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Protein

DNA topoisomerase 1B

Gene

TOP1

Organism
Vaccinia virus (strain Western Reserve) (VACV) (Vaccinia virus (strain WR))
Status
Reviewed-Annotation score: 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.PROSITE-ProRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei168Involved in religationBy similarity1
Active sitei274O-(3'-phospho-DNA)-tyrosine intermediatePROSITE-ProRule annotation1 Publication1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase, Topoisomerase

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

BRENDAi5.99.1.2. 908.

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]
Proteomesi
  • UP000000344 Componenti: Genome

Subcellular locationi

GO - Cellular componenti

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

Keywords - Cellular componenti

Virion

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi216G → E or K: No change in activity. 1 Publication1
Mutagenesisi217I → P: Temperature-sensitive for DNA relaxation in vitro. 1 Publication1
Mutagenesisi220K → D: Loss of activity. 1 Publication1
Mutagenesisi220K → I or N: Reduced activity. 1 Publication1
Mutagenesisi223R → E or G: Loss of activity. 1 Publication1
Mutagenesisi223R → K: Reduced activity. 1 Publication1
Mutagenesisi224T → G or P: Reduced activity. 1 Publication1
Mutagenesisi225Y → H: No change in activity. 1 Publication1
Mutagenesisi225Y → R or S: Reduced activity. 1 Publication1
Mutagenesisi274Y → F: Complete loss of activity. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001452161 – 314DNA topoisomerase 1BAdd BLAST314

Expressioni

Inductioni

Expressed in the late phase of the viral replicative cycle.

Keywords - Developmental stagei

Late protein

Structurei

Secondary structure

1314
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi3 – 7Combined sources5
Beta strandi10 – 14Combined sources5
Helixi27 – 33Combined sources7
Beta strandi41 – 46Combined sources6
Helixi50 – 53Combined sources4
Beta strandi56 – 62Combined sources7
Beta strandi68 – 72Combined sources5
Helixi82 – 105Combined sources24
Turni109 – 111Combined sources3
Helixi115 – 125Combined sources11
Helixi140 – 146Combined sources7
Helixi150 – 152Combined sources3
Beta strandi153 – 156Combined sources4
Beta strandi159 – 162Combined sources4
Beta strandi164 – 166Combined sources3
Turni167 – 169Combined sources3
Beta strandi170 – 172Combined sources3
Beta strandi175 – 177Combined sources3
Beta strandi180 – 182Combined sources3
Helixi183 – 189Combined sources7
Beta strandi197 – 200Combined sources4
Helixi205 – 214Combined sources10
Helixi219 – 241Combined sources23
Beta strandi242 – 244Combined sources3
Helixi248 – 263Combined sources16
Helixi269 – 282Combined sources14
Helixi288 – 292Combined sources5
Helixi297 – 309Combined sources13

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1A41X-ray2.30A81-314[»]
1VCCX-ray1.60A1-77[»]
ProteinModelPortaliP68698.
SMRiP68698.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP68698.

Family & Domainsi

Sequence similaritiesi

Belongs to the type IB topoisomerase family.Curated

Phylogenomic databases

KOiK03168.

Family and domain databases

CDDicd00659. Topo_IB_C. 1 hit.
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

        10         20         30         40         50
MRALFYKDGK LFTDNNFLNP VSDDNPAYEV LQHVKIPTHL TDVVVYEQTW
60 70 80 90 100
EEALTRLIFV GSDSKGRRQY FYGKMHVQNR NAKRDRIFVR VYNVMKRINC
110 120 130 140 150
FINKNIKKSS TDSNYQLAVF MLMETMFFIR FGKMKYLKEN ETVGLLTLKN
160 170 180 190 200
KHIEISPDEI VIKFVGKDKV SHEFVVHKSN RLYKPLLKLT DDSSPEEFLF
210 220 230 240 250
NKLSERKVYE CIKQFGIRIK DLRTYGVNYT FLYNFWTNVK SISPLPSPKK
260 270 280 290 300
LIALTIKQTA EVVGHTPSIS KRAYMATTIL EMVKDKNFLD VVSKTTFDEF
310
LSIVVDHVKS STDG
Length:314
Mass (Da):36,666
Last modified:August 1, 1988 - v1
Checksum:iE76FBCFCBF259D27
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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.
KEGGivg:3707560.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1A41X-ray2.30A81-314[»]
1VCCX-ray1.60A1-77[»]
ProteinModelPortaliP68698.
SMRiP68698.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi3707560.
KEGGivg:3707560.

Phylogenomic databases

KOiK03168.

Enzyme and pathway databases

BRENDAi5.99.1.2. 908.

Miscellaneous databases

EvolutionaryTraceiP68698.

Family and domain databases

CDDicd00659. Topo_IB_C. 1 hit.
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]
ProtoNetiSearch...

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: November 30, 2016
This is version 79 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

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 one 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.