Q57648 (RPOD_METJA) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
DNA-directed RNA polymerase subunit D
EC=2.7.7.6

Gene names

Name:	rpoD
Ordered Locus Names:	MJ0192

Organism

Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (Methanococcus jannaschii) [Reference proteome] [HAMAP]

Taxonomic identifier

243232 [NCBI]

Taxonomic lineage

cellular organisms › Archaea › Euryarchaeota › Methanococci › Methanococcales › Methanocaldococcaceae › Methanocaldococcus › Methanocaldococcus jannaschii

Protein attributes

Sequence length	191 AA.
Sequence status	Complete.
Protein existence	Evidence 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 By similarity. HAMAP-Rule MF_00320
Catalytic activity	Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). HAMAP-Rule MF_00320
Sequence similarities	Belongs to the archaeal RpoD/eukaryotic RPB3 RNA polymerase subunit family.

Ontologies

Keywords
Biological process	Transcription
Cellular component	DNA-directed RNA polymerase
Molecular function	Nucleotidyltransferase Transferase
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	transcription, DNA-dependent Inferred from electronic annotation. Source: HAMAP
Molecular_function	DNA binding Inferred from electronic annotation. Source: HAMAP DNA-directed RNA polymerase activity Inferred from electronic annotation. Source: HAMAP
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
rpoL	Q57832	3	EBI-2567023,EBI-2567038

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 191	191	DNA-directed RNA polymerase subunit D HAMAP-Rule MF_00320		PRO_0000132754

Sequences

	Sequence		Length	Mass (Da)
	Q57648 [UniParc]. Last modified November 1, 1997. Version 1. Checksum: 3F5B96CA0D242A96	FASTA	191	21,699
	10 20 30 40 50 60 MITIKEKRKT RIGEEFIFSL KAPISFSNAI RRIMISEVPT FAIEDVYIYE NSSSMDDEIL 70 80 90 100 110 120 AHRLGLIPIK GKPLLENEVI TFTLEKEGPC TVYSSDLKSE NGEVAFKNIP IVKLGKGQRI 130 140 150 160 170 180 QIECEAIPGI GKVHAKWQPC NAVYKQIADD EVEFFVETFG QMEAEEILEE AVKILKNKAE 190 SFLQQLEMIE Q

References

[1]

"Complete genome sequence of the methanogenic archaeon, Methanococcus jannaschii." Bult C.J., White O., Olsen G.J., Zhou L., Fleischmann R.D., Sutton G.G., Blake J.A., FitzGerald L.M., Clayton R.A., Gocayne J.D., Kerlavage A.R., Dougherty B.A., Tomb J.-F., Adams M.D., Reich C.I., Overbeek R., Kirkness E.F., Weinstock K.G. , Merrick J.M., Glodek A., Scott J.L., Geoghagen N.S.M., Weidman J.F., Fuhrmann J.L., Nguyen D., Utterback T.R., Kelley J.M., Peterson J.D., Sadow P.W., Hanna M.C., Cotton M.D., Roberts K.M., Hurst M.A., Kaine B.P., Borodovsky M., Klenk H.-P., Fraser C.M., Smith H.O., Woese C.R., Venter J.C. Science 273:1058-1073(1996) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440.

Cross-references

Sequence databases
EMBL GenBank DDBJ	L77117 Genomic DNA. Translation: AAB98172.1.
PIR	A64324.
RefSeq	NP_247160.1. NC_000909.1.
3D structure databases
ProteinModelPortal	Q57648.
ModBase	Search...
Protein-protein interaction databases
IntAct	Q57648. 3 interactions.
STRING	243232.MJ0192.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	AAB98172; AAB98172; MJ_0192.
GeneID	1451040.
KEGG	mja:MJ_0192.
Phylogenomic databases
eggNOG	COG0202.
KO	K03047.
OMA	HAKWQPC.
ProtClustDB	PRK14979.
Family and domain databases
Gene3D	2.170.120.12. 1 hit.
HAMAP	MF_00320. RNApol_arch_D.
InterPro	IPR001514. DNA-dir_RNA_pol_30-40kDasu_CS. IPR011261. DNA-dir_RNA_pol_dimersation. IPR011262. DNA-dir_RNA_pol_insert. IPR009025. DNA-dir_RNA_pol_RBP11-like. IPR011263. DNA-dir_RNA_pol_RpoA/D/Rpb3. IPR022842. RNAP_D. [Graphical view]
Pfam	PF01000. RNA_pol_A_bac. 1 hit. PF01193. RNA_pol_L. 1 hit. [Graphical view]
SMART	SM00662. RPOLD. 1 hit. [Graphical view]
SUPFAM	SSF56553. RNAP_insert. 1 hit. SSF55257. RNAP_RBP11-like. 1 hit.
PROSITE	PS00446. RNA_POL_D_30KD. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

RPOD_METJA

Accession

Primary (citable) accession number: Q57648

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1997
Last sequence update:	November 1, 1997
Last modified:	May 1, 2013
This is version 89 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program