4Z38 | pdb_00004z38

Crystal structure of enoyl reductase domain of MlnA from the macrolactin biosynthesis cluster from Bacillus amyloliquefaciens

PDB DOI: https://doi.org/10.2210/pdb4Z38/pdb

Classification: TRANSFERASE
Organism(s): Bacillus velezensis FZB42
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2015-03-31 Released: 2016-04-13
Deposition Author(s): Jakob, R.P., Martin, S.F., Herbst, D.A., Maier, T.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.80 Å
R-Value Free:
0.263 (Depositor), 0.270 (DCC)
R-Value Work:
0.246 (Depositor), 0.260 (DCC)
R-Value Observed:
0.247 (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

The structural organization of trans-AT polyketide synthases: ketoacyl synthase and trans-acting enoyl reductase

Martin, S.F., Jakob, R.P., Herbst, D.A., Maier, T.

To be published.

Macromolecule Content

Total Structure Weight: 107.06 kDa
Atom Count: 7,159
Modeled Residue Count: 876
Deposited Residue Count: 940
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
MlnA	A, B	470	Bacillus velezensis FZB42	Mutation(s): 0 Gene Names: mlnA, RBAM_014330 EC: 2.3.1.39
UniProt
Find proteins for A7Z470 (Bacillus velezensis (strain DSM 23117 / BGSC 10A6 / LMG 26770 / FZB42)) Explore A7Z470 Go to UniProtKB: A7Z470
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A7Z470
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
FMN Query on FMN Download Ideal Coordinates CCD File SDF format, chain D [auth B] SDF format, chain C [auth A] MOL2 format, chain D [auth B] MOL2 format, chain C [auth A] mmCIF format, chain D [auth B] mmCIF format, chain C [auth A]	C [auth A], D [auth B]	FLAVIN MONONUCLEOTIDE C₁₇ H₂₁ N₄ O₉ P FVTCRASFADXXNN-SCRDCRAPSA-N		Interactions Focus chain C [auth A] Focus chain D [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.80 Å
R-Value Free: 0.263 (Depositor), 0.270 (DCC)
R-Value Work: 0.246 (Depositor), 0.260 (DCC)
R-Value Observed: 0.247 (Depositor)

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 83.17	α = 90
b = 104.67	β = 90
c = 216.1	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement
XDS	data reduction
XSCALE	data scaling
PHASER	phasing

Structure Validation

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Ligand Structure Quality Assessment

Entry History

Deposition Data

Released Date: 2016-04-13

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2016-04-13
Type: Initial release
Version 1.1: 2024-01-10
Changes: Data collection, Database references, 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.