5HQW | pdb_00005hqw

Crystal structure of a trans-AT PKS dehydratase domain of C0ZGQ6 from Brevibacillus brevis

PDB DOI: https://doi.org/10.2210/pdb5HQW/pdb

Classification: LYASE
Organism(s): Brevibacillus brevis NBRC 100599
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2016-01-22 Released: 2017-01-25
Deposition Author(s): Jakob, R.P., Hauswirth, P., Dilmi, J., Herbst, D.A., Maier, T.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.39 Å
R-Value Free:
0.236 (Depositor), 0.242 (DCC)
R-Value Work:
0.210 (Depositor), 0.217 (DCC)
R-Value Observed:
0.212 (Depositor)

Starting Model: experimental
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This is version 1.3 of the entry. See complete history.

Literature

Crystal Structures of Dehydratase Domains from trans AT Polyketide Biosynthetic Pathway.

Jakob, R.P., Herbst, D.A., Muller, R., Maier, T.

To be published.

Macromolecule Content

Total Structure Weight: 72.86 kDa
Atom Count: 4,431
Modeled Residue Count: 558
Deposited Residue Count: 672
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative polyketide synthase	A, B	336	Brevibacillus brevis NBRC 100599	Mutation(s): 0 Gene Names: BBR47_39880 EC: 4.2.1.59
UniProt
Find proteins for C0ZGQ6 (Brevibacillus brevis (strain 47 / JCM 6285 / NBRC 100599)) Explore C0ZGQ6 Go to UniProtKB: C0ZGQ6
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	C0ZGQ6
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
MG Query on MG Download:Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A] mmCIF format, chain C [auth A]	C [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Interactions & Density Focus chain C [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.39 Å
R-Value Free: 0.236 (Depositor), 0.242 (DCC)
R-Value Work: 0.210 (Depositor), 0.217 (DCC)
R-Value Observed: 0.212 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 41.01	α = 90
b = 63.28	β = 91.91
c = 124.14	γ = 90

Software Package:

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

Structure Validation

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Entry History

Deposition Data

Released Date: 2017-01-25

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2017-01-25
Type: Initial release
Version 1.1: 2017-07-26
Changes: Data collection
Version 1.2: 2018-11-14
Changes: Data collection
Version 1.3: 2024-01-10
Changes: Data collection, Database references, 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.