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Protein

RecBCD enzyme subunit RecB

Gene

recB

Organism
Dickeya dadantii (strain Ech703)
Status
Unreviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

A helicase/nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Degrades ssDNA until it encounters a chi (crossover hotspot instigator) sequence from the 3' direction. Cuts DNA near or within the chi site, which attenuates 3'- but not 5'-exonuclease activity. The altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades foreign DNA, contributing to antiviral protection. This subunit has DNA-dependent ATPase activity, exo- and endonuclease activity, 3'-5' helicase activity and loads RecA onto ssDNA.UniRule annotation

Catalytic activityi

Exonucleolytic cleavage (in the presence of ATP) in either 5'- to 3'- or 3'- to 5'-direction to yield 5'-phosphooligonucleotides.UniRule annotation

Cofactori

Mg2+UniRule annotationNote: Binds 1 Mg2+ ion per subunit.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi958 – 9581Magnesium; via tele nitrogenUniRule annotation
Metal bindingi1069 – 10691MagnesiumUniRule annotation
Metal bindingi1082 – 10821MagnesiumUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi24 – 318ATPUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

EndonucleaseUniRule annotation, ExonucleaseUniRule annotationSAAS annotation, HelicaseUniRule annotationSAAS annotation, Hydrolase, Nuclease

Keywords - Biological processi

Antiviral defenseUniRule annotation, DNA damage, DNA repairUniRule annotationSAAS annotation

Keywords - Ligandi

ATP-binding, DNA-bindingUniRule annotationSAAS annotation, MagnesiumUniRule annotation, Metal-bindingUniRule annotation, Nucleotide-binding

Enzyme and pathway databases

BioCyciDDAD579405:GHJU-3068-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
RecBCD enzyme subunit RecBUniRule annotation (EC:3.1.11.5UniRule annotation)
Alternative name(s):
Exonuclease V subunit RecBUniRule annotation
Helicase/nuclease RecBCD subunit RecBUniRule annotation
Gene namesi
Name:recBUniRule annotation
Ordered Locus Names:Dd703_3007Imported
OrganismiDickeya dadantii (strain Ech703)Imported
Taxonomic identifieri579405 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeDickeya
ProteomesiUP000002734 Componenti: Chromosome

Interactioni

Subunit structurei

Heterotrimer of RecB, RecC and RecD. All subunits contribute to DNA-binding. Interacts with RecA.UniRule annotation

Protein-protein interaction databases

STRINGi579405.Dd703_3007.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini3 – 452450UvrD-like helicase ATP-bindingUniRule annotationAdd
BLAST
Domaini482 – 748267UvrD-like helicase C-terminalUniRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni1 – 857857DNA-binding and helicase activity, interacts with RecCUniRule annotationAdd
BLAST
Regioni902 – 1189288Nuclease activity, interacts with RecD and RecAUniRule annotationAdd
BLAST

Domaini

The C-terminal domain has nuclease activity and interacts with RecD. It interacts with RecA, facilitating its loading onto ssDNA.UniRule annotation
The N-terminal DNA-binding domain is a ssDNA-dependent ATPase and has ATP-dependent 3'-5' helicase function. This domain interacts with RecC.UniRule annotation

Sequence similaritiesi

Belongs to the helicase family. UvrD subfamily.UniRule annotation
Contains 1 uvrD-like helicase ATP-binding domain.UniRule annotation
Contains 1 uvrD-like helicase C-terminal domain.UniRule annotation
Contains uvrD-like helicase ATP-binding domain.SAAS annotation
Contains uvrD-like helicase C-terminal domain.SAAS annotation

Phylogenomic databases

eggNOGiCOG1074.
HOGENOMiHOG000258330.
KOiK03582.
OMAiHIGELLQ.
OrthoDBiEOG6677M1.

Family and domain databases

Gene3Di3.40.50.300. 5 hits.
3.90.320.10. 1 hit.
HAMAPiMF_01485. RecB.
InterProiIPR014017. DNA_helicase_UvrD-like_C.
IPR000212. DNA_helicase_UvrD/REP.
IPR011604. Exonuc_phg/RecB_C.
IPR027417. P-loop_NTPase.
IPR004586. RecB.
IPR011335. Restrct_endonuc-II-like.
IPR014016. UvrD-like_ATP-bd.
[Graphical view]
PANTHERiPTHR11070. PTHR11070. 1 hit.
PfamiPF00580. UvrD-helicase. 1 hit.
PF13361. UvrD_C. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 4 hits.
SSF52980. SSF52980. 1 hit.
TIGRFAMsiTIGR00609. recB. 1 hit.
PROSITEiPS51198. UVRD_HELICASE_ATP_BIND. 1 hit.
PS51217. UVRD_HELICASE_CTER. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

C6CC22-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNERRSESLN LLTLPLLGER LIEASAGTGK TYTLAGLYLR LLLGLGGENA
60 70 80 90 100
YPRPLSVEEI LVVTFTEAAT QELRDRIRDK IHSLYLACLR NESDEPLVKL
110 120 130 140 150
LLAEIPDAFR AEAAQVLLRA ERQMDEAAVH TIHGFCQRML ATNAFESGVL
160 170 180 190 200
FEQRLVEDET PLYRQACADF WRRFCYPLPL SVASELGREW AGPDALLQDL
210 220 230 240 250
MPYLHGEMPL LRRPPDPDET LLARHQNIIA RLETFKAAWL GVAKELEALI
260 270 280 290 300
GSSGVDKRRY SSRYLPLWLS NVTAWAQQPT RNYQLPKELE RFGQRELNQR
310 320 330 340 350
TIKGEPPQHA IFLAVDDLLQ SSLTLRDLAI SLALSEVRLS IREEKQRRAE
360 370 380 390 400
LGFDDLLSRL DEALQQDAGQ ALAQAIRERY PLAMIDEFQD TDAQQYRIFS
410 420 430 440 450
TIYADQPQCG WLMIGDPKQA IYAFRGADIF TYMRAREDVP SHYTLDTNWR
460 470 480 490 500
STPGMVEAVN RLFQCADTPF VFSQIPFLPV NAADNNRSLT FEYQGSRMPA
510 520 530 540 550
MRFWLTGREG VGVGDYQQAM ARQCADSICS WLSAGQRGEA WLTRGEMRRP
560 570 580 590 600
VVASDITVLV RSRYEAALIR QALGRLNIPS VYLSNRDSVF AASEATELLW
610 620 630 640 650
LLQAVLAPEQ ERLLRGAMAT SLMGMDAAAL DELCRNESQW DALVDEFAGY
660 670 680 690 700
RHIWGQRGVL PMLRRLMQQH RLAENLLASP EGERRLTDVL HIGELLQEAS
710 720 730 740 750
AALDSEHALV RWLAQQIAQP NSQSESQQLR LESDRHLVQI VTIHKSKGLE
760 770 780 790 800
YALVWLPFIC NFRAQPQGIY HDRQTLLPTL DLNGGEESRT LAEEERLAED
810 820 830 840 850
LRLLYVALTR SIYHCAVGVA PLYLRSQKKE GNSDMHSSAL GYLLQRGAAA
860 870 880 890 900
PADVLVAALE AMAGDDIDIA DVVAEDGEPW RPALETAPLL QVRQNKRQLH
910 920 930 940 950
DRWRVTSYSG LQQHGASAIQ ELFPRLDLET KGEEAQAPDE AFTPHTFPRG
960 970 980 990 1000
AAPGTFLHSL FEQLEFTAAI DEPWLLEQLR QQGMAEEWQP VVKAWLATVL
1010 1020 1030 1040 1050
DTPLTPEHIR LSALESRFRQ SELQFYLPIA SMLDAGKLDR LAKTHDPLSA
1060 1070 1080 1090 1100
DCPALDFQQV KGMLKGFIDL VFFWQGRYYL LDYKSNWLGP DAGAYTQPAM
1110 1120 1130 1140 1150
HRAMAEHRYD LQYQLYSLAL HRYLRHRVPG YDYQRHFGGV IYLFLRGISA
1160 1170 1180
AYPGHGVFFT KPAQLLVDGL DLLFQGDTTI MDDEGAGNA
Length:1,189
Mass (Da):134,528
Last modified:September 1, 2009 - v1
Checksum:i208F5E1F3C58387E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001654 Genomic DNA. Translation: ACS86782.1.
RefSeqiWP_015854683.1. NC_012880.1.
YP_002988604.1. NC_012880.1.

Genome annotation databases

EnsemblBacteriaiACS86782; ACS86782; Dd703_3007.
KEGGidda:Dd703_3007.
PATRICi21793583. VBIDicDad95084_3194.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001654 Genomic DNA. Translation: ACS86782.1.
RefSeqiWP_015854683.1. NC_012880.1.
YP_002988604.1. NC_012880.1.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi579405.Dd703_3007.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACS86782; ACS86782; Dd703_3007.
KEGGidda:Dd703_3007.
PATRICi21793583. VBIDicDad95084_3194.

Phylogenomic databases

eggNOGiCOG1074.
HOGENOMiHOG000258330.
KOiK03582.
OMAiHIGELLQ.
OrthoDBiEOG6677M1.

Enzyme and pathway databases

BioCyciDDAD579405:GHJU-3068-MONOMER.

Family and domain databases

Gene3Di3.40.50.300. 5 hits.
3.90.320.10. 1 hit.
HAMAPiMF_01485. RecB.
InterProiIPR014017. DNA_helicase_UvrD-like_C.
IPR000212. DNA_helicase_UvrD/REP.
IPR011604. Exonuc_phg/RecB_C.
IPR027417. P-loop_NTPase.
IPR004586. RecB.
IPR011335. Restrct_endonuc-II-like.
IPR014016. UvrD-like_ATP-bd.
[Graphical view]
PANTHERiPTHR11070. PTHR11070. 1 hit.
PfamiPF00580. UvrD-helicase. 1 hit.
PF13361. UvrD_C. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 4 hits.
SSF52980. SSF52980. 1 hit.
TIGRFAMsiTIGR00609. recB. 1 hit.
PROSITEiPS51198. UVRD_HELICASE_ATP_BIND. 1 hit.
PS51217. UVRD_HELICASE_CTER. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Ech703Imported.

Entry informationi

Entry nameiC6CC22_DICDC
AccessioniPrimary (citable) accession number: C6CC22
Entry historyi
Integrated into UniProtKB/TrEMBL: September 1, 2009
Last sequence update: September 1, 2009
Last modified: May 27, 2015
This is version 45 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteomeImported

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.