7TRR | pdb_00007trr

Structure of Neisseria gonorrhoeae peptidoglycan O-acetyltransferase B (PatB) with methylsulfonyl adduct

PDB DOI: https://doi.org/10.2210/pdb7TRR/pdb

Classification: TRANSFERASE
Organism(s): Neisseria gonorrhoeae FA 1090
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2022-01-30 Released: 2023-02-01
Deposition Author(s): Brott, A.S., Stangherlin, S., Clarke, A.J.
Funding Organization(s): Canadian Institutes of Health Research (CIHR), Canadian Glycomics Network (GLYCONET)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free:
0.229 (Depositor), 0.232 (DCC)
R-Value Work:
0.196 (Depositor), 0.200 (DCC)
R-Value Observed:
0.197 (Depositor)

Starting Model: experimental
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Literature

Structure of Neisseria gonorrhoeae peptidoglycan O-acetyltransferase B (PatB)

Brott, A.S., Stangherlin, S., Clarke, A.J.

To be published.

Macromolecule Content

Total Structure Weight: 25.53 kDa
Atom Count: 1,890
Modeled Residue Count: 219
Deposited Residue Count: 225
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Peptidoglycan O-acetyltransferase B	A	225	Neisseria gonorrhoeae FA 1090	Mutation(s): 0 Gene Names: NGO_0533
UniProt
Find proteins for Q5F966 (Neisseria gonorrhoeae (strain ATCC 700825 / FA 1090)) Explore Q5F966 Go to UniProtKB: Q5F966
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q5F966
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
03S (Subject of Investigation/LOI) Query on 03S Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	methanesulfonic acid C H₄ O₃ S AFVFQIVMOAPDHO-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.229 (Depositor), 0.232 (DCC)
R-Value Work: 0.196 (Depositor), 0.200 (DCC)
R-Value Observed: 0.197 (Depositor)

Space Group: H 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 145.68	α = 90
b = 145.68	β = 90
c = 78.41	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2023-02-01

Deposition Author(s):

Stangherlin, S.

Funding Organization	Location	Grant Number
Canadian Institutes of Health Research (CIHR)	Canada	PJT156353
Canadian Glycomics Network (GLYCONET)	Canada	--

Revision History (Full details and data files)

Version 1.0: 2023-02-01
Type: Initial release
Version 1.1: 2023-10-25
Changes: Data collection, Refinement description

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.