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Q5SKW1

- Q5SKW1_THET8

UniProt

Q5SKW1 - Q5SKW1_THET8

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Protein

RNA polymerase sigma factor SigA

Gene

sigA

Organism
Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
Status
Unreviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli

Functioni

Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.UniRule annotation
Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is the primary sigma factor during exponential growth.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi292 – 2921Magnesium; via carbonyl oxygenImported
Metal bindingi296 – 2961Magnesium; via carbonyl oxygenImported
Metal bindingi299 – 2991Magnesium; via carbonyl oxygenImported

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi383 – 40220H-T-H motifUniRule annotationAdd
BLAST

GO - Molecular functioni

  1. DNA binding Source: UniProtKB-HAMAP
  2. metal ion binding Source: UniProtKB-KW
  3. sequence-specific DNA binding transcription factor activity Source: InterPro
  4. sigma factor activity Source: UniProtKB-HAMAP

GO - Biological processi

  1. transcription initiation from bacterial-type RNA polymerase promoter Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Sigma factorUniRule annotation

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-bindingUniRule annotation, MagnesiumImported, Metal-bindingImported

Enzyme and pathway databases

BioCyciTTHE300852:GH8R-557-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
RNA polymerase sigma factor SigAUniRule annotation
Gene namesi
Name:sigAUniRule annotation
Ordered Locus Names:TTHA0532Imported
OrganismiThermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)Imported
Taxonomic identifieri300852 [NCBI]
Taxonomic lineageiBacteriaDeinococcus-ThermusDeinococciThermalesThermaceaeThermus
ProteomesiUP000000532: Chromosome

Subcellular locationi

Cytoplasm UniRule annotation

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

CytoplasmUniRule annotation

Interactioni

Subunit structurei

Interacts transiently with the RNA polymerase catalytic core.UniRule annotation

Protein-protein interaction databases

DIPiDIP-47010N.
STRINGi300852.TTHA0532.

Structurei

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1ZYRX-ray3.00F/P1-423[»]
2A68X-ray2.50F/P1-423[»]
2A69X-ray2.50F/P1-423[»]
2A6EX-ray2.80F/P1-423[»]
2A6HX-ray2.40F/P1-423[»]
2BE5X-ray2.40F/P1-423[»]
2CW0X-ray3.30F/P1-423[»]
3DXJX-ray3.00F/P1-423[»]
3EQLX-ray2.70F/P1-423[»]
3WODX-ray3.60F1-423[»]
4G7HX-ray2.90F/P1-423[»]
4G7OX-ray2.99F/P1-423[»]
4G7ZX-ray3.82F/P1-423[»]
4MQ9X-ray3.35F1-423[»]
4OINX-ray2.80F1-423[»]
4OIOX-ray3.10F1-423[»]
4OIPX-ray3.40F1-423[»]
4OIQX-ray3.62F1-423[»]
4OIRX-ray3.10F1-423[»]
4Q5SX-ray3.00F1-423[»]
ProteinModelPortaliQ5SKW1.
SMRiQ5SKW1. Positions 74-423.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ5SKW1.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni187 – 25771Sigma-70 factor domain-2UniRule annotationAdd
BLAST
Regioni266 – 34479Sigma-70 factor domain-3UniRule annotationAdd
BLAST
Regioni357 – 41155Sigma-70 factor domain-4UniRule annotationAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi211 – 2144Interaction with polymerase core subunit RpoCUniRule annotation

Sequence similaritiesi

Belongs to the sigma-70 factor family. RpoD/SigA subfamily.UniRule annotation

Phylogenomic databases

eggNOGiCOG0568.
HOGENOMiHOG000270273.
KOiK03086.
OMAiLHIAREG.
OrthoDBiEOG6XHC70.
PhylomeDBiQ5SKW1.

Family and domain databases

Gene3Di1.10.10.10. 2 hits.
HAMAPiMF_00963. Sigma70_RpoD_SigA.
InterProiIPR014284. RNA_pol_sigma-70_dom.
IPR000943. RNA_pol_sigma70.
IPR009042. RNA_pol_sigma70_r1_2.
IPR007627. RNA_pol_sigma70_r2.
IPR007624. RNA_pol_sigma70_r3.
IPR007630. RNA_pol_sigma70_r4.
IPR013325. RNA_pol_sigma_r2.
IPR013324. RNA_pol_sigma_r3_r4.
IPR012760. RNA_pol_sigma_RpoD_C.
IPR028630. Sigma70_RpoD.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF00140. Sigma70_r1_2. 1 hit.
PF04542. Sigma70_r2. 1 hit.
PF04539. Sigma70_r3. 1 hit.
PF04545. Sigma70_r4. 1 hit.
[Graphical view]
PRINTSiPR00046. SIGMA70FCT.
SUPFAMiSSF88659. SSF88659. 2 hits.
SSF88946. SSF88946. 1 hit.
TIGRFAMsiTIGR02393. RpoD_Cterm. 1 hit.
TIGR02937. sigma70-ECF. 1 hit.
PROSITEiPS00716. SIGMA70_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q5SKW1-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MKKSKRKNAQ AQEAQETEVL VQEEAEELPE FPEGEPDPDL EDPDLTLEDD
60 70 80 90 100
LLDLPEEGEG LDLEEEEEDL PIPKISTSDP VRQYLHEIGQ VPLLTLEEEV
110 120 130 140 150
ELARKVEEGM EAIKKLSEIT GLDPDLIREV VRAKILGSAR VRHIPGLKET
160 170 180 190 200
LDPKTVEEID QKLKSLPKEH KRYLHIAREG EAARQHLIEA NLRLVVSIAK
210 220 230 240 250
KYTGRGLSFL DLIQEGNQGL IRAVEKFEYK RRFKFSTYAT WWIRQAINRA
260 270 280 290 300
IADQARTIRI PVHMVETINK LSRTARQLQQ ELGREPTYEE IAEAMGPGWD
310 320 330 340 350
AKRVEETLKI AQEPVSLETP IGDEKDSFYG DFIPDEHLPS PVDAATQSLL
360 370 380 390 400
SEELEKALSK LSEREAMVLK LRKGLIDGRE HTLEEVGAFF GVTRERIRQI
410 420
ENKALRKLKY HESRTRKLRD FLD
Length:423
Mass (Da):48,524
Last modified:December 21, 2004 - v1
Checksum:iD3A80BF9C929BD09
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AP008226 Genomic DNA. Translation: BAD70355.1.
RefSeqiYP_143798.1. NC_006461.1.

Genome annotation databases

EnsemblBacteriaiBAD70355; BAD70355; BAD70355.
GeneIDi3169450.
KEGGittj:TTHA0532.
PATRICi23956041. VBITheThe93045_0531.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AP008226 Genomic DNA. Translation: BAD70355.1 .
RefSeqi YP_143798.1. NC_006461.1.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1ZYR X-ray 3.00 F/P 1-423 [» ]
2A68 X-ray 2.50 F/P 1-423 [» ]
2A69 X-ray 2.50 F/P 1-423 [» ]
2A6E X-ray 2.80 F/P 1-423 [» ]
2A6H X-ray 2.40 F/P 1-423 [» ]
2BE5 X-ray 2.40 F/P 1-423 [» ]
2CW0 X-ray 3.30 F/P 1-423 [» ]
3DXJ X-ray 3.00 F/P 1-423 [» ]
3EQL X-ray 2.70 F/P 1-423 [» ]
3WOD X-ray 3.60 F 1-423 [» ]
4G7H X-ray 2.90 F/P 1-423 [» ]
4G7O X-ray 2.99 F/P 1-423 [» ]
4G7Z X-ray 3.82 F/P 1-423 [» ]
4MQ9 X-ray 3.35 F 1-423 [» ]
4OIN X-ray 2.80 F 1-423 [» ]
4OIO X-ray 3.10 F 1-423 [» ]
4OIP X-ray 3.40 F 1-423 [» ]
4OIQ X-ray 3.62 F 1-423 [» ]
4OIR X-ray 3.10 F 1-423 [» ]
4Q5S X-ray 3.00 F 1-423 [» ]
ProteinModelPortali Q5SKW1.
SMRi Q5SKW1. Positions 74-423.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

DIPi DIP-47010N.
STRINGi 300852.TTHA0532.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAD70355 ; BAD70355 ; BAD70355 .
GeneIDi 3169450.
KEGGi ttj:TTHA0532.
PATRICi 23956041. VBITheThe93045_0531.

Phylogenomic databases

eggNOGi COG0568.
HOGENOMi HOG000270273.
KOi K03086.
OMAi LHIAREG.
OrthoDBi EOG6XHC70.
PhylomeDBi Q5SKW1.

Enzyme and pathway databases

BioCyci TTHE300852:GH8R-557-MONOMER.

Miscellaneous databases

EvolutionaryTracei Q5SKW1.

Family and domain databases

Gene3Di 1.10.10.10. 2 hits.
HAMAPi MF_00963. Sigma70_RpoD_SigA.
InterProi IPR014284. RNA_pol_sigma-70_dom.
IPR000943. RNA_pol_sigma70.
IPR009042. RNA_pol_sigma70_r1_2.
IPR007627. RNA_pol_sigma70_r2.
IPR007624. RNA_pol_sigma70_r3.
IPR007630. RNA_pol_sigma70_r4.
IPR013325. RNA_pol_sigma_r2.
IPR013324. RNA_pol_sigma_r3_r4.
IPR012760. RNA_pol_sigma_RpoD_C.
IPR028630. Sigma70_RpoD.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view ]
Pfami PF00140. Sigma70_r1_2. 1 hit.
PF04542. Sigma70_r2. 1 hit.
PF04539. Sigma70_r3. 1 hit.
PF04545. Sigma70_r4. 1 hit.
[Graphical view ]
PRINTSi PR00046. SIGMA70FCT.
SUPFAMi SSF88659. SSF88659. 2 hits.
SSF88946. SSF88946. 1 hit.
TIGRFAMsi TIGR02393. RpoD_Cterm. 1 hit.
TIGR02937. sigma70-ECF. 1 hit.
PROSITEi PS00716. SIGMA70_2. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Complete genome sequence of Thermus thermophilus HB8."
    Masui R., Kurokawa K., Nakagawa N., Tokunaga F., Koyama Y., Shibata T., Oshima T., Yokoyama S., Yasunaga T., Kuramitsu S.
    Submitted (NOV-2004) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: HB8 / ATCC 27634 / DSM 579Imported.
  2. "Allosteric modulation of the RNA polymerase catalytic reaction is an essential component of transcription control by rifamycins."
    Artsimovitch I., Vassylyeva M.N., Svetlov D., Svetlov V., Perederina A., Igarashi N., Matsugaki N., Wakatsuki S., Tahirov T.H., Vassylyev D.G.
    Cell 122:351-363(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.50 ANGSTROMS).
  3. "Inhibition of bacterial RNA polymerase by streptolydigin: stabilization of a straight-bridge-helix active-center conformation."
    Tuske S., Sarafianos S.G., Wang X., Hudson B., Sineva E., Mukhopadhyay J., Birktoft J.J., Leroy O., Ismail S., Clark A.D., Dharia C., Napoli A., Laptenko O., Lee J., Borukhov S., Ebright R.H., Arnold E.
    Cell 122:541-552(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (3.00 ANGSTROMS).
  4. Cited for: X-RAY CRYSTALLOGRAPHY (2.40 ANGSTROMS).
  5. Cited for: X-RAY CRYSTALLOGRAPHY (2.40 ANGSTROMS).
  6. Cited for: X-RAY CRYSTALLOGRAPHY (3.00 ANGSTROMS).
  7. Cited for: X-RAY CRYSTALLOGRAPHY (2.70 ANGSTROMS).
  8. Cited for: X-RAY CRYSTALLOGRAPHY (2.90 ANGSTROMS) IN COMPLEX WITH MAGNESIUM.
  9. "GE23077 binds to the RNA polymerase 'i' and 'i+1' sites and prevents the binding of initiating nucleotides."
    Zhang Y., Degen D., Ho M.X., Sineva E., Ebright K.Y., Ebright Y.W., Mekler V., Vahedian-Movahed H., Feng Y., Yin R., Tuske S., Irschik H., Jansen R., Maffioli S., Donadio S., Arnold E., Ebright R.H.
    Elife 3:e02450-e02450(2014) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.80 ANGSTROMS) IN COMPLEX WITH MAGNESIUM.

Entry informationi

Entry nameiQ5SKW1_THET8
AccessioniPrimary (citable) accession number: Q5SKW1
Entry historyi
Integrated into UniProtKB/TrEMBL: December 21, 2004
Last sequence update: December 21, 2004
Last modified: October 29, 2014
This is version 79 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

3D-structureImported, Complete proteome, Reference proteomeImported

External Data

Dasty 3