3MML

Allophanate Hydrolase Complex from Mycobacterium smegmatis, Msmeg0435-Msmeg0436

• PDB DOI: https://doi.org/10.2210/pdb3MML/pdb

• Classification: HYDROLASE
• Organism(s): Mycolicibacterium smegmatis MC2 155
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2010-04-20 Released: 2010-04-28 
• Deposition Author(s): Kaufmann, M., Chernishof, I., Shin, A., Germano, D., Sawaya, M.R., Waldo, G.S., Arbing, M.A., Perry, J., Eisenberg, D., 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: 2.50 Å
• R-Value Free: 0.202 
• R-Value Work: 0.169 
• R-Value Observed: 0.170 

Literature

Crystal Structure of Allphanate Hydrolase Complex from M. smegmatis, Msmeg0435-Msmeg0436

Kaufmann, M., Chernishof, I., Shin, A., Germano, D., Sawaya, M.R., Waldo, G.S., Arbing, M.A., Perry, J., Eisenberg, D.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 4-mer - A2B2 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 4-mer - A2B2 

Biological assembly 2 assigned by authors.

Biological Assembly 3  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 3 assigned by authors and generated by PISA (software)

Biological Assembly 4  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 4 assigned by authors and generated by PISA (software)

Biological Assembly 5  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 5 assigned by authors and generated by PISA (software)

Biological Assembly 6  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 6 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 236.05 kDa 
• Atom Count: 15,919 
• Modelled Residue Count: 1,997 
• Deposited Residue Count: 2,184 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Allophanate hydrolase subunit 2	A, C, E, G	318	Mycolicibacterium smegmatis MC2 155	Mutation(s): 0  Gene Names: Msmeg0435, MSMEG_0435 EC: 3.5.1.54
UniProt
Find proteins for A0QPL0 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155)) Explore A0QPL0  Go to UniProtKB:  A0QPL0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Allophanate hydrolase subunit 1	B, D, F, H	228	Mycolicibacterium smegmatis MC2 155	Mutation(s): 0  Gene Names: Msmeg0436, MSMEG_0436
UniProt
Find proteins for A0QPL1 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155)) Explore A0QPL1  Go to UniProtKB:  A0QPL1

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CL	I [auth B]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.202 
• R-Value Work: 0.169 
• R-Value Observed: 0.170 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 77.483	α = 90
b = 84.239	β = 90
c = 402.075	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
MLPHARE	phasing
DM	phasing
TNT	refinement
PDB_EXTRACT	data extraction
ADSC	data collection
BUSTER	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-04-28 
Deposition Author(s): Kaufmann, M., Chernishof, I., Shin, A., Germano, D., Sawaya, M.R., Waldo, G.S., Arbing, M.A., Perry, J., Eisenberg, D., Integrated Center for Structure and Function Innovation (ISFI), TB Structural Genomics Consortium (TBSGC)

Revision History  

• Version 1.0: 2010-04-28
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-11-08
  Changes: Refinement description