Reviewed, UniProtKB/Swiss-Prot Q06FN2 (RPAL1_PELHO)

Names and origin

Protein names

Recommended name:
    Putative DNA-directed RNA polymerase subunit alpha-like 1
      Short name=Putative PEP 1
    EC=2.7.7.6
Alternative name(s):
    Putative plastid-encoded RNA polymerase subunit alpha 1
      Short name=Putative RNA polymerase subunit alpha 1

Gene names

Name:	rpoAL1-A
Synonyms:	ORF574
AND
Name:	rpoAL1-B
Synonyms:	ORF574

Encoded on

Plastid; Chloroplast

Organism

Pelargonium hortorum (Common geranium)

Taxonomic identifier

4031 [NCBI]

Taxonomic lineage

Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › rosids › malvids › Geraniales › Geraniaceae › Pelargonium

Protein attributes

Sequence length	574 AA.
Sequence status	Complete.
Protein existence	Uncertain.

General annotation (Comments)

Function	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. HAMAP MF_00059
Catalytic activity	Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). HAMAP MF_00059
Subunit structure	In plastids the minimal PEP RNA polymerase catalytic core is composed of four subunits: alpha, beta, beta', and beta''. When a (nuclear-encoded) sigma factor is associated with the core the holoenzyme is formed, which can initiate transcription By similarity. HAMAP MF_00059
Subcellular location	Plastid › chloroplast HAMAP MF_00059.
Domain	The N-terminal domain is essential for RNAP assembly and basal transcription, whereas the C-terminal domain is involved in interaction with transcriptional regulators and with upstream promoter elements By similarity. HAMAP MF_00059
Sequence similarities	Belongs to the RNA polymerase alpha chain family.
Caution	Could be the product of a pseudogene. There are 3 rpoA-like genes in this organism (found in the inverted repeat). None of them are convincing as rpoA, and it may be that the functional gene is in the nucleus. This gene however is found in the correct operon context.

Ontologies

Keywords
Biological process	Transcription
Cellular component	Chloroplast DNA-directed RNA polymerase Plastid
Molecular function	Nucleotidyltransferase Transferase
Gene Ontology (GO)
Biological process	transcription, DNA-dependent Inferred from electronic annotation. Source: HAMAP
Cellular component	chloroplast Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	DNA binding Inferred from electronic annotation. Source: HAMAP DNA-directed RNA polymerase activity Inferred from electronic annotation. Source: HAMAP protein dimerization activity Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 574	574	Putative DNA-directed RNA polymerase subunit alpha-like 1 HAMAP MF_00059		PRO_0000296901
Regions
	Region	1 – 352	352	Alpha N-terminal domain (alpha-NTD) By similarity
	Region	419 – 574	156	Alpha C-terminal domain (alpha-CTD) By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q06FN2-1 [UniParc]. Last modified October 31, 2006. Version 1. Checksum: A95901B4F66096ED	FASTA	574	66,533
	10 20 30 40 50 60 MTNNKNFADW DSLECKDLHN DLLYGRFALS PLTAKESRLL KKGLREALLT GILCLRFTHA 70 80 90 100 110 120 KIQNACKNLN LMNIVGIQES LDEILKNFGK IILTGKLEEF VGKGPFVAIL DVRGPLNAMA 130 140 150 160 170 180 VDIELPPGIK VEIETQHIAT ITEPIPFVVE LRIELVSSTS KGETGITDEE GFSIDPNPPI 190 200 210 220 230 240 QKVNSSIQGY EYGGQTFQTL FIEILSTSPT VPNKALLLVS MKIMNLFQIV LQAKYLDYKE 250 260 270 280 290 300 LEKGIHVGVF CVSALRAEQS KWIKTILEDA LYMVGGRKHQ GPLTDEEDDS IDSNFTPVQN 310 320 330 340 350 360 LDCRIESYEE EGQTFQRLFL EIWTKSPTEP QEALWEASAK ILELFSLFLQ TSKENEKDLK 370 380 390 400 410 420 QIIKDWTENK RKHQEVLRLL DSEESGSIGW ITKMKLAYMH MTLLSMNAMY ILLVHRLKPD 430 440 450 460 470 480 YDRYNSITDQ IVQELRASLN KLREIQKGEY SEQRILVHSI AQEIEAALQK YETTYKLDDF 490 500 510 520 530 540 VIKAKKDMIT MIWDKERADL ESSLIRWESD EDYLNLKKMN PVEMDRSFAE LQYQETLRKE 550 560 570 QDEQSSQQQK DQMEKRRWER QNRERERKRG NREF

References

[1]

"The complete chloroplast genome sequence of Pelargonium x hortorum: organization and evolution of the largest and most highly rearranged chloroplast genome of land plants." Chumley T.W., Palmer J.D., Mower J.P., Fourcade H.M., Calie P.J., Boore J.L., Jansen R.K. Mol. Biol. Evol. 23:2175-2190(2006) [PubMed: 16916942] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Ringo White.

Cross-references

Sequence databases
EMBL GenBank DDBJ	DQ897681 Genomic DNA. Translation: ABI17299.1. DQ897681 Genomic DNA. Translation: ABI17341.1.
RefSeq	YP_784107.1. YP_784149.1.
3D structure databases
SMR	Q06FN2. Positions 5-349.
ModBase	Search...
Genome annotation databases
GeneID	4362839. 4362958.
Enzyme and pathway databases
BRENDA	2.7.7.6. 280179.
Family and domain databases
HAMAP	MF_00059. RNApol_bact_RpoA. Divergent sequence. [Tree]
InterPro	IPR011262. DNA-dir_RNA_pol_insert. IPR009025. DNA-dir_RNA_pol_RBP11-like. [Graphical view]
Gene3D	G3DSA:2.170.120.12. RNAP_insert. 1 hit.
ProtoNet	Search...

Entry information

Entry name

RPAL1_PELHO

Accession

Primary (citable) accession number: Q06FN2

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 24, 2007
Last sequence update:	October 31, 2006
Last modified:	February 9, 2010
This is version 17 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)