P77966 (GYRB_SYNY3) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
DNA gyrase subunit B
EC=5.99.1.3

Cleaved into the following chain:

1. Ssp gyrB intein

Gene names

Name:	gyrB
Ordered Locus Names:	sll2005

Organism

Synechocystis sp. (strain PCC 6803 / Kazusa) [Reference proteome] [HAMAP]

Taxonomic identifier

1111708 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Cyanobacteria › Oscillatoriophycideae › Chroococcales › Synechocystis › Synechocystis sp. PCC 6803

Protein attributes

Sequence length	1078 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Inferred from homology

General annotation (Comments)

Function	DNA gyrase negatively supercoils closed circular double-stranded DNA in an ATP-dependent manner and also catalyzes the interconversion of other topological isomers of double-stranded DNA rings, including catenanes and knotted rings By similarity. HAMAP-Rule MF_01898
Catalytic activity	ATP-dependent breakage, passage and rejoining of double-stranded DNA. HAMAP-Rule MF_01898
Cofactor	Magnesium. Binds two Mg2+ per subunit By similarity. HAMAP-Rule MF_01898
Subunit structure	Heterotetramer, composed of two GyrA and two GyrB chains. Within the heterotetramer, GyrA contains the active site tyrosine that forms a covalent intermediate with the DNA, while GyrB contributes the cofactor binding sites and catalyzes ATP hydrolysis By similarity.
Subcellular location	Cytoplasm Potential HAMAP-Rule MF_01898.
Post-translational modification	This protein undergoes a protein self splicing that involves a post-translational excision of the intervening region (intein) followed by peptide ligation Potential. HAMAP-Rule MF_01898
Sequence similarities	Belongs to the type II topoisomerase family. Contains 1 Toprim domain.

Ontologies

Keywords
Cellular component	Cytoplasm
Ligand	ATP-binding Magnesium Metal-binding Nucleotide-binding
Molecular function	Isomerase Topoisomerase
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	DNA topological change Inferred from electronic annotation. Source: InterPro intein-mediated protein splicing Inferred from electronic annotation. Source: InterPro
Cellular_component	chromosome Inferred from electronic annotation. Source: InterPro cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW DNA topoisomerase type II (ATP-hydrolyzing) activity Inferred from electronic annotation. Source: EC metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 436	436	DNA gyrase subunit B, 1st part Potential		PRO_0000034816
	Chain	437 – 871	435	Ssp gyrB intein Potential		PRO_0000034817
	Chain	872 – 1078	207	DNA gyrase subunit B, 2nd part Potential		PRO_0000034818
Regions
	Domain	889 – 974	86	Toprim
Sites
	Metal binding	895	1	Magnesium 1; catalytic By similarity
	Metal binding	939	1	Magnesium 1; catalytic By similarity
	Metal binding	939	1	Magnesium 2 By similarity
	Metal binding	941	1	Magnesium 2 By similarity

Sequences

	Sequence		Length	Mass (Da)
	P77966 [UniParc]. Last modified February 1, 1997. Version 1. Checksum: 6CA02586DFEA607B	FASTA	1,078	122,819
	10 20 30 40 50 60 MTMTTTNYGA DQIQVLEGLE PVRKRPGMYI GSTGPKGLHH LVYEVVDNAI DEALAGYCTH 70 80 90 100 110 120 IEIDINADGS VTVVDNGRGI PTDIHPTTGR SALETVLTVL HAGGKFGGGG YKVSGGLHGV 130 140 150 160 170 180 GVSVVNALSE WVEVKVWRQG KEHFQRFERG NPIGTLEATP NEGHSTGTQV SFLPDTQIFK 190 200 210 220 230 240 DGIEFDYHTL ASRLKELAYL NAGVRITFGD RRADSLKEEQ FYYEGGIREY VTYMTTDKTP 250 260 270 280 290 300 LHEEIIYTSG EKNDVQVEVA LQWCVDAYSD TLLGFANNIR TIDGGTHLEG LKAVLTRTLN 310 320 330 340 350 360 SVARKRNKLK DGDSNLGGEN IREGLTGVIS VKVPDPEFEG QTKTKLGNTE VRGIVDTLVG 370 380 390 400 410 420 EALTEFLEFN PGVADAIIEK AVQAFKAAEA ARRARELVRR KSVLESSTLP GKLADCSSKD 430 440 450 460 470 480 PSESEIFIVE GDSAGGCFSG DTLVALTDGR SVSFEQLVEE EKQGKQNFCY TIRHDGSIGV 490 500 510 520 530 540 EKIINARKTK TNAKVIKVTL DNGESIICTP DHKFMLRDGS YKCAMDLTLD DSLMPLHRKI 550 560 570 580 590 600 STTEDSGITI DGYEMVWSPR SDSWLFTHLV ADWYNRWQGI YIAEEKQHCH HKDFNKRNNN 610 620 630 640 650 660 PDNLIRLSPE KHLALHRKHI SKTLHRPDVV EKCRRIHQSP EFRRKMSARM QSPETRAILS 670 680 690 700 710 720 KQAQAQWQNE TYKLTMMESW RSFYDSNEDY RQQNAEQLNR AQQEYWAQAE NRTAQAERVR 730 740 750 760 770 780 QHFAQNPGLR QQYSENAVKQ WNNPELLKWR QKKTKEQWTP EFREKRREAL AQTYYRKTLA 790 800 810 820 830 840 ALKQVEIENG YLDISAYDSY RISTKDKSLL RFDRFCERYF ENDENLAREA VLNYNHRIVN 850 860 870 880 890 900 IEAVSETIDV YDIEVPHTHN FALASGVFVH NSAKQGRDRR FQAILPLRGK ILNIEKTDDA 910 920 930 940 950 960 KIYKNTEIQA LITALGLGIK GDDFDISSLR YHRVVIMTDA DVDGAHIRTL LLTFFYRYQR 970 980 990 1000 1010 1020 DLVDQGYIYI ACPPLYKLER GKNHFYCYSD RELQEQISQF PPNANYTIQR FKGLGEMMPQ 1030 1040 1050 1060 1070 QLWDTTMNPE SRTMKRVHIE DAAEADRIFT VLMGDRVAPR REFIETYGTK LDLTDLDI

References

[1]

"Sequence analysis of the genome of the unicellular cyanobacterium Synechocystis sp. strain PCC6803. II. Sequence determination of the entire genome and assignment of potential protein-coding regions." Kaneko T., Sato S., Kotani H., Tanaka A., Asamizu E., Nakamura Y., Miyajima N., Hirosawa M., Sugiura M., Sasamoto S., Kimura T., Hosouchi T., Matsuno A., Muraki A., Nakazaki N., Naruo K., Okumura S., Shimpo S. , Takeuchi C., Wada T., Watanabe A., Yamada M., Yasuda M., Tabata S. DNA Res. 3:109-136(1996) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: PCC 6803 / Kazusa.

Cross-references

Sequence databases
EMBL GenBank DDBJ	BA000022 Genomic DNA. Translation: BAA17720.1.
PIR	S77162.
RefSeq	NP_441040.1. NC_000911.1. YP_005651097.1. NC_017277.1. YP_007450922.1. NC_020286.1.
3D structure databases
ProteinModelPortal	P77966.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-48809N.
IntAct	P77966. 15 interactions.
STRING	1148.sll2005.
Proteomic databases
PaxDb	P77966.
PRIDE	P77966.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	BAA17720; BAA17720; BAA17720.
GeneID	12255343. 14616576. 954353.
KEGG	syn:sll2005. syy:SYNGTS_1144.
PATRIC	23839370. VBISynSp132158_1249.
Phylogenomic databases
eggNOG	COG0187.
HOGENOM	HOG000075154.
KO	K02470.
OMA	NARWREV.
Family and domain databases
Gene3D	3.30.230.10. 1 hit. 3.30.565.10. 1 hit. 3.40.50.670. 2 hits.
HAMAP	MF_01898. GyrB. Divergent sequence.
InterPro	IPR002288. DNA_gyrase_B_C. IPR011557. GyrB. IPR003594. HATPase_ATP-bd. IPR003586. Hint_dom_C. IPR003587. Hint_dom_N. IPR006141. Intein_splice_site. 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]
Pfam	PF00204. DNA_gyraseB. 1 hit. PF00986. DNA_gyraseB_C. 1 hit. PF02518. HATPase_c. 1 hit. PF01751. Toprim. 1 hit. [Graphical view]
PRINTS	PR00418. TPI2FAMILY.
SMART	SM00387. HATPase_c. 1 hit. SM00305. HintC. 1 hit. SM00306. HintN. 1 hit. SM00433. TOP2c. 1 hit. [Graphical view]
SUPFAM	SSF55874. ATP_bd_ATPase. 1 hit. SSF54211. Ribosomal_S5_D2-typ_fold. 1 hit. SSF56719. Topo_IIA_cen. 2 hits.
TIGRFAMs	TIGR01059. gyrB. 1 hit. TIGR01443. intein_Cterm. 1 hit. TIGR01445. intein_Nterm. 1 hit.
PROSITE	PS50818. INTEIN_C_TER. 1 hit. PS50817. INTEIN_N_TER. 1 hit. PS00177. TOPOISOMERASE_II. 1 hit. PS50880. TOPRIM. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

GYRB_SYNY3

Accession

Primary (citable) accession number: P77966

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1997
Last sequence update:	February 1, 1997
Last modified:	May 1, 2013
This is version 102 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program