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
View more details

wwPDB Validation 3D Report Full Report

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:

(by identity cutoff) | 3D Structure

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% Identity50% Identity70% Identity90% Identity95% Identity100% 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

View Full Validation Report

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

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.