7VYU | pdb_00007vyu

Crystal structure of NatS

PDB DOI: https://doi.org/10.2210/pdb7VYU/pdb

Classification: TRANSFERASE
Organism(s): Streptomyces sp. Tu 6176
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2021-11-15 Released: 2022-08-24
Deposition Author(s): Yu, Y., He, C., Wu, L., Zhang, Y.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free:
0.205 (Depositor), 0.205 (DCC)
R-Value Work:
0.181 (Depositor), 0.180 (DCC)
R-Value Observed:
0.182 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 7VYU

This is version 1.2 of the entry. See complete history.

Literature

Crystal structure of NatS

Yu, Y., He, C., Wu, L., Zhang, Y.

To be published.

Macromolecule Content

Total Structure Weight: 75.51 kDa
Atom Count: 5,334
Modeled Residue Count: 676
Deposited Residue Count: 712
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
3-oxoacyl-ACP synthase	A, B	356	Streptomyces sp. Tu 6176	Mutation(s): 0 Gene Names: natS
UniProt
Find proteins for A0A022MLV4 (Streptomyces sp. Tu 6176) Explore A0A022MLV4 Go to UniProtKB: A0A022MLV4
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A022MLV4
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.205 (Depositor), 0.205 (DCC)
R-Value Work: 0.181 (Depositor), 0.180 (DCC)
R-Value Observed: 0.182 (Depositor)

Space Group: P 3₂

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 102.83	α = 90
b = 102.83	β = 90
c = 66.71	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
PDB_EXTRACT	data extraction
PHENIX	model building
PHASER	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2022-08-24

Deposition Author(s):

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	31570033

Revision History (Full details and data files)

Version 1.0: 2022-08-24
Type: Initial release
Version 1.1: 2023-03-15
Changes: Database references, Structure summary
Version 1.2: 2024-05-29
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.