8ZLV

Asymmetric Dimeric Structure of the Catalytic Domain in Truncated Threonine Deaminase

PDB DOI: https://doi.org/10.2210/pdb8ZLV/pdb

Classification: STRUCTURAL PROTEIN
Organism(s): Escherichia coli K-12
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2024-05-21 Released: 2024-06-05
Deposition Author(s): Khodi, S.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.90 Å
R-Value Free: 0.269
R-Value Work: 0.214
R-Value Observed: 0.216

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Engineering Threonine Deaminase Catalytic Domain into a Tetrameric Configuration, Independent of Allosteric Regulation

Khodi, S.

To be published.

Macromolecule Content

Total Structure Weight: 70.29 kDa
Atom Count: 4,876
Modelled Residue Count: 641
Deposited Residue Count: 652
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
L-threonine dehydratase biosynthetic IlvA	A, B	326	Escherichia coli K-12	Mutation(s): 1 Gene Names: ilvA, b3772, JW3745 EC: 4.3.1.19
UniProt
Find proteins for P04968 (Escherichia coli (strain K12)) Explore P04968 Go to UniProtKB: P04968
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P04968
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
LLP Query on LLP	A, B	L-PEPTIDE LINKING	C₁₄ H₂₂ N₃ O₇ P		LYS

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.90 Å
R-Value Free: 0.269
R-Value Work: 0.214
R-Value Observed: 0.216
Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 102.159	α = 90
b = 102.159	β = 90
c = 116.473	γ = 90

Software Package:

Software Name	Purpose
XDS	data reduction
Aimless	data scaling
MOLREP	phasing
PHENIX	refinement

Structure Validation

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Entry History & Funding Information

Deposition Data

Released Date: 2024-06-05

Deposition Author(s):

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2024-06-05
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.