3B4W | pdb_00003b4w

Crystal structure of Mycobacterium tuberculosis aldehyde dehydrogenase complexed with NAD+

• PDB DOI: https://doi.org/10.2210/pdb3B4W/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Mycobacterium tuberculosis H37Rv
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2007-10-24 Released: 2007-11-27 
• Deposition Author(s): Moon, J.H., Lyon, A.E., Yu, M., Hung, L.-W., Terwilliger, T., Kim, C.-Y., Integrated Center for Structure and Function Innovation (ISFI), TB Structural Genomics Consortium (TBSGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 
  0.196 (Depositor), 0.200 (DCC) 
• R-Value Work: 
  0.168 (Depositor), 0.170 (DCC) 
• R-Value Observed: 
  0.169 (Depositor) 

Literature

X-ray crystal structure of aldehyde dehydrogenase from Mycobacterium tuberculosis complexed with NAD+.

Moon, J.H., Lyon, A.E., Yu, M., Hung, L.-W., Terwilliger, T., Kim, C.-Y.

To be published.

Biological Assembly 1  

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

Biological assembly 1 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 53.53 kDa 
• Atom Count: 4,105 
• Modelled Residue Count: 483 
• Deposited Residue Count: 495 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Aldehyde dehydrogenase	A	495	Mycobacterium tuberculosis H37Rv	Mutation(s): 0  Gene Names: Rv0223c, MT0233 EC: 1.2.1
UniProt
Find proteins for P96405 (Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh)) Explore P96405  Go to UniProtKB:  P96405

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAD	D [auth A]	NICOTINAMIDE-ADENINE-DINUCLEOTIDE C21 H27 N7 O14 P2 BAWFJGJZGIEFAR-NNYOXOHSSA-N
SO4	B [auth A], C [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
GOL	E [auth A], F [auth A], G [auth A], H [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
EOH	I [auth A], J [auth A], K [auth A]	ETHANOL C2 H6 O LFQSCWFLJHTTHZ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free:  0.196 (Depositor), 0.200 (DCC) 
• R-Value Work:  0.168 (Depositor), 0.170 (DCC) 
• R-Value Observed: 0.169 (Depositor) 

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 135.111	α = 90
b = 135.111	β = 90
c = 72.543	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
ADSC	data collection
HKL-2000	data reduction
HKL-2000	data scaling
SOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-11-27 
Deposition Author(s): Moon, J.H., Lyon, A.E., Yu, M., Hung, L.-W., Terwilliger, T., Kim, C.-Y., Integrated Center for Structure and Function Innovation (ISFI), TB Structural Genomics Consortium (TBSGC)

Revision History  

• Version 1.0: 2007-11-27
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Source and taxonomy, Version format compliance
• Version 1.2: 2018-01-24
  Changes: Database references, Structure summary
• Version 1.3: 2024-02-21
  Changes: Data collection, Database references, Derived calculations