P21693 (DBPA_ECOLI) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
ATP-independent RNA helicase dbpA
EC=3.6.4.13

Gene names

Name:	dbpA
Ordered Locus Names:	b1343, JW1337

Organism

Escherichia coli (strain K12)

Taxonomic identifier

83333 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacteriales › Enterobacteriaceae › Escherichia

Protein attributes

Sequence length	457 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Has a helix-destabilizing activity, which is not coupled to the ATPase activity. Can unwind the 23S rRNA as well as 16S rRNA. Exhibits an RNA-dependent ATPase activity, specifically stimulated by bacterial 23S rRNA. Could play a major role in ribosome assembly, specifically in the assembly process of the active center of 50S ribosomal subunits.
Catalytic activity	ATP + H2O = ADP + phosphate.
Subcellular location	Cytoplasm Probable.
Sequence similarities	Belongs to the DEAD box helicase family. DbpA subfamily. Contains 1 helicase ATP-binding domain. Contains 1 helicase C-terminal domain.
Sequence caution	The sequence CAA36872.1 differs from that shown. Reason: Erroneous initiation.

Ontologies

Keywords
Biological process	Ribosome biogenesis
Cellular component	Cytoplasm
Ligand	ATP-binding Nucleotide-binding RNA-binding
Molecular function	Helicase Hydrolase
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	ribosomal large subunit assembly Inferred from mutant phenotype. Source: EcoCyc
Cellular component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	ADP binding Inferred from direct assay. Source: EcoCyc ATP binding Inferred from direct assay. Source: EcoCyc ATP-dependent 3'-5' RNA helicase activity Inferred from direct assay. Source: EcoCyc DNA/RNA helicase activity Inferred from direct assay Ref.6. Source: EcoliWiki rRNA binding Inferred from direct assay. Source: EcoCyc
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 457	457	ATP-independent RNA helicase dbpA		PRO_0000055096
Regions
	Domain	34 – 205	172	Helicase ATP-binding
	Domain	230 – 376	147	Helicase C-terminal
	Nucleotide binding	47 – 54	8	ATP By similarity
	Motif	3 – 31	29	Q motif
	Motif	153 – 156	4	DEAD box

Sequences

	Sequence		Length	Mass (Da)
	P21693 [UniParc]. Last modified October 1, 1993. Version 2. Checksum: D9198B1FABA4D38A	FASTA	457	49,188
	10 20 30 40 50 60 MTAFSTLNVL PPAQLTNLNE LGYLTMTPVQ AAALPAILAG KDVRVQAKTG SGKTAAFGLG 70 80 90 100 110 120 LLQQIDASLF QTQALVLCPT RELADQVAGE LRRLARFLPN TKILTLCGGQ PFGMQRDSLQ 130 140 150 160 170 180 HAPHIIVATP GRLLDHLQKG TVSLDALNTL VMDEADRMLD MGFSDAIDDV IRFAPASRQT 190 200 210 220 230 240 LLFSATWPEA IAAISGRVQR DPLAIEIDST DALPPIEQQF YETSSKGKIP LLQRLLSLHQ 250 260 270 280 290 300 PSSCVVFCNT KKDCQAVCDA LNEVGQSALS LHGDLEQRDR DQTLVRFANG SARVLVATDV 310 320 330 340 350 360 AARGLDIKSL ELVVNFELAW DPEVHVHRIG RTARAGNSGL AISFCAPEEA QRANIISDML 370 380 390 400 410 420 QIKLNWQTPP ANSSIATLEA EMATLCIDGG KKAKMRPGDV LGALTGDIGL DGADIGKIAV 430 440 450 HPAHVYVAVR QAVAHKAWKQ LQGGKIKGKT CRVRLLK

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Identification of a putative RNA helicase in E.coli." Iggo R., Picksley S., Southgate J., McPheat J., Lane D.P. Nucleic Acids Res. 18:5413-5417(1990) [PubMed: 2216714] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]	"DbpA: a DEAD box protein specifically activated by 23s rRNA." Fuller-Pace F.V., Nicol S.M., Reid A.D., Lane D.P. EMBO J. 12:3619-3626(1993) [PubMed: 8253085] [Abstract] Cited for: SEQUENCE REVISION TO N-TERMINUS, CHARACTERIZATION.
[3]	"A 570-kb DNA sequence of the Escherichia coli K-12 genome corresponding to the 28.0-40.1 min region on the linkage map." Aiba H., Baba T., Fujita K., Hayashi K., Inada T., Isono K., Itoh T., Kasai H., Kashimoto K., Kimura S., Kitakawa M., Kitagawa M., Makino K., Miki T., Mizobuchi K., Mori H., Mori T., Motomura K. , Nakade S., Nakamura Y., Nashimoto H., Nishio Y., Oshima T., Saito N., Sampei G., Seki Y., Sivasundaram S., Tagami H., Takeda J., Takemoto K., Takeuchi Y., Wada C., Yamamoto Y., Horiuchi T. DNA Res. 3:363-377(1996) [PubMed: 9097039] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
[4]	"The complete genome sequence of Escherichia coli K-12." Blattner F.R., Plunkett G. III, Bloch C.A., Perna N.T., Burland V., Riley M., Collado-Vides J., Glasner J.D., Rode C.K., Mayhew G.F., Gregor J., Davis N.W., Kirkpatrick H.A., Goeden M.A., Rose D.J., Mau B., Shao Y. Science 277:1453-1474(1997) [PubMed: 9278503] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / MG1655 / ATCC 47076.
[5]	"Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110." Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T. Mol. Syst. Biol. 2:E1-E5(2006) [PubMed: 16738553] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
[6]	"Characterization of DbpA, an Escherichia coli DEAD box protein with ATP independent RNA unwinding activity." Boeddecker N., Stade K., Franceschi F. Nucleic Acids Res. 25:537-544(1997) [PubMed: 9016593] [Abstract] Cited for: CHARACTERIZATION.
[7]	"The Escherichia coli DEAD protein DbpA recognizes a small RNA hairpin in 23S rRNA." Tsu C.A., Kossen K., Uhlenbeck O.C. RNA 7:702-709(2001) [PubMed: 11350034] [Abstract] Cited for: CHARACTERIZATION.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	X52647 Genomic DNA. Translation: CAA36872.1. Different initiation. U00096 Genomic DNA. Translation: AAC74425.1. AP009048 Genomic DNA. Translation: BAA14946.1.
PIR	B64884.
RefSeq	NP_415859.1. NC_000913.2.
3D structure databases
ProteinModelPortal	P21693.
SMR	P21693. Positions 1-456.
ModBase	Search...
Protein-protein interaction databases
IntAct	P21693. 6 interactions.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	EBESCT00000004879; EBESCP00000004879; EBESCG00000003984. EBESCT00000014318; EBESCP00000013609; EBESCG00000013380.
GeneID	947153.
GenomeReviews	Gene locus JW1337 in contig AP009048_GR. Gene locus b1343 in contig U00096_GR.
KEGG	ecj:JW1337. eco:b1343.
PATRIC	32117966. VBIEscCol129921_1403.
Organism-specific databases
EchoBASE	EB0206.
EcoGene	EG10210. dbpA.
Phylogenomic databases
eggNOG	COG0513.
GeneTree	EBGT00050000008320.
HOGENOM	HBG737336.
OMA	KAREDDI.
PhylomeDB	P21693.
ProtClustDB	PRK11776.
Enzyme and pathway databases
BioCyc	EcoCyc:EG10210-MONOMER. MetaCyc:EG10210-MONOMER.
Gene expression databases
Genevestigator	P21693.
Family and domain databases
InterPro	IPR005580. DbpA_RNA-bd. IPR014001. DEAD-like_helicase. IPR011545. DNA/RNA_helicase_DEAD/DEAH_N. IPR001650. Helicase_C. IPR000629. RNA-helicase_DEAD-box_CS. IPR014014. RNA_helicase_DEAD_Q_motif. [Graphical view]
KO	K05591.
Pfam	PF03880. DbpA. 1 hit. PF00270. DEAD. 1 hit. PF00271. Helicase_C. 1 hit. [Graphical view]
SMART	SM00487. DEXDc. 1 hit. SM00490. HELICc. 1 hit. [Graphical view]
PROSITE	PS00039. DEAD_ATP_HELICASE. 1 hit. PS51192. HELICASE_ATP_BIND_1. 1 hit. PS51194. HELICASE_CTER. 1 hit. PS51195. Q_MOTIF. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

DBPA_ECOLI

Accession

Primary (citable) accession number: P21693

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 1, 1991
Last sequence update:	October 1, 1993
Last modified:	January 25, 2012
This is version 102 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program