3LMA

Crystal structure of the stage V sporulation protein AD (SpoVAD) from Bacillus licheniformis. Northeast Structural Genomics Consortium Target BiR6.

• PDB DOI: https://doi.org/10.2210/pdb3LMA/pdb

• Classification: MEMBRANE PROTEIN
• Organism(s): Bacillus licheniformis DSM 13 = ATCC 14580
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2010-01-29 Released: 2010-02-09 
• Deposition Author(s): Vorobiev, S., Ashok, S., Seetharaman, J., Belote, R.L., Ciccosanti, C., Patel, D.J., Janjua, H., Acton, T.B., Xiao, R., Everett, J.K., Montelione, G.T., Tong, L., Hunt, J.F., Northeast Structural Genomics Consortium (NESG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.99 Å
• R-Value Free: 0.211 
• R-Value Work: 0.168 
• R-Value Observed: 0.170 

Literature

Crystal structure of the stage V sporulation protein AD (SpoVAD) from Bacillus licheniformis.

Vorobiev, S., Ashok, S., Seetharaman, J., Belote, R.L., Ciccosanti, C., Patel, D.J., Janjua, H., Acton, T.B., Xiao, R., Everett, J.K., Montelione, G.T., Tong, L., Hunt, J.F.

To be published.

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: assay for oligomerization

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)

Biological Assembly Evidence: assay for oligomerization

Macromolecule Content

• Total Structure Weight: 150.71 kDa 
• Atom Count: 9,962 
• Modelled Residue Count: 1,258 
• Deposited Residue Count: 1,388 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Stage V sporulation protein AD (SpoVAD)	A, B, C, D	347	Bacillus licheniformis DSM 13 = ATCC 14580	Mutation(s): 0  Gene Names: BL00782, BLi02491, spoVAD
UniProt
Find proteins for Q65HU8 (Bacillus licheniformis (strain ATCC 14580 / DSM 13 / JCM 2505 / CCUG 7422 / NBRC 12200 / NCIMB 9375 / NCTC 10341 / NRRL NRS-1264 / Gibson 46)) Explore Q65HU8  Go to UniProtKB:  Q65HU8

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.99 Å
• R-Value Free: 0.211 
• R-Value Work: 0.168 
• R-Value Observed: 0.170 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.957	α = 90
b = 83.059	β = 101.01
c = 103.662	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
SHELXDE	phasing
SOLVE	phasing
CNS	refinement
HKL-2000	data collection
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-02-09 
Deposition Author(s): Vorobiev, S., Ashok, S., Seetharaman, J., Belote, R.L., Ciccosanti, C., Patel, D.J., Janjua, H., Acton, T.B., Xiao, R., Everett, J.K., Montelione, G.T., Tong, L., Hunt, J.F., Northeast Structural Genomics Consortium (NESG)

Revision History  

• Version 1.0: 2010-02-09
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-10-25
  Changes: Author supporting evidence
• Version 1.3: 2018-01-24
  Changes: Database references, Structure summary
• Version 1.4: 2019-07-17
  Changes: Data collection, Derived calculations, Refinement description
• Version 1.5: 2019-08-14
  Changes: Data collection