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P95989

- RPOD_SULSO

UniProt

P95989 - RPOD_SULSO

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Protein

DNA-directed RNA polymerase subunit D

Gene

rpoD

Organism
Sulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli

Functioni

DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.

Catalytic activityi

Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).

Cofactori

[4Fe-4S] cluster1 PublicationNote: Binds 1 [4Fe-4S] cluster.1 Publication

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi183 – 1831Iron-sulfur (4Fe-4S)1 Publication
Metal bindingi203 – 2031Iron-sulfur (4Fe-4S)1 Publication
Metal bindingi206 – 2061Iron-sulfur (4Fe-4S)1 Publication
Metal bindingi209 – 2091Iron-sulfur (4Fe-4S)1 Publication

GO - Molecular functioni

  1. 4 iron, 4 sulfur cluster binding Source: UniProtKB-KW
  2. DNA binding Source: UniProtKB-HAMAP
  3. DNA-directed RNA polymerase activity Source: UniProtKB-HAMAP
  4. metal ion binding Source: UniProtKB-KW

GO - Biological processi

  1. transcription, DNA-templated Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Nucleotidyltransferase, Transferase

Keywords - Biological processi

Transcription

Keywords - Ligandi

4Fe-4S, Iron, Iron-sulfur, Metal-binding

Enzyme and pathway databases

BioCyciSSOL273057:GCH2-70-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA-directed RNA polymerase subunit D (EC:2.7.7.6)
Gene namesi
Name:rpoD
Ordered Locus Names:SSO0071
ORF Names:C04_051
OrganismiSulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)
Taxonomic identifieri273057 [NCBI]
Taxonomic lineageiArchaeaCrenarchaeotaThermoproteiSulfolobalesSulfolobaceaeSulfolobus
ProteomesiUP000001974: Chromosome

Subcellular locationi

Keywords - Cellular componenti

DNA-directed RNA polymerase

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi183 – 1831C → S: Abolishes iron-sulfur-binding, causing aggregation of RpoD and preventing the functional RpoD-RpoL subcomplex from being formed; when associated with S-203; S-206 and S-209. 1 Publication
Mutagenesisi203 – 2031C → S: Abolishes iron-sulfur-binding, causing aggregation of RpoD and preventing the functional RpoD-RpoL subcomplex from being formed; when associated with S-183; S-206 and S-209. 1 Publication
Mutagenesisi206 – 2061C → S: Abolishes iron-sulfur-binding, causing aggregation of RpoD and preventing the functional RpoD-RpoL subcomplex from being formed; when associated with S-183; S-203 and S-209. 1 Publication
Mutagenesisi209 – 2091C → S: Abolishes iron-sulfur-binding, causing aggregation of RpoD and preventing the functional RpoD-RpoL subcomplex from being formed; when associated with S-183; S-203 and S-206. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 265265DNA-directed RNA polymerase subunit DPRO_0000132765Add
BLAST

Interactioni

Protein-protein interaction databases

DIPiDIP-60646N.
STRINGi273057.SSO0071.

Structurei

Secondary structure

1
265
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi3 – 86Combined sources
Beta strandi10 – 2011Combined sources
Helixi22 – 3413Combined sources
Beta strandi38 – 4912Combined sources
Beta strandi51 – 533Combined sources
Helixi55 – 628Combined sources
Helixi72 – 754Combined sources
Helixi79 – 813Combined sources
Turni90 – 923Combined sources
Beta strandi93 – 1019Combined sources
Beta strandi103 – 1053Combined sources
Beta strandi107 – 1104Combined sources
Helixi111 – 1133Combined sources
Beta strandi115 – 1184Combined sources
Beta strandi129 – 1335Combined sources
Beta strandi138 – 14811Combined sources
Turni150 – 1523Combined sources
Helixi154 – 1563Combined sources
Beta strandi159 – 17214Combined sources
Helixi179 – 1824Combined sources
Beta strandi188 – 1914Combined sources
Beta strandi194 – 1985Combined sources
Helixi200 – 2023Combined sources
Helixi208 – 2136Combined sources
Beta strandi216 – 23217Combined sources
Beta strandi234 – 2363Combined sources
Helixi238 – 26326Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2PA8X-ray1.76D1-265[»]
2PMZX-ray3.40D/S1-265[»]
3HKZX-ray3.40D/O1-265[»]
ProteinModelPortaliP95989.
SMRiP95989. Positions 2-265.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP95989.

Family & Domainsi

Domaini

The presence of the 4Fe-4S iron-sulfur is required for assembly of the RNA polymerase complex.1 Publication

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0202.
HOGENOMiHOG000230844.
InParanoidiP95989.
KOiK03047.
OMAiSVAAHRY.

Family and domain databases

Gene3Di2.170.120.12. 1 hit.
HAMAPiMF_00320. RNApol_arch_D.
InterProiIPR001514. DNA-dir_RNA_pol_30-40kDasu_CS.
IPR011262. DNA-dir_RNA_pol_insert.
IPR011263. DNA-dir_RNA_pol_RpoA/D/Rpb3.
IPR009025. RBP11-like_dimer.
IPR022842. RNAP_D.
[Graphical view]
PfamiPF01000. RNA_pol_A_bac. 1 hit.
PF01193. RNA_pol_L. 1 hit.
[Graphical view]
SMARTiSM00662. RPOLD. 1 hit.
[Graphical view]
SUPFAMiSSF55257. SSF55257. 2 hits.
SSF56553. SSF56553. 1 hit.
PROSITEiPS00446. RNA_POL_D_30KD. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P95989-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MSINLLHKDD TRIDLVFEGY PLEFVNAIRR ASMLYVPIMA VDDVYFIENN
60 70 80 90 100
SPLYDEILAH RLALIPFMSE EALDTYRWPE ECIECTENCE KCYTKIYIEA
110 120 130 140 150
EAPNEPRMIY SKDIKSEDPS VVPISGDIPI VLLGTNQKIS LEARLRLGYG
160 170 180 190 200
KEHAKFIPVS LSVVRYYPKV EILANCEKAV NVCPEGVFEL KDGKLSVKNE
210 220 230 240 250
LSCTLCEECL RYCNGSIRIS FVEDKYILEI ESVGSLKPER ILLEAGKSII
260
RKIEELEKKL VEVVK
Length:265
Mass (Da):30,294
Last modified:May 1, 1997 - v1
Checksum:iC5B9B863A78250AA
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y08257 Genomic DNA. Translation: CAA69531.1.
AE006641 Genomic DNA. Translation: AAK40433.1.
PIRiS75417.
RefSeqiNP_341643.1. NC_002754.1.

Genome annotation databases

EnsemblBacteriaiAAK40433; AAK40433; SSO0071.
GeneIDi1455324.
KEGGisso:SSO0071.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y08257 Genomic DNA. Translation: CAA69531.1 .
AE006641 Genomic DNA. Translation: AAK40433.1 .
PIRi S75417.
RefSeqi NP_341643.1. NC_002754.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
2PA8 X-ray 1.76 D 1-265 [» ]
2PMZ X-ray 3.40 D/S 1-265 [» ]
3HKZ X-ray 3.40 D/O 1-265 [» ]
ProteinModelPortali P95989.
SMRi P95989. Positions 2-265.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

DIPi DIP-60646N.
STRINGi 273057.SSO0071.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAK40433 ; AAK40433 ; SSO0071 .
GeneIDi 1455324.
KEGGi sso:SSO0071.

Phylogenomic databases

eggNOGi COG0202.
HOGENOMi HOG000230844.
InParanoidi P95989.
KOi K03047.
OMAi SVAAHRY.

Enzyme and pathway databases

BioCyci SSOL273057:GCH2-70-MONOMER.

Miscellaneous databases

EvolutionaryTracei P95989.

Family and domain databases

Gene3Di 2.170.120.12. 1 hit.
HAMAPi MF_00320. RNApol_arch_D.
InterProi IPR001514. DNA-dir_RNA_pol_30-40kDasu_CS.
IPR011262. DNA-dir_RNA_pol_insert.
IPR011263. DNA-dir_RNA_pol_RpoA/D/Rpb3.
IPR009025. RBP11-like_dimer.
IPR022842. RNAP_D.
[Graphical view ]
Pfami PF01000. RNA_pol_A_bac. 1 hit.
PF01193. RNA_pol_L. 1 hit.
[Graphical view ]
SMARTi SM00662. RPOLD. 1 hit.
[Graphical view ]
SUPFAMi SSF55257. SSF55257. 2 hits.
SSF56553. SSF56553. 1 hit.
PROSITEi PS00446. RNA_POL_D_30KD. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Organizational characteristics and information content of an archaeal genome: 156 kb of sequence from Sulfolobus solfataricus P2."
    Sensen C.W., Klenk H.-P., Singh R.K., Allard G., Chan C.C.-Y., Liu Q.Y., Penny S.L., Young F., Schenk M.E., Gaasterland T., Doolittle W.F., Ragan M.A., Charlebois R.L.
    Mol. Microbiol. 22:175-191(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 35092 / DSM 1617 / JCM 11322 / P2.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 35092 / DSM 1617 / JCM 11322 / P2.
  3. "The X-ray crystal structure of RNA polymerase from Archaea."
    Hirata A., Klein B.J., Murakami K.S.
    Nature 451:851-854(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.76 ANGSTROMS) OF THE RNA POLYMERASE COMPLEX IN COMPLEX WITH IRON, IRON-SULFUR-BINDING, COFACTOR, MUTAGENESIS OF CYS-183; CYS-203; CYS-206 AND CYS-209.

Entry informationi

Entry nameiRPOD_SULSO
AccessioniPrimary (citable) accession number: P95989
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: May 1, 1997
Last modified: November 26, 2014
This is version 106 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