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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: 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. This sigma factor is the primary sigma factor during exponential growth.SAAS annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi142Magnesium 1; via carbonyl oxygenCombined sources1
Metal bindingi146Magnesium 1; via amide nitrogen and carbonyl oxygenCombined sources1
Metal bindingi161Magnesium 3Combined sources1
Metal bindingi164Magnesium 3Combined sources1
Metal bindingi167Magnesium 4Combined sources1
Metal bindingi263Magnesium 5; via tele nitrogenCombined sources1
Metal bindingi292Magnesium 6; via carbonyl oxygenCombined sources1
Metal bindingi296Magnesium 6; via carbonyl oxygenCombined sources1
Metal bindingi299Magnesium 6; via carbonyl oxygenCombined sources1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
DNA bindingi383 – 402H-T-H motifUniRule annotationAdd BLAST20

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionDNA-bindingUniRule annotationSAAS annotation, Sigma factorUniRule annotationSAAS annotation
Biological processTranscription, Transcription regulation
LigandMagnesiumCombined sources, Metal-bindingCombined sources

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
Proteomesi
  • UP000000532 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

CytoplasmUniRule annotation

Pathology & Biotechi

Chemistry databases

DrugBankiDB08266. methyl [(1E,5R)-5-{(3S)-3-[(2E,4E)-2,5-dimethylocta-2,4-dienoyl]-2,4-dioxo-3,4-dihydro-2H-pyran-6-yl}hexylidene]carbamate.
DB08226. Myxopyronin B.

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:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1IW7X-ray2.60F/P1-423[»]
1SMYX-ray2.70F/P1-423[»]
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-ray3.81F/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[»]
4Q4ZX-ray2.90F1-423[»]
4Q5SX-ray3.00F1-423[»]
5D4CX-ray3.28F/P1-423[»]
5D4DX-ray3.00F/P1-423[»]
5D4EX-ray3.08F/P1-423[»]
5E17X-ray3.20F1-423[»]
5E18X-ray3.30F1-423[»]
5I2DX-ray4.41F/Q1-423[»]
5TMCX-ray2.71F1-423[»]
5TMFX-ray3.00F1-423[»]
ProteinModelPortaliQ5SKW1.
SMRiQ5SKW1.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ5SKW1.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini382 – 408RNA_pol_sigma70InterPro annotationAdd BLAST27

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni187 – 257Sigma-70 factor domain-2UniRule annotationAdd BLAST71

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi211 – 214Interaction with polymerase core subunit RpoCUniRule annotation4

Phylogenomic databases

eggNOGiENOG4105DG1. Bacteria.
COG0568. LUCA.
HOGENOMiHOG000270273.
KOiK03086.
OMAiARVRHIP.
PhylomeDBiQ5SKW1.

Family and domain databases

Gene3Di1.10.10.10. 2 hits.
HAMAPiMF_00963. Sigma70_RpoD_SigA. 1 hit.
InterProiView protein in InterPro
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.
PfamiView protein in Pfam
PF00140. Sigma70_r1_2. 1 hit.
PF04542. Sigma70_r2. 1 hit.
PF04539. Sigma70_r3. 1 hit.
PF04545. Sigma70_r4. 1 hit.
PRINTSiPR00046. SIGMA70FCT.
SUPFAMiSSF88659. SSF88659. 2 hits.
SSF88946. SSF88946. 1 hit.
TIGRFAMsiTIGR02393. RpoD_Cterm. 1 hit.
TIGR02937. sigma70-ECF. 1 hit.
PROSITEiView protein in PROSITE
PS00716. SIGMA70_2. 1 hit.

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:
EMBLi
GenBanki
DDBJi
Links Updated
AP008226 Genomic DNA. Translation: BAD70355.1.
RefSeqiWP_011228005.1. NC_006461.1.
YP_143798.1. NC_006461.1.

Genome annotation databases

EnsemblBacteriaiBAD70355; BAD70355; BAD70355.
GeneIDi3169450.
KEGGittj:TTHA0532.
PATRICifig|300852.9.peg.531.

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.

Entry informationi

Entry nameiQ5SKW1_THET8
AccessioniPrimary (citable) accession number: Q5SKW1
Entry historyiIntegrated into UniProtKB/TrEMBL: December 21, 2004
Last sequence update: December 21, 2004
Last modified: July 5, 2017
This is version 103 of the entry and version 1 of the sequence. See complete history.
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Caution

Lacks conserved residue(s) required for the propagation of feature annotation.UniRule annotation

Keywords - Technical termi

3D-structureCombined sources, Complete proteome, Reference proteomeImported