SUPERFAMILY 1.75 HMM library and genome assignments server


Skp1 dimerisation domain-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   Skp1 dimerisation domain-like [ 81384]
Superfamily:   Skp1 dimerisation domain-like [ 81382]
Families:   Skp1 dimerisation domain-like [ 81380] (2)


Superfamily statistics
Genomes (480) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 2,309 2,014 5
Proteins 2,254 2,001 5


Functional annotation
General category General
Detailed category Protein interaction

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) protein metabolic process 5.722e-08 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 1.183e-05 Least Informative Direct
Biological Process (BP) response to stimulus 0.3356 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.4644 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.845 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.07205 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.0004109 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 7.449e-08 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 0.0001261 Moderately Informative Direct
Biological Process (BP) cellular protein modification process 1 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.004038 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 0.2758 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.06136 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.03273 Moderately Informative Inherited
Biological Process (BP) proteolysis 4.445e-09 Informative Direct
Biological Process (BP) cell cycle process 3.093e-07 Informative Direct
Biological Process (BP) regulation of anatomical structure morphogenesis 0.0006651 Informative Direct
Biological Process (BP) protein catabolic process 2.014e-12 Informative Direct
Biological Process (BP) cellular macromolecular complex assembly 1.712e-07 Informative Direct
Biological Process (BP) regulation of growth 0.000272 Informative Direct
Biological Process (BP) cellular macromolecule catabolic process 1.107e-12 Informative Direct
Biological Process (BP) protein modification by small protein conjugation or removal 4.189e-08 Informative Direct
Biological Process (BP) DNA metabolic process 0.1177 Informative Inherited
Biological Process (BP) DNA replication 6.758e-08 Highly Informative Direct
Biological Process (BP) ubiquitin-dependent protein catabolic process 0 Highly Informative Direct
Biological Process (BP) protein ubiquitination 1.843e-09 Highly Informative Direct
Biological Process (BP) response to topologically incorrect protein 1.202e-06 Highly Informative Direct
Biological Process (BP) regulation of developmental growth 1.739e-06 Highly Informative Direct
Molecular Function (MF) binding 1.885e-08 Least Informative Direct
Cellular Component (CC) protein complex 9.723e-13 Least Informative Direct
Cellular Component (CC) ubiquitin ligase complex 0 Informative Direct
Cellular Component (CC) cullin-RING ubiquitin ligase complex 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)larval development variant0Least InformativeDirect
Worm Phenotype (WP)growth variant0Least InformativeDirect
Worm Phenotype (WP)cell physiology variant6.064e-09Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0.5562Least InformativeInherited
Worm Phenotype (WP)early embryonic lethal0Moderately InformativeDirect
Worm Phenotype (WP)cell organization biogenesis variant0Moderately InformativeDirect
Worm Phenotype (WP)organism segment morphology variant0Moderately InformativeDirect
Worm Phenotype (WP)gametogenesis variant0.0006133Moderately InformativeDirect
Worm Phenotype (WP)protein aggregation variant0.01455Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.9973Moderately InformativeInherited
Worm Phenotype (WP)meiotic chromosome organization variant0InformativeDirect
Worm Phenotype (WP)embryonic cell organization biogenesis variant0InformativeDirect
Worm Phenotype (WP)pachytene progression during oogenesis variant0InformativeDirect
Worm Phenotype (WP)protein aggregation induced paralysis4.222e-09InformativeDirect
Worm Phenotype (WP)chromosome segregation variant0.005092InformativeInherited
Worm Phenotype (WP)early larval arrest0Highly InformativeDirect
Worm Phenotype (WP)cell proliferation increased0Highly InformativeDirect
Worm Phenotype (WP)mitotic spindle defective early emb0Highly InformativeDirect
Worm Phenotype (WP)excessive blebbing early emb0Highly InformativeDirect
Worm Phenotype (WP)embryonic arrest0Highly InformativeDirect
Worm Phenotype (WP)resistant to protein aggregation induced paralysis7.433e-10Highly InformativeDirect
Worm Phenotype (WP)aneuploidy0.0001852Highly InformativeDirect
Worm Phenotype (WP)meiotic chromosome segregation variant0.0003114Highly InformativeDirect

Document: WP annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)seed1Least InformativeInherited
Plant ANatomical entity (PAN)portion of meristem tissue1Least InformativeInherited
Plant ANatomical entity (PAN)root system1Least InformativeInherited
Plant ANatomical entity (PAN)shoot axis1Least InformativeInherited
Plant ANatomical entity (PAN)cardinal part of multi-tissue plant structure1Least InformativeInherited
Plant ANatomical entity (PAN)fruit0InformativeDirect
Plant ANatomical entity (PAN)portion of ground tissue0.001743InformativeInherited
Plant ANatomical entity (PAN)primary root2.043e-06Highly InformativeDirect
Plant ANatomical entity (PAN)lateral root1.206e-05Highly InformativeDirect
Plant ANatomical entity (PAN)cortex2.64e-05Highly InformativeDirect
Plant ANatomical entity (PAN)shoot apical meristem0.0001971Highly InformativeDirect
Plant structure DEvelopment stage (PDE)seedling development stage1.611e-06InformativeDirect

Document: AP annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processUbl conjugation pathway0InformativeDirect
Cellular componentNucleus0Least InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)biopolymer metabolism0Least InformativeDirect
UniPathway (UP)protein ubiquitination0Moderately InformativeDirect

Document: UP annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-coverage) · Worm Phenotype (WP) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

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 3 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 Skp1 dimerisation domain-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 3 hidden Markov models representing the Skp1 dimerisation domain-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-coverage) · Worm Phenotype (WP) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]