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Prefoldin superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   Long alpha-hairpin [ 46556] (20)
Superfamily:   Prefoldin [ 46579]
Families:   Prefoldin [ 46580] (2)


Superfamily statistics
Genomes (726) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 5,362 6,382 3
Proteins 5,355 6,373 3


Functional annotation
General category Processes_IC
Detailed category Protein modification

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Biological Process (BP)cellular component organization or biogenesis0.000000077630.0004128Least InformativeDirect
Biological Process (BP)biological regulation0.057970.9773Least InformativeInherited
Biological Process (BP)macromolecular complex subunit organization0.0035980.02376Moderately InformativeInherited
Biological Process (BP)cellular component assembly0.012740.0000131Moderately InformativeInherited
Biological Process (BP)organelle organization10.6287Moderately InformativeInherited
Biological Process (BP)regulation of biosynthetic process0.000017890.09442Moderately InformativeInherited
Biological Process (BP)regulation of gene expression0.0000230.1199Moderately InformativeInherited
Biological Process (BP)regulation of cellular metabolic process0.023040.4706Moderately InformativeInherited
Biological Process (BP)regulation of nitrogen compound metabolic process0.000020890.1074Moderately InformativeInherited
Biological Process (BP)cytoskeleton organization0.000030680.0000004244InformativeDirect
Biological Process (BP)cellular macromolecular complex assembly0.000000000000061210.00000000006775InformativeDirect
Biological Process (BP)regulation of transcription, DNA-templated0.00000046120.0352InformativeInherited
Biological Process (BP)regulation of transcription from RNA polymerase II promoter0.00040040.0006708Highly InformativeDirect
Biological Process (BP)protein folding00Highly InformativeDirect
Molecular Function (MF)binding0.013510.03727Least InformativeInherited
Molecular Function (MF)protein binding0.00054640.0005406Moderately InformativeDirect
Molecular Function (MF)cytoskeletal protein binding0.000011510.0007766InformativeDirect
Molecular Function (MF)transcription factor activity, transcription factor binding0.0000000019520.0000001799Highly InformativeDirect
Molecular Function (MF)tubulin binding0.0000000000014590.0000000008429Highly InformativeDirect
Cellular Component (CC)protein complex0.000023230.000362Least InformativeDirect

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) cellular component organization or biogenesis 0.0004128 Least Informative Direct
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) biological regulation 0.9773 Least Informative Inherited
Biological Process (BP) cellular component assembly 0.0000131 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 0.02376 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.6287 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 0.09442 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.1199 Moderately Informative Inherited
Biological Process (BP) regulation of cellular metabolic process 0.4706 Moderately Informative Inherited
Biological Process (BP) regulation of nitrogen compound metabolic process 0.1074 Moderately Informative Inherited
Biological Process (BP) system development 1 Moderately Informative Inherited
Biological Process (BP) cytoskeleton organization 0.0000004244 Informative Direct
Biological Process (BP) cellular macromolecular complex assembly 0.00000000006775 Informative Direct
Biological Process (BP) epithelium development 0.3989 Informative Inherited
Biological Process (BP) regulation of transcription, DNA-templated 0.0352 Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.0006708 Highly Informative Direct
Biological Process (BP) protein folding 0 Highly Informative Direct
Biological Process (BP) morphogenesis of an epithelium 0.7123 Highly Informative Inherited
Molecular Function (MF) binding 0.03727 Least Informative Inherited
Molecular Function (MF) structural molecule activity 0.000009852 Moderately Informative Direct
Molecular Function (MF) protein binding 0.0005406 Moderately Informative Direct
Molecular Function (MF) cytoskeletal protein binding 0.0007766 Informative Direct
Molecular Function (MF) transcription factor activity, transcription factor binding 0.0000001799 Highly Informative Direct
Molecular Function (MF) tubulin binding 0.0000000008429 Highly Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 0.0004894 Least Informative Direct
Cellular Component (CC) protein complex 0.000362 Least Informative Direct
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) cytoskeleton 0.0004036 Moderately Informative Direct
Cellular Component (CC) vesicle 0.01158 Moderately Informative Inherited
Cellular Component (CC) extracellular region part 0.006598 Moderately Informative Inherited
Cellular Component (CC) extracellular organelle 0.0000005467 Informative Direct
Cellular Component (CC) extracellular exosome 0.0000004832 Highly Informative Direct
Cellular Component (CC) polymeric cytoskeletal fiber 0.00006089 Highly Informative Direct

Document: GO annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)organ system cancer0.3864Least InformativeInherited
Disease Ontology (DO)cell type cancer0.5172Moderately InformativeInherited
Disease Ontology (DO)respiratory system cancer0.0892InformativeInherited
Disease Ontology (DO)pulmonary large cell neuroendocrine carcinoma0.00000001274Highly InformativeDirect
Disease Ontology (DO)neuroendocrine carcinoma0.000001505Highly InformativeDirect

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of the integument0.06909Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of limbs0.1387Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the hand0.03651Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skin morphology0.115Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the foot0.12Moderately InformativeInherited
Phenotypic Abnormality (PA)Regional abnormality of skin0.01274InformativeInherited
Phenotypic Abnormality (PA)Palmoplantar hyperkeratosis0.00001023Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormal blistering of the skin0.00021Highly InformativeDirect
Phenotypic Abnormality (PA)Ichthyosis0.0002845Highly InformativeDirect

Document: HP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell morphology variant0.00007038Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.0006288Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.0007674Least InformativeDirect
Worm Phenotype (WP)organ system morphology variant0.001632Least InformativeInherited
Worm Phenotype (WP)early embryonic lethal0.000009889Moderately InformativeDirect
Worm Phenotype (WP)reproductive system morphology variant0.0001528Moderately InformativeDirect
Worm Phenotype (WP)movement variant0.143Moderately InformativeInherited
Worm Phenotype (WP)cell component morphology variant0.1983Moderately InformativeInherited
Worm Phenotype (WP)embryonic cell organization biogenesis variant0.00000008476InformativeDirect
Worm Phenotype (WP)protruding vulva0.000006257InformativeDirect
Worm Phenotype (WP)pronucleus centrosomes defective early emb0.000004176Highly InformativeDirect
Worm Phenotype (WP)mitotic spindle defective early emb0.00002206Highly InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)resistance to chemicals0Least InformativeDirect
Yeast Phenotype (YP)metabolism and growth0Least InformativeDirect
Yeast Phenotype (YP)morphology0.0011Moderately InformativeInherited
Yeast Phenotype (YP)chemical compound accumulation0InformativeDirect
Yeast Phenotype (YP)vegetative growth0InformativeDirect
Yeast Phenotype (YP)chromosome/plasmid maintenance0.0004175InformativeDirect
Yeast Phenotype (YP)intracellular transport0.002794InformativeInherited
Yeast Phenotype (YP)endocytosis0.000118Highly InformativeDirect

Document: YP 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)nervous system0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least 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)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.10 ten leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.04 four leaves visible stage0Least InformativeDirect

Document: AP annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentCell projection0.0009017Moderately InformativeDirect
Cellular componentMicrotubule0.000401InformativeDirect
DomainCoiled coil0Moderately InformativeDirect
Post-translational modificationChaperone0InformativeDirect
Post-translational modificationAcetylation0.0000000001044Least InformativeDirect
Post-translational modificationPhosphoprotein0.0005032Least InformativeDirect
Post-translational modificationIsopeptide bond0.0000006542Moderately InformativeDirect
Post-translational modificationUbl conjugation0.000006458Moderately InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR009053 SSF46579 Protein matches
Abstract

The Prefoldin/GimC family of proteins are found in eukaryotes and archaea [PubMed9463374]. Prefoldin is part of a molecular chaperone system that promotes the correct folding of nascent polypeptide chains. Prefoldin/GimC interacts with the nascent chain to stabilise it prior to its folding within the central cavity of a chaperonin. Prefoldin/GimC is a hexamer consisting of two types of subunits, alpha and beta. Archaeal prefoldin contains one type of alpha and one type of beta subunit [PubMed11106732], while eukaryotic prefoldin/GimC contains two different but related alpha subunits and four related beta subunits [PubMed12456645].


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Disease Ontology (DO) · Human Phenotype (HP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · 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 2 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 Prefoldin 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 2 hidden Markov models representing the Prefoldin 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 · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Disease Ontology (DO) · Human Phenotype (HP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]