6G1M

Amine Dehydrogenase from Petrotoga mobilis; open and closed form

• PDB DOI: https://doi.org/10.2210/pdb6G1M/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Petrotoga mobilis SJ95
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2018-03-21 Released: 2019-03-27 
• Deposition Author(s): Beloti, L., Frese, A., Mayol, O., Vaxelaire-Vergne, C., Grogan, G.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.32 Å
• R-Value Free: 0.295 
• R-Value Work: 0.248 
• R-Value Observed: 0.250 

Literature

A family of native amine dehydrogenases for the asymmetric reductive amination of ketones

Mayol, O., Bastard, K., Beloti, L., Frese, A., Turkenburg, J.P., Petit, J.-L., Mariage, A., Debard, A., Pellouin, V., Perret, A., de Berardinis, V., Zaparucha, A., Grogan, G., Vaxelaire-Vergne, C.

(2019) Nat Catal 

• DOI: https://doi.org/10.1038/s41929-019-0249-z

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 150.22 kDa 
• Atom Count: 10,224 
• Modelled Residue Count: 1,335 
• Deposited Residue Count: 1,352 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Dihydrodipicolinate reductase	A, B, C, D	338	Petrotoga mobilis SJ95	Mutation(s): 0  Gene Names: Pmob_1166
UniProt
Find proteins for A9BHL2 (Petrotoga mobilis (strain DSM 10674 / SJ95)) Explore A9BHL2  Go to UniProtKB:  A9BHL2

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAD	E [auth A], G [auth B], H [auth C], I [auth D]	NICOTINAMIDE-ADENINE-DINUCLEOTIDE C21 H27 N7 O14 P2 BAWFJGJZGIEFAR-NNYOXOHSSA-N
PO4	F [auth A], J [auth D]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.32 Å
• R-Value Free: 0.295 
• R-Value Work: 0.248 
• R-Value Observed: 0.250 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 140.113	α = 90
b = 83.642	β = 94.28
c = 125.712	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
SCALA	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2019-03-27 
Deposition Author(s): Beloti, L., Frese, A., Mayol, O., Vaxelaire-Vergne, C., Grogan, G.

Revision History  

• Version 1.0: 2019-03-27
  Type: Initial release
  
• Version 1.1: 2024-01-17
  Changes: Data collection, Database references, Refinement description