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 (481) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 2,314 2,014 5
Proteins 2,259 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 0.000000062 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0.000009202 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.08466 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.487 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.96 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) response to stimulus 0.5019 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.8293 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular catabolic process 0.00000006748 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 0.0000001018 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 0.0001843 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 0.003763 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 0.2745 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.0635 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.01006 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 1 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.00363 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 0.000000000001218 Informative Direct
Biological Process (BP) protein catabolic process 0.000000000002074 Informative Direct
Biological Process (BP) proteolysis 0.000000004562 Informative Direct
Biological Process (BP) protein modification by small protein conjugation or removal 0.00000004336 Informative Direct
Biological Process (BP) cellular macromolecular complex assembly 0.0000002325 Informative Direct
Biological Process (BP) cell cycle process 0.0000004064 Informative Direct
Biological Process (BP) regulation of growth 0.00002724 Informative Direct
Biological Process (BP) regulation of anatomical structure morphogenesis 0.01217 Informative Inherited
Biological Process (BP) ubiquitin-dependent protein catabolic process 0 Highly Informative Direct
Biological Process (BP) protein ubiquitination 0.000000001959 Highly Informative Direct
Biological Process (BP) DNA replication 0.0000000544 Highly Informative Direct
Biological Process (BP) regulation of developmental growth 0.00000007586 Highly Informative Direct
Biological Process (BP) response to topologically incorrect protein 0.0000005398 Highly Informative Direct
Molecular Function (MF) binding 0.00000002492 Least Informative Direct
Molecular Function (MF) transferase activity 0.148 Least Informative Inherited
Molecular Function (MF) ubiquitin-protein transferase activity 0.000002427 Highly Informative Direct
Cellular Component (CC) protein complex 0.000000000008439 Least Informative Direct
Cellular Component (CC) transferase complex 0 Moderately Informative Direct
Cellular Component (CC) ubiquitin ligase complex 0 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 variant0.000000006064Least 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 paralysis0.000000004222InformativeDirect
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 paralysis0.0000000007433Highly 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)shoot axis1Least InformativeInherited
Plant ANatomical entity (PAN)root system1Least InformativeInherited
Plant ANatomical entity (PAN)seed1Least InformativeInherited
Plant ANatomical entity (PAN)cardinal part of multi-tissue plant structure1Least InformativeInherited
Plant ANatomical entity (PAN)portion of meristem tissue1Least InformativeInherited
Plant ANatomical entity (PAN)fruit0InformativeDirect
Plant ANatomical entity (PAN)portion of ground tissue0.001743InformativeInherited
Plant ANatomical entity (PAN)primary root0.000002043Highly InformativeDirect
Plant ANatomical entity (PAN)lateral root0.00001206Highly InformativeDirect
Plant ANatomical entity (PAN)cortex0.0000264Highly InformativeDirect
Plant ANatomical entity (PAN)shoot apical meristem0.0001971Highly InformativeDirect
Plant structure DEvelopment stage (PDE)seedling development stage0.000001611InformativeDirect

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 ]