3M7T

Crystal Structure of Alpha-Lytic Protease SB2+3 E8A/R105S Mutant

• PDB DOI: https://doi.org/10.2210/pdb3M7T/pdb

• Classification: HYDROLASE
• Organism(s): Lysobacter enzymogenes
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2010-03-17 Released: 2011-02-09 
• Deposition Author(s): Agard, D.A., Erciyas Bailey, F.P., Waddling, C.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free: 0.202 
• R-Value Work: 0.136 
• R-Value Observed: 0.138 

Starting Model: experimental

Literature

Quantifying protein unfolding cooperativity with acid sensitive probes: Interdomain salt bridge contributions to unfolding cooperativity are combined efficiently in alpha-Lytic Protease

Erciyas Bailey, F.P., Waddling, C.A., Agard, D.A.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Macromolecule Content

• Total Structure Weight: 20.32 kDa 
• Atom Count: 1,913 
• Modelled Residue Count: 198 
• Deposited Residue Count: 198 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Alpha-lytic protease	A	198	Lysobacter enzymogenes	Mutation(s): 2  Gene Names: alpha-LP, Lysobacter EC: 3.4.21.12
UniProt
Find proteins for P00778 (Lysobacter enzymogenes) Explore P00778  Go to UniProtKB:  P00778

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	C [auth A], D [auth A], E [auth A], F [auth A], G [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
GOL	B [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free: 0.202 
• R-Value Work: 0.136 
• R-Value Observed: 0.138 
• Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 66.015	α = 90
b = 66.015	β = 90
c = 79.749	γ = 120

Software Package:

Software Name	Purpose
Blu-Ice	data collection
PHENIX	model building
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-02-09 
Deposition Author(s): Agard, D.A., Erciyas Bailey, F.P., Waddling, C.A.

Revision History  

• Version 1.0: 2011-02-09
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2021-10-06
  Changes: Database references, Derived calculations
• Version 1.3: 2023-09-06
  Changes: Data collection, Refinement description