gyrB

Functionⁱ

A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner.UniRule annotation

Miscellaneous

Few gyrases are as efficient as E.coli at forming negative supercoils. Not all organisms have 2 type II topoisomerases; in organisms with a single type II topoisomerase this enzyme also has to decatenate newly replicated chromosomes.UniRule annotation

Catalytic activityⁱ

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

Cofactorⁱ

Protein has several cofactor binding sites:

GO - Molecular functionⁱ

ATP binding Source: UniProtKB-UniRule
DNA binding Source: UniProtKB-KW
DNA topoisomerase type II (ATP-hydrolyzing) activity Source: UniProtKB-UniRule
metal ion binding Source: UniProtKB-KW

Complete GO annotation...

GO - Biological processⁱ

DNA-dependent DNA replication Source: UniProtKB-UniRule
DNA topological change Source: UniProtKB-UniRule

Complete GO annotation...

Keywordsⁱ

Molecular function	DNA-bindingSAAS annotation, Isomerase, TopoisomeraseUniRule annotationSAAS annotation
Ligand	ATP-bindingUniRule annotationSAAS annotation, MagnesiumSAAS annotation, Metal-bindingSAAS annotation, Nucleotide-binding

Names & Taxonomyⁱ

Protein namesⁱ	Recommended name: DNA gyrase subunit BUniRule annotationSAAS annotation (EC:5.99.1.3UniRule annotationSAAS annotation)
Gene namesⁱ	Name:gyrBUniRule annotation Ordered Locus Names:Slip_0005Imported
Organismⁱ	Syntrophothermus lipocalidus (strain DSM 12680 / TGB-C1)Imported
Taxonomic identifierⁱ	643648 [NCBI]
Taxonomic lineageⁱ	cellular organisms › Bacteria › Terrabacteria group › Firmicutes › Clostridia › Clostridiales › Syntrophomonadaceae › Syntrophothermus › Syntrophothermus lipocalidus
Proteomesⁱ	UP000000378 Componentⁱ: Chromosome

Subcellular locationⁱ

Cytoplasm
UniRule annotation
Automatic assertion according to rulesⁱ
- HAMAP-Rule:MF_01898

GO - Cellular componentⁱ

chromosome Source: InterPro
cytoplasm Source: UniProtKB-SubCell

Complete GO annotation...

Keywords - Cellular componentⁱ

CytoplasmUniRule annotation

Interactionⁱ

Subunit structureⁱ

Heterotetramer, composed of two GyrA and two GyrB chains. In the heterotetramer, GyrA contains the active site tyrosine that forms a transient covalent intermediate with DNA, while GyrB binds cofactors and catalyzes ATP hydrolysis.UniRule annotation

Protein-protein interaction databases

STRINGⁱ	643648.Slip_0005.

STRINGⁱ

643648.Slip_0005.

Structureⁱ

3D structure databases

ProteinModelPortalⁱ	D7CPP1.
ModBaseⁱ	Search...
MobiDBⁱ	Search...

Family & Domainsⁱ

Domains and Repeats

Feature key	Position(s)	DescriptionActions	Graphical view	Length
Domainⁱ	421 – 535	ToprimInterPro annotationAdd BLAST		115

Sequence similaritiesⁱ

Belongs to the type II topoisomerase family.UniRule annotation

Phylogenomic databases

eggNOGⁱ	ENOG4105C7D. Bacteria. COG0187. LUCA.
HOGENOMⁱ	HOG000075154.
KEGG Orthology (KO) More...KOⁱ	K02470.
OMAⁱ	DCSSRDP.
Database of Orthologous Groups More...OrthoDBⁱ	POG091H01XP.

Family and domain databases

Conserved Domains Database More...CDDⁱ	cd03366. TOPRIM_TopoIIA_GyrB. 1 hit.
Gene3Dⁱ	3.30.230.10. 1 hit. 3.30.565.10. 1 hit. 3.40.50.670. 1 hit.
HAMAPⁱ	MF_01898. GyrB. 1 hit.
InterProⁱ	View protein in InterPro IPR002288. DNA_gyrase_B_C. IPR011557. GyrB. IPR003594. HATPase_C. 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. IPR034160. TOPRIM_GyrB.
PANTHERⁱ	PTHR10169. PTHR10169. 1 hit.
Pfam protein domain database More...Pfamⁱ	View protein in Pfam PF00204. DNA_gyraseB. 1 hit. PF00986. DNA_gyraseB_C. 1 hit. PF02518. HATPase_c. 1 hit. PF01751. Toprim. 1 hit.
PRINTSⁱ	PR00418. TPI2FAMILY.
SMARTⁱ	View protein in SMART SM00387. HATPase_c. 1 hit. SM00433. TOP2c. 1 hit.
SUPFAMⁱ	SSF54211. SSF54211. 1 hit. SSF55874. SSF55874. 1 hit. SSF56719. SSF56719. 1 hit.
TIGRFAMsⁱ	TIGR01059. gyrB. 1 hit.
PROSITEⁱ	View protein in PROSITE PS00177. TOPOISOMERASE_II. 1 hit. PS50880. TOPRIM. 1 hit.

Sequenceⁱ

Sequence statusⁱ: Complete.

D7CPP1-1 [UniParc]FASTA Add to basket

« Hide

        10         20         30         40         50
MNINGSKNEY TALDIQVLEG LEAVRKRPGM YIGSTDSRGL HHLVFEIVDN 
        60         70         80         90        100
SIDEAVAGYC DEIKVIILDD STVTVTDNGR GIPVDMHPKM GIPALEVILT 
       110        120        130        140        150
TLHSGAKFGG SGYTISGGLH GVGLSVVNAL SRWLEVEVAR DGQLYHQRYE 
       160        170        180        190        200
RGKPVTPLAV TGACQTTGTK ITFSPDPEIF EEICFSAEII GQRLRELSYL 
       210        220        230        240        250
NQGTRIVLCD KRTGRDVEYY HTGGIRDFVK YLSKNREPLS PEPIYFRIGK 
       260        270        280        290        300
EGTVVEVAIQ YNTGYTETLL SYANNIHTQE GGTHELGFKN GLTRVVNEYA 
       310        320        330        340        350
KKQGMLKENE GNLLGEDIRE GMTAVISVLV QDPQFEGQTK TKLGNAFIRS 
       360        370        380        390        400
LVEGAVSDFV GAFFDENPSL AKKIVEKAIA ARRAREAARK ARELTRRKNL 
       410        420        430        440        450
LDSTSLPGKL ADCSEKDPAL SELYLVEGDS AGGSAKQGRD RNFQAILPLR 
       460        470        480        490        500
GKILNVEKAR LDKVLSNEEI RALITAIGTG IGEDFDINKA RYHRLIIMTD 
       510        520        530        540        550
ADVDGSHIRV LLLTFFYRYM RPLIEAGYVY VAQPPLYELK RGKEVHYIYN 
       560        570        580        590        600
DRELQRFLEQ QGNKKYGVKR YKGLGEMNPE QLWETTMNPE NRTLLQVRIE 
       610        620        630 
DAIAADVIFS SLMGEKVEPR REFIQENARL VTNLDI

Length:636

Mass (Da):71,076

Last modified:August 10, 2010 - v1

Checksum:ⁱ0799A7E8050557BF

GO

Sequence databases

Select the link destinations: EMBLⁱ GenBankⁱ DDBJⁱ Links Updated	CP002048 Genomic DNA. Translation: ADI00813.1.
NCBI Reference Sequences More...RefSeqⁱ	WP_013174217.1. NC_014220.1.

Genome annotation databases

EnsemblBacteriaⁱ	ADI00813; ADI00813; Slip_0005.
KEGGⁱ	slp:Slip_0005.

Similar proteinsⁱ

50% Identity

Protein	Similar proteins	Organisms	Length	Cluster ID	Cluster name	Size
D7CPP1	Q5NBJ3 A2ZRL7 A0A0P0V1K1 A0A0Q3RBM0 A0A0E0FJW2 A0A0E0MUF3 A0A0D9Y6J6 A2WN98 A0A0D9UZF7 A0A1R1APR8 +694	Oryza sativa subsp. japonica (Rice) Setaria italica (Foxtail millet) (Panicum italicum) Oryza nivara (Indian wild rice) Oryza rufipogon (Brownbeard rice) (Asian wild rice) Oryza glumipatula Oryza sativa subsp. indica (Rice) Leersia perrieri Paenibacillus sp. FSL A5-0031 Paenibacillus sp. FSL H8-0548 Bacillus sp. FJAT-28004 And more	729	UniRef50_Q5NBJ3	Cluster: DNA gyrase subunit B, chloroplastic/mitochondrial	705

Cross-referencesⁱ

Sequence databases

Select the link destinations: EMBLⁱ GenBankⁱ DDBJⁱ Links Updated	CP002048 Genomic DNA. Translation: ADI00813.1.
NCBI Reference Sequences More...RefSeqⁱ	WP_013174217.1. NC_014220.1.

3D structure databases

ProteinModelPortalⁱ	D7CPP1.
ModBaseⁱ	Search...
MobiDBⁱ	Search...

Protein-protein interaction databases

STRINGⁱ	643648.Slip_0005.

STRINGⁱ

643648.Slip_0005.

Protocols and materials databases

Structural Biology Knowledgebase	Search...

Structural Biology Knowledgebase

Search...

Genome annotation databases

EnsemblBacteriaⁱ	ADI00813; ADI00813; Slip_0005.
KEGGⁱ	slp:Slip_0005.

Phylogenomic databases

eggNOGⁱ	ENOG4105C7D. Bacteria. COG0187. LUCA.
HOGENOMⁱ	HOG000075154.
KEGG Orthology (KO) More...KOⁱ	K02470.
OMAⁱ	DCSSRDP.
Database of Orthologous Groups More...OrthoDBⁱ	POG091H01XP.

Family and domain databases

Conserved Domains Database More...CDDⁱ	cd03366. TOPRIM_TopoIIA_GyrB. 1 hit.
Gene3Dⁱ	3.30.230.10. 1 hit. 3.30.565.10. 1 hit. 3.40.50.670. 1 hit.
HAMAPⁱ	MF_01898. GyrB. 1 hit.
InterProⁱ	View protein in InterPro IPR002288. DNA_gyrase_B_C. IPR011557. GyrB. IPR003594. HATPase_C. 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. IPR034160. TOPRIM_GyrB.
PANTHERⁱ	PTHR10169. PTHR10169. 1 hit.
Pfam protein domain database More...Pfamⁱ	View protein in Pfam PF00204. DNA_gyraseB. 1 hit. PF00986. DNA_gyraseB_C. 1 hit. PF02518. HATPase_c. 1 hit. PF01751. Toprim. 1 hit.
PRINTSⁱ	PR00418. TPI2FAMILY.
SMARTⁱ	View protein in SMART SM00387. HATPase_c. 1 hit. SM00433. TOP2c. 1 hit.
SUPFAMⁱ	SSF54211. SSF54211. 1 hit. SSF55874. SSF55874. 1 hit. SSF56719. SSF56719. 1 hit.
TIGRFAMsⁱ	TIGR01059. gyrB. 1 hit.
PROSITEⁱ	View protein in PROSITE PS00177. TOPOISOMERASE_II. 1 hit. PS50880. TOPRIM. 1 hit.
ProtoNetⁱ	Search...

Entry informationⁱ

Entry nameⁱ	D7CPP1_SYNLT
Accessionⁱ	D7CPP1Primary (citable) accession number: D7CPP1
Entry historyⁱ	Integrated into UniProtKB/TrEMBL:	August 10, 2010
	Last sequence update:	August 10, 2010
	Last modified:	September 27, 2017
	This is version 61 of the entry and version 1 of the sequence. See complete history.
Entry statusⁱ	Unreviewed (UniProtKB/TrEMBL)

Miscellaneousⁱ

Keywords - Technical termⁱ

Complete proteome, Reference proteomeImported

UniProtKB

UniParc

Help

UniRef

Proteomes

Annotation systems

Supporting data

UniProtKB - D7CPP1 (D7CPP1_SYNLT)

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DNA gyrase subunit B

Select a section on the left to see content.

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

Miscellaneous

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Biological processi

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Cellular componenti

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

Protein-protein interaction databases

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Domains and Repeats

<p>This subsection of the ‘Family and domains’ section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Phylogenomic databases

Family and domain databases

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including length and molecular weight.<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

Sequence databases

Genome annotation databases

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

3D structure databases

Protein-protein interaction databases

Protocols and materials databases

Genome annotation databases

Phylogenomic databases

Family and domain databases

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This section contains any relevant information that doesn’t fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Functionⁱ

GO - Molecular functionⁱ

GO - Biological processⁱ

Names & Taxonomyⁱ

Subcellular locationⁱ

GO - Cellular componentⁱ

Interactionⁱ

Structureⁱ

Family & Domainsⁱ

Sequence similaritiesⁱ

Sequenceⁱ

Cross-referencesⁱ

Entry informationⁱ

Miscellaneousⁱ