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Protein

ATP-dependent RNA helicase DbpA

Gene

dbpA

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

DEAD-box RNA helicase involved in the assembly of the 50S ribosomal subunit. Has an RNA-dependent ATPase activity, which is specific for 23S rRNA, and a 3' to 5' RNA helicase activity that uses the energy of ATP hydrolysis to destabilize and unwind short rRNA duplexes. Requires a single-stranded RNA loading site on the 3' side of the substrate helix.UniRule annotation9 Publications

Catalytic activityi

ATP + H2O = ADP + phosphate.UniRule annotation4 Publications

Enzyme regulationi

Requires hairpin 92 of 23S rRNA for optimal activity. ATPase activity is stimulated by interaction of the N-terminal domain with RNA.3 Publications

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi47 – 54ATPUniRule annotation8

GO - Molecular functioni

  • ADP binding Source: EcoCyc
  • ATPase activity Source: EcoliWiki
  • ATP binding Source: EcoCyc
  • ATP-dependent 3'-5' RNA helicase activity Source: EcoCyc
  • DNA/RNA helicase activity Source: EcoliWiki
  • RNA helicase activity Source: EcoliWiki
  • rRNA binding Source: EcoCyc

GO - Biological processi

  • ribosomal large subunit assembly Source: EcoCyc
  • RNA secondary structure unwinding Source: GO_Central

Keywordsi

Molecular functionHelicase, Hydrolase, RNA-binding
Biological processRibosome biogenesis
LigandATP-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciEcoCyc:EG10210-MONOMER
MetaCyc:EG10210-MONOMER

Names & Taxonomyi

Protein namesi
Recommended name:
ATP-dependent RNA helicase DbpAUniRule annotation (EC:3.6.4.13UniRule annotation)
Gene namesi
Name:dbpAUniRule annotation
Ordered Locus Names:b1343, JW1337
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG10210 dbpA

Subcellular locationi

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi53K → A: Shows accumulation of partially-assembled 45S particles. 1 Publication1
Mutagenesisi154E → A: Shows accumulation of partially-assembled 45S particles. 1 Publication1
Mutagenesisi331R → A: Shows accumulation of partially-assembled 45S particles. Binds rRNA normally but is severely impaired in ATPase and helicase activities. Overexpression confers a dominant slow growth and cold-sensitive phenotype. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000550961 – 457ATP-dependent RNA helicase DbpAAdd BLAST457

Proteomic databases

PaxDbiP21693
PRIDEiP21693

Interactioni

Subunit structurei

Monomer.1 Publication

Protein-protein interaction databases

BioGridi4262985, 99 interactors
IntActiP21693, 6 interactors
STRINGi316385.ECDH10B_1464

Structurei

3D structure databases

ProteinModelPortaliP21693
SMRiP21693
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini34 – 205Helicase ATP-bindingUniRule annotationAdd BLAST172
Domaini230 – 376Helicase C-terminalUniRule annotationAdd BLAST147

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni383 – 457Involved in 23S rRNA bindingUniRule annotationAdd BLAST75

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi3 – 31Q motifAdd BLAST29
Motifi153 – 156DEAD box4

Domaini

Contains an N-terminal domain that binds non-specifically to RNA and a C-terminal domain that binds specifically and tightly to hairpin 92 of 23S rRNA.UniRule annotation2 Publications

Sequence similaritiesi

Belongs to the DEAD box helicase family. DbpA subfamily.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105C1J Bacteria
COG0513 LUCA
HOGENOMiHOG000268809
InParanoidiP21693
KOiK05591
OMAiFGCQALV
PhylomeDBiP21693

Family and domain databases

CDDicd00079 HELICc, 1 hit
Gene3Di3.30.70.330, 1 hit
HAMAPiMF_00965 DEAD_helicase_DbpA, 1 hit
InterProiView protein in InterPro
IPR005580 DbpA/CsdA_RNA-bd_dom
IPR011545 DEAD/DEAH_box_helicase_dom
IPR028619 DEAD_helicase_DbpA
IPR014001 Helicase_ATP-bd
IPR001650 Helicase_C
IPR012677 Nucleotide-bd_a/b_plait_sf
IPR027417 P-loop_NTPase
IPR000629 RNA-helicase_DEAD-box_CS
IPR014014 RNA_helicase_DEAD_Q_motif
PfamiView protein in Pfam
PF03880 DbpA, 1 hit
PF00270 DEAD, 1 hit
PF00271 Helicase_C, 1 hit
SMARTiView protein in SMART
SM00487 DEXDc, 1 hit
SM00490 HELICc, 1 hit
SUPFAMiSSF52540 SSF52540, 1 hit
PROSITEiView protein in PROSITE
PS00039 DEAD_ATP_HELICASE, 1 hit
PS51192 HELICASE_ATP_BIND_1, 1 hit
PS51194 HELICASE_CTER, 1 hit
PS51195 Q_MOTIF, 1 hit

Sequencei

Sequence statusi: Complete.

P21693-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTAFSTLNVL PPAQLTNLNE LGYLTMTPVQ AAALPAILAG KDVRVQAKTG
60 70 80 90 100
SGKTAAFGLG LLQQIDASLF QTQALVLCPT RELADQVAGE LRRLARFLPN
110 120 130 140 150
TKILTLCGGQ PFGMQRDSLQ HAPHIIVATP GRLLDHLQKG TVSLDALNTL
160 170 180 190 200
VMDEADRMLD MGFSDAIDDV IRFAPASRQT LLFSATWPEA IAAISGRVQR
210 220 230 240 250
DPLAIEIDST DALPPIEQQF YETSSKGKIP LLQRLLSLHQ PSSCVVFCNT
260 270 280 290 300
KKDCQAVCDA LNEVGQSALS LHGDLEQRDR DQTLVRFANG SARVLVATDV
310 320 330 340 350
AARGLDIKSL ELVVNFELAW DPEVHVHRIG RTARAGNSGL AISFCAPEEA
360 370 380 390 400
QRANIISDML QIKLNWQTPP ANSSIATLEA EMATLCIDGG KKAKMRPGDV
410 420 430 440 450
LGALTGDIGL DGADIGKIAV HPAHVYVAVR QAVAHKAWKQ LQGGKIKGKT

CRVRLLK
Length:457
Mass (Da):49,188
Last modified:October 1, 1993 - v2
Checksum:iD9198B1FABA4D38A
GO

Sequence cautioni

The sequence CAA36872 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X52647 Genomic DNA Translation: CAA36872.1 Different initiation.
U00096 Genomic DNA Translation: AAC74425.1
AP009048 Genomic DNA Translation: BAA14946.1
PIRiB64884
RefSeqiNP_415859.1, NC_000913.3
WP_000123737.1, NZ_LN832404.1

Genome annotation databases

EnsemblBacteriaiAAC74425; AAC74425; b1343
BAA14946; BAA14946; BAA14946
GeneIDi947153
KEGGiecj:JW1337
eco:b1343
PATRICifig|1411691.4.peg.933

Similar proteinsi

Entry informationi

Entry nameiDBPA_ECOLI
AccessioniPrimary (citable) accession number: P21693
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 1, 1991
Last sequence update: October 1, 1993
Last modified: March 28, 2018
This is version 145 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. SIMILARITY comments
    Index of protein domains and families

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