DNA ligase - Variola virus (isolate Human/India/Ind3/1967) (VARV)

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P33798 (DNLI_VAR67) Reviewed, UniProtKB/Swiss-Prot

Last modified October 19, 2011. Version 71. History...

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

Documents (1) |

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:
DNA ligase
EC=6.5.1.1

Alternative name(s):
Polydeoxyribonucleotide synthase [ATP]

Gene names

Name:	LIG
ORF Names:	A50R, J4R

Organism

Variola virus (isolate Human/India/Ind3/1967) (VARV) (Smallpox virus)

Taxonomic identifier

587200 [NCBI]

Taxonomic lineage

Viruses › dsDNA viruses, no RNA stage › Poxviridae › Chordopoxvirinae › Orthopoxvirus

Virus host

Homo sapiens (Human) [TaxID: 9606]

Protein attributes

Sequence length	552 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	DNA ligase that seals nicks in double-stranded DNA during DNA replication, DNA recombination and DNA repair. Recruits cellular topoisomerase II to sites of viral replication and assembly By similarity.
Catalytic activity	ATP + (deoxyribonucleotide)(n) + (deoxyribonucleotide)(m) = AMP + diphosphate + (deoxyribonucleotide)(n+m).
Cofactor	Divalent metal cations By similarity.
Subunit structure	Interacts with host TOP2A and TOP2B By similarity.
Subcellular location	Host cytoplasm. Note: Found in sites viral of replication and assembly By similarity.
Sequence similarities	Belongs to the ATP-dependent DNA ligase family.

Ontologies

Keywords
Biological process	Cell cycle Cell division DNA damage DNA recombination DNA repair DNA replication
Cellular component	Host cytoplasm
Ligand	ATP-binding Metal-binding Nucleotide-binding
Molecular function	Ligase
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	DNA ligation involved in DNA repair Inferred from electronic annotation. Source: InterPro DNA recombination Inferred from electronic annotation. Source: UniProtKB-KW DNA replication Inferred from electronic annotation. Source: UniProtKB-KW cell cycle Inferred from electronic annotation. Source: UniProtKB-KW cell division Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	host cell cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW DNA binding Inferred from electronic annotation. Source: InterPro DNA ligase (ATP) activity Inferred from electronic annotation. Source: EC metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 552

552

DNA ligase

PRO_0000059590

Sites

Active site

231

N6-AMP-lysine intermediate By similarity

Metal binding

283

Divalent metal cation 1 By similarity

Metal binding

377

Divalent metal cation 2 By similarity

Binding site

229

ATP By similarity

Binding site

236

ATP By similarity

Binding site

251

ATP By similarity

Binding site

283

ATP By similarity

Binding site

317

ATP By similarity

Binding site

393

ATP By similarity

Binding site

397

ATP By similarity

Experimental info

Sequence conflict

194

D → N in AAA60905. Ref.4

Sequences

Sequence

Length

Mass (Da)

Tools

P33798 [UniParc].

Last modified February 1, 1994. Version 1.
Checksum: 618EDFB5B92FCE7D
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FASTA

552

63,382

        10         20         30         40         50         60 
MTSLREFRKL CCAIYHASGY KEKSKLIRDF ITDRDDKYLI IKLLLPGLDD RIYNMNDKQI 

        70         80         90        100        110        120 
IKIYSIIFKQ SQKDMLQDLG YGYIGDTIST FFKENTEIRP RNKSILTLED VDSFLTTLSS 

       130        140        150        160        170        180 
ITKESHQIKL LTDIASVCTC NDLKCVVMLI DKDLKIKAGP RYVLNAISPH AYDVFRKSNN 

       190        200        210        220        230        240 
LKEIIENESK QNLDSISVSV MTPINPMLAE SCDSVNKAFK KFPSGMFAEV KYDGERVQVH 

       250        260        270        280        290        300 
KNNNEFAFFS RNMKPVLSYK VDYLKEYIPK AFKKATSIVL DSEIVLVDEH NVQLPFGSLG 

       310        320        330        340        350        360 
IHKKKEYKNS NMCLFVFDCL YFDGFDMTDI PLYKRRSFLK DVMVEIPNRI VFSELTNISN 

       370        380        390        400        410        420 
ESQLTDVLDD ALTRKLEGLV LKDINGVYEP GKRRWLKIKR DYLNEGSMAD SADLVVLGAY 

       430        440        450        460        470        480 
YGKGAKGGIM AVFLMGCYDD ESGKWKTVTK CSGHDDNTLR VLQDQLTMVK INKDPKKIPE 

       490        500        510        520        530        540 
WLVVNKIYIP DFVVEDPKQS QIWEISGAEF TSSKSHTANG ISIRFPRFTR IREDKTWKES 

       550 
THLNDLVNLT KS

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References

[1]	"Creation of a clone library of fragments from the natural variola virus and study of the structural and functional organization of viral genes from a circle of hosts." Shchelkunov S.N., Marennikova S.S., Totmenin A.V., Blinov V.M., Chizhikov V.E., Gutorov V.V., Safronov P.F., Pozdnyakov S.G., Shelukhina E.M., Gashnikov P.V., Anjaparidze O.G., Sandakhchiev L.S. Dokl. Akad. Nauk SSSR 321:402-406(1991) [PubMed: 1666548] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: India-1967 / Isolate Ind3.
[2]	"Genes of variola and vaccinia viruses necessary to overcome the host protective mechanisms." Shchelkunov S.N., Blinov V.M., Sandakhchiev L.S. FEBS Lett. 319:80-83(1993) [PubMed: 8384129] [Abstract] Cited for: COMPLETE GENOME. Strain: India-1967 / Isolate Ind3.
[3]	"Nucleotide sequence of 21.8 kbp of variola major virus strain Harvey and comparison with vaccinia virus." Aguado B., Selmes I.P., Smith G.L. J. Gen. Virol. 73:2887-2902(1992) [PubMed: 1331292] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: Harvey.
[4]	"Potential virulence determinants in terminal regions of variola smallpox virus genome." Massung R.F., Esposito J.J., Liu L.I., Qi J., Utterback T.R., Knight J.C., Aubin L., Yuran T.E., Parsons J.M., Loparev V.N., Selivanov N.A., Cavallaro K.F., Kerlavage A.R., Mahy B.W.J., Venter J.C. Nature 366:748-751(1993) [PubMed: 8264798] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: Bangladesh-1975.

Cross-references

Sequence databases
EMBL GenBank DDBJ	X69198 Genomic DNA. Translation: CAA49103.1. X67118 Genomic DNA. Translation: CAA47545.1. L22579 Genomic DNA. Translation: AAA60905.1.
PIR	JQ1857. C36854. T28595.
RefSeq	NP_042206.1. NC_001611.1.
3D structure databases
ProteinModelPortal	P33798.
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	1486450.
Phylogenomic databases
ProtClustDB	CLSP2509847.
Family and domain databases
InterPro	IPR000977. DNA_ligase_ATP-dep. IPR012309. DNA_ligase_ATP-dep_C. IPR012310. DNA_ligase_ATP-dep_cent. IPR016059. DNA_ligase_ATP-dep_CS. IPR012308. DNA_ligase_ATP-dep_N. IPR012340. NA-bd_OB-fold. IPR016027. NA-bd_OB-fold-like. [Graphical view]
Gene3D	G3DSA:2.40.50.140. OB_NA_bd_sub. 1 hit.
Pfam	PF04679. DNA_ligase_A_C. 1 hit. PF01068. DNA_ligase_A_M. 1 hit. PF04675. DNA_ligase_A_N. 1 hit. [Graphical view]
SUPFAM	SSF50249. Nucleic_acid_OB. 1 hit.
TIGRFAMs	TIGR00574. Dnl1. 1 hit.
PROSITE	PS00697. DNA_LIGASE_A1. 1 hit. PS00333. DNA_LIGASE_A2. 1 hit. PS50160. DNA_LIGASE_A3. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

DNLI_VAR67

Accession

Primary (citable) accession number: P33798
Secondary accession number(s): Q90028

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 1994
Last sequence update:	February 1, 1994
Last modified:	October 19, 2011
This is version 71 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Viral Protein Annotation Program

Relevant documents

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

Sites

Experimental info

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protocols and materials databases

Genome annotation databases

Phylogenomic databases

Family and domain databases

Entry information

Relevant documents