8WEU | pdb_00008weu

Crystal structure of Feruoyl-CoA Synthetase from Amycolatopsis thermoflava

PDB DOI: https://doi.org/10.2210/pdb8WEU/pdb

Classification: LIGASE
Organism(s): Amycolatopsis thermoflava N1165
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2023-09-18 Released: 2024-09-25
Deposition Author(s): Seok, J., Kim, K.-J.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.10 Å
R-Value Free:
0.250 (Depositor), 0.254 (DCC)
R-Value Work:
0.200 (Depositor), 0.207 (DCC)
R-Value Observed:
0.202 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Structural analysis of feruloyl-CoA synthetase from Amycolatopsis thermoflava

Seok, J., Kim, K.-J.

To be published.

Macromolecule Content

Total Structure Weight: 53.26 kDa
Atom Count: 3,724
Modeled Residue Count: 481
Deposited Residue Count: 499
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fatty-acyl-CoA synthase	A	499	Amycolatopsis thermoflava N1165	Mutation(s): 0 Gene Names: EDD35_5915 EC: 6.2.1.34
UniProt
Find proteins for Q9EY88 (Amycolatopsis sp) Explore Q9EY88 Go to UniProtKB: Q9EY88
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9EY88
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PEG Query on PEG 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]	DI(HYDROXYETHYL)ETHER C₄ H₁₀ O₃ MTHSVFCYNBDYFN-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.10 Å
R-Value Free: 0.250 (Depositor), 0.254 (DCC)
R-Value Work: 0.200 (Depositor), 0.207 (DCC)
R-Value Observed: 0.202 (Depositor)

Space Group: I 4₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 134.918	α = 90
b = 134.918	β = 90
c = 139.558	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data scaling
HKL-2000	data reduction
MOLREP	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2024-09-25

Deposition Author(s):

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2024-09-25
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.