7DQG | pdb_00007dqg

Crystal structure of Salmonella phage acetyltransferase

PDB DOI: https://doi.org/10.2210/pdb7DQG/pdb

Classification: TRANSFERASE
Organism(s): Salmonella phage SPN3US
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2020-12-23 Released: 2021-12-29
Deposition Author(s): Hyun, Y., Ha, N.-C.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.21 Å
R-Value Free:
0.225 (Depositor), 0.230 (DCC)
R-Value Work:
0.209 (Depositor), 0.210 (DCC)
R-Value Observed:
0.209 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Crystal structure of the phage-encoded N-acetyltransferase in complex with acetyl-CoA

Hyun, Y., Oh, H.-M., Ha, N.-C.

To be published.

Macromolecule Content

Total Structure Weight: 22.44 kDa
Atom Count: 1,435
Modeled Residue Count: 161
Deposited Residue Count: 186
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative acetyltransferase	A	186	Salmonella phage SPN3US	Mutation(s): 0 Gene Names: SPN3US_0088
UniProt
Find proteins for G5DEI1 (Salmonella phage SPN3US) Explore G5DEI1 Go to UniProtKB: G5DEI1
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	G5DEI1
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ACO (Subject of Investigation/LOI) Query on ACO 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]	*ACETYL COENZYME A** C₂₃ H₃₈ N₇ O₁₇ P₃ S ZSLZBFCDCINBPY-ZSJPKINUSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.21 Å
R-Value Free: 0.225 (Depositor), 0.230 (DCC)
R-Value Work: 0.209 (Depositor), 0.210 (DCC)
R-Value Observed: 0.209 (Depositor)

Space Group: P 6₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 68.458	α = 90
b = 68.458	β = 90
c = 218.964	γ = 120

Software Package:

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

Structure Validation

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Ligand Structure Quality Assessment

Entry History

Deposition Data

Released Date: 2021-12-29

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2021-12-29
Type: Initial release
Version 1.1: 2023-11-29
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.