SUPERFAMILY 1.75 HMM library and genome assignments server

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GINS helical bundle-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   GINS helical bundle-like [ 158572]
Superfamily:   GINS helical bundle-like [ 158573] (4)
Families:   PSF1 N-terminal domain-like [ 158574]
  PSF2 C-terminal domain-like [ 158577]
  PSF3 C-terminal domain-like [ 158580]
  SLD5 N-terminal domain-like [ 158583]


Superfamily statistics
Genomes (513) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 2,200 6,237 10
Proteins 2,194 6,206 10


Functional annotation
Document:
Function annotation of SCOP domain superfamilies

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organ system morphology variant0.003394Least InformativeInherited
Worm Phenotype (WP)reproductive system morphology variant0.0005194Moderately InformativeDirect
Worm Phenotype (WP)protruding vulva0.00006175InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)morphology0Moderately InformativeDirect
Yeast Phenotype (YP)chromosome/plasmid maintenance0InformativeDirect
Yeast Phenotype (YP)heat sensitivity0InformativeDirect
Yeast Phenotype (YP)cell cycle progression0.000705InformativeDirect
Yeast Phenotype (YP)colony sectoring0Highly InformativeDirect
Yeast Phenotype (YP)cell cycle progression in S phase0.00000007766Highly InformativeDirect

Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)increased mortality0Least InformativeDirect
Fly Phenotype (FP)lethal0Moderately InformativeDirect
Fly Phenotype (FP)neuroanatomy defective0InformativeDirect

Document: FP 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)somatic cell0Least InformativeDirect
Fly Anatomy (FA)somatic precursor cell0Moderately InformativeDirect
Fly Anatomy (FA)stem cell0Moderately InformativeDirect
Fly Anatomy (FA)neuroblast0InformativeDirect
Fly Anatomy (FA)ganglion mother cell0InformativeDirect
Fly Anatomy (FA)larval neuroblast0Highly InformativeDirect

Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)embryo0Least InformativeDirect
Xenopus ANatomical entity (XAN)urogenital system0Least InformativeDirect
Xenopus ANatomical entity (XAN)nervous system0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)tissue0Least InformativeDirect
Xenopus ANatomical entity (XAN)cavitated compound organ0Least InformativeDirect
Xenopus ANatomical entity (XAN)ectoderm0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)brain0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)germ cell0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)multi-tissue structure0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)embryonic structure0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)sensory system0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)forebrain0InformativeDirect
Xenopus ANatomical entity (XAN)eye0InformativeDirect
Xenopus ANatomical entity (XAN)cranial placode0InformativeDirect
Xenopus ANatomical entity (XAN)vestibuloauditory system0InformativeDirect
Xenopus ANatomical entity (XAN)pharyngeal region0InformativeDirect
Xenopus ANatomical entity (XAN)neural crest0.0005717InformativeDirect
Xenopus ANatomical entity (XAN)neural plate0.004379InformativeInherited
Xenopus ANatomical entity (XAN)otic placode0Highly InformativeDirect
Xenopus ANatomical entity (XAN)optic vesicle0Highly InformativeDirect
Xenopus ANatomical entity (XAN)proliferative region0Highly InformativeDirect
Xenopus ANatomical entity (XAN)ventricular zone0.00000002016Highly InformativeDirect
Xenopus ANatomical entity (XAN)anatomical line0.000008032Highly InformativeDirect
Xenopus ANatomical entity (XAN)anterior placodal area0.0000181Highly InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)guard cell0Least InformativeDirect
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 · Functional annotation · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) ]

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 4 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 GINS helical bundle-like 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 4 hidden Markov models representing the GINS helical bundle-like 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 · Functional annotation · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Internal database links ]