SUPERFAMILY 1.75 HMM library and genome assignments server


Pym (Within the bgcn gene intron protein, WIBG), N-terminal domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   WW domain-like [ 51044] (3)
Superfamily:   Pym (Within the bgcn gene intron protein, WIBG), N-terminal domain [ 101931]
Families:   Pym (Within the bgcn gene intron protein, WIBG), N-terminal domain [ 101932]


Superfamily statistics
Genomes (340) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 410 448 1
Proteins 410 444 1


Functional annotation
General category Other
Detailed category Unknown function

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) heterocycle metabolic process 3.519e-13 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 4.751e-13 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 1.668e-12 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 8.987e-12 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 1.459e-10 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0.0004962 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.5679 Least Informative Inherited
Biological Process (BP) RNA metabolic process 0 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 3.143e-09 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 1.334e-08 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 3.53e-07 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 1.474e-05 Moderately Informative Direct
Biological Process (BP) regulation of protein metabolic process 3.969e-05 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 0.0009112 Moderately Informative Direct
Biological Process (BP) regulation of biosynthetic process 0.02965 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 3.826e-13 Informative Direct
Biological Process (BP) nucleobase-containing compound catabolic process 9.44e-09 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 6.632e-08 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 2.071e-07 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.000565 Informative Direct
Biological Process (BP) regulation of translation 2.766e-14 Highly Informative Direct
Biological Process (BP) mRNA catabolic process 2.732e-08 Highly Informative Direct
Molecular Function (MF) binding 0.03003 Least Informative Inherited
Molecular Function (MF) ribonucleoprotein complex binding 0 Highly Informative Direct
Cellular Component (CC) protein complex 7.65e-11 Least Informative Direct
Cellular Component (CC) intracellular organelle part 5.846e-07 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 1.02e-06 Least Informative Direct
Cellular Component (CC) nuclear part 0 Moderately Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTranslation regulation0InformativeDirect
Biological processNonsense-mediated mRNA decay0Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentNucleus0Least InformativeDirect
DomainCoiled coil0Moderately InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR015362 SSF101931 Protein matches
Abstract

Members of this family adopt a structure consisting of a small globular all-beta-domain, with a three-stranded beta-sheet and a contiguous beta-hairpin. They bind to Mago alpha-helices via extensive electrostatic interactions and at a beta2-beta3 loop via hydrophobic interactions [PubMed14968132].


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-coverage) · 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 1 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 Pym (Within the bgcn gene intron protein, WIBG), N-terminal domain 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 1 hidden Markov models representing the Pym (Within the bgcn gene intron protein, WIBG), N-terminal domain 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-coverage) · UniProtKB KeyWords (KW) · Internal database links ]