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P68698

- TOP1_VACCW

UniProt

P68698 - TOP1_VACCW

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Protein

DNA topoisomerase 1B

Gene
TOP1, VACWR104, H6R
Organism
Vaccinia virus (strain Western Reserve) (VACV) (Vaccinia virus (strain WR))
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

Functioni

Releases the supercoiling and torsional tension of DNA introduced during the DNA replication and transcription by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at the specific target site 5'-[CT]CCTTp site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(3'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 5'-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand thus removing DNA supercoils. Finally, in the religation step, the DNA 5'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone.2 Publications

Catalytic activityi

ATP-independent breakage of single-stranded DNA, followed by passage and rejoining.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei168 – 1681Involved in religation By similarity
Active sitei274 – 2741O-(3'-phospho-DNA)-tyrosine intermediate1 Publication

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-KW
  2. DNA binding Source: UniProtKB-KW
  3. DNA topoisomerase type I activity Source: UniProtKB-EC
  4. DNA topoisomerase type II (ATP-hydrolyzing) activity Source: InterPro

GO - Biological processi

  1. DNA topological change Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Isomerase, Topoisomerase

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
DNA topoisomerase 1B (EC:5.99.1.2)
Short name:
TopIB
Alternative name(s):
DNA topoisomerase I
Late protein H6
Gene namesi
Name:TOP1
Ordered Locus Names:VACWR104
ORF Names:H6R
OrganismiVaccinia virus (strain Western Reserve) (VACV) (Vaccinia virus (strain WR))
Taxonomic identifieri10254 [NCBI]
Taxonomic lineageiVirusesdsDNA viruses, no RNA stagePoxviridaeChordopoxvirinaeOrthopoxvirusVaccinia virus
Virus hostiBos taurus (Bovine) [TaxID: 9913]
ProteomesiUP000000344: Genome

Subcellular locationi

Virion Reviewed prediction

GO - Cellular componenti

  1. virion Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Virion

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi216 – 2161G → E or K: No change in activity.
Mutagenesisi217 – 2171I → P: Temperature-sensitive for DNA relaxation in vitro.
Mutagenesisi220 – 2201K → D: Loss of activity.
Mutagenesisi220 – 2201K → I or N: Reduced activity.
Mutagenesisi223 – 2231R → E or G: Loss of activity.
Mutagenesisi223 – 2231R → K: Reduced activity.
Mutagenesisi224 – 2241T → G or P: Reduced activity.
Mutagenesisi225 – 2251Y → H: No change in activity.
Mutagenesisi225 – 2251Y → R or S: Reduced activity.
Mutagenesisi274 – 2741Y → F: Complete loss of activity. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 314314DNA topoisomerase 1BPRO_0000145216Add
BLAST

Expressioni

Inductioni

Expressed in the late phase of the viral replicative cycle.

Keywords - Developmental stagei

Late protein

Structurei

Secondary structure

1
314
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi3 – 75
Beta strandi10 – 145
Helixi27 – 337
Beta strandi41 – 466
Helixi50 – 534
Beta strandi56 – 627
Beta strandi68 – 725
Helixi82 – 10524
Turni109 – 1113
Helixi115 – 12511
Helixi140 – 1467
Helixi150 – 1523
Beta strandi153 – 1564
Beta strandi159 – 1624
Beta strandi164 – 1663
Turni167 – 1693
Beta strandi170 – 1723
Beta strandi175 – 1773
Beta strandi180 – 1823
Helixi183 – 1897
Beta strandi197 – 2004
Helixi205 – 21410
Helixi219 – 24123
Beta strandi242 – 2443
Helixi248 – 26316
Helixi269 – 28214
Helixi288 – 2925
Helixi297 – 30913

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1A41X-ray2.30A81-314[»]
1VCCX-ray1.60A1-77[»]
ProteinModelPortaliP68698.
SMRiP68698. Positions 1-314.

Miscellaneous databases

EvolutionaryTraceiP68698.

Family & Domainsi

Sequence similaritiesi

Family and domain databases

Gene3Di1.20.120.380. 1 hit.
3.30.66.10. 1 hit.
3.90.15.10. 1 hit.
InterProiIPR011010. DNA_brk_join_enz.
IPR001631. TopoI.
IPR018521. TopoI_AS.
IPR014711. TopoI_cat_a-hlx-sub_euk.
IPR027362. TopoI_cat_dom2.
IPR013500. TopoI_cat_euk.
IPR015346. TopoI_N_vir.
[Graphical view]
PfamiPF01028. Topoisom_I. 1 hit.
PF09266. VirDNA-topo-I_N. 1 hit.
[Graphical view]
PRINTSiPR00416. EUTPISMRASEI.
SUPFAMiSSF56349. SSF56349. 1 hit.
PROSITEiPS00176. TOPOISOMERASE_I_EUK. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P68698-1 [UniParc]FASTAAdd to Basket

« Hide

MRALFYKDGK LFTDNNFLNP VSDDNPAYEV LQHVKIPTHL TDVVVYEQTW    50
EEALTRLIFV GSDSKGRRQY FYGKMHVQNR NAKRDRIFVR VYNVMKRINC 100
FINKNIKKSS TDSNYQLAVF MLMETMFFIR FGKMKYLKEN ETVGLLTLKN 150
KHIEISPDEI VIKFVGKDKV SHEFVVHKSN RLYKPLLKLT DDSSPEEFLF 200
NKLSERKVYE CIKQFGIRIK DLRTYGVNYT FLYNFWTNVK SISPLPSPKK 250
LIALTIKQTA EVVGHTPSIS KRAYMATTIL EMVKDKNFLD VVSKTTFDEF 300
LSIVVDHVKS STDG 314
Length:314
Mass (Da):36,666
Last modified:August 1, 1988 - v1
Checksum:iE76FBCFCBF259D27
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M13209 Genomic DNA. Translation: AAB59842.1.
L13447 Unassigned DNA. Translation: AAA02841.1.
AY243312 Genomic DNA. Translation: AAO89383.1.
PIRiG24481. QQVZH7.
RefSeqiYP_232986.1. NC_006998.1.

Genome annotation databases

GeneIDi3707560.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M13209 Genomic DNA. Translation: AAB59842.1 .
L13447 Unassigned DNA. Translation: AAA02841.1 .
AY243312 Genomic DNA. Translation: AAO89383.1 .
PIRi G24481. QQVZH7.
RefSeqi YP_232986.1. NC_006998.1.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1A41 X-ray 2.30 A 81-314 [» ]
1VCC X-ray 1.60 A 1-77 [» ]
ProteinModelPortali P68698.
SMRi P68698. Positions 1-314.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

GeneIDi 3707560.

Miscellaneous databases

EvolutionaryTracei P68698.

Family and domain databases

Gene3Di 1.20.120.380. 1 hit.
3.30.66.10. 1 hit.
3.90.15.10. 1 hit.
InterProi IPR011010. DNA_brk_join_enz.
IPR001631. TopoI.
IPR018521. TopoI_AS.
IPR014711. TopoI_cat_a-hlx-sub_euk.
IPR027362. TopoI_cat_dom2.
IPR013500. TopoI_cat_euk.
IPR015346. TopoI_N_vir.
[Graphical view ]
Pfami PF01028. Topoisom_I. 1 hit.
PF09266. VirDNA-topo-I_N. 1 hit.
[Graphical view ]
PRINTSi PR00416. EUTPISMRASEI.
SUPFAMi SSF56349. SSF56349. 1 hit.
PROSITEi PS00176. TOPOISOMERASE_I_EUK. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Conserved TAAATG sequence at the transcriptional and translational initiation sites of vaccinia virus late genes deduced by structural and functional analysis of the HindIII H genome fragment."
    Rosel J.L., Earl P.L., Weir J.P., Moss B.
    J. Virol. 60:436-449(1986) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  2. "Biochemical analysis of mutant alleles of the vaccinia virus topoisomerase I carrying targeted substitutions in a highly conserved domain."
    Klemperer N., Traktman P.
    J. Biol. Chem. 268:15887-15899(1993) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE, MUTAGENESIS.
  3. "Sequencing of the coding region of Vaccinia-WR to an average 9-fold redundancy and an error rate of 0.16/10kb."
    Esposito J.J., Frace A.M., Sammons S.A., Olsen-Rasmussen M., Osborne J., Wohlhueter R.
    Submitted (FEB-2003) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  4. "Identification of a vaccinia virus gene encoding a type I DNA topoisomerase."
    Shuman S., Moss B.
    Proc. Natl. Acad. Sci. U.S.A. 84:7478-7482(1987) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 1-22, IDENTIFICATION.
  5. "Analogues of vaccinia virus DNA topoisomerase I modified at the active site tyrosine."
    Gao R., Zhang Y., Choudhury A.K., Dedkova L.M., Hecht S.M.
    J. Am. Chem. Soc. 127:3321-3331(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: ACTIVE SITE, MUTAGENESIS OF TYR-274.
  6. "Major groove interactions of vaccinia Topo I provide specificity by optimally positioning the covalent phosphotyrosine linkage."
    Nagarajan R., Stivers J.T.
    Biochemistry 45:5775-5782(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  7. "Mechanism and specificity of DNA strand exchange catalyzed by vaccinia DNA topoisomerase type I."
    Stahley M.R., Stivers J.T.
    Biochemistry 49:2786-2795(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  8. "Crystal structure of the amino-terminal fragment of vaccinia virus DNA topoisomerase I at 1.6-A resolution."
    Sharma A., Hanai R., Mondragon A.
    Structure 2:767-777(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.6 ANGSTROMS) OF 1-77.
  9. "Conservation of structure and mechanism between eukaryotic topoisomerase I and site-specific recombinases."
    Cheng C., Kussie P., Pavletich N., Shuman S.
    Cell 92:841-850(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.3 ANGSTROMS) OF 81-314.

Entry informationi

Entry nameiTOP1_VACCW
AccessioniPrimary (citable) accession number: P68698
Secondary accession number(s): P08585
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 1, 1988
Last sequence update: August 1, 1988
Last modified: July 9, 2014
This is version 68 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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