Macromolecule Content

Total Structure Weight: 50947.01
Atom Count: 2999
Residue Count: 450
Unique protein chains: 1

6IA6

Crystal structure of the bacterial Dehalococcoides mccartyi Elp3 with desulfo-CoA

DOI: 10.2210/pdb6IA6/pdb

Classification: TRANSFERASE
Organism(s): Dehalococcoides mccartyi BTF08
Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG'

Deposited: 2018-11-26 Released: 2019-02-20
Deposition Author(s): Lin, T.Y., Glatt, S.
Funding Organization(s): null

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.7 Å
R-Value Free: 0.269
R-Value Work: 0.223

wwPDB Validation3D Report Full Report

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

Literature

The Elongator subunit Elp3 is a non-canonical tRNA acetyltransferase.

Lin, T.Y., Abbassi, N.E.H., Zakrzewski, K., Chramiec-Glabik, A., Jemiola-Rzeminska, M., Rozycki, J., Glatt, S.

(2019) Nat Commun 10: 625-625

PubMed: 30733442 Search on PubMed
Primary Citation of Related Structures:
6IAZ, 6IAD, 6IA8

Macromolecules

Find similar proteins by: Sequence | Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
ELP3 family, ELP3 family	A	450	Dehalococcoides mccartyi BTF08	Mutation(s): 0 Gene Names: btf_573
Find proteins for A0A1C7D1B7 (Dehalococcoides mccartyi BTF08) Go to UniProtKB: A0A1C7D1B7
Protein Feature View Full Protein Feature View for A0A1C7D1B7

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions	3D Interactions
PO4 Query on PO4 Download SDF File Download CCD File	A	PHOSPHATE ION O₄ P NBIIXXVUZAFLBC-UHFFFAOYSA-K		Ligand Interaction
DCA Query on DCA Download SDF File Download CCD File	A	DESULFO-COENZYME A C₂₁ H₃₆ N₇ O₁₆ P₃ ILWZMFJBPIYQKW-IBOSZNHHSA-N		Ligand Interaction
FES Query on FES Download SDF File Download CCD File	A	FE2/S2 (INORGANIC) CLUSTER Fe₂ S₂ NIXDOXVAJZFRNF-UHFFFAOYSA-N		Ligand Interaction

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.7 Å
R-Value Free: 0.269
R-Value Work: 0.223
Space Group: C 2 2 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 73.540	α = 90.00
b = 160.740	β = 90.00
c = 92.990	γ = 90.00

Software Package:

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

Structure Validation

View Full Validation Report or Ramachandran Plots

Entry History & Funding Information

Deposition Data

Deposited Date: 2018-11-26
Released Date: 2019-02-20
Deposition Author(s): Lin, T.Y., Glatt, S.

Funding Organization	Location	Grant Number
	Poland	Homing/2016-2/14
	Poland	UMO-2015/19/B/NZ1/00343

Revision History

Version 1.0: 2019-02-20
Type: Initial release

RCSB PDB is funded by the National Science Foundation (DBI-1832184), the National Institutes of Health, and the US Department of Energy (DE-SC0019749).