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Protein

DNA gyrase subunit A

Gene

gyrA

Organism
Mycobacterium xenopi
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

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.By similarity

Catalytic activityi

ATP-dependent breakage, passage and rejoining of double-stranded DNA.By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei65O-(5'-phospho-DNA)-tyrosine intermediateBy similarity1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase, Topoisomerase

Keywords - Ligandi

ATP-binding, DNA-binding, Nucleotide-binding

Protein family/group databases

MEROPSiN10.008.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA gyrase subunit A (EC:5.99.1.3)
Cleaved into the following chain:
Gene namesi
Name:gyrA
OrganismiMycobacterium xenopi
Taxonomic identifieri1789 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaCorynebacterialesMycobacteriaceaeMycobacterium

Subcellular locationi

  • Cytoplasm By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_0000034813‹1 – 65DNA gyrase subunit A, 1st partAdd BLAST›65
ChainiPRO_000003481466 – 263Mxe GyrA inteinAdd BLAST198
ChainiPRO_0000034815264 – ›327DNA gyrase subunit A, 2nd partAdd BLAST›64

Post-translational modificationi

This protein undergoes a protein self splicing that involves a post-translational excision of the intervening region (intein) followed by peptide ligation.1 Publication

Keywords - PTMi

Autocatalytic cleavage, Protein splicing

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.By similarity

Structurei

Secondary structure

1327
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi72 – 74Combined sources3
Beta strandi80 – 82Combined sources3
Helixi83 – 85Combined sources3
Beta strandi94 – 103Combined sources10
Beta strandi109 – 128Combined sources20
Beta strandi133 – 136Combined sources4
Beta strandi141 – 148Combined sources8
Beta strandi151 – 158Combined sources8
Helixi159 – 161Combined sources3
Beta strandi167 – 171Combined sources5
Helixi172 – 174Combined sources3
Helixi201 – 207Combined sources7
Beta strandi209 – 211Combined sources3
Helixi214 – 222Combined sources9
Beta strandi226 – 251Combined sources26
Beta strandi253 – 256Combined sources4
Beta strandi259 – 262Combined sources4

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1AM2X-ray2.20A67-263[»]
4OZ6X-ray2.79A66-267[»]
B62-65[»]
ProteinModelPortaliP72065.
SMRiP72065.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP72065.

Family & Domainsi

Sequence similaritiesi

Family and domain databases

Gene3Di2.170.16.10. 1 hit.
3.90.199.10. 2 hits.
InterProiIPR028992. Hedgehog/Intein_dom.
IPR003586. Hint_dom_C.
IPR003587. Hint_dom_N.
IPR030934. Intein_C.
IPR006141. Intein_N.
IPR013760. Topo_IIA-like_dom.
IPR002205. Topo_IIA_A/C.
IPR013758. Topo_IIA_A/C_ab.
[Graphical view]
PfamiPF00521. DNA_topoisoIV. 2 hits.
[Graphical view]
SMARTiSM00305. HintC. 1 hit.
SM00306. HintN. 1 hit.
SM00434. TOP4c. 1 hit.
[Graphical view]
SUPFAMiSSF51294. SSF51294. 1 hit.
SSF56719. SSF56719. 2 hits.
TIGRFAMsiTIGR01443. intein_Cterm. 1 hit.
TIGR01445. intein_Nterm. 1 hit.
PROSITEiPS50818. INTEIN_C_TER. 1 hit.
PS50817. INTEIN_N_TER. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Fragment.

Sequence processingi: The displayed sequence is further processed into a mature form.

P72065-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
RPDRSHAKSA RSVAETMGNY HPHGDASIYD TLVRMAQPWS MRYPLVDGQG
60 70 80 90 100
NFGSPGNDPP AAMRYCITGD ALVALPEGES VRIADIVPGA RPNSDNAIDL
110 120 130 140 150
KVLDRHGNPV LADRLFHSGE HPVYTVRTVE GLRVTGTANH PLLCLVDVAG
160 170 180 190 200
VPTLLWKLID EIKPGDYAVI QRSAFSVDCA GFARGKPEFA PTTYTVGVPG
210 220 230 240 250
LVRFLEAHHR DPDAQAIADE LTDGRFYYAK VASVTDAGVQ PVYSLRVDTA
260 270 280 290 300
DHAFITNGFV SHNTEAPLTP LAMEMLREID EETVDFIPNY DGRVQEPTVL
310 320
PSRFPNLLAN GSGGIAVGMA TNIPPHN
Length:327
Mass (Da):35,386
Last modified:January 1, 1998 - v2
Checksum:iEFAE9924D97068FB
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Non-terminal residuei11
Non-terminal residuei3271

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U67876 Genomic DNA. Translation: AAB81424.1.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U67876 Genomic DNA. Translation: AAB81424.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1AM2X-ray2.20A67-263[»]
4OZ6X-ray2.79A66-267[»]
B62-65[»]
ProteinModelPortaliP72065.
SMRiP72065.
ModBaseiSearch...
MobiDBiSearch...

Protein family/group databases

MEROPSiN10.008.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Miscellaneous databases

EvolutionaryTraceiP72065.

Family and domain databases

Gene3Di2.170.16.10. 1 hit.
3.90.199.10. 2 hits.
InterProiIPR028992. Hedgehog/Intein_dom.
IPR003586. Hint_dom_C.
IPR003587. Hint_dom_N.
IPR030934. Intein_C.
IPR006141. Intein_N.
IPR013760. Topo_IIA-like_dom.
IPR002205. Topo_IIA_A/C.
IPR013758. Topo_IIA_A/C_ab.
[Graphical view]
PfamiPF00521. DNA_topoisoIV. 2 hits.
[Graphical view]
SMARTiSM00305. HintC. 1 hit.
SM00306. HintN. 1 hit.
SM00434. TOP4c. 1 hit.
[Graphical view]
SUPFAMiSSF51294. SSF51294. 1 hit.
SSF56719. SSF56719. 2 hits.
TIGRFAMsiTIGR01443. intein_Cterm. 1 hit.
TIGR01445. intein_Nterm. 1 hit.
PROSITEiPS50818. INTEIN_C_TER. 1 hit.
PS50817. INTEIN_N_TER. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiGYRA_MYCXE
AccessioniPrimary (citable) accession number: P72065
Secondary accession number(s): P95323
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 15, 1998
Last sequence update: January 1, 1998
Last modified: November 2, 2016
This is version 104 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

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.By similarity

Keywords - Technical termi

3D-structure

Documents

  1. Intein-containing proteins
    List of intein-containing protein entries
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. 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.