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Protein

Type 2 DNA topoisomerase 6 subunit B

Gene

top6B

Organism
Methanosarcina mazei (strain ATCC BAA-159 / DSM 3647 / Goe1 / Go1 / JCM 11833 / OCM 88) (Methanosarcina frisia)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Relaxes both positive and negative superturns and exhibits a strong decatenase activity.UniRule annotation

Catalytic activityi

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

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei48 – 481ATPUniRule annotation
Binding sitei80 – 801ATPUniRule annotation
Binding sitei435 – 4351ATPUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi101 – 1022ATPUniRule annotation
Nucleotide bindingi111 – 1188ATPUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase, Topoisomerase

Keywords - Ligandi

ATP-binding, DNA-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciMMAZ192952:GCK2-2475-MONOMER.
BRENDAi5.99.1.3. 3270.

Names & Taxonomyi

Protein namesi
Recommended name:
Type 2 DNA topoisomerase 6 subunit BUniRule annotation (EC:5.99.1.3UniRule annotation)
Alternative name(s):
Type II DNA topoisomerase VI subunit BUniRule annotation
Short name:
TopoVI-BUniRule annotation
Gene namesi
Name:top6BUniRule annotation
Ordered Locus Names:MM_2417
OrganismiMethanosarcina mazei (strain ATCC BAA-159 / DSM 3647 / Goe1 / Go1 / JCM 11833 / OCM 88) (Methanosarcina frisia)
Taxonomic identifieri192952 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaMethanomicrobiaMethanosarcinalesMethanosarcinaceaeMethanosarcina
Proteomesi
  • UP000000595 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 621621Type 2 DNA topoisomerase 6 subunit BPRO_0000145463Add
BLAST

Interactioni

Subunit structurei

Homodimer. Heterotetramer of two Top6A and two Top6B chains.UniRule annotation1 Publication

Protein-protein interaction databases

DIPiDIP-29415N.
STRINGi192952.MM_2417.

Structurei

Secondary structure

1
621
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi19 – 246
Turni26 – 283
Helixi34 – 5320
Turni54 – 563
Beta strandi61 – 644
Beta strandi67 – 693
Turni70 – 723
Beta strandi73 – 797
Helixi87 – 893
Helixi90 – 945
Beta strandi111 – 1144
Helixi115 – 12713
Beta strandi133 – 1364
Beta strandi139 – 1424
Beta strandi145 – 1484
Beta strandi153 – 1553
Beta strandi163 – 1653
Beta strandi176 – 1794
Beta strandi188 – 1925
Helixi193 – 20210
Beta strandi207 – 2104
Beta strandi218 – 2214
Helixi243 – 25210
Beta strandi263 – 2664
Helixi272 – 2798
Turni280 – 2823
Beta strandi289 – 2913
Beta strandi294 – 2974
Turni298 – 3014
Helixi302 – 3054
Helixi322 – 33211
Beta strandi336 – 3394
Beta strandi346 – 3483
Beta strandi351 – 36515
Beta strandi367 – 3693
Beta strandi373 – 3775
Helixi390 – 3978
Turni401 – 4044
Beta strandi409 – 4124
Beta strandi419 – 4246
Beta strandi430 – 4389
Helixi442 – 47029
Turni471 – 4733
Helixi474 – 4774
Helixi482 – 4854
Turni486 – 4927
Beta strandi495 – 4973
Helixi502 – 5087
Beta strandi512 – 5187
Beta strandi521 – 5233
Beta strandi526 – 5327
Beta strandi542 – 5443
Beta strandi547 – 5493
Beta strandi561 – 5633
Beta strandi565 – 5706
Beta strandi572 – 5743
Beta strandi581 – 5844
Helixi592 – 5943

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2Q2EX-ray4.00B1-621[»]
ProteinModelPortaliQ8PUB8.
SMRiQ8PUB8. Positions 11-606.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ8PUB8.

Family & Domainsi

Sequence similaritiesi

Belongs to the TOP6B family.UniRule annotation

Phylogenomic databases

eggNOGiarCOG01165. Archaea.
COG1389. LUCA.
HOGENOMiHOG000225919.
KOiK03167.
OMAiAIVNPHA.

Family and domain databases

CDDicd00823. TopoIIB_Trans. 1 hit.
Gene3Di3.30.230.10. 1 hit.
3.30.565.10. 1 hit.
HAMAPiMF_00322. Top6B. 1 hit.
InterProiIPR003594. HATPase_C.
IPR010979. Ribosomal_S13-like_H2TH.
IPR020568. Ribosomal_S5_D2-typ_fold.
IPR014721. Ribosomal_S5_D2-typ_fold_subgr.
IPR005734. TopoVI_B.
IPR015320. TopoVI_B_transducer.
[Graphical view]
PANTHERiPTHR10871:SF4. PTHR10871:SF4. 1 hit.
PfamiPF02518. HATPase_c. 1 hit.
PF09239. Topo-VIb_trans. 1 hit.
[Graphical view]
PIRSFiPIRSF006553. TopoVI_B. 1 hit.
ProDomiPD013790. TopoVI_B_transducer. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SMARTiSM00387. HATPase_c. 1 hit.
[Graphical view]
SUPFAMiSSF46946. SSF46946. 1 hit.
SSF54211. SSF54211. 1 hit.
SSF55874. SSF55874. 1 hit.
TIGRFAMsiTIGR01052. top6b. 1 hit.

Sequencei

Sequence statusi: Complete.

Q8PUB8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
METPIAEELA KKQKSISVAE FFEKNRQILG FDSAPRSLIT TVKEAVDNAL
60 70 80 90 100
DACEEAGILP DILVQVERTG PDYVTVIIED NGPGIVREQI PKVFAKLLYG
110 120 130 140 150
SRFHALKQSR GQQGIGISAA VLYAQMTAGR HTKILSKTSP TAPAHYYELM
160 170 180 190 200
INTSTNEPDI LVDEVRDWFR PHGTQIELEM RAAYVKGRRQ SIYEYLKATA
210 220 230 240 250
IVNPHARITL IDPDGNEEVF ERATDKMPEP AEEILPHPEG IELGTLMKML
260 270 280 290 300
HYTERQKLAP FLRYSFCKIG LLTAEEICKA AGLDPEIDPH ALGRHEARKL
310 320 330 340 350
IEAFEKVKIM APPTDCLSPI GEDLIYRGLE KETTVDFIAT STRKPAVYSG
360 370 380 390 400
NPFVVEVGMA YGGNLPKEEK ISIMRFANRV PLLYQQGGCV TTHAVEDIKW
410 420 430 440 450
KQYGLNQPGG GIPVGPVILL IHVASINVPF TSESKDAIAD IPVIKEEIDL
460 470 480 490 500
AIKEVARKLK HYLSKQSNLK KRREKEIIIT KVLPKLAAKV AHVLEKDVPD
510 520 530 540 550
INPVVAKIMG NLLVHRVIKN NGDGTVDVAI KVKNFGTSAY SFRVHEMLPC
560 570 580 590 600
KVSGAKPEPK VVTMGNDYDY VWDISASAGS SKVLSYKIES ASEEELQKLP
610 620
QLIVEGIEEE LVTGAKAFKG V
Length:621
Mass (Da):68,760
Last modified:October 10, 2002 - v1
Checksum:i7D2FEC4F2FA68AD6
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE008384 Genomic DNA. Translation: AAM32113.1.
RefSeqiWP_011034341.1. NC_003901.1.

Genome annotation databases

EnsemblBacteriaiAAM32113; AAM32113; MM_2417.
GeneIDi24865418.
KEGGimma:MM_2417.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE008384 Genomic DNA. Translation: AAM32113.1.
RefSeqiWP_011034341.1. NC_003901.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2Q2EX-ray4.00B1-621[»]
ProteinModelPortaliQ8PUB8.
SMRiQ8PUB8. Positions 11-606.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

DIPiDIP-29415N.
STRINGi192952.MM_2417.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAM32113; AAM32113; MM_2417.
GeneIDi24865418.
KEGGimma:MM_2417.

Phylogenomic databases

eggNOGiarCOG01165. Archaea.
COG1389. LUCA.
HOGENOMiHOG000225919.
KOiK03167.
OMAiAIVNPHA.

Enzyme and pathway databases

BioCyciMMAZ192952:GCK2-2475-MONOMER.
BRENDAi5.99.1.3. 3270.

Miscellaneous databases

EvolutionaryTraceiQ8PUB8.

Family and domain databases

CDDicd00823. TopoIIB_Trans. 1 hit.
Gene3Di3.30.230.10. 1 hit.
3.30.565.10. 1 hit.
HAMAPiMF_00322. Top6B. 1 hit.
InterProiIPR003594. HATPase_C.
IPR010979. Ribosomal_S13-like_H2TH.
IPR020568. Ribosomal_S5_D2-typ_fold.
IPR014721. Ribosomal_S5_D2-typ_fold_subgr.
IPR005734. TopoVI_B.
IPR015320. TopoVI_B_transducer.
[Graphical view]
PANTHERiPTHR10871:SF4. PTHR10871:SF4. 1 hit.
PfamiPF02518. HATPase_c. 1 hit.
PF09239. Topo-VIb_trans. 1 hit.
[Graphical view]
PIRSFiPIRSF006553. TopoVI_B. 1 hit.
ProDomiPD013790. TopoVI_B_transducer. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SMARTiSM00387. HATPase_c. 1 hit.
[Graphical view]
SUPFAMiSSF46946. SSF46946. 1 hit.
SSF54211. SSF54211. 1 hit.
SSF55874. SSF55874. 1 hit.
TIGRFAMsiTIGR01052. top6b. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiTOP6B_METMA
AccessioniPrimary (citable) accession number: Q8PUB8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 10, 2002
Last sequence update: October 10, 2002
Last modified: September 7, 2016
This is version 91 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, 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.