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Protein

DNA topoisomerase 4 subunit B

Gene

parE

Organism
Streptococcus pneumoniae (strain ATCC BAA-255 / R6)
Status
Unreviewed-Annotation score: Annotation score: 4 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.UniRule annotation

Catalytic activityi

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

Cofactori

Mg2+UniRule annotation, Mn2+UniRule annotation, Ca2+UniRule annotationNote: Binds two Mg(2+) per subunit. The magnesium ions form salt bridges with both the protein and the DNA. Can also accept other divalent metal cations, such as Mn(2+) or Ca2+.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei11 – 111ATPUniRule annotation
Binding sitei51 – 511ATPUniRule annotation
Binding sitei78 – 781ATPUniRule annotation
Binding sitei344 – 3441ATPUniRule annotation
Metal bindingi433 – 4331Magnesium 1; catalyticUniRule annotation
Sitei458 – 4581Interaction with DNAUniRule annotation
Sitei461 – 4611Interaction with DNAUniRule annotation
Metal bindingi506 – 5061Magnesium 1; catalyticUniRule annotation
Metal bindingi506 – 5061Magnesium 2UniRule annotation
Metal bindingi508 – 5081Magnesium 2UniRule annotation
Sitei513 – 5131Interaction with DNAUniRule annotation
Sitei629 – 6291Interaction with DNAUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi118 – 1247ATPUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase, TopoisomeraseUniRule annotation

Keywords - Ligandi

ATP-bindingUniRule annotation, DNA-bindingUniRule annotation, MagnesiumUniRule annotation, Metal-bindingUniRule annotation, Nucleotide-binding

Enzyme and pathway databases

BioCyciSPNE171101:GJC8-763-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA topoisomerase 4 subunit BUniRule annotation (EC:5.99.1.3UniRule annotation)
Alternative name(s):
Topoisomerase IV subunit BUniRule annotation
Gene namesi
Name:parEUniRule annotationImported
Ordered Locus Names:spr0756Imported
OrganismiStreptococcus pneumoniae (strain ATCC BAA-255 / R6)Imported
Taxonomic identifieri171101 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliLactobacillalesStreptococcaceaeStreptococcus
ProteomesiUP000000586 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Interactioni

Subunit structurei

Heterotetramer composed of ParC and ParE.UniRule annotation

Protein-protein interaction databases

STRINGi171101.spr0756.

Structurei

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4LP0X-ray1.95A1-226[»]
4LPBX-ray1.75A1-226[»]
4MOTX-ray1.75A1-226[»]
ProteinModelPortaliQ8DQB5.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

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

Sequence similaritiesi

Belongs to the type II topoisomerase family.UniRule annotation
Belongs to the type II topoisomerase family. ParE type 2 subfamily.UniRule annotation
Contains 1 Toprim domain.UniRule annotation
Contains Toprim domain.SAAS annotation

Phylogenomic databases

eggNOGiCOG0187.
HOGENOMiHOG000075154.
KOiK02622.
OMAiLEFVGQT.
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_C.
IPR005740. ParE.
IPR020568. Ribosomal_S5_D2-typ_fold.
IPR014721. Ribosomal_S5_D2-typ_fold_subgr.
IPR001241. Topo_IIA.
IPR013760. Topo_IIA-like_dom.
IPR013506. Topo_IIA_bsu_dom2.
IPR013759. Topo_IIA_cen_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.

Q8DQB5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSKKEININN YNDDAIQVLE GLDAVRKRPG MYIGSTDGAG LHHLVWEIVD
60 70 80 90 100
NAVDEALSGF GDRIDVTINK DGSLTVQDHG RGMPTGMHAM GIPTVEVIFT
110 120 130 140 150
ILHAGGKFGQ GGYKTSGGLH GVGSSVVNAL SSWLEVEITR DGAVYKQRFE
160 170 180 190 200
NGGKPVTTLK KIGTALKSKT GTKVTFMPDA TIFSTTDFKY NTISERLNES
210 220 230 240 250
AFLLKNVTLS LTDKRTDEAI EFHYENGVQD FVSYLNEDKE ILTPVLYFEG
260 270 280 290 300
EDNGFQVEVA LQYNDGFSDN ILSFVNNVRT KDGGTHETGL KSAITKVMND
310 320 330 340 350
YARKTGLLKE KDKNLEGSDY REGLAAVLSI LVPEEHLQFE GQTKDKLGSP
360 370 380 390 400
LARPVVDGIV ADKLTFFLME NGELASNLIR KAIKARDARE AARKARDESR
410 420 430 440 450
NGKKNKKDKG LLSGKLTPAQ SKNPAKNELY LVEGDSAGGS AKQGRDRKFQ
460 470 480 490 500
AILPLRGKVI NTAKAKMADI LKNEEINTMI YTIGAGVGAD FSIEDANYDK
510 520 530 540 550
IIIMTDADTD GAHIQTLLLT FFYRYMRPLV EAGHVYIALP PLYKMSKGKG
560 570 580 590 600
KKEEVAYAWT DGELEELRKQ FGKGATLQRY KGLGEMNADQ LWETTMNPET
610 620 630 640
RTLIRVTIED LARAERRVNV LMGDKVEPRR KWIEDNVKFT LEEATVF
Length:647
Mass (Da):71,665
Last modified:March 1, 2003 - v1
Checksum:i0AF7382C72772713
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE007317 Genomic DNA. Translation: AAK99560.1.
PIRiD97966.
RefSeqiNP_358350.1. NC_003098.1.
WP_000037270.1. NC_003098.1.

Genome annotation databases

EnsemblBacteriaiAAK99560; AAK99560; spr0756.
GeneIDi934298.
KEGGispr:spr0756.
PATRICi19701428. VBIStrPne107296_0836.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE007317 Genomic DNA. Translation: AAK99560.1.
PIRiD97966.
RefSeqiNP_358350.1. NC_003098.1.
WP_000037270.1. NC_003098.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4LP0X-ray1.95A1-226[»]
4LPBX-ray1.75A1-226[»]
4MOTX-ray1.75A1-226[»]
ProteinModelPortaliQ8DQB5.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi171101.spr0756.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAK99560; AAK99560; spr0756.
GeneIDi934298.
KEGGispr:spr0756.
PATRICi19701428. VBIStrPne107296_0836.

Phylogenomic databases

eggNOGiCOG0187.
HOGENOMiHOG000075154.
KOiK02622.
OMAiLEFVGQT.
OrthoDBiEOG6P334W.

Enzyme and pathway databases

BioCyciSPNE171101:GJC8-763-MONOMER.

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_C.
IPR005740. ParE.
IPR020568. Ribosomal_S5_D2-typ_fold.
IPR014721. Ribosomal_S5_D2-typ_fold_subgr.
IPR001241. Topo_IIA.
IPR013760. Topo_IIA-like_dom.
IPR013506. Topo_IIA_bsu_dom2.
IPR013759. Topo_IIA_cen_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]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC BAA-255 / R6Imported.
  2. "Fragment-to-hit-to-lead discovery of a novel pyridylurea scaffold of ATP competitive dual targeting type II topoisomerase inhibiting antibacterial agents."
    Basarab G.S., Manchester J.I., Bist S., Boriack-Sjodin P.A., Dangel B., Illingworth R., Sherer B.A., Sriram S., Uria-Nickelsen M., Eakin A.E.
    J. Med. Chem. 56:8712-8735(2013) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.75 ANGSTROMS) OF 1-226.
  3. Cited for: X-RAY CRYSTALLOGRAPHY (1.75 ANGSTROMS) OF 1-226.

Entry informationi

Entry nameiQ8DQB5_STRR6
AccessioniPrimary (citable) accession number: Q8DQB5
Entry historyi
Integrated into UniProtKB/TrEMBL: March 1, 2003
Last sequence update: March 1, 2003
Last modified: July 22, 2015
This is version 98 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

3D-structureCombined sources, Complete proteome, Reference proteomeImported

External Data

Dasty 3

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 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.