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Protein

Transcription initiation factor IIB

Gene

ttb-1

Organism
Caenorhabditis elegans
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

General factor that plays a major role in the activation of eukaryotic genes transcribed by RNA polymerase II.By similarity

Cofactori

Zn2+By similarityNote: Binds 1 zinc ion per subunit.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi7 – 71ZincBy similarity
Metal bindingi10 – 101ZincBy similarity
Metal bindingi26 – 261ZincBy similarity
Metal bindingi29 – 291ZincBy similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri3 – 3432TFIIB-typePROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

Metal-binding, Zinc

Enzyme and pathway databases

ReactomeiR-CEL-674695. RNA Polymerase II Pre-transcription Events.
R-CEL-6807505. RNA polymerase II transcribes snRNA genes.
R-CEL-73776. RNA Polymerase II Promoter Escape.
R-CEL-73779. RNA Polymerase II Transcription Pre-Initiation And Promoter Opening.
R-CEL-75953. RNA Polymerase II Transcription Initiation.
R-CEL-76042. RNA Polymerase II Transcription Initiation And Promoter Clearance.

Names & Taxonomyi

Protein namesi
Recommended name:
Transcription initiation factor IIB
Alternative name(s):
General transcription factor TFIIB
Gene namesi
Name:ttb-1
ORF Names:W03F9.5
OrganismiCaenorhabditis elegans
Taxonomic identifieri6239 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
Proteomesi
  • UP000001940 Componenti: Chromosome V

Organism-specific databases

WormBaseiW03F9.5; CE27396; WBGene00006648; ttb-1.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 306306Transcription initiation factor IIBPRO_0000119298Add
BLAST

Proteomic databases

EPDiO16991.
PaxDbiO16991.

Interactioni

Subunit structurei

Associates with TFIID-IIA (DA complex) to form TFIID-IIA-IIB (DAB-complex) which is then recognized by polymerase II.By similarity

Protein-protein interaction databases

STRINGi6239.W03F9.5.3.

Structurei

3D structure databases

ProteinModelPortaliO16991.
SMRiO16991. Positions 5-51, 100-304.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati114 – 190771Add
BLAST
Repeati208 – 284772Add
BLAST

Sequence similaritiesi

Belongs to the TFIIB family.Curated
Contains 1 TFIIB-type zinc finger.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri3 – 3432TFIIB-typePROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiKOG1597. Eukaryota.
COG1405. LUCA.
GeneTreeiENSGT00390000006671.
HOGENOMiHOG000108634.
InParanoidiO16991.
KOiK03124.
OMAiYMASHIR.
PhylomeDBiO16991.

Family and domain databases

Gene3Di1.10.472.10. 2 hits.
InterProiIPR013763. Cyclin-like.
IPR000812. TFIIB.
IPR023486. TFIIB_CS.
IPR013150. TFIIB_cyclin.
IPR013137. Znf_TFIIB.
[Graphical view]
PANTHERiPTHR11618. PTHR11618. 1 hit.
PfamiPF08271. TF_Zn_Ribbon. 1 hit.
PF00382. TFIIB. 2 hits.
[Graphical view]
PRINTSiPR00685. TIFACTORIIB.
SMARTiSM00385. CYCLIN. 2 hits.
[Graphical view]
SUPFAMiSSF47954. SSF47954. 2 hits.
PROSITEiPS00782. TFIIB. 2 hits.
PS51134. ZF_TFIIB. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

O16991-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSAPVQCPIH PDVHLIEDHR AGDLVCPACG LVVGDRLVDV GTEWRSFSNE
60 70 80 90 100
RSGNDPSRVG APENPLLSGG DLSTTIAVGF GGSDSDNSLA NAQRKSMNNT
110 120 130 140 150
DRQMTAAMSL IREMSERIHL PRNIQDSASR IFKDVLESKA LRGKNNEAQA
160 170 180 190 200
AACLYIACRK DGVPRTFKEI CAVSRVSKKE IGRCFKIIVR SLETNLEQIT
210 220 230 240 250
SADFMSRFCG NLSLPNSIQA AATRIAKCAV DMDLVAGRTP ISIAAAAIYM
260 270 280 290 300
ASQASAEKRS AKEIGDVAGA AEITVRQTYK LLYPKALELF PKDFRFVTPI

DALPNS
Length:306
Mass (Da):33,102
Last modified:October 1, 2001 - v2
Checksum:iACA6B94A8A5A8D59
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
FO081767 Genomic DNA. Translation: CCD74279.1.
RefSeqiNP_503146.1. NM_070745.4.
UniGeneiCel.5540.

Genome annotation databases

EnsemblMetazoaiW03F9.5.1; W03F9.5.1; WBGene00006648.
W03F9.5.2; W03F9.5.2; WBGene00006648.
W03F9.5.3; W03F9.5.3; WBGene00006648.
GeneIDi178544.
KEGGicel:CELE_W03F9.5.
UCSCiW03F9.5.1. c. elegans.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
FO081767 Genomic DNA. Translation: CCD74279.1.
RefSeqiNP_503146.1. NM_070745.4.
UniGeneiCel.5540.

3D structure databases

ProteinModelPortaliO16991.
SMRiO16991. Positions 5-51, 100-304.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi6239.W03F9.5.3.

Proteomic databases

EPDiO16991.
PaxDbiO16991.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblMetazoaiW03F9.5.1; W03F9.5.1; WBGene00006648.
W03F9.5.2; W03F9.5.2; WBGene00006648.
W03F9.5.3; W03F9.5.3; WBGene00006648.
GeneIDi178544.
KEGGicel:CELE_W03F9.5.
UCSCiW03F9.5.1. c. elegans.

Organism-specific databases

CTDi178544.
WormBaseiW03F9.5; CE27396; WBGene00006648; ttb-1.

Phylogenomic databases

eggNOGiKOG1597. Eukaryota.
COG1405. LUCA.
GeneTreeiENSGT00390000006671.
HOGENOMiHOG000108634.
InParanoidiO16991.
KOiK03124.
OMAiYMASHIR.
PhylomeDBiO16991.

Enzyme and pathway databases

ReactomeiR-CEL-674695. RNA Polymerase II Pre-transcription Events.
R-CEL-6807505. RNA polymerase II transcribes snRNA genes.
R-CEL-73776. RNA Polymerase II Promoter Escape.
R-CEL-73779. RNA Polymerase II Transcription Pre-Initiation And Promoter Opening.
R-CEL-75953. RNA Polymerase II Transcription Initiation.
R-CEL-76042. RNA Polymerase II Transcription Initiation And Promoter Clearance.

Miscellaneous databases

PROiO16991.

Family and domain databases

Gene3Di1.10.472.10. 2 hits.
InterProiIPR013763. Cyclin-like.
IPR000812. TFIIB.
IPR023486. TFIIB_CS.
IPR013150. TFIIB_cyclin.
IPR013137. Znf_TFIIB.
[Graphical view]
PANTHERiPTHR11618. PTHR11618. 1 hit.
PfamiPF08271. TF_Zn_Ribbon. 1 hit.
PF00382. TFIIB. 2 hits.
[Graphical view]
PRINTSiPR00685. TIFACTORIIB.
SMARTiSM00385. CYCLIN. 2 hits.
[Graphical view]
SUPFAMiSSF47954. SSF47954. 2 hits.
PROSITEiPS00782. TFIIB. 2 hits.
PS51134. ZF_TFIIB. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Genome sequence of the nematode C. elegans: a platform for investigating biology."
    The C. elegans sequencing consortium
    Science 282:2012-2018(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Bristol N2.

Entry informationi

Entry nameiTF2B_CAEEL
AccessioniPrimary (citable) accession number: O16991
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 6, 2002
Last sequence update: October 1, 2001
Last modified: June 8, 2016
This is version 104 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Caenorhabditis elegans
    Caenorhabditis elegans: entries, gene names and cross-references to WormBase
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.