mammalian Phenotype (MP)cardiovascular system phenotype0.1742Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.3243Least InformativeInherited
Mammalian Phenotype (MP)immune system phenotype0.3399Least InformativeInherited
Mammalian Phenotype (MP)mortality/aging0.457Least InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system physiology0.001424Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal endocrine gland morphology0.009073Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune system organ morphology0.0254Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cardiovascular development0.02673Moderately InformativeInherited
Mammalian Phenotype (MP)limbs/digits/tail phenotype0.04334Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood vessel morphology0.07841Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal heart morphology0.108Moderately InformativeInherited
Mammalian Phenotype (MP)prenatal lethality0.1326Moderately InformativeInherited
Mammalian Phenotype (MP)normal phenotype0.0005587InformativeDirect
Mammalian Phenotype (MP)abnormal thymus morphology0.0012InformativeInherited
Mammalian Phenotype (MP)abnormal developmental patterning0.005297InformativeInherited
Mammalian Phenotype (MP)abnormal lymph organ size0.01027InformativeInherited
Mammalian Phenotype (MP)embryonic lethality prior to organogenesis0.01593InformativeInherited
Mammalian Phenotype (MP)reduced fertility0.00000844Highly InformativeDirect
Mammalian Phenotype (MP)enlarged pericardium0.000009323Highly InformativeDirect
Mammalian Phenotype (MP)abnormal chorioallantoic fusion0.00002214Highly InformativeDirect
Mammalian Phenotype (MP)abnormal rostral-caudal axis patterning0.0001355Highly InformativeDirect
Mammalian Phenotype (MP)abnormal thymus size0.0003846Highly InformativeDirect
Mammalian Phenotype (MP)prenatal lethality, incomplete penetrance0.0004141Highly InformativeDirect
Mammalian Phenotype (MP)abnormal vitelline vasculature morphology0.0005212Highly InformativeDirect
Mammalian Phenotype (MP)abnormal visceral yolk sac morphology0.0007266Highly InformativeDirect
Mammalian Phenotype (MP)abnormal tail morphology0.003144Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell physiology variant0.05227Least InformativeInherited
Worm Phenotype (WP)blast cell physiology variant0.05227Least InformativeInherited
Worm Phenotype (WP)endocytic transport defect0.004649InformativeInherited
Worm Phenotype (WP)maintenance of gene silencing variant0.000000000493Highly InformativeDirect

Document: WP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)nervous system0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)cavitated compound organ0Least InformativeDirect
Xenopus ANatomical entity (XAN)anatomical cluster0.2251Least InformativeInherited
Xenopus ANatomical entity (XAN)tissue0.399Least InformativeInherited
Xenopus ANatomical entity (XAN)brain0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)musculoskeletal system0.02428Moderately InformativeInherited
Xenopus ANatomical entity (XAN)skeletal system0.002051InformativeInherited
Xenopus ANatomical entity (XAN)solid compound organ0.02508InformativeInherited
Xenopus ANatomical entity (XAN)bone element0.0005383Highly InformativeDirect
Xenopus ANatomical entity (XAN)skeletal tissue0.0005703Highly InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant structure DEvelopment stage (PDE)4 leaf senescence stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)F mature embryo stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)C globular stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)D bilateral stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.12 twelve leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.08 eight leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.02 two leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.10 ten leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.04 four leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.06 six leaves visible stage0Least InformativeDirect

Document: AP annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Mouse Phenotype (MP) · Worm Phenotype (WP) · 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 301 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 "Winged helix" DNA-binding domain 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 · Mouse Phenotype (MP) · Worm Phenotype (WP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Internal database links ]