SUPERFAMILY 1.75 HMM library and genome assignments server

Mediator hinge subcomplex-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   Mediator hinge subcomplex-like [ 140717]
Superfamily:   Mediator hinge subcomplex-like [ 140718] (2)
Families:   CSE2-like [ 140719]
  MED7 hinge region [ 140722]


Superfamily statistics
Genomes (480) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 1,194 1,267 3
Proteins 1,188 1,261 3


Functional annotation
General category Regulation
Detailed category RNA binding, metabolism and transport

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)nitrogen compound metabolic process0.0050220.002219Least InformativeInherited
Biological Process (BP)heterocycle metabolic process0.001310.000473Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process0.0023020.0009929Least InformativeInherited
Biological Process (BP)biosynthetic process0.0021210.0002907Least InformativeInherited
Biological Process (BP)cellular macromolecule metabolic process0.0025320.006936Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process0.0013520.0005464Least InformativeInherited
Biological Process (BP)gene expression0.0000064440.000001064Moderately InformativeDirect
Biological Process (BP)RNA metabolic process0.0000012180.0000002982Moderately InformativeDirect
Biological Process (BP)heterocycle biosynthetic process0.0000066710.00000004599Moderately InformativeDirect
Biological Process (BP)aromatic compound biosynthetic process0.0000038950.00000004624Moderately InformativeDirect
Biological Process (BP)cellular macromolecule biosynthetic process0.0000030180.000000323Moderately InformativeDirect
Biological Process (BP)cellular nitrogen compound biosynthetic process0.0000060370.00000004485Moderately InformativeDirect
Biological Process (BP)organic cyclic compound biosynthetic process0.000013930.0000001862Moderately InformativeDirect
Biological Process (BP)transcription, DNA-templated0.00000000037370.00000000001401InformativeDirect
Biological Process (BP)transcription from RNA polymerase II promoter0.0000000000099440.0000000000003378Highly InformativeDirect
Molecular Function (MF)transcription factor binding transcription factor activity0.00000000000050010.0000000002647Highly InformativeDirect
Cellular Component (CC)intracellular membrane-bounded organelle0.0000072790.0000000009973Least InformativeDirect
Cellular Component (CC)protein complex0.00000000015760Least InformativeDirect
Cellular Component (CC)intracellular organelle part0.0000000083110.000000000000003071Least InformativeDirect
Cellular Component (CC)nuclear part0.000000000000089630Moderately InformativeDirect
Cellular Component (CC)intracellular organelle lumen0.000000000000061040.00000001156Moderately InformativeDirect
Cellular Component (CC)nucleoplasm part00.00000000000001606InformativeDirect

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 aromatic compound metabolic process 0.0005464 Least Informative Direct
Biological Process (BP) biosynthetic process 0.0002907 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0.000473 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.0009929 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 0.002219 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.05498 Least Informative Inherited
Biological Process (BP) developmental process 0.1179 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.1589 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.006936 Least Informative Inherited
Biological Process (BP) gene expression 0.000001064 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0.0000002982 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 0.00000004599 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 0.00000004624 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0.000000323 Moderately Informative Direct
Biological Process (BP) cellular nitrogen compound biosynthetic process 0.00000004485 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 0.0000001862 Moderately Informative Direct
Biological Process (BP) cell differentiation 0.01821 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.003062 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.00243 Moderately Informative Inherited
Biological Process (BP) transcription, DNA-templated 0.00000000001401 Informative Direct
Biological Process (BP) negative regulation of developmental process 0.0000461 Informative Direct
Biological Process (BP) transcription from RNA polymerase II promoter 0.0000000000003378 Highly Informative Direct
Biological Process (BP) negative regulation of cell differentiation 0.00002513 Highly Informative Direct
Biological Process (BP) stem cell development 0.000000002153 Highly Informative Direct
Molecular Function (MF) transcription factor binding transcription factor activity 0.0000000002647 Highly Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.0000000009973 Least Informative Direct
Cellular Component (CC) protein complex 0 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.000000000000003071 Least Informative Direct
Cellular Component (CC) nuclear part 0 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 0.00000001156 Moderately Informative Direct
Cellular Component (CC) nucleoplasm part 0.00000000000001606 Informative Direct

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 processTranscription regulation0Moderately InformativeDirect
Cellular componentNucleus0Least InformativeDirect
DomainCoiled coil0Moderately InformativeDirect
Post-translational modificationActivator0Moderately InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-quality) · 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 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 Mediator hinge subcomplex-like 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 Mediator hinge subcomplex-like 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-quality) · Gene Ontology (high-coverage) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]