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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 (730) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 5,390 6,382 3
Proteins 5,383 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 biogenesis0.00000012750.0003722Least InformativeDirect
Biological Process (BP)biological regulation0.11451Least InformativeInherited
Biological Process (BP)protein complex biogenesis0.00000000014840.00104Moderately InformativeInherited
Biological Process (BP)cellular component assembly0.036370.00004785Moderately InformativeInherited
Biological Process (BP)organelle organization10.9181Moderately InformativeInherited
Biological Process (BP)macromolecular complex subunit organization0.0031720.002389Moderately InformativeInherited
Biological Process (BP)regulation of gene expression0.000087080.1639Moderately InformativeInherited
Biological Process (BP)regulation of macromolecule biosynthetic process0.0000082350.06783Moderately InformativeInherited
Biological Process (BP)regulation of nucleobase-containing compound metabolic process0.0000077950.1188Moderately InformativeInherited
Biological Process (BP)regulation of cellular biosynthetic process0.000022810.09985Moderately InformativeInherited
Biological Process (BP)cytoskeleton organization0.000024950.0000002778InformativeDirect
Biological Process (BP)cellular protein complex assembly0.0000000000000016070.00000000000004301InformativeDirect
Biological Process (BP)regulation of transcription, DNA-templated0.00000099530.04142InformativeInherited
Biological Process (BP)regulation of transcription from RNA polymerase II promoter0.00033520.0005919Highly InformativeDirect
Biological Process (BP)protein folding00Highly InformativeDirect
Molecular Function (MF)binding0.021540.04793Least InformativeInherited
Molecular Function (MF)cytoskeletal protein binding0.000007910.0006487InformativeDirect
Molecular Function (MF)transcription factor activity, transcription factor binding0.0000000017860.000000161Highly InformativeDirect
Molecular Function (MF)chromatin binding0.00000043280.0001471Highly InformativeDirect
Molecular Function (MF)tubulin binding0.0000000000010670.0000000007447Highly InformativeDirect
Cellular Component (CC)macromolecular complex0.000000001750.0000152Least InformativeDirect
Cellular Component (CC)cytoplasmic part0.90770.5898Least InformativeInherited

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 0.0003722 Least Informative Direct
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) biological regulation 1 Least Informative Inherited
Biological Process (BP) cellular component assembly 0.00004785 Moderately Informative Direct
Biological Process (BP) system development 0.3196 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) protein complex biogenesis 0.00104 Moderately Informative Inherited
Biological Process (BP) cellular developmental process 0.003166 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.9181 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.002389 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.1639 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 0.06783 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.1188 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.09985 Moderately Informative Inherited
Biological Process (BP) cytoskeleton organization 0.0000002778 Informative Direct
Biological Process (BP) cell death 0.0000000471 Informative Direct
Biological Process (BP) tissue development 0.0002685 Informative Direct
Biological Process (BP) cellular protein complex assembly 0.00000000000004301 Informative Direct
Biological Process (BP) supramolecular fiber organization 0.0007309 Informative Direct
Biological Process (BP) regulation of transcription, DNA-templated 0.04142 Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.0005919 Highly Informative Direct
Biological Process (BP) protein folding 0 Highly Informative Direct
Biological Process (BP) epithelial cell differentiation 0.000000101 Highly Informative Direct
Biological Process (BP) morphogenesis of an epithelium 1 Highly Informative Inherited
Molecular Function (MF) binding 0.04793 Least Informative Inherited
Molecular Function (MF) structural molecule activity 0.00002078 Moderately Informative Direct
Molecular Function (MF) cytoskeletal protein binding 0.0006487 Informative Direct
Molecular Function (MF) transcription factor activity, transcription factor binding 0.000000161 Highly Informative Direct
Molecular Function (MF) chromatin binding 0.0001471 Highly Informative Direct
Molecular Function (MF) tubulin binding 0.0000000007447 Highly Informative Direct
Cellular Component (CC) macromolecular complex 0.0000152 Least Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 0.0006202 Least Informative Direct
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.5898 Least Informative Inherited
Cellular Component (CC) cytoskeleton 0.00006672 Moderately Informative Direct
Cellular Component (CC) vesicle 0.007641 Moderately Informative Inherited
Cellular Component (CC) extracellular region part 0.006418 Moderately Informative Inherited
Cellular Component (CC) extracellular space 0.0002463 Informative Direct
Cellular Component (CC) extracellular organelle 0.0000004382 Informative Direct
Cellular Component (CC) supramolecular polymer 0.000000003272 Informative Direct
Cellular Component (CC) intermediate filament cytoskeleton 0.0000000000005788 Highly Informative Direct
Cellular Component (CC) extracellular vesicle 0.0000001658 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 cancer0.4652Least InformativeInherited
Disease Ontology (DO)cell type cancer0.5435Moderately InformativeInherited
Disease Ontology (DO)respiratory system cancer0.1247InformativeInherited
Disease Ontology (DO)carcinoma0.2793InformativeInherited
Disease Ontology (DO)pulmonary large cell neuroendocrine carcinoma0.00000002033Highly InformativeDirect
Disease Ontology (DO)neuroendocrine carcinoma0.000003108Highly 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 integument0.06966Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of limbs0.1397Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the hand0.03711Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skin morphology0.1157Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the foot0.1211Moderately InformativeInherited
Phenotypic Abnormality (PA)Regional abnormality of skin0.01287InformativeInherited
Phenotypic Abnormality (PA)Palmoplantar hyperkeratosis0.00001102Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormal blistering of the skin0.0002396Highly InformativeDirect
Phenotypic Abnormality (PA)Ichthyosis0.000287Highly 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 variant0.0001006Least InformativeDirect
Worm Phenotype (WP)organ system morphology variant0.0001551Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.0008185Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.0008321Least InformativeDirect
Worm Phenotype (WP)early embryonic lethal0.000009374Moderately InformativeDirect
Worm Phenotype (WP)reproductive system morphology variant0.1153Moderately InformativeInherited
Worm Phenotype (WP)movement variant0.1417Moderately InformativeInherited
Worm Phenotype (WP)cell component morphology variant0.2325Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0.2575Moderately InformativeInherited
Worm Phenotype (WP)embryonic cell organization biogenesis variant0.00000007828InformativeDirect
Worm Phenotype (WP)protruding vulva0.000006239InformativeDirect
Worm Phenotype (WP)mitotic spindle defective early emb0.00002185Highly InformativeDirect
Worm Phenotype (WP)pronuclear nuclear appearance defective early emb0.03798Highly InformativeInherited

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)morphology0.001097Moderately InformativeInherited
Yeast Phenotype (YP)chemical compound accumulation0InformativeDirect
Yeast Phenotype (YP)vegetative growth0InformativeDirect
Yeast Phenotype (YP)chromosome/plasmid maintenance0.0004165InformativeDirect
Yeast Phenotype (YP)intracellular transport0.002827InformativeInherited
Yeast Phenotype (YP)endocytosis0.0001169Highly InformativeDirect

Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details) Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)somatic cell0Least InformativeDirect
Fly Anatomy (FA)developing material anatomical entity0Moderately InformativeDirect
Fly Anatomy (FA)stem cell0Moderately InformativeDirect
Fly Anatomy (FA)neuroblast0InformativeDirect
Fly Anatomy (FA)type I neuroblast0Highly InformativeDirect
Fly Anatomy (FA)type II 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)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 componentMicrotubule0.0004227InformativeDirect
DomainCoiled coil0Moderately InformativeDirect
Post-translational modificationChaperone0InformativeDirect
Post-translational modificationAcetylation0.0000000001065Least InformativeDirect
Post-translational modificationPhosphoprotein0.0005206Least InformativeDirect
Post-translational modificationUbl conjugation0.00000005753Moderately InformativeDirect
Post-translational modificationIsopeptide bond0.0000006501Moderately 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) · 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 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) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]