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P95989 (RPOD_SULSO) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 103. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
DNA-directed RNA polymerase subunit D

EC=2.7.7.6
Gene names
Name:rpoD
Ordered Locus Names:SSO0071
ORF Names:C04_051
OrganismSulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2) [Reference proteome] [HAMAP]
Taxonomic identifier273057 [NCBI]
Taxonomic lineageArchaeaCrenarchaeotaThermoproteiSulfolobalesSulfolobaceaeSulfolobus

Protein attributes

Sequence length265 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. HAMAP-Rule MF_00320

Catalytic activity

Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). HAMAP-Rule MF_00320

Cofactor

Binds 1 4Fe-4S cluster. Ref.3

Domain

The presence of the 4Fe-4S iron-sulfur is required for assembly of the RNA polymerase complex (Ref.3). HAMAP-Rule MF_00320

Sequence similarities

Belongs to the archaeal RpoD/eukaryotic RPB3 RNA polymerase subunit family.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 265265DNA-directed RNA polymerase subunit D HAMAP-Rule MF_00320
PRO_0000132765

Sites

Metal binding1831Iron-sulfur (4Fe-4S)
Metal binding2031Iron-sulfur (4Fe-4S)
Metal binding2061Iron-sulfur (4Fe-4S) Probable
Metal binding2091Iron-sulfur (4Fe-4S)

Experimental info

Mutagenesis1831C → 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. Ref.3
Mutagenesis2031C → 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. Ref.3
Mutagenesis2061C → 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. Ref.3
Mutagenesis2091C → 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. Ref.3

Secondary structure

..................................................... 265
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
P95989 [UniParc].

Last modified May 1, 1997. Version 1.
Checksum: C5B9B863A78250AA

FASTA26530,294
        10         20         30         40         50         60 
MSINLLHKDD TRIDLVFEGY PLEFVNAIRR ASMLYVPIMA VDDVYFIENN SPLYDEILAH 

        70         80         90        100        110        120 
RLALIPFMSE EALDTYRWPE ECIECTENCE KCYTKIYIEA EAPNEPRMIY SKDIKSEDPS 

       130        140        150        160        170        180 
VVPISGDIPI VLLGTNQKIS LEARLRLGYG KEHAKFIPVS LSVVRYYPKV EILANCEKAV 

       190        200        210        220        230        240 
NVCPEGVFEL KDGKLSVKNE LSCTLCEECL RYCNGSIRIS FVEDKYILEI ESVGSLKPER 

       250        260 
ILLEAGKSII RKIEELEKKL VEVVK 

« Hide

References

« Hide 'large scale' references
[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]"The complete genome of the crenarchaeon Sulfolobus solfataricus P2."
She Q., Singh R.K., Confalonieri F., Zivanovic Y., Allard G., Awayez M.J., Chan-Weiher C.C.-Y., Clausen I.G., Curtis B.A., De Moors A., Erauso G., Fletcher C., Gordon P.M.K., Heikamp-de Jong I., Jeffries A.C., Kozera C.J., Medina N., Peng X. expand/collapse author list , Thi-Ngoc H.P., Redder P., Schenk M.E., Theriault C., Tolstrup N., Charlebois R.L., Doolittle W.F., Duguet M., Gaasterland T., Garrett R.A., Ragan M.A., Sensen C.W., Van der Oost J.
Proc. Natl. Acad. Sci. U.S.A. 98:7835-7840(2001) [PubMed] [Europe PMC] [Abstract]
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.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
Y08257 Genomic DNA. Translation: CAA69531.1.
AE006641 Genomic DNA. Translation: AAK40433.1.
PIRS75417.
RefSeqNP_341643.1. NC_002754.1.

3D structure databases

PDBe
RCSB-PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
2PA8X-ray1.76D1-265[»]
2PMZX-ray3.40D/S1-265[»]
3HKZX-ray3.40D/O1-265[»]
ProteinModelPortalP95989.
SMRP95989. Positions 2-265.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

DIPDIP-60646N.
STRING273057.SSO0071.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaAAK40433; AAK40433; SSO0071.
GeneID1455324.
KEGGsso:SSO0071.

Phylogenomic databases

eggNOGCOG0202.
HOGENOMHOG000230844.
KOK03047.
OMASVAAHRY.

Enzyme and pathway databases

BioCycSSOL273057:GCH2-70-MONOMER.

Family and domain databases

Gene3D2.170.120.12. 1 hit.
HAMAPMF_00320. RNApol_arch_D.
InterProIPR001514. 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]
PfamPF01000. RNA_pol_A_bac. 1 hit.
PF01193. RNA_pol_L. 1 hit.
[Graphical view]
SMARTSM00662. RPOLD. 1 hit.
[Graphical view]
SUPFAMSSF55257. SSF55257. 2 hits.
SSF56553. SSF56553. 1 hit.
PROSITEPS00446. RNA_POL_D_30KD. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

EvolutionaryTraceP95989.

Entry information

Entry nameRPOD_SULSO
AccessionPrimary (citable) accession number: P95989
Entry history
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: May 1, 1997
Last modified: May 14, 2014
This is version 103 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references