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Protein

Transcription initiation factor IIB

Gene

tfb

Organism
Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Stabilizes TBP binding to an archaeal box-A promoter. Also responsible for recruiting RNA polymerase II to the pre-initiation complex (DNA-TBP-TFIIB).

Cofactori

Zn2+Note: Binds 1 zinc ion per subunit.

Sites

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

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri2 – 3433TFIIB-typeUniRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Transcription initiation factor IIBUniRule annotation
Short name:
TFIIBUniRule annotation
Gene namesi
Name:tfbUniRule annotation
Ordered Locus Names:PF1377
OrganismiPyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)
Taxonomic identifieri186497 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
ProteomesiUP000001013 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 300300Transcription initiation factor IIBPRO_0000119327Add
BLAST

Proteomic databases

PRIDEiP61998.

Interactioni

Protein-protein interaction databases

MINTiMINT-1525443.
STRINGi186497.PF1377.

Structurei

Secondary structure

1
300
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Turni8 – 103Combined sources
Beta strandi15 – 184Combined sources
Turni19 – 224Combined sources
Beta strandi23 – 297Combined sources
Beta strandi42 – 454Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1PFTNMR-A1-49[»]
ProteinModelPortaliP61998.
SMRiP61998. Positions 1-49, 101-300.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP61998.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati114 – 197841Add
BLAST
Repeati210 – 291822Add
BLAST

Sequence similaritiesi

Belongs to the TFIIB family.UniRule annotation
Contains 1 TFIIB-type zinc finger.UniRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri2 – 3433TFIIB-typeUniRule annotationAdd
BLAST

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiCOG1405.
HOGENOMiHOG000108633.
KOiK03124.
OMAiVLRWRKW.

Family and domain databases

Gene3Di1.10.472.10. 2 hits.
HAMAPiMF_00383. TF2B_arch.
InterProiIPR013763. Cyclin-like.
IPR000812. TFIIB.
IPR023484. TFIIB_arc.
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.

P61998-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNKQKVCPAC ESAELIYDPE RGEIVCAKCG YVIEENIIDM GPEWRAFDAS
60 70 80 90 100
QRERRSRTGA PESILLHDKG LSTEIGIDRS LSGLMREKMY RLRKWQSRLR
110 120 130 140 150
VSDAAERNLA FALSELDRIT AQLKLPRHVE EEAARLYREA VRKGLIRGRS
160 170 180 190 200
IESVMAACVY AACRLLKVPR TLDEIADIAR VDKKEIGRSY RFIARNLNLT
210 220 230 240 250
PKKLFVKPTD YVNKFADELG LSEKVRRRAI EILDEAYKRG LTSGKSPAGL
260 270 280 290 300
VAAALYIASL LEGEKRTQRE VAEVARVTEV TVRNRYKELV EKLKIKVPIA
Length:300
Mass (Da):34,106
Last modified:June 7, 2004 - v1
Checksum:i476D7CA32B2ED4C1
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U48391 Genomic DNA. Translation: AAC43724.1.
AE009950 Genomic DNA. Translation: AAL81501.1.
PIRiT46883.
RefSeqiNP_579106.1. NC_003413.1.
WP_011012524.1. NC_003413.1.

Genome annotation databases

EnsemblBacteriaiAAL81501; AAL81501; PF1377.
GeneIDi1469253.
KEGGipfu:PF1377.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U48391 Genomic DNA. Translation: AAC43724.1.
AE009950 Genomic DNA. Translation: AAL81501.1.
PIRiT46883.
RefSeqiNP_579106.1. NC_003413.1.
WP_011012524.1. NC_003413.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1PFTNMR-A1-49[»]
ProteinModelPortaliP61998.
SMRiP61998. Positions 1-49, 101-300.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

MINTiMINT-1525443.
STRINGi186497.PF1377.

Proteomic databases

PRIDEiP61998.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAL81501; AAL81501; PF1377.
GeneIDi1469253.
KEGGipfu:PF1377.

Phylogenomic databases

eggNOGiCOG1405.
HOGENOMiHOG000108633.
KOiK03124.
OMAiVLRWRKW.

Miscellaneous databases

EvolutionaryTraceiP61998.

Family and domain databases

Gene3Di1.10.472.10. 2 hits.
HAMAPiMF_00383. TF2B_arch.
InterProiIPR013763. Cyclin-like.
IPR000812. TFIIB.
IPR023484. TFIIB_arc.
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

« Hide 'large scale' publications
  1. "A transcription factor (TFIIB) homolog from the hyperthermophilic archaeon Pyrococcus furiosus binds Zn or Fe in an N-terminal Cys4 motif."
    Zeng Q., Lewis L.M., Colangelo C.M., Dong J., Scott R.A.
    J. Biol. Inorg. Chem. 1:162-168(1996)
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  2. "Divergence of the hyperthermophilic archaea Pyrococcus furiosus and P. horikoshii inferred from complete genomic sequences."
    Maeder D.L., Weiss R.B., Dunn D.M., Cherry J.L., Gonzalez J.M., DiRuggiero J., Robb F.T.
    Genetics 152:1299-1305(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 43587 / DSM 3638 / JCM 8422 / Vc1.
  3. "The N-terminal domain of TFIIB from Pyrococcus furiosus forms a zinc ribbon."
    Zhu W., Zeng Q., Colangelo C.M., Lewis L.M., Summers M.F., Scott R.A.
    Nat. Struct. Biol. 3:122-124(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: STRUCTURE BY NMR OF 1-50.

Entry informationi

Entry nameiTF2B_PYRFU
AccessioniPrimary (citable) accession number: P61998
Secondary accession number(s): P29095, Q51731
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 7, 2004
Last sequence update: June 7, 2004
Last modified: January 7, 2015
This is version 83 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.