SUPERFAMILY 1.75 HMM library and genome assignments server

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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 (733) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 5,432 16,961 3
Proteins 5,425 16,925 3


Functional annotation
General category Processes_IC
Detailed category Protein modification

Document:
Function annotation of SCOP domain superfamilies

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)organ system cancer0.4675Least InformativeInherited
Disease Ontology (DO)cell type cancer0.5469Moderately InformativeInherited
Disease Ontology (DO)respiratory system cancer0.1256InformativeInherited
Disease Ontology (DO)carcinoma0.2805InformativeInherited
Disease Ontology (DO)pulmonary large cell neuroendocrine carcinoma0.00000002091Highly InformativeDirect
Disease Ontology (DO)neuroendocrine carcinoma0.000003171Highly 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 integument0.2933Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of limbs0.3564Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skin morphology0.1295Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the upper limb0.1528Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the lower limb0.1674Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the palm0.03098InformativeInherited
Phenotypic Abnormality (PA)Regional abnormality of skin0.03501InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the plantar skin of foot0.0005121Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormal blistering of the skin0.0007023Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the skin of the palm0.005428Highly InformativeInherited
Phenotypic Abnormality (PA)Epidermal thickening0.01907Highly InformativeInherited

Document: HP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organ system morphology variant0.000221Least InformativeDirect
Worm Phenotype (WP)cell morphology variant0.0002526Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.001147Least InformativeInherited
Worm Phenotype (WP)organism behavior variant0.001418Least InformativeInherited
Worm Phenotype (WP)early embryonic lethal0.00001069Moderately InformativeDirect
Worm Phenotype (WP)cell organization biogenesis variant0.00001374Moderately InformativeDirect
Worm Phenotype (WP)reproductive system morphology variant0.09599Moderately InformativeInherited
Worm Phenotype (WP)movement variant0.1048Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0.2533Moderately InformativeInherited
Worm Phenotype (WP)embryonic cell organization biogenesis variant0.00000009399InformativeDirect
Worm Phenotype (WP)protruding vulva0.00000709InformativeDirect
Worm Phenotype (WP)cytoskeleton organization biogenesis variant0.0001127InformativeDirect
Worm Phenotype (WP)pronucleus centrosomes defective early emb0.000004Highly InformativeDirect
Worm Phenotype (WP)mitotic spindle defective early emb0.00002355Highly 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)morphology0.001111Moderately InformativeInherited
Yeast Phenotype (YP)chemical compound accumulation0InformativeDirect
Yeast Phenotype (YP)vegetative growth0InformativeDirect
Yeast Phenotype (YP)chromosome/plasmid maintenance0.000424InformativeDirect
Yeast Phenotype (YP)intracellular transport0.002868InformativeInherited
Yeast Phenotype (YP)endocytosis0.0001172Highly 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)cell0Least InformativeDirect
Fly Anatomy (FA)somatic precursor cell0Moderately 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)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

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 · 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) ]

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 · 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) · Internal database links ]