Macromolecule Content

Total Structure Weight: 136.04 kDa
Atom Count: 10308
Residue Count: 1120
Unique protein chains: 1

3LOU

Crystal structure of Formyltetrahydrofolate deformylase (YP_105254.1) from BURKHOLDERIA MALLEI ATCC 23344 at 1.90 A resolution

DOI: 10.2210/pdb3LOU/pdb

Classification: HYDROLASE
Organism(s): Burkholderia mallei ATCC 23344
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2010-02-04 Released: 2010-02-23
Deposition Author(s): Joint Center for Structural Genomics (JCSG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.90 Å
R-Value Free: 0.221
R-Value Work: 0.185
R-Value Observed: 0.187

wwPDB Validation 3D Report Full Report

This is version 1.3 of the entry. See complete history.

Literature

Crystal structure of Formyltetrahydrofolate deformylase (YP_105254.1) from BURKHOLDERIA MALLEI ATCC 23344 at 1.90 A resolution

Joint Center for Structural Genomics (JCSG)

To be published.

Macromolecules

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(by identity cutoff) | Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Formyltetrahydrofolate deformylase	A, B, C, D	292	Burkholderia mallei ATCC 23344	Mutation(s): 0 Gene Names: purU-2, BMAA0482, purU EC: 3.5.1.10
Find proteins for A0A0H2WCF8 (Burkholderia mallei (strain ATCC 23344)) Explore A0A0H2WCF8 Go to UniProtKB: A0A0H2WCF8
Protein Feature View Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PEG Query on PEG Download Ideal Coordinates CCD File SDF format, chain FA [C] SDF format, chain OA [D] SDF format, chain PA [D] SDF format, chain U [B] SDF format, chain V [B] SDF format, chain W [B] SDF format, chain X [B] MOL2 format, chain FA [C] MOL2 format, chain OA [D] MOL2 format, chain PA [D] MOL2 format, chain U [B] MOL2 format, chain V [B] MOL2 format, chain W [B] MOL2 format, chain X [B]	B, C, D	DI(HYDROXYETHYL)ETHER C₄ H₁₀ O₃ MTHSVFCYNBDYFN-UHFFFAOYSA-N		Ligand Interaction
SO4 Query on SO4 Download Ideal Coordinates CCD File SDF format, chain CA [C] SDF format, chain DA [C] SDF format, chain EA [C] SDF format, chain F [A] SDF format, chain G [A] SDF format, chain H [A] SDF format, chain I [A] SDF format, chain LA [D] SDF format, chain MA [D] SDF format, chain NA [D] SDF format, chain S [B] SDF format, chain T [B] MOL2 format, chain CA [C] MOL2 format, chain DA [C] MOL2 format, chain EA [C] MOL2 format, chain F [A] MOL2 format, chain G [A] MOL2 format, chain H [A] MOL2 format, chain I [A] MOL2 format, chain LA [D] MOL2 format, chain MA [D] MOL2 format, chain NA [D] MOL2 format, chain S [B] MOL2 format, chain T [B]	A, B, C, D	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Ligand Interaction
EDO Query on EDO Download Ideal Coordinates CCD File SDF format, chain AA [B] SDF format, chain BA [B] SDF format, chain GA [C] SDF format, chain HA [C] SDF format, chain IA [C] SDF format, chain J [A] SDF format, chain JA [C] SDF format, chain K [A] SDF format, chain KA [C] SDF format, chain L [A] SDF format, chain M [A] SDF format, chain N [A] SDF format, chain O [A] SDF format, chain P [A] SDF format, chain Q [A] SDF format, chain QA [D] SDF format, chain R [A] SDF format, chain RA [D] SDF format, chain SA [D] SDF format, chain TA [D] SDF format, chain UA [D] SDF format, chain Y [B] SDF format, chain Z [B] MOL2 format, chain AA [B] MOL2 format, chain BA [B] MOL2 format, chain GA [C] MOL2 format, chain HA [C] MOL2 format, chain IA [C] MOL2 format, chain J [A] MOL2 format, chain JA [C] MOL2 format, chain K [A] MOL2 format, chain KA [C] MOL2 format, chain L [A] MOL2 format, chain M [A] MOL2 format, chain N [A] MOL2 format, chain O [A] MOL2 format, chain P [A] MOL2 format, chain Q [A] MOL2 format, chain QA [D] MOL2 format, chain R [A] MOL2 format, chain RA [D] MOL2 format, chain SA [D] MOL2 format, chain TA [D] MOL2 format, chain UA [D] MOL2 format, chain Y [B] MOL2 format, chain Z [B]	A, B, C, D	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Ligand Interaction
UNL Query on UNL Download Ideal Coordinates CCD File SDF format, chain E [A] MOL2 format, chain E [A]	A	Unknown ligand LYCAIKOWRPUZTN-UHFFFAOYSA-N		Ligand Interaction

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE Query on MSE	A,B,C,D	L-PEPTIDE LINKING	C₅ H₁₁ N O₂ Se		MET

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.90 Å
R-Value Free: 0.221
R-Value Work: 0.185
R-Value Observed: 0.187
Space Group: P 1 2₁ 1
Diffraction Data DOI: 10.18430/M33LOU Protein Diffraction

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 74.628	α = 90
b = 93.476	β = 95.29
c = 98.802	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PHENIX	refinement
SHELX	phasing
MolProbity	model building
XSCALE	data scaling
PDB_EXTRACT	data extraction
XDS	data reduction
SHELXD	phasing
autoSHARP	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Deposited Date: 2010-02-04
Released Date: 2010-02-23

Deposition Author(s):

Joint Center for Structural Genomics (JCSG)

Revision History

Version 1.0: 2010-02-23
Type: Initial release
Version 1.1: 2011-07-13
Changes: Advisory, Version format compliance
Version 1.2: 2017-10-25
Changes: Author supporting evidence, Refinement description
Version 1.3: 2019-07-17
Changes: Data collection, Derived calculations, Refinement description

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Deposition Help & Resources

174994 Biological Macromolecular Structures Enabling Breakthroughs in Research and Education

3LOU

Crystal structure of Formyltetrahydrofolate deformylase (YP_105254.1) from BURKHOLDERIA MALLEI ATCC 23344 at 1.90 A resolution

Crystal structure of Formyltetrahydrofolate deformylase (YP_105254.1) from BURKHOLDERIA MALLEI ATCC 23344 at 1.90 A resolution

Entity ID: 1

Protein Feature View

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Experimental Data

Structure Validation

Deposition Data

Revision History