8K56 | pdb_00008k56

Crystal structure of arylamine N-acyltransferase from Streptomyces aureus complexed with acyl-SNAC

PDB DOI: https://doi.org/10.2210/pdb8K56/pdb

Classification: TRANSFERASE
Organism(s): Streptomyces aureus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2023-07-21 Released: 2024-07-24
Deposition Author(s): Ma, B.D., Yan, X., Qu, X., Kong, X.D.
Funding Organization(s): Ministry of Science and Technology (MoST, China)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.42 Å
R-Value Free:
0.222 (Depositor), 0.220 (DCC)
R-Value Work:
0.182 (Depositor), 0.181 (DCC)
R-Value Observed:
0.184 (Depositor)

wwPDB Validation 3D Report Full Report

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Ligand Structure Quality Assessment

This is version 1.0 of the entry. See complete history.

Literature

Crystal structure of arylamine N-acyltransferase from Streptomyces aureus complexed with acyl-SNAC

Yan, X., Ma, B.D., Kong, X.D., Qu, X.

To be published.

Macromolecule Content

Total Structure Weight: 70.57 kDa
Atom Count: 4,681
Modeled Residue Count: 546
Deposited Residue Count: 602
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
arylamine N-acyltransferase	A [auth B], B [auth A]	301	Streptomyces aureus	Mutation(s): 0
UniProt
Find proteins for A0A088DBJ8 (Streptomyces aureus) Explore A0A088DBJ8 Go to UniProtKB: A0A088DBJ8
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A088DBJ8
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
I7G (Subject of Investigation/LOI) Query on I7G Download:Ideal Coordinates CCD File SDF format, chain H [auth A] SDF format, chain C [auth B] MOL2 format, chain H [auth A] MOL2 format, chain C [auth B] mmCIF format, chain H [auth A] mmCIF format, chain C [auth B]	C [auth B], H [auth A]	~{S}-(2-acetamidoethyl) (~{E})-oct-2-enethioate C₁₂ H₂₁ N O₂ S MHEVUMKRTBGSJW-BQYQJAHWSA-N		Interactions Focus chain C [auth B] Focus chain H [auth A] Interactions & Density Focus chain C [auth B] Focus chain H [auth A]
SO4 Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain L [auth A] SDF format, chain K [auth A] SDF format, chain J [auth A] SDF format, chain I [auth A] SDF format, chain G [auth B] SDF format, chain F [auth B] SDF format, chain E [auth B] SDF format, chain D [auth B] MOL2 format, chain L [auth A] MOL2 format, chain K [auth A] MOL2 format, chain J [auth A] MOL2 format, chain I [auth A] MOL2 format, chain G [auth B] MOL2 format, chain F [auth B] MOL2 format, chain E [auth B] MOL2 format, chain D [auth B] mmCIF format, chain L [auth A] mmCIF format, chain K [auth A] mmCIF format, chain J [auth A] mmCIF format, chain I [auth A] mmCIF format, chain G [auth B] mmCIF format, chain F [auth B] mmCIF format, chain E [auth B] mmCIF format, chain D [auth B]	D [auth B] E [auth B] F [auth B] G [auth B] I [auth A] D [auth B], E [auth B], F [auth B], G [auth B], I [auth A], J [auth A], K [auth A], L [auth A]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain D [auth B] Focus chain E [auth B] Focus chain F [auth B] Focus chain G [auth B] Focus chain I [auth A] Focus chain J [auth A] Focus chain K [auth A] Focus chain L [auth A] Interactions & Density Focus chain D [auth B] Focus chain E [auth B] Focus chain F [auth B] Focus chain G [auth B] Focus chain I [auth A] Focus chain J [auth A] Focus chain K [auth A] Focus chain L [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.42 Å
R-Value Free: 0.222 (Depositor), 0.220 (DCC)
R-Value Work: 0.182 (Depositor), 0.181 (DCC)
R-Value Observed: 0.184 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 72.456	α = 90
b = 89.294	β = 90
c = 127.24	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
Aimless	data scaling
XDS	data reduction
PHASER	phasing

Structure Validation

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Ligand Structure Quality Assessment

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Entry History

& Funding Information

Deposition Data

Released Date: 2024-07-24

Deposition Author(s):

Funding Organization	Location	Grant Number
Ministry of Science and Technology (MoST, China)	China	2020YFA0907700

Revision History (Full details and data files)

Version 1.0: 2024-07-24
Type: Initial release

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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.