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Protein

DNA topoisomerase 2

Gene

TOP2

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at transcript leveli

Functioni

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

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 sitei91 – 911ATPBy similarity
Binding sitei120 – 1201ATPBy similarity
Metal bindingi461 – 4611Magnesium 1; catalyticPROSITE-ProRule annotation
Metal bindingi538 – 5381Magnesium 1; catalyticPROSITE-ProRule annotation
Metal bindingi538 – 5381Magnesium 2PROSITE-ProRule annotation
Metal bindingi540 – 5401Magnesium 2PROSITE-ProRule annotation
Sitei793 – 7931Transition state stabilizerBy similarity
Active sitei794 – 7941O-(5'-phospho-DNA)-tyrosine intermediateBy similarity
Sitei845 – 8451Important for DNA bending; intercalates between base pairs of target DNABy similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi148 – 1503ATPBy similarity
Nucleotide bindingi161 – 1688ATPBy similarity
Nucleotide bindingi378 – 3803ATPBy 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

BioCyciARA:AT3G23890-MONOMER.
ARA:GQT-2551-MONOMER.
ReactomeiR-ATH-4615885. SUMOylation of DNA replication proteins.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA topoisomerase 2 (EC:5.99.1.3)
Alternative name(s):
DNA topoisomerase II
Gene namesi
Name:TOP2
Ordered Locus Names:At3g23890
ORF Names:F14O13.7
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 3

Organism-specific databases

TAIRiAT3G23890.

Subcellular locationi

GO - Cellular componenti

  • nucleus Source: TAIR
Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 14731473DNA topoisomerase 2PRO_0000145380Add
BLAST

Proteomic databases

PaxDbiP30182.
PRIDEiP30182.

PTM databases

iPTMnetiP30182.

Expressioni

Gene expression databases

ExpressionAtlasiP30182. baseline and differential.
GenevisibleiP30182. AT.

Interactioni

Subunit structurei

Homodimer.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei489 – 4891Interaction with DNAPROSITE-ProRule annotation
Sitei492 – 4921Interaction with DNAPROSITE-ProRule annotation
Sitei662 – 6621Interaction with DNAPROSITE-ProRule annotation
Sitei663 – 6631Interaction with DNAPROSITE-ProRule annotation
Sitei712 – 7121Interaction with DNAPROSITE-ProRule annotation
Sitei746 – 7461Interaction with DNAPROSITE-ProRule annotation
Sitei752 – 7521Interaction with DNAPROSITE-ProRule annotation
Sitei924 – 9241Interaction with DNABy similarity

Protein-protein interaction databases

STRINGi3702.AT3G23890.1.

Structurei

3D structure databases

ProteinModelPortaliP30182.
SMRiP30182. Positions 30-1182.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini455 – 569115ToprimPROSITE-ProRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni345 – 3473Interaction with DNABy similarity
Regioni980 – 98910Interaction with DNABy similarity

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.
HOGENOMiHOG000216693.
InParanoidiP30182.
OMAiTCSPDPR.
PhylomeDBiP30182.

Family and domain databases

Gene3Di1.10.268.10. 1 hit.
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.
SMARTiSM00387. HATPase_c. 1 hit.
SM00433. 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.

This entry describes 1 isoform i produced by alternative splicing. AlignAdd to basket

Note: A number of isoforms are produced. According to EST sequences.

Isoform 1 (identifier: P30182-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MATKLPLQNS NAANVAKAPA KSRAAAGGKT IEEMYQKKSQ LEHILLRPDT
60 70 80 90 100
YIGSIEKHTQ TLWVYEKDEM VQRPVTYVPG LYKIFDEILV NAADNKQRDA
110 120 130 140 150
KMDSVQVVID VEQNLISVCN SGAGVPVEIH QEEGIYVPEM IFGHLLTSSN
160 170 180 190 200
YDDNVKKTTG GRNGYGAKLT NIFSTEFIIE TADGKRLKKY KQVFENNMGK
210 220 230 240 250
KSEPVITKCN KSENWTKVTF KPDLKKFNMT ELEDDVVALM SKRVFDIAGC
260 270 280 290 300
LGKSVKVELN GKQIPVKSFT DYVDLYLSAA NKSRTEDPLP RLTEKVNDRW
310 320 330 340 350
EVCVSLSEGQ FQQVSFVNSI ATIKGGTHVD YVTSQITNHI VAAVNKKNKN
360 370 380 390 400
ANVKAHNVKN HLWVFVNALI DNPAFDSQTK ETLTLRQSSF GSKCELSEDF
410 420 430 440 450
LKKVGKSGVV ENLLSWADFK QNKDLKKSDG AKTGRVLVEK LDDAAEAGGK
460 470 480 490 500
NSRLCTLILT EGDSAKSLAL AGRSVLGNNY CGVFPLRGKL LNVREASTTQ
510 520 530 540 550
ITNNKEIENL KKILGLKQNM KYENVNSLRY GQMMIMTDQD HDGSHIKGLL
560 570 580 590 600
INFIHSFWPS LLQVPSFLVE FITPIVKATR KGTKKVLSFY SMPEYEEWKE
610 620 630 640 650
SLKGNATGWD IKYYKGLGTS TAEEGKEYFS NLGLHKKDFV WEDEQDGEAI
660 670 680 690 700
ELAFSKKKIE ARKNWLSSYV PGNHLDQRQP KVTYSDFVNK ELILFSMADL
710 720 730 740 750
QRSIPSMVDG LKPGQRKILF VAFKKIARKE MKVAQLVGYV SLLSAYHHGE
760 770 780 790 800
QSLASAIIGM AQDYVGSNNI NLLLPNGQFG TRTSGGKDSA SARYIFTKLS
810 820 830 840 850
PVTRILFPKD DDLLLDYLNE DGQRIEPTWY MPIIPTVLVN GAEGIGTGWS
860 870 880 890 900
TFIPNYNPRE IVANVRRLLN GESMVPMDPW YRGFKGTIEK TASKEGGCTY
910 920 930 940 950
TITGLYEEVD ETTIRITELP IRRWNDDYKN FLQSLKTDNG APFFQDVKAY
960 970 980 990 1000
NDEKSVDFDL ILSEENMLAA RQEGFLKKFK LTTTIATSNM HLFDKKGVIK
1010 1020 1030 1040 1050
KYVTPEQILE EFFDLRFEYY EKRKETVVKN MEIELLKLEN KARFILAVLS
1060 1070 1080 1090 1100
GEIIVNKRKK ADIVEDLRQK GFTPFPRKAE SVEAAIAGAV DDDAAEEPEE
1110 1120 1130 1140 1150
ILVDPESSSS YIPGSEYDYL LAMAIASLTI EKVEELLADR DKMIIAVADM
1160 1170 1180 1190 1200
KKTTPKSLWL SDLESLDKEL EKLDLKDAQV QQAIEAAQKK IRAKSGAAVK
1210 1220 1230 1240 1250
VKRQAPKKPA PKKTTKKASE SETTEASYSA MDTDNNVAEV VKPKARQGAK
1260 1270 1280 1290 1300
KKASESETTE ASHSAMDTDN NVAEVVKPKG RQGAKKKAPA AAKEVEEDEM
1310 1320 1330 1340 1350
LDLAQRLAQY NFGSAPADSS KTAETSKAIA VDDDDDDVVV EVAPVKKGGR
1360 1370 1380 1390 1400
KPAATKAAKP PAAPRKRGKQ TVASTEVLAI GVSPEKKVRK MRSSPFNKKS
1410 1420 1430 1440 1450
SSVMSRLADN KEEESSENVA GNSSSEKSGG DVSAISRPQR ANRRKMTYVL
1460 1470
SDSESESAND SEFDDIEDDE DDE
Length:1,473
Mass (Da):164,107
Last modified:November 1, 1995 - v2
Checksum:i00B6C4836E381403
GO

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti1213 – 12131K → N in strain: cv. Kas-1.
Natural varianti1245 – 12451A → G in strain: cv. Kas-1.
Natural varianti1299 – 12991E → G in strain: cv. Kas-1.

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L21015 mRNA. Translation: AAA65448.1.
AP001297 Genomic DNA. Translation: BAB03006.1.
CP002686 Genomic DNA. Translation: AEE76826.1.
U12284 Genomic DNA. Translation: AAC48999.1.
U12285 Genomic DNA. Translation: AAC49000.1.
M84654 Genomic DNA. Translation: AAA32877.1.
PIRiS53598. S53599.
RefSeqiNP_189031.1. NM_113294.2. [P30182-1]
UniGeneiAt.22343.

Genome annotation databases

EnsemblPlantsiAT3G23890.1; AT3G23890.1; AT3G23890. [P30182-1]
GeneIDi821972.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L21015 mRNA. Translation: AAA65448.1.
AP001297 Genomic DNA. Translation: BAB03006.1.
CP002686 Genomic DNA. Translation: AEE76826.1.
U12284 Genomic DNA. Translation: AAC48999.1.
U12285 Genomic DNA. Translation: AAC49000.1.
M84654 Genomic DNA. Translation: AAA32877.1.
PIRiS53598. S53599.
RefSeqiNP_189031.1. NM_113294.2. [P30182-1]
UniGeneiAt.22343.

3D structure databases

ProteinModelPortaliP30182.
SMRiP30182. Positions 30-1182.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi3702.AT3G23890.1.

PTM databases

iPTMnetiP30182.

Proteomic databases

PaxDbiP30182.
PRIDEiP30182.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT3G23890.1; AT3G23890.1; AT3G23890. [P30182-1]
GeneIDi821972.

Organism-specific databases

TAIRiAT3G23890.

Phylogenomic databases

eggNOGiKOG0355. Eukaryota.
COG0187. LUCA.
COG0188. LUCA.
HOGENOMiHOG000216693.
InParanoidiP30182.
OMAiTCSPDPR.
PhylomeDBiP30182.

Enzyme and pathway databases

BioCyciARA:AT3G23890-MONOMER.
ARA:GQT-2551-MONOMER.
ReactomeiR-ATH-4615885. SUMOylation of DNA replication proteins.

Miscellaneous databases

PROiP30182.

Gene expression databases

ExpressionAtlasiP30182. baseline and differential.
GenevisibleiP30182. AT.

Family and domain databases

Gene3Di1.10.268.10. 1 hit.
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.
SMARTiSM00387. HATPase_c. 1 hit.
SM00433. 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

« Hide 'large scale' publications
  1. "Characterization of a DNA Topoisomerase II cDNA from Arabidopsis thaliana."
    Xie S., Lam E.
    Plant Physiol. 106:1701-1702(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Strain: cv. Columbia.
  2. "Structural analysis of Arabidopsis thaliana chromosome 3. II. Sequence features of the 4,251,695 bp regions covered by 90 P1, TAC and BAC clones."
    Kaneko T., Katoh T., Sato S., Nakamura Y., Asamizu E., Tabata S.
    DNA Res. 7:217-221(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  3. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  4. "Abundance of nuclear DNA topoisomerase II is correlated with proliferation in Arabidopsis thaliana."
    Xie S., Lam E.
    Nucleic Acids Res. 22:5729-5736(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1202-1304.
    Strain: cv. Columbia and cv. Kas-1.
  5. "PCR-assisted cloning of a topoisomerase II gene from Arabidopsis."
    Gerhold D., Parsons A., Hadwiger L.A.
    Submitted (FEB-1992) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 751-838.

Entry informationi

Entry nameiTOP2_ARATH
AccessioniPrimary (citable) accession number: P30182
Secondary accession number(s): Q38807
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 1, 1993
Last sequence update: November 1, 1995
Last modified: February 17, 2016
This is version 138 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

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. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  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.