Reviewed, UniProtKB/Swiss-Prot P72065 (GYRA_MYCXE)

Names and origin

Protein names

Recommended name:
    DNA gyrase subunit A
    EC=5.99.1.3
Cleaved into the following chain:
    1- Recommended name:
            Mxe gyrA intein

Gene names

Name:

gyrA

Organism

Mycobacterium xenopi

Taxonomic identifier

1789 [NCBI]

Taxonomic lineage

Bacteria › Actinobacteria › Actinobacteridae › Actinomycetales › Corynebacterineae › Mycobacteriaceae › Mycobacterium

Protein attributes

Sequence length	327 AA.
Sequence status	Fragment.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level.

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.
Catalytic activity	ATP-dependent breakage, passage and rejoining of double-stranded DNA.
Subunit structure	Made up of two chains. The A chain is responsible for DNA breakage and rejoining; the B chain catalyzes ATP hydrolysis. The enzyme forms an A2B2 tetramer.
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.
Sequence similarities	Belongs to the topoisomerase gyrA/parC subunit family.

Ontologies

Keywords
Ligand	ATP-binding DNA-binding Nucleotide-binding
Molecular function	Isomerase Topoisomerase
PTM	Autocatalytic cleavage Protein splicing
Technical term	3D-structure
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
Molecular function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW DNA topoisomerase (ATP-hydrolyzing) activity Inferred from electronic annotation. Source: EC
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

‹1 – 65

›65

DNA gyrase subunit A, 1st part

PRO_0000034813

Chain

66 – 263

198

Mxe gyrA intein

PRO_0000034814

Chain

264 – ›327

›64

DNA gyrase subunit A, 2nd part

PRO_0000034815

Sites

Active site

65

1

O-(5'-phospho-DNA)-tyrosine intermediate By similarity

Experimental info

Non-terminal residue

1

1

Non-terminal residue

327

1

Secondary structure

1

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

327

Helix Strand Turn

Details...

Beta strand

72 – 74

3

Beta strand

80 – 82

3

Helix

83 – 85

3

Beta strand

94 – 103

10

Beta strand

109 – 128

20

Beta strand

133 – 136

4

Beta strand

141 – 148

8

Beta strand

151 – 158

8

Helix

159 – 161

3

Beta strand

167 – 171

5

Helix

172 – 174

3

Helix

201 – 207

7

Beta strand

209 – 211

3

Helix

214 – 222

9

Beta strand

226 – 251

26

Beta strand

253 – 256

4

Beta strand

259 – 262

4

Sequences

	Sequence		Length	Mass (Da)
	P72065-1 [UniParc]. Last modified January 1, 1998. Version 2. Checksum: EFAE9924D97068FB	FASTA	327	35,386
	10 20 30 40 50 60 RPDRSHAKSA RSVAETMGNY HPHGDASIYD TLVRMAQPWS MRYPLVDGQG NFGSPGNDPP 70 80 90 100 110 120 AAMRYCITGD ALVALPEGES VRIADIVPGA RPNSDNAIDL KVLDRHGNPV LADRLFHSGE 130 140 150 160 170 180 HPVYTVRTVE GLRVTGTANH PLLCLVDVAG VPTLLWKLID EIKPGDYAVI QRSAFSVDCA 190 200 210 220 230 240 GFARGKPEFA PTTYTVGVPG LVRFLEAHHR DPDAQAIADE LTDGRFYYAK VASVTDAGVQ 250 260 270 280 290 300 PVYSLRVDTA DHAFITNGFV SHNTEAPLTP LAMEMLREID EETVDFIPNY DGRVQEPTVL 310 320 PSRFPNLLAN GSGGIAVGMA TNIPPHN

References

[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: 9335286] [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: 9437427] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.2 ANGSTROMS) OF INTEIN.

Cross-references

Sequence databases

EMBLGenBankDDBJ

U67876 Genomic DNA. Translation: AAB81424.1.

3D structure databases

PDBPDBe

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1AM2	X-ray	2.20	A	67-263	[»]

ModBase

Search...

Enzyme and pathway databases

BRENDA

5.99.1.3. 296992.

Family and domain databases

InterPro

IPR003586. Hedgehog_hint_C.
IPR003587. Hedgehog_hint_N.
IPR006141. Intein_splicing_site.
IPR002205. Topo_IIA_A/C.
IPR013758. Topo_IIA_A/C_ab.
[Graphical view]

Gene3D

G3DSA:3.90.199.10. Topo_IIA_A/C_ab. 1 hit.

Pfam

PF00521. DNA_topoisoIV. 1 hit.
[Graphical view]

ProDom

PD000742. DNA_topoisoIV. 1 hit.
[Graphical view] [Entries sharing at least one domain]

SMART

SM00305. HintC. 1 hit.
SM00306. HintN. 1 hit.
SM00434. TOP4c. 1 hit.
[Graphical view]

TIGRFAMs

TIGR01443. intein_Cterm. 1 hit.
TIGR01445. intein_Nterm. 1 hit.

PROSITE

PS50818. INTEIN_C_TER. 1 hit.
PS50817. INTEIN_N_TER. 1 hit.
[Graphical view]

ProtoNet

Search...

Entry information

Entry name

GYRA_MYCXE

Accession

Primary (citable) accession number: P72065
Secondary accession number(s): P95323

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 15, 1998
Last sequence update:	January 1, 1998
Last modified:	June 16, 2009
This is version 65 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)