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Protein

Probable DNA topoisomerase 2

Gene

K12D12.1

Organism
Caenorhabditis elegans
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Protein inferred from homologyi

Functioni

Control of topological states of DNA by transient breakage and subsequent rejoining of DNA strands. Topoisomerase II makes double-strand breaks (By similarity).By similarity

Catalytic activityi

ATP-dependent breakage, passage and rejoining of double-stranded DNA.PROSITE-ProRule annotation

Cofactori

Mg2+PROSITE-ProRule annotation, Mn2+PROSITE-ProRule annotation, Ca2+PROSITE-ProRule annotationNote: Binds two Mg2+ per subunit. The magnesium ions form salt bridges with both the protein and the DNA. Can also accept other divalent metal cations, such as Mn2+ or Ca2+.PROSITE-ProRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei126 – 1261ATPBy similarity
Binding sitei155 – 1551ATPBy similarity
Metal bindingi496 – 4961Magnesium 1; catalyticPROSITE-ProRule annotation
Metal bindingi576 – 5761Magnesium 1; catalyticPROSITE-ProRule annotation
Metal bindingi576 – 5761Magnesium 2PROSITE-ProRule annotation
Metal bindingi578 – 5781Magnesium 2PROSITE-ProRule annotation
Sitei839 – 8391Transition state stabilizerBy similarity
Active sitei840 – 8401O-(5'-phospho-DNA)-tyrosine intermediateBy similarity
Sitei891 – 8911Important for DNA bending; intercalates between base pairs of target DNABy similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi183 – 1853ATPBy similarity
Nucleotide bindingi196 – 2038ATPBy similarity
Nucleotide bindingi411 – 4133ATPBy similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase, Topoisomerase

Keywords - Ligandi

ATP-binding, DNA-binding, Magnesium, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

ReactomeiR-CEL-1538133. G0 and Early G1.
R-CEL-4615885. SUMOylation of DNA replication proteins.

Names & Taxonomyi

Protein namesi
Recommended name:
Probable DNA topoisomerase 2 (EC:5.99.1.3)
Alternative name(s):
DNA topoisomerase II
Gene namesi
ORF Names:K12D12.1
OrganismiCaenorhabditis elegans
Taxonomic identifieri6239 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
Proteomesi
  • UP000001940 Componenti: Chromosome II

Organism-specific databases

WormBaseiK12D12.1; CE06184; WBGene00010785; top-2.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 15201520Probable DNA topoisomerase 2PRO_0000145372Add
BLAST

Proteomic databases

EPDiQ23670.
PaxDbiQ23670.
PRIDEiQ23670.

PTM databases

iPTMnetiQ23670.

Interactioni

Subunit structurei

Homodimer.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei524 – 5241Interaction with DNAPROSITE-ProRule annotation
Sitei527 – 5271Interaction with DNAPROSITE-ProRule annotation
Sitei696 – 6961Interaction with DNAPROSITE-ProRule annotation
Sitei697 – 6971Interaction with DNAPROSITE-ProRule annotation
Sitei758 – 7581Interaction with DNAPROSITE-ProRule annotation
Sitei792 – 7921Interaction with DNAPROSITE-ProRule annotation
Sitei798 – 7981Interaction with DNAPROSITE-ProRule annotation

Protein-protein interaction databases

BioGridi40129. 6 interactions.
DIPiDIP-27416N.
IntActiQ23670. 5 interactions.
MINTiMINT-227249.
STRINGi6239.K12D12.1.

Structurei

3D structure databases

ProteinModelPortaliQ23670.
SMRiQ23670. Positions 62-437.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini490 – 607118ToprimPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the type II topoisomerase family.Curated
Contains 1 Toprim domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG0355. Eukaryota.
COG0187. LUCA.
COG0188. LUCA.
GeneTreeiENSGT00390000016222.
HOGENOMiHOG000216693.
InParanoidiQ23670.
KOiK03164.
OMAiTCSPDPR.
OrthoDBiEOG73JKTM.
PhylomeDBiQ23670.

Family and domain databases

Gene3Di1.10.268.10. 2 hits.
3.30.1360.40. 1 hit.
3.30.230.10. 1 hit.
3.30.565.10. 1 hit.
3.40.50.670. 1 hit.
3.90.199.10. 1 hit.
InterProiIPR024946. Arg_repress_C-like.
IPR003594. HATPase_C.
IPR020568. Ribosomal_S5_D2-typ_fold.
IPR014721. Ribosomal_S5_D2-typ_fold_subgr.
IPR001241. Topo_IIA.
IPR013760. Topo_IIA-like_dom.
IPR002205. Topo_IIA_A/C.
IPR013758. Topo_IIA_A/C_ab.
IPR013757. Topo_IIA_A_a.
IPR013506. Topo_IIA_bsu_dom2.
IPR013759. Topo_IIA_cen_dom.
IPR018522. TopoIIA_CS.
IPR031660. TOPRIM_C.
IPR006171. Toprim_domain.
[Graphical view]
PfamiPF00204. DNA_gyraseB. 1 hit.
PF00521. DNA_topoisoIV. 1 hit.
PF02518. HATPase_c. 1 hit.
PF01751. Toprim. 1 hit.
PF16898. TOPRIM_C. 1 hit.
[Graphical view]
PRINTSiPR00418. TPI2FAMILY.
SMARTiSM00433. TOP2c. 1 hit.
SM00434. TOP4c. 1 hit.
[Graphical view]
SUPFAMiSSF54211. SSF54211. 1 hit.
SSF55874. SSF55874. 1 hit.
SSF56719. SSF56719. 1 hit.
PROSITEiPS00177. TOPOISOMERASE_II. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q23670-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSDSDSEFSI EDSPKKKTAP KKEKASPKKK KDDANESMVM TEEDRNVFTS
60 70 80 90 100
IDKKGGGSKQ MAIEDIYQKK SQLEHILLRP DTYIGSVEHT EKTPMWVYNM
110 120 130 140 150
EESKLEQRDI SYVPGLYKIY DEILVNAADN KQRDPKMNTI KITINKEKNE
160 170 180 190 200
ISVYNNGKGI PVTQHKVEKV YVPELIFGTL LTSSNYNDDE KKVTGGRNGY
210 220 230 240 250
GAKLCNIFST KFTLETSSRD YKSAFKQTWI KNMTRDEEPK IVKSTDEDFT
260 270 280 290 300
KITFSPDLAK FKMKELDDDI CHLMARRAYD VAGSSKGVAV FLNGKRIPIK
310 320 330 340 350
GFEDYVQMYT SQFNNEGEPL KIAYEQVGDR WQVALALSEK GFQQVSFVNS
360 370 380 390 400
IATTKGGRHV DYVADQMVAK FIDSIKRKLT KTSMNIKPFQ IKNHMWVFVN
410 420 430 440 450
CLIENPTFDS QTKETMTLQQ KQFGSTCVLS EKFSKAASSV GITDAVMSWV
460 470 480 490 500
RFKQMDDLNK KCSKTKTSKL KGIPKLEDAN DAGTKNSQQC TLILTEGDSA
510 520 530 540 550
KTLAVSGLSV VGRDKYGVFP LRGKLLNVRE GNMKQIADNA EVNAMIKILG
560 570 580 590 600
LQYKKKYETE DDFKTLRYGK LMVMADQDQD GSHIKGLVIN FIHHFWPSLI
610 620 630 640 650
QRNFVEEFIT PIVKATKGKE EVSFYSLPEY SEWRMNTDNW KSYKIKYYKG
660 670 680 690 700
LGTSTSKEAK EYFLDMVRHR IRFKYNGADD DNAVDMAFSK KKIEERKDWL
710 720 730 740 750
SKWMREKKDR KQQGLAEEYL YNKDTRFVTF KDFVNRELVL FSNLDNERSI
760 770 780 790 800
PCLVDGFKPG QRKVLFACFK RADKREVKVA QLAGAVAEIS AYHHGEQSLM
810 820 830 840 850
GTIVNLAQDY VGSNNINLLL PIGQFGTRLQ GGKDSASARY IFTQLSPVTR
860 870 880 890 900
TLFPAHDDNV LRFLYEENQR IEPEWYCPII PMVLVNGAQG IGTGWSTNIP
910 920 930 940 950
NYNPRELVKN IKRLIAGEPQ KALAPWYKNF RGKIIQIDPS RFACYGEVAV
960 970 980 990 1000
LDDNTIEITE LPIKQWTQDY KEKVLEGLME SSDKKSPVIV DYKEYHTDTT
1010 1020 1030 1040 1050
VKFVVKLSPG KLRELERGQD LHQVFKLQAV INTTCMVLFD AAGCLRTYTS
1060 1070 1080 1090 1100
PEAITQEFYD SRQEKYVQRK EYLLGVLQAQ SKRLTNQARF ILAKINNEIV
1110 1120 1130 1140 1150
LENKKKAAIV DVLIKMKFDA DPVKKWKEEQ KLKELRESGE IELDEDDLAA
1160 1170 1180 1190 1200
VAVEEDEAIS SAAKAVETKL SDYDYLVGMA LIKLSEEEKN KLIKESEEKM
1210 1220 1230 1240 1250
AEVRVIEKKT WQDLWHEDLD NFVSELDKQE AREKADQDAS IKNAAKKLAA
1260 1270 1280 1290 1300
DAKTGRGPKK NVCTEVLPSK DGQRIEPMLD AATKAKYEKM SQPKKERVKK
1310 1320 1330 1340 1350
EPKEPKEPKK VKKEGQDIKK FMSPAAPKTA KKEKSDGFNS DMSEESDVEF
1360 1370 1380 1390 1400
DEGIDFDSDD DGVEREDVVS KPKPRTGKGA AKAEVIDLSD DDEVPAKKPA
1410 1420 1430 1440 1450
PAKKAAPKKK KSEFSDLSGG DSDEEAEKKP STSKKPSPKK AAPKTAEPKS
1460 1470 1480 1490 1500
KAVTDFFGAS KKNGKKAAGS DDEDDESFVV APREKSGRAR KAPPTYDVDS
1510 1520
GSDSDQPKKK RGRVVDSDSD
Length:1,520
Mass (Da):172,334
Last modified:November 1, 1998 - v2
Checksum:i016226697F41C360
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z49069, Z70213 Genomic DNA. Translation: CAA88867.1.
PIRiT23620.
RefSeqiNP_496536.1. NM_064135.3.
UniGeneiCel.6930.

Genome annotation databases

EnsemblMetazoaiK12D12.1; K12D12.1; WBGene00010785.
GeneIDi174825.
KEGGicel:CELE_K12D12.1.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z49069, Z70213 Genomic DNA. Translation: CAA88867.1.
PIRiT23620.
RefSeqiNP_496536.1. NM_064135.3.
UniGeneiCel.6930.

3D structure databases

ProteinModelPortaliQ23670.
SMRiQ23670. Positions 62-437.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi40129. 6 interactions.
DIPiDIP-27416N.
IntActiQ23670. 5 interactions.
MINTiMINT-227249.
STRINGi6239.K12D12.1.

PTM databases

iPTMnetiQ23670.

Proteomic databases

EPDiQ23670.
PaxDbiQ23670.
PRIDEiQ23670.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblMetazoaiK12D12.1; K12D12.1; WBGene00010785.
GeneIDi174825.
KEGGicel:CELE_K12D12.1.

Organism-specific databases

CTDi174825.
WormBaseiK12D12.1; CE06184; WBGene00010785; top-2.

Phylogenomic databases

eggNOGiKOG0355. Eukaryota.
COG0187. LUCA.
COG0188. LUCA.
GeneTreeiENSGT00390000016222.
HOGENOMiHOG000216693.
InParanoidiQ23670.
KOiK03164.
OMAiTCSPDPR.
OrthoDBiEOG73JKTM.
PhylomeDBiQ23670.

Enzyme and pathway databases

ReactomeiR-CEL-1538133. G0 and Early G1.
R-CEL-4615885. SUMOylation of DNA replication proteins.

Miscellaneous databases

PROiQ23670.

Family and domain databases

Gene3Di1.10.268.10. 2 hits.
3.30.1360.40. 1 hit.
3.30.230.10. 1 hit.
3.30.565.10. 1 hit.
3.40.50.670. 1 hit.
3.90.199.10. 1 hit.
InterProiIPR024946. Arg_repress_C-like.
IPR003594. HATPase_C.
IPR020568. Ribosomal_S5_D2-typ_fold.
IPR014721. Ribosomal_S5_D2-typ_fold_subgr.
IPR001241. Topo_IIA.
IPR013760. Topo_IIA-like_dom.
IPR002205. Topo_IIA_A/C.
IPR013758. Topo_IIA_A/C_ab.
IPR013757. Topo_IIA_A_a.
IPR013506. Topo_IIA_bsu_dom2.
IPR013759. Topo_IIA_cen_dom.
IPR018522. TopoIIA_CS.
IPR031660. TOPRIM_C.
IPR006171. Toprim_domain.
[Graphical view]
PfamiPF00204. DNA_gyraseB. 1 hit.
PF00521. DNA_topoisoIV. 1 hit.
PF02518. HATPase_c. 1 hit.
PF01751. Toprim. 1 hit.
PF16898. TOPRIM_C. 1 hit.
[Graphical view]
PRINTSiPR00418. TPI2FAMILY.
SMARTiSM00433. TOP2c. 1 hit.
SM00434. TOP4c. 1 hit.
[Graphical view]
SUPFAMiSSF54211. SSF54211. 1 hit.
SSF55874. SSF55874. 1 hit.
SSF56719. SSF56719. 1 hit.
PROSITEiPS00177. TOPOISOMERASE_II. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Genome sequence of the nematode C. elegans: a platform for investigating biology."
    The C. elegans sequencing consortium
    Science 282:2012-2018(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Bristol N2.

Entry informationi

Entry nameiTOP2_CAEEL
AccessioniPrimary (citable) accession number: Q23670
Secondary accession number(s): Q27509
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 15, 1998
Last sequence update: November 1, 1998
Last modified: June 8, 2016
This is version 139 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Miscellaneousi

Miscellaneous

Eukaryotic topoisomerase I and II can relax both negative and positive supercoils, whereas prokaryotic enzymes relax only negative supercoils.

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Caenorhabditis elegans
    Caenorhabditis elegans: entries, gene names and cross-references to WormBase
  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.