4LIH | pdb_00004lih

The crystal structure of Gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase from Burkholderia cenocepacia J2315

PDB DOI: https://doi.org/10.2210/pdb4LIH/pdb

Classification: OXIDOREDUCTASE
Organism(s): Burkholderia cenocepacia J2315
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2013-07-02 Released: 2013-07-31
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.85 Å
R-Value Free:
0.232 (Depositor), 0.237 (DCC)
R-Value Work:
0.189 (Depositor), 0.198 (DCC)
R-Value Observed:
0.191 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

The crystal structure of Gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase from Burkholderia cenocepacia J2315

Lukacs, C.M., Abendroth, J., Edwards, T.E., Lorimer, D.

To be published.

Macromolecule Content

Total Structure Weight: 433.31 kDa
Atom Count: 33,175
Modeled Residue Count: 3,947
Deposited Residue Count: 4,032
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase	A, B, C, D, E A, B, C, D, E, F, G, H	504	Burkholderia cenocepacia J2315	Mutation(s): 0 Gene Names: puuC, BceJ2315_05990, BCAL0603 EC: 1.2.1.3
UniProt
Find proteins for B4E926 (Burkholderia cenocepacia (strain ATCC BAA-245 / DSM 16553 / LMG 16656 / NCTC 13227 / J2315 / CF5610)) Explore B4E926 Go to UniProtKB: B4E926
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	B4E926
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
MES Query on MES Download:Ideal Coordinates CCD File SDF format, chain I [auth A] SDF format, chain K [auth B] SDF format, chain M [auth C] SDF format, chain O [auth D] SDF format, chain P [auth E] SDF format, chain R [auth F] SDF format, chain T [auth G] SDF format, chain W [auth H] MOL2 format, chain I [auth A] MOL2 format, chain K [auth B] MOL2 format, chain M [auth C] MOL2 format, chain O [auth D] MOL2 format, chain P [auth E] MOL2 format, chain R [auth F] MOL2 format, chain T [auth G] MOL2 format, chain W [auth H] mmCIF format, chain I [auth A] mmCIF format, chain K [auth B] mmCIF format, chain M [auth C] mmCIF format, chain O [auth D] mmCIF format, chain P [auth E] mmCIF format, chain R [auth F] mmCIF format, chain T [auth G] mmCIF format, chain W [auth H]	I [auth A] K [auth B] M [auth C] O [auth D] P [auth E] I [auth A], K [auth B], M [auth C], O [auth D], P [auth E], R [auth F], T [auth G], W [auth H]	2-(N-MORPHOLINO)-ETHANESULFONIC ACID C₆ H₁₃ N O₄ S SXGZJKUKBWWHRA-UHFFFAOYSA-N		Interactions Focus chain I [auth A] Focus chain K [auth B] Focus chain M [auth C] Focus chain O [auth D] Focus chain P [auth E] Focus chain R [auth F] Focus chain T [auth G] Focus chain W [auth H] Interactions & Density Focus chain I [auth A] Focus chain K [auth B] Focus chain M [auth C] Focus chain O [auth D] Focus chain P [auth E] Focus chain R [auth F] Focus chain T [auth G] Focus chain W [auth H]
EDO Query on EDO Download:Ideal Coordinates CCD File SDF format, chain J [auth B] SDF format, chain L [auth C] SDF format, chain N [auth D] SDF format, chain Q [auth F] SDF format, chain S [auth G] SDF format, chain U [auth H] SDF format, chain V [auth H] MOL2 format, chain J [auth B] MOL2 format, chain L [auth C] MOL2 format, chain N [auth D] MOL2 format, chain Q [auth F] MOL2 format, chain S [auth G] MOL2 format, chain U [auth H] MOL2 format, chain V [auth H] mmCIF format, chain J [auth B] mmCIF format, chain L [auth C] mmCIF format, chain N [auth D] mmCIF format, chain Q [auth F] mmCIF format, chain S [auth G] mmCIF format, chain U [auth H] mmCIF format, chain V [auth H]	J [auth B] L [auth C] N [auth D] Q [auth F] S [auth G] J [auth B], L [auth C], N [auth D], Q [auth F], S [auth G], U [auth H], V [auth H]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain J [auth B] Focus chain L [auth C] Focus chain N [auth D] Focus chain Q [auth F] Focus chain S [auth G] Focus chain U [auth H] Focus chain V [auth H] Interactions & Density Focus chain J [auth B] Focus chain L [auth C] Focus chain N [auth D] Focus chain Q [auth F] Focus chain S [auth G] Focus chain U [auth H] Focus chain V [auth H]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.85 Å
R-Value Free: 0.232 (Depositor), 0.237 (DCC)
R-Value Work: 0.189 (Depositor), 0.198 (DCC)
R-Value Observed: 0.191 (Depositor)

Diffraction Data:

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 90.31	α = 91.7
b = 104.19	β = 99.04
c = 108.28	γ = 90.02

Software Package:

Software Name	Purpose
PHASER	phasing
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2013-07-31

Deposition Author(s):

Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Revision History (Full details and data files)

Version 1.0: 2013-07-31
Type: Initial release
Version 1.1: 2023-09-20
Changes: Data collection, Database references, Derived calculations, Refinement description
Version 1.2: 2025-10-22
Changes: Structure summary