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Q59961

- PARE_STRPN

UniProt

Q59961 - PARE_STRPN

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Protein

DNA topoisomerase 4 subunit B

Gene
parE, SP_0852
Organism
Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

Functioni

Topoisomerase IV is essential for chromosome segregation. It relaxes supercoiled DNA. Performs the decatenation events required during the replication of a circular DNA molecule.2 Publications

Catalytic activityi

ATP-dependent breakage, passage and rejoining of double-stranded DNA.2 Publications

Cofactori

Magnesium. 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+ and Ca2+.1 Publication

Enzyme regulationi

Inhibited by quinolones, such as levofloxacin.1 Publication

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei11 – 111ATP By similarity
Binding sitei51 – 511ATP By similarity
Binding sitei78 – 781ATP By similarity
Binding sitei344 – 3441ATP By similarity
Metal bindingi433 – 4331Magnesium 1; catalytic
Sitei458 – 4581Interaction with DNA By similarity
Sitei461 – 4611Interaction with DNA By similarity
Metal bindingi506 – 5061Magnesium 1; catalytic
Metal bindingi506 – 5061Magnesium 2
Metal bindingi508 – 5081Magnesium 2
Sitei513 – 5131Interaction with DNA By similarity
Sitei629 – 6291Interaction with DNA By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi118 – 1247ATP By similarity

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-HAMAP
  2. DNA binding Source: UniProtKB-HAMAP
  3. DNA topoisomerase type II (ATP-hydrolyzing) activity Source: UniProtKB-HAMAP
  4. magnesium ion binding Source: UniProtKB-HAMAP

GO - Biological processi

  1. chromosome segregation Source: UniProtKB-HAMAP
  2. DNA topological change Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Isomerase, Topoisomerase

Keywords - Ligandi

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

Enzyme and pathway databases

BioCyciSPNE170187:GHGN-854-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA topoisomerase 4 subunit B (EC:5.99.1.3)
Alternative name(s):
Topoisomerase IV subunit B
Gene namesi
Name:parE
Ordered Locus Names:SP_0852
OrganismiStreptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4)
Taxonomic identifieri170187 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliLactobacillalesStreptococcaceaeStreptococcus
ProteomesiUP000000585: Chromosome

Subcellular locationi

GO - Cellular componenti

  1. chromosome Source: InterPro
Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 647647DNA topoisomerase 4 subunit BUniRule annotationPRO_0000145443Add
BLAST

Interactioni

Subunit structurei

Heterotetramer composed of ParC and ParE.3 Publications

Protein-protein interaction databases

DIPiDIP-48520N.
STRINGi170187.SP_0852.

Structurei

Secondary structure

1
647
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Turni424 – 4263
Beta strandi428 – 4336
Helixi435 – 4439
Turni447 – 4493
Beta strandi450 – 4556
Turni462 – 4643
Helixi467 – 4715
Helixi474 – 48310
Helixi488 – 4903
Helixi493 – 4953
Beta strandi499 – 5046
Helixi509 – 52416
Helixi527 – 5315
Beta strandi535 – 5384
Beta strandi542 – 5476
Helixi550 – 5523
Beta strandi554 – 5585
Helixi561 – 57010
Beta strandi576 – 5794
Helixi583 – 5853
Helixi588 – 5958
Turni598 – 6003
Beta strandi603 – 6075
Helixi612 – 62211
Helixi627 – 63610

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3FOEX-ray4.00C/D404-647[»]
3FOFX-ray4.00C/D404-647[»]
3K9FX-ray2.90C/D404-647[»]
3KSAX-ray3.30C/D404-647[»]
3KSBX-ray3.50C/D404-647[»]
3LTNX-ray3.10C/D404-647[»]
3RADX-ray3.35C/D404-647[»]
3RAEX-ray2.90C/D404-647[»]
3RAFX-ray3.24C/D404-647[»]
4JUOX-ray6.53C1-647[»]
ProteinModelPortaliQ59961.

Miscellaneous databases

EvolutionaryTraceiQ59961.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini427 – 541115ToprimAdd
BLAST

Sequence similaritiesi

Contains 1 Toprim domain.

Phylogenomic databases

eggNOGiCOG0187.
HOGENOMiHOG000075154.
KOiK02622.
OMAiREEFHYE.
OrthoDBiEOG6P334W.

Family and domain databases

Gene3Di3.30.230.10. 1 hit.
3.30.565.10. 1 hit.
3.40.50.670. 1 hit.
HAMAPiMF_00939. ParE_type2.
InterProiIPR002288. DNA_gyrase_B_C.
IPR003594. HATPase_ATP-bd.
IPR005740. ParE.
IPR020568. Ribosomal_S5_D2-typ_fold.
IPR014721. Ribosomal_S5_D2-typ_fold_subgr.
IPR001241. Topo_IIA.
IPR013506. Topo_IIA_bsu_dom2.
IPR013759. Topo_IIA_cen_dom.
IPR013760. Topo_IIA_like_dom.
IPR018522. TopoIIA_CS.
IPR006171. Toprim_domain.
[Graphical view]
PfamiPF00204. DNA_gyraseB. 1 hit.
PF00986. DNA_gyraseB_C. 1 hit.
PF02518. HATPase_c. 1 hit.
PF01751. Toprim. 1 hit.
[Graphical view]
PRINTSiPR00418. TPI2FAMILY.
SMARTiSM00387. HATPase_c. 1 hit.
SM00433. TOP2c. 1 hit.
[Graphical view]
SUPFAMiSSF54211. SSF54211. 1 hit.
SSF55874. SSF55874. 1 hit.
SSF56719. SSF56719. 1 hit.
TIGRFAMsiTIGR01058. parE_Gpos. 1 hit.
PROSITEiPS00177. TOPOISOMERASE_II. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q59961-1 [UniParc]FASTAAdd to Basket

« Hide

MSKKEININN YNDDAIQVLE GLDAVRKRPG MYIGSTDGAG LHHLVWEIVD    50
NAVDEALSGF GDRIDVTINK DGSLTVQDHG RGMPTGMHAM GIPTVEVIFT 100
ILHAGGKFGQ GGYKTSGGLH GVGSSVVNAL SSWLEVEITR DGAVYKQRFE 150
NGGKPVTTLK KIGTAPKSKT GTKVTFMPDA TIFSTTDFKY NTISERLNES 200
AFLLKNVTLS LTDKRTNEAI EFHYENGVQD FVSYLNEDKE ILTPVLYFEG 250
EDNGFQVEVA LQYNDGFSDN ILSFVNNVRT KDGGTHETGL KSAITKVMND 300
YARKTGLLKE KDKNLEGSDY REGLAAVLSI LVPEEHLQFE GQTKDKLGSP 350
LARPVVDGIV ADKLTFFLME NGELASNLIR KAIKARDARE AARKARDESR 400
NGKKNKKDKG LLSGKLTPAQ SKNPAKNELY LVEGDSAGGS AKQGRDRKFQ 450
AILPLRGKVV NTAKAKMADI LKNEEINTMI YTIGAGVGAD FSIEDANYDK 500
IIIMTDADTD GAHIQTLLLT FFYRYMRPLV EAGHVYIALP PLYKMSKGKG 550
KKEEVAYAWT DGELEELRKQ FGKGATLQRY KGLGEMNADQ LWETTMNPET 600
RTLIRVTIED LARAERRVNV LMGDKVEPRR KWIEDNVKFT LEETTVF 647
Length:647
Mass (Da):71,664
Last modified:September 26, 2001 - v3
Checksum:iB688A526C9A4E7BA
GO

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti166 – 1661P → L in CAA65022. 1 Publication
Sequence conflicti217 – 2171N → D1 Publication
Sequence conflicti217 – 2171N → D1 Publication
Sequence conflicti460 – 4601V → I1 Publication
Sequence conflicti460 – 4601V → I1 Publication
Sequence conflicti568 – 5681R → L in CAA65022. 1 Publication
Sequence conflicti644 – 6441T → A1 Publication
Sequence conflicti644 – 6441T → A1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
Z67739 Genomic DNA. Translation: CAA91550.2.
AE005672 Genomic DNA. Translation: AAK74981.1.
X95717 Genomic DNA. Translation: CAA65022.1.
PIRiD95098.
RefSeqiNP_345341.1. NC_003028.3.
WP_000037283.1. NZ_AKVY01000001.1.

Genome annotation databases

EnsemblBacteriaiAAK74981; AAK74981; SP_0852.
GeneIDi930802.
KEGGispn:SP_0852.
PATRICi19706089. VBIStrPne105772_0891.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
Z67739 Genomic DNA. Translation: CAA91550.2 .
AE005672 Genomic DNA. Translation: AAK74981.1 .
X95717 Genomic DNA. Translation: CAA65022.1 .
PIRi D95098.
RefSeqi NP_345341.1. NC_003028.3.
WP_000037283.1. NZ_AKVY01000001.1.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
3FOE X-ray 4.00 C/D 404-647 [» ]
3FOF X-ray 4.00 C/D 404-647 [» ]
3K9F X-ray 2.90 C/D 404-647 [» ]
3KSA X-ray 3.30 C/D 404-647 [» ]
3KSB X-ray 3.50 C/D 404-647 [» ]
3LTN X-ray 3.10 C/D 404-647 [» ]
3RAD X-ray 3.35 C/D 404-647 [» ]
3RAE X-ray 2.90 C/D 404-647 [» ]
3RAF X-ray 3.24 C/D 404-647 [» ]
4JUO X-ray 6.53 C 1-647 [» ]
ProteinModelPortali Q59961.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

DIPi DIP-48520N.
STRINGi 170187.SP_0852.

Chemistry

ChEMBLi CHEMBL2363033.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAK74981 ; AAK74981 ; SP_0852 .
GeneIDi 930802.
KEGGi spn:SP_0852.
PATRICi 19706089. VBIStrPne105772_0891.

Phylogenomic databases

eggNOGi COG0187.
HOGENOMi HOG000075154.
KOi K02622.
OMAi REEFHYE.
OrthoDBi EOG6P334W.

Enzyme and pathway databases

BioCyci SPNE170187:GHGN-854-MONOMER.

Miscellaneous databases

EvolutionaryTracei Q59961.

Family and domain databases

Gene3Di 3.30.230.10. 1 hit.
3.30.565.10. 1 hit.
3.40.50.670. 1 hit.
HAMAPi MF_00939. ParE_type2.
InterProi IPR002288. DNA_gyrase_B_C.
IPR003594. HATPase_ATP-bd.
IPR005740. ParE.
IPR020568. Ribosomal_S5_D2-typ_fold.
IPR014721. Ribosomal_S5_D2-typ_fold_subgr.
IPR001241. Topo_IIA.
IPR013506. Topo_IIA_bsu_dom2.
IPR013759. Topo_IIA_cen_dom.
IPR013760. Topo_IIA_like_dom.
IPR018522. TopoIIA_CS.
IPR006171. Toprim_domain.
[Graphical view ]
Pfami PF00204. DNA_gyraseB. 1 hit.
PF00986. DNA_gyraseB_C. 1 hit.
PF02518. HATPase_c. 1 hit.
PF01751. Toprim. 1 hit.
[Graphical view ]
PRINTSi PR00418. TPI2FAMILY.
SMARTi SM00387. HATPase_c. 1 hit.
SM00433. TOP2c. 1 hit.
[Graphical view ]
SUPFAMi SSF54211. SSF54211. 1 hit.
SSF55874. SSF55874. 1 hit.
SSF56719. SSF56719. 1 hit.
TIGRFAMsi TIGR01058. parE_Gpos. 1 hit.
PROSITEi PS00177. TOPOISOMERASE_II. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Cloning and characterization of the parC and parE genes of Streptococcus pneumoniae encoding DNA topoisomerase IV: role in fluoroquinolone resistance."
    Pan X., Fisher M.
    J. Bacteriol. 178:4060-4069(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: 7785.
  2. Pan X.
    Submitted (JAN-2000) to the EMBL/GenBank/DDBJ databases
    Cited for: SEQUENCE REVISION TO 329; 347 AND 351.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC BAA-334 / TIGR4.
  4. "ParC subunit of DNA topoisomerase IV of Streptococcus pneumoniae is a primary target of fluoroquinolones and cooperates with DNA gyrase A subunit in forming resistance phenotype."
    Munoz R., de la Campa A.G.
    Antimicrob. Agents Chemother. 40:2252-2257(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 93-647.
    Strain: D39 / NCTC 7466 / Serotype 2.
  5. "Breakage-reunion domain of Streptococcus pneumoniae topoisomerase IV: crystal structure of a gram-positive quinolone target."
    Laponogov I., Veselkov D.A., Sohi M.K., Pan X.S., Achari A., Yang C., Ferrara J.D., Fisher L.M., Sanderson M.R.
    PLoS ONE 2:E301-E301(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, CATALYTIC ACTIVITY, SUBUNIT.
  6. "Structural insight into the quinolone-DNA cleavage complex of type IIA topoisomerases."
    Laponogov I., Sohi M.K., Veselkov D.A., Pan X.S., Sawhney R., Thompson A.W., McAuley K.E., Fisher L.M., Sanderson M.R.
    Nat. Struct. Mol. Biol. 16:667-669(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (4.0 ANGSTROMS) OF 404-647 IN COMPLEX WITH PARC AND DNA, SUBUNIT.
  7. "Structural basis of gate-DNA breakage and resealing by type II topoisomerases."
    Laponogov I., Pan X.S., Veselkov D.A., McAuley K.E., Fisher L.M., Sanderson M.R.
    PLoS ONE 5:E11338-E11338(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.9 ANGSTROMS) OF 404-647 IN COMPLEX WITH PARC; MAGNESIUM; LEVOFLOXACIN AND DNA, CATALYTIC ACTIVITY, FUNCTION, ENZYME REGULATION, COFACTOR, SUBUNIT.

Entry informationi

Entry nameiPARE_STRPN
AccessioniPrimary (citable) accession number: Q59961
Secondary accession number(s): P77956
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 15, 1998
Last sequence update: September 26, 2001
Last modified: September 3, 2014
This is version 103 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete 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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