SUPERFAMILY 1.75 HMM library and genome assignments server

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 (506) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 2,167 2,406 10
Proteins 2,161 2,400 10


Functional annotation
Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details) Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) heterocycle metabolic process 0.00000000001753 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 0.00000000002734 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.0000000001785 Least Informative Direct
Biological Process (BP) biosynthetic process 0.00000000113 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 0.000000002112 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0.00000009237 Least Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0.00000000000004286 Moderately Informative Direct
Biological Process (BP) DNA metabolic process 0 Informative Direct
Biological Process (BP) DNA replication 0 Highly Informative Direct
Molecular Function (MF) hydrolase activity 0.1125 Least Informative Inherited
Molecular Function (MF) nucleoside-triphosphatase activity 0.00004469 Informative Direct
Cellular Component (CC) intracellular non-membrane-bounded organelle 0.0000002713 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.0000003534 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.00006555 Least Informative Direct
Cellular Component (CC) intracellular organelle lumen 0 Moderately Informative Direct
Cellular Component (CC) nuclear part 0.0000000003828 Moderately Informative Direct
Cellular Component (CC) chromosome 0 Informative Direct
Cellular Component (CC) nucleoplasm part 0.0000001416 Informative Direct
Cellular Component (CC) nuclear chromosome part 0 Highly Informative Direct

Document: GO annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)reproductive system morphology variant0Moderately InformativeDirect
Worm Phenotype (WP)locomotion variant0Moderately InformativeDirect
Worm Phenotype (WP)protruding vulva0InformativeDirect

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)colony sectoring0InformativeDirect
Yeast Phenotype (YP)cell cycle progression0.0006608InformativeDirect
Yeast Phenotype (YP)cell cycle progression in S phase0.0000000619Highly 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)neuroanatomy defective0Moderately InformativeDirect

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)cell0Least InformativeDirect
Fly Anatomy (FA)developing material anatomical entity0Moderately InformativeDirect
Fly Anatomy (FA)ganglion mother cell0InformativeDirect
Fly Anatomy (FA)somatic stem cell0InformativeDirect
Fly Anatomy (FA)embryonic/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)genital system0Least InformativeDirect
Xenopus ANatomical entity (XAN)cell0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect
Xenopus ANatomical entity (XAN)ovary0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)gamete0Moderately 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

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processDNA replication0InformativeDirect
Biological processChromosome partition0Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · 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 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 · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]