SUPERFAMILY 1.75 HMM library and genome assignments server


Initiation factor IF2/eIF5b, domain 3 superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   Initiation factor IF2/eIF5b, domain 3 [ 52155]
Superfamily:   Initiation factor IF2/eIF5b, domain 3 [ 52156]
Families:   Initiation factor IF2/eIF5b, domain 3 [ 52157]


Superfamily statistics
Genomes (3,210) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 4,028 17,921 1
Proteins 4,024 17,918 1


Functional annotation
General category Information
Detailed category Transcription

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) biosynthetic process 0 Least Informative Direct
Biological Process (BP) protein metabolic process 0 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 3.306e-14 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.6363 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.2044 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.03797 Least Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) gene expression 4.056e-12 Moderately Informative Direct
Biological Process (BP) regulation of protein metabolic process 0.0001157 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 0.01112 Moderately Informative Inherited
Biological Process (BP) nucleobase-containing small molecule metabolic process 0.00114 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.01916 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 0.08854 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.0297 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 0.02392 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.02575 Moderately Informative Inherited
Biological Process (BP) translation 0 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 5.877e-08 Informative Direct
Biological Process (BP) cellular macromolecular complex assembly 2.017e-05 Informative Direct
Biological Process (BP) ribonucleoprotein complex biogenesis 8.925e-05 Informative Direct
Biological Process (BP) translational initiation 0 Highly Informative Direct
Biological Process (BP) regulation of translation 4.391e-10 Highly Informative Direct
Biological Process (BP) ribonucleoprotein complex subunit organization 2.582e-08 Highly Informative Direct
Molecular Function (MF) binding 1.123e-05 Least Informative Direct
Molecular Function (MF) anion binding 0.0001118 Moderately Informative Direct
Molecular Function (MF) nucleic acid binding 0.003059 Moderately Informative Inherited
Molecular Function (MF) RNA binding 0 Informative Direct
Molecular Function (MF) purine ribonucleoside binding 1.03e-05 Informative Direct
Molecular Function (MF) nucleotide binding 6.979e-05 Informative Direct
Molecular Function (MF) translation factor activity, nucleic acid binding 0 Highly Informative Direct
Molecular Function (MF) ribonucleoprotein complex binding 8.024e-11 Highly Informative Direct
Cellular Component (CC) cytoplasmic part 0.02847 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.521 Least Informative Inherited

Document: GO 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

Document: AP annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processProtein biosynthesis0InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Molecular functionGTP-binding0InformativeDirect
Post-translational modificationInitiation factor0InformativeDirect
Post-translational modificationAutocatalytic cleavage0.1443InformativeInherited
Post-translational modificationProtein splicing1.499e-07Highly InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-coverage) · 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 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 Initiation factor IF2/eIF5b, domain 3 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 Initiation factor IF2/eIF5b, domain 3 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 · Functional annotation · Gene Ontology (high-coverage) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]