ATP-dependent DNA helicase UvrD1 - Mycobacterium tuberculosis

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P0A5A3 (UVRD1_MYCTU) Reviewed, UniProtKB/Swiss-Prot

Last modified May 1, 2013. Version 52. History...

Clusters with 100%, 90%, 50% identity |

Documents (2) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
ATP-dependent DNA helicase UvrD1
EC=3.6.4.12

Gene names

Name:	uvrD1
Synonyms:	ivrd, pcrA
Ordered Locus Names:	Rv0949, MT0976
ORF Names:	MTCY10D7.25c

Organism

Mycobacterium tuberculosis [Reference proteome] [HAMAP]

Taxonomic identifier

1773 [NCBI]

Taxonomic lineage

Bacteria › Actinobacteria › Actinobacteridae › Actinomycetales › Corynebacterineae › Mycobacteriaceae › Mycobacterium › Mycobacterium tuberculosis complex

Protein attributes

Sequence length	771 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	DNA-dependent ATPase, acting on dsDNA with a 3'-ssDNA tail, unwinding with 3'-to 5'-polarity. A minimal tail of 18 nt is required for activity. Also highly efficient on nicked DNA. Involved in the post-incision events of nucleotide excision repair, as well as in nitrosative and oxidative stress response and possibly in persistence in the host. Inhibits RecA-mediated DNA strand exchange; this does not require ATPase activity. When combined with UvrA greatly inhibits RecA-mediated DNA strand exchange. Ref.3 Ref.4 Ref.5
Catalytic activity	ATP + H₂O = ADP + phosphate.
Cofactor	Mg²⁺; Mn²⁺, Cu²⁺, Ni²⁺ and Co²⁺ also support ATPase activity. Ref.3
Enzyme regulation	Inhibited by EDTA. Ref.3
Subunit structure	Monomer. Interacts with RecA. Ref.3 Ref.4
Induction	Up-regulated during mouse infection. Ref.3 Ref.5
Disruption phenotype	Forms small colonies, liquid growth is unchanged. Increased sensitivity to UV light, mitomycin C, nitrosative and oxidative stress; a double uvrA/uvrD1 mutant is even more sensitive. Single uvrD1 mutant is strongly attenuated in late stages of mouse infection, the double uvrA/uvrD1 mutant is strongly attenuated at all stages of infection. Ref.5
Sequence similarities	Belongs to the helicase family. UvrD subfamily. Contains 1 uvrD-like helicase ATP-binding domain. Contains 1 uvrD-like helicase C-terminal domain.
Biophysicochemical properties	Kinetic parameters: kcat is 43 sec(-1) with ATP. K_M=60.2 µM for ATP Ref.3 pH dependence: Optimum pH is 7.5. Temperature dependence: Optimum temperature is 37 degrees Celsius.

Ontologies

Keywords
Biological process	DNA damage DNA repair
Ligand	ATP-binding DNA-binding Nucleotide-binding
Molecular function	Helicase Hydrolase
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	DNA unwinding involved in replication Inferred from electronic annotation. Source: InterPro UV protection Inferred from mutant phenotype PubMed 17376770. Source: MTBBASE double-strand break repair Inferred from mutant phenotype PubMed 17376770. Source: MTBBASE growth Inferred from mutant phenotype PubMed 12657046. Source: MTBBASE negative regulation of strand invasion Inferred from direct assay Ref.4. Source: MTBBASE
Cellular_component	DNA helicase complex Inferred from direct assay PubMed 17376770. Source: MTBBASE cell wall Inferred from direct assay PubMed 15525680. Source: MTBBASE cytoplasm Inferred from electronic annotation. Source: InterPro plasma membrane Inferred from direct assay PubMed 15525680. Source: MTBBASE
Molecular_function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW ATP-dependent 3'-5' DNA helicase activity Inferred from direct assay Ref.3. Source: MTBBASE DNA binding Inferred from electronic annotation. Source: UniProtKB-KW dATP binding Inferred from direct assay Ref.3. Source: MTBBASE magnesium ion binding Inferred from direct assay PubMed 17376770. Source: MTBBASE
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 771

771

ATP-dependent DNA helicase UvrD1

PRO_0000102055

Regions

Domain

21 – 311

291

UvrD-like helicase ATP-binding

Domain

312 – 603

292

UvrD-like helicase C-terminal

Nucleotide binding

45 – 50

ATP By similarity

Sites

Binding site

309

ATP By similarity

Experimental info

Mutagenesis

276

Q → R: Loss of ATPase and DNA unwinding, partially inhibits DNA strand exchange. Ref.4

Sequences

Sequence

Length

Mass (Da)

Tools

P0A5A3 [UniParc].

Last modified March 15, 2005. Version 1.
Checksum: DBAA84E151F4E2C9
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FASTA

771

85,050

        10         20         30         40         50         60 
MSVHATDAKP PGPSPADQLL DGLNPQQRQA VVHEGSPLLI VAGAGSGKTA VLTRRIAYLM 

        70         80         90        100        110        120 
AARGVGVGQI LAITFTNKAA AEMRERVVGL VGEKARYMWV STFHSTCVRI LRNQAALIEG 

       130        140        150        160        170        180 
LNSNFSIYDA DDSRRLLQMV GRDLGLDIKR YSPRLLANAI SNLKNELIDP HQALAGLTED 

       190        200        210        220        230        240 
SDDLARAVAS VYDEYQRRLR AANALDFDDL IGETVAVLQA FPQIAQYYRR RFRHVLVDEY 

       250        260        270        280        290        300 
QDTNHAQYVL VRELVGRDSN DGIPPGELCV VGDADQSIYA FRGATIRNIE DFERDYPDTR 

       310        320        330        340        350        360 
TILLEQNYRS TQNILSAANS VIARNAGRRE KRLWTDAGAG ELIVGYVADN EHDEARFVAE 

       370        380        390        400        410        420 
EIDALAEGSE ITYNDVAVFY RTNNSSRSLE EVLIRAGIPY KVVGGVRFYE RKEIRDIVAY 

       430        440        450        460        470        480 
LRVLDNPGDA VSLRRILNTP RRGIGDRAEA CVAVYAENTG VGFGDALVAA AQGKVPMLNT 

       490        500        510        520        530        540 
RAEKAIAGFV EMFDELRGRL DDDLGELVEA VLERTGYRRE LEASTDPQEL ARLDNLNELV 

       550        560        570        580        590        600 
SVAHEFSTDR ENAAALGPDD EDVPDTGVLA DFLERVSLVA DADEIPEHGA GVVTLMTLHT 

       610        620        630        640        650        660 
AKGLEFPVVF VTGWEDGMFP HMRALDNPTE LSEERRLAYV GITRARQRLY VSRAIVRSSW 

       670        680        690        700        710        720 
GQPMLNPESR FLREIPQELI DWRRTAPKPS FSAPVSGAGR FGSARPSPTR SGASRRPLLV 

       730        740        750        760        770 
LQVGDRVTHD KYGLGRVEEV SGVGESAMSL IDFGSSGRVK LMHNHAPVTK L

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence." Cole S.T., Brosch R., Parkhill J., Garnier T., Churcher C.M., Harris D.E., Gordon S.V., Eiglmeier K., Gas S., Barry C.E. III, Tekaia F., Badcock K., Basham D., Brown D., Chillingworth T., Connor R., Davies R.M., Devlin K. Barrell B.G. Nature 393:537-544(1998) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 25618 / H37Rv.
[2]	"Whole-genome comparison of Mycobacterium tuberculosis clinical and laboratory strains." Fleischmann R.D., Alland D., Eisen J.A., Carpenter L., White O., Peterson J.D., DeBoy R.T., Dodson R.J., Gwinn M.L., Haft D.H., Hickey E.K., Kolonay J.F., Nelson W.C., Umayam L.A., Ermolaeva M.D., Salzberg S.L., Delcher A., Utterback T.R. Fraser C.M. J. Bacteriol. 184:5479-5490(2002) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: CDC 1551 / Oshkosh.
[3]	"Characterization of the helicase activity and substrate specificity of Mycobacterium tuberculosis UvrD." Curti E., Smerdon S.J., Davis E.O. J. Bacteriol. 189:1542-1555(2007) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION AS A HELICASE, BIOPHYSICOCHEMICAL PROPERTIES, COFACTOR, ENZYME REGULATION, SUBUNIT. Strain: ATCC 25618 / H37Rv.
[4]	"Mycobacterium tuberculosis UvrD1 and UvrA proteins suppress DNA strand exchange promoted by cognate and noncognate RecA proteins." Singh P., Patil K.N., Khanduja J.S., Kumar P.S., Williams A., Rossi F., Rizzi M., Davis E.O., Muniyappa K. Biochemistry 49:4872-4883(2010) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION AS AN ATPASE, FUNCTION IN DNA UNWINDING, FUNCTION IN INHIBITION OF DNA STRAND EXCHANGE, INTERACTION WITH RECA, MUTAGENESIS OF GLN-276. Strain: ATCC 25618 / H37Rv.
[5]	"Important role for Mycobacterium tuberculosis UvrD1 in pathogenesis and persistence apart from its function in nucleotide excision repair." Houghton J., Townsend C., Williams A.R., Rodgers A., Rand L., Walker K.B., Bottger E.C., Springer B., Davis E.O. J. Bacteriol. 194:2916-2923(2012) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, INDUCTION, DISRUPTION PHENOTYPE. Strain: ATCC 25618 / H37Rv.

Cross-references

Sequence databases
EMBL GenBank DDBJ	BX842575 Genomic DNA. Translation: CAE55341.1. AE000516 Genomic DNA. Translation: AAK45224.1. AL123456 Genomic DNA. Translation: CCP43697.1.
PIR	C70716.
RefSeq	NP_335410.1. NC_002755.2. YP_006514306.1. NC_018143.1. YP_177772.1. NC_000962.3.
3D structure databases
ProteinModelPortal	P0A5A3.
SMR	P0A5A3. Positions 16-681.
ModBase	Search...
Protein-protein interaction databases
STRING	83332.Rv0949.
Proteomic databases
PRIDE	P0A5A3.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	AAK45224; AAK45224; MT0976.
GeneID	13319506. 885442. 926367.
KEGG	mtc:MT0976. mtu:Rv0949. mtv:RVBD_0949.
PATRIC	18123890. VBIMycTub22151_1068.
Organism-specific databases
TubercuList	Rv0949.
Phylogenomic databases
eggNOG	COG0210.
HOGENOM	HOG000033016.
KO	K03657.
OMA	ASPHSIL.
ProtClustDB	CLSK799345.
Family and domain databases
Gene3D	1.10.10.160. 1 hit.
InterPro	IPR005751. ATP-dep_DNA_helicase_PcrA. IPR013986. DExx_box_DNA_helicase_dom. IPR014017. DNA_helicase_UvrD-like_C. IPR000212. DNA_helicase_UvrD/REP. IPR014016. UvrD-like_ATP-bd. [Graphical view]
PANTHER	PTHR11070. PTHR11070. 1 hit.
Pfam	PF00580. UvrD-helicase. 1 hit. PF13361. UvrD_C. 1 hit. [Graphical view]
TIGRFAMs	TIGR01073. pcrA. 1 hit.
PROSITE	PS51198. UVRD_HELICASE_ATP_BIND. 1 hit. PS51217. UVRD_HELICASE_CTER. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

UVRD1_MYCTU

Accession

Primary (citable) accession number: P0A5A3
Secondary accession number(s): L0T870, P71561

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 15, 2005
Last sequence update:	March 15, 2005
Last modified:	May 1, 2013
This is version 52 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program

Relevant documents

Mycobacterium tuberculosis strains ATCC 25618 / H37Rv and CDC 1551 / Oshkosh

Mycobacterium tuberculosis strains ATCC 25618 / H37Rv and CDC 1551 / Oshkosh: entries and gene names

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Molecule processing

Regions

Sites

Experimental info

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Family and domain databases

Entry information

Relevant documents