7TJB | pdb_00007tjb

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

PDB DOI: https://doi.org/10.2210/pdb7TJB/pdb

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

Deposited: 2022-01-15 Released: 2023-01-18
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: 1.30 Å
R-Value Free:
0.189 (Depositor), 0.190 (DCC)
R-Value Work:
0.166 (Depositor), 0.170 (DCC)
R-Value Observed:
0.167 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

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: 25.69 kDa
Atom Count: 1,991
Modeled Residue Count: 222
Deposited Residue Count: 227
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Peptidoglycan O-acetyltransferase B	A	227	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% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q5F966
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 Query on SO4 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]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.30 Å
R-Value Free: 0.189 (Depositor), 0.190 (DCC)
R-Value Work: 0.166 (Depositor), 0.170 (DCC)
R-Value Observed: 0.167 (Depositor)

Space Group: H 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 144.9	α = 90
b = 144.9	β = 90
c = 80.14	γ = 120

Software Package:

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

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2023-01-18

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: 2023-01-18
Type: Initial release
Version 1.1: 2023-10-25
Changes: Data collection, Refinement description

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.