7P2X

E.coli GyrB24 with inhibitor KOB20 (EBL2583)

• PDB DOI: https://doi.org/10.2210/pdb7P2X/pdb

• Classification: DNA BINDING PROTEIN
• Organism(s): Escherichia coli K-12
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2021-07-06 Released: 2022-07-20 
• Deposition Author(s): Stevenson, C.E.M., Lawson, D.M., Maxwell, A.M., Henderson, S.R., Kikelj, D., Benek, O., Zega, A., Zidar, N., Ilas, J., Tomasic, T., Masic, L.P.
• Funding Organization(s): Innovative Medicines Initiative, Wellcome Trust, Biotechnology and Biological Sciences Research Council (BBSRC), European Communitys Seventh Framework Programme, Slovenian Research Agency

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.199 
• R-Value Work: 0.142 
• R-Value Observed: 0.145 

Starting Model: experimental

Literature

E.coli GyrB24 with inhibitor KOB20 (EBL2583)

Stevenson, C.E.M., Lawson, D.M., Maxwell, A.M., Henderson, S.R., Kikelj, D., Benek, O., Zega, A., Zidar, N., Ilas, J., Tomasic, T., Masic, L.P.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 24.82 kDa 
• Atom Count: 1,758 
• Modelled Residue Count: 195 
• Deposited Residue Count: 220 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA gyrase subunit B	A	220	Escherichia coli K-12	Mutation(s): 0  Gene Names: gyrB, acrB, cou, himB, hisU, nalC, parA, pcbA, b3699, JW5625 EC: 5.6.2.2
UniProt
Find proteins for P0AES6 (Escherichia coli (strain K12)) Explore P0AES6  Go to UniProtKB:  P0AES6

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
4Q6 (Subject of Investigation/LOI)	B [auth A]	(2Z)-2-[[4,5-bis(bromanyl)-1H-pyrrol-2-yl]carbonylimino]-3-(phenylmethyl)-1,3-benzothiazole-6-carboxylic acid C20 H13 Br2 N3 O3 S BDKGNCMGGSFVCT-GFMRDNFCSA-N
PO4	C [auth A]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.199 
• R-Value Work: 0.142 
• R-Value Observed: 0.145 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 76.17	α = 90
b = 49.77	β = 102.11
c = 53.04	γ = 90

Software Package:

Software Name	Purpose
XDS	data reduction
Aimless	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
REFMAC	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2022-07-20 
Deposition Author(s): Stevenson, C.E.M., Lawson, D.M., Maxwell, A.M., Henderson, S.R., Kikelj, D., Benek, O., Zega, A., Zidar, N., Ilas, J., Tomasic, T., Masic, L.P.

---

Funding Organization	Location	Grant Number
Innovative Medicines Initiative	European Union	Grant No. 115583
Wellcome Trust	United Kingdom	110072/Z/15/Z
Biotechnology and Biological Sciences Research Council (BBSRC)	United Kingdom	BBSRC Institute Strategic Programme Grant
European Communitys Seventh Framework Programme	European Union	(FP7/2007-2013)
Slovenian Research Agency	European Union	P1-0208

Revision History  

• Version 1.0: 2022-07-20
  Type: Initial release
  
• Version 1.1: 2024-01-31
  Changes: Data collection, Refinement description