← Back to search
2xcr

The 3.5A crystal structure of the catalytic core (B'A' region) of Staphylococcus aureus DNA Gyrase complexed with GSK299423 and DNA

Method: X-RAY DIFFRACTION
▼

1. Protein Identity and Related Structures Protein Identity & Related Structures

DNA GYRASE SUBUNIT B, DNA GYRASE SUBUNIT A

STAPHYLOCOCCUS AUREUS

UniProt P66937

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Insufficient information Homooligomer Protein 2 DNA 2 ;5'-D(*5UA*GP*CP*CP*GP*TP*AP*GP*GP*GP*CP*CP*CP*TP*AP*CP*GP *GP*CP*TP)-3' ; × 2 6-METHOXY-4-(2-{4-[([1,3]OXATHIOLO[5,4-C]PYRIDIN-6-YLMETHYL)AMINO]PIPERIDIN-1-YL}ETHYL)QUINOLINE-3-CARBONITRILE × 1 Consistent with all polymers
2 Insufficient information Homooligomer Protein 2 DNA 2 ;5'-D(*AP*GP*CP*CP*GP*TP*AP*GP*GP*GP*CP*CP*CP*TP*AP*CP*GP *GP*CP*TP)-3' ; × 2 6-METHOXY-4-(2-{4-[([1,3]OXATHIOLO[5,4-C]PYRIDIN-6-YLMETHYL)AMINO]PIPERIDIN-1-YL}ETHYL)QUINOLINE-3-CARBONITRILE × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
2xco 2xcq 2xcr 2xcr 2xcs 2xct 2xct 4bul 5cdm 5cdn 5cdn 5cdo

38 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name GYRB_STAAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain B； PDBConstruct 2–236； UniProt 410–644 Author chain D； PDBConstruct 2–236； UniProt 410–644 Author chain S； PDBConstruct 2–236； UniProt 410–644 Author chain U； PDBConstruct 2–236； UniProt 410–644

DNA GYRASE SUBUNIT B, DNA GYRASE SUBUNIT A

STAPHYLOCOCCUS AUREUS

UniProt Q99XG5

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Insufficient information Homooligomer Protein 2 DNA 2 ;5'-D(*5UA*GP*CP*CP*GP*TP*AP*GP*GP*GP*CP*CP*CP*TP*AP*CP*GP *GP*CP*TP)-3' ; × 2 6-METHOXY-4-(2-{4-[([1,3]OXATHIOLO[5,4-C]PYRIDIN-6-YLMETHYL)AMINO]PIPERIDIN-1-YL}ETHYL)QUINOLINE-3-CARBONITRILE × 1 Consistent with all polymers
2 Insufficient information Homooligomer Protein 2 DNA 2 ;5'-D(*AP*GP*CP*CP*GP*TP*AP*GP*GP*GP*CP*CP*CP*TP*AP*CP*GP *GP*CP*TP)-3' ; × 2 6-METHOXY-4-(2-{4-[([1,3]OXATHIOLO[5,4-C]PYRIDIN-6-YLMETHYL)AMINO]PIPERIDIN-1-YL}ETHYL)QUINOLINE-3-CARBONITRILE × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
2xco 2xcq 2xcr 2xcr 2xcs 2xct 2xct 4bul 5cdm 5cdn 5cdn 5cdo

41 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name GYRA_STAAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain B； PDBConstruct 237–726； UniProt 2–491 Author chain D； PDBConstruct 237–726； UniProt 2–491 Author chain S； PDBConstruct 237–726； UniProt 2–491 Author chain U； PDBConstruct 237–726； UniProt 2–491

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

▼

2. Structure Basics 2. Structure Basics

Entry ID entry_id2xcr
Deposition date deposition_date2010-04-25
Structure title titleThe 3.5A crystal structure of the catalytic core (B'A' region) of Staphylococcus aureus DNA Gyrase complexed with GSK299423 and DNA
Keywords keywordsISOMERASE; ISOMERASE
Experimental Method methodX-RAY DIFFRACTION
▼

3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

2xcr__assembly_2__model_1

Assembly 2 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

2xcr__assembly_2__model_1 | I(q)

10-2 10-1 106 107 108 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

2xcr__assembly_2__model_1 | P(r) · Pending

The new assembly/model P(r) has not been calculated yet This placeholder does not display legacy data r (Angstrom) P(r)
P(r) will be calculated and displayed separately for the same assembly/model.
Rg（Guinier）37.29 Å
Rg (electron density)36.95 Å
Total Rg37.40 Å
Atom count12195
Residues1473
Excluded volume214070 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 2xcr__assembly_1__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 2xcr__assembly_2__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
▶

4. Crystallography and Experiment 4. Crystallography & Experiment

▶

5. Entities and Polymers Entities & Polymers (4)

▼

6. Fold Classification (SCOP + CATH) 16 domains

CATH v4.4 (16 domains)

Domain ID domain_id2xcrB01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily670 —
Domain ID domain_id2xcrB02
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology199 — Topoisomerase II; domain 5
Homologous superfamily homologous superfamily10 — Topoisomerase II, domain 5
Domain ID domain_id2xcrB03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1360 — Gyrase A; domain 2
Homologous superfamily homologous superfamily40 —
Domain ID domain_id2xcrB04
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology268 — Topoisomerase; domain 3
Homologous superfamily homologous superfamily10 — Topoisomerase, domain 3
Domain ID domain_id2xcrD01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily670 —
Domain ID domain_id2xcrD02
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology199 — Topoisomerase II; domain 5
Homologous superfamily homologous superfamily10 — Topoisomerase II, domain 5
Domain ID domain_id2xcrD03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1360 — Gyrase A; domain 2
Homologous superfamily homologous superfamily40 —
Domain ID domain_id2xcrD04
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology268 — Topoisomerase; domain 3
Homologous superfamily homologous superfamily10 — Topoisomerase, domain 3
Domain ID domain_id2xcrS01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily670 —
Domain ID domain_id2xcrS02
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology199 — Topoisomerase II; domain 5
Homologous superfamily homologous superfamily10 — Topoisomerase II, domain 5
Domain ID domain_id2xcrS03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1360 — Gyrase A; domain 2
Homologous superfamily homologous superfamily40 —
Domain ID domain_id2xcrS04
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology268 — Topoisomerase; domain 3
Homologous superfamily homologous superfamily10 — Topoisomerase, domain 3
Domain ID domain_id2xcrU01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily670 —
Domain ID domain_id2xcrU02
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology199 — Topoisomerase II; domain 5
Homologous superfamily homologous superfamily10 — Topoisomerase II, domain 5
Domain ID domain_id2xcrU03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1360 — Gyrase A; domain 2
Homologous superfamily homologous superfamily40 —
Domain ID domain_id2xcrU04
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology268 — Topoisomerase; domain 3
Homologous superfamily homologous superfamily10 — Topoisomerase, domain 3
▶

7. Citations (1)