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 cancer0.4674Least InformativeInherited
Disease Ontology (DO)cell type cancer0.547Moderately InformativeInherited
Disease Ontology (DO)respiratory system cancer0.1253InformativeInherited
Disease Ontology (DO)carcinoma0.2802InformativeInherited
Disease Ontology (DO)pulmonary large cell neuroendocrine carcinoma0.00000002047Highly InformativeDirect
Disease Ontology (DO)neuroendocrine carcinoma0.000003125Highly 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 head0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the eye0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of limbs0.1105Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the upper limb0.0392Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the lower limb0.04643Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skin morphology0.1064Moderately InformativeInherited
Phenotypic Abnormality (PA)Regional abnormality of skin0.0133InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the palm0.0373InformativeInherited
Phenotypic Abnormality (PA)Palmar hyperkeratosis0.000002719Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormal blistering of the skin0.0002677Highly InformativeDirect
Phenotypic Abnormality (PA)Ichthyosis0.000348Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the plantar skin of foot0.0004813Highly 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 variant0.0001157Least InformativeDirect
Worm Phenotype (WP)organ system morphology variant0.0001696Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.000862Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.0008845Least InformativeDirect
Worm Phenotype (WP)early embryonic lethal0.00001017Moderately InformativeDirect
Worm Phenotype (WP)reproductive system morphology variant0.1135Moderately InformativeInherited
Worm Phenotype (WP)movement variant0.138Moderately InformativeInherited
Worm Phenotype (WP)cell component morphology variant0.2304Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0.2676Moderately InformativeInherited
Worm Phenotype (WP)embryonic cell organization biogenesis variant0.00000008979InformativeDirect
Worm Phenotype (WP)protruding vulva0.00000661InformativeDirect
Worm Phenotype (WP)pronucleus centrosomes defective early emb0.000004134Highly InformativeDirect
Worm Phenotype (WP)mitotic spindle defective early emb0.00002404Highly 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)morphology0.001098Moderately InformativeInherited
Yeast Phenotype (YP)chemical compound accumulation0InformativeDirect
Yeast Phenotype (YP)vegetative growth0InformativeDirect
Yeast Phenotype (YP)chromosome/plasmid maintenance0.0004166InformativeDirect
Yeast Phenotype (YP)intracellular transport0.002857InformativeInherited
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)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)genital 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

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 ]