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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

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

Catalytic activityi

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

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei65 – 651O-(5'-phospho-DNA)-tyrosine intermediateBy similarity

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

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini‹1 – 65›65DNA gyrase subunit A, 1st partPRO_0000034813Add
BLAST
Chaini66 – 263198Mxe gyrA inteinPRO_0000034814Add
BLAST
Chaini264 – ›327›64DNA gyrase subunit A, 2nd partPRO_0000034815Add
BLAST

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.

Keywords - PTMi

Autocatalytic cleavage, Protein splicing

Interactioni

Subunit structurei

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).By similarity

Structurei

Secondary structure

1
327
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi72 – 743Combined sources
Beta strandi80 – 823Combined sources
Helixi83 – 853Combined sources
Beta strandi94 – 10310Combined sources
Beta strandi109 – 12820Combined sources
Beta strandi133 – 1364Combined sources
Beta strandi141 – 1488Combined sources
Beta strandi151 – 1588Combined sources
Helixi159 – 1613Combined sources
Beta strandi167 – 1715Combined sources
Helixi172 – 1743Combined sources
Helixi201 – 2077Combined sources
Beta strandi209 – 2113Combined sources
Helixi214 – 2229Combined sources
Beta strandi226 – 25126Combined sources
Beta strandi253 – 2564Combined sources
Beta strandi259 – 2624Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1AM2X-ray2.20A67-263[»]
4OZ6X-ray2.79A66-267[»]
B62-65[»]
ProteinModelPortaliP72065.
SMRiP72065. Positions 3-65, 67-327.
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.
IPR002205. Topo_IIA_A/C.
IPR013758. Topo_IIA_A/C_ab.
IPR013760. Topo_IIA_like_dom.
[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)LengthDescriptionGraphical viewFeature identifierActions
Non-terminal residuei1 – 11
Non-terminal residuei327 – 3271

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
EntryMethodResolution (Å)ChainPositionsPDBsum
1AM2X-ray2.20A67-263[»]
4OZ6X-ray2.79A66-267[»]
B62-65[»]
ProteinModelPortaliP72065.
SMRiP72065. Positions 3-65, 67-327.
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.
IPR002205. Topo_IIA_A/C.
IPR013758. Topo_IIA_A/C_ab.
IPR013760. Topo_IIA_like_dom.
[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...

Publicationsi

  1. "The Mycobacterium xenopi GyrA protein splicing element: characterization of a minimal intein."
    Telenti A., Southworth M., Alcaide F., Daugelat S., Jacobs W.R. Jr., Perler F.B.
    J. Bacteriol. 179:6378-6382(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: IMM 5024.
  2. "Crystal structure of GyrA intein from Mycobacterium xenopi reveals structural basis of protein splicing."
    Klabunde T., Sharma S., Telenti A., Jacobs W.R. Jr., Sacchettini J.C.
    Nat. Struct. Biol. 5:31-36(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.2 ANGSTROMS) OF INTEIN.

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: June 24, 2015
This is version 98 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

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

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.