SUPERFAMILY 1.75 HMM library and genome assignments server


TAF(II)230 TBP-binding fragment superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   TAF(II)230 TBP-binding fragment [ 47054]
Superfamily:   TAF(II)230 TBP-binding fragment [ 47055]
Families:   TAF(II)230 TBP-binding fragment [ 47056]


Superfamily statistics
Genomes (149) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 212 180 1
Proteins 212 180 1


Functional annotation
General category General
Detailed category Protein interaction

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) cellular macromolecule metabolic process 0.0002288 Least Informative Direct
Biological Process (BP) protein metabolic process 0.01204 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.09426 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.001443 Least Informative Inherited
Biological Process (BP) cellular protein modification process 2.182e-05 Moderately Informative Direct
Biological Process (BP) organelle organization 4.863e-05 Moderately Informative Direct
Biological Process (BP) peptidyl-amino acid modification 7.903e-09 Informative Direct
Biological Process (BP) chromosome organization 9.903e-08 Informative Direct
Biological Process (BP) internal protein amino acid acetylation 7.062e-13 Highly Informative Direct
Biological Process (BP) histone modification 1.112e-09 Highly Informative Direct
Biological Process (BP) peptidyl-lysine modification 6.925e-12 Highly Informative Direct
Molecular Function (MF) transferase activity 3.53e-05 Least Informative Direct
Molecular Function (MF) binding 0.007901 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 3.728e-07 Moderately Informative Direct
Molecular Function (MF) DNA binding 2.82e-08 Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 9.086e-05 Least Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorous-containing groups0Least InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases0Moderately InformativeDirect
Enzyme Commission (EC)Acyltransferases0.0001248Moderately InformativeDirect
Enzyme Commission (EC)Non-specific serine/threonine protein kinase0InformativeDirect
Enzyme Commission (EC)Histone acetyltransferase9.708e-13InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTranscription regulation0Moderately InformativeDirect
Biological processCell cycle2.949e-08Moderately InformativeDirect
Cellular componentNucleus0Least InformativeDirect
DomainBromodomain0Highly InformativeDirect
Molecular functionDNA-binding8.843e-07Moderately InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR009067 SSF47055 Protein matches
Abstract

In eukaryotes, the general transcription factor TFIID helps to regulate transcription by RNA polymerase II from class II promoters. TFIID consists of TATA-box-binding proteins (TBP) and TBP-associated factors (TAFIIs), which together mediate both activation and inhibition of transcription. In Drosophila, the N-terminal region of TAFII-230 (the TFIID 230kDa subunit) binds directly to TBP, thereby inhibiting the binding of TBP to the TATA box. The structure of TAFII-230 is comprised of three short helices in an irregular array, which forms the core that occupies the DNA-binding surface of TBP [PubMed9741622]. Note, the Gene3D model in this entry is hitting fewer proteins than it should and is under revision.


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) · Enzyme Commission (EC) · 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 TAF(II)230 TBP-binding fragment 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 TAF(II)230 TBP-binding fragment 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) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]