1TH6 | pdb_00001th6

Crystal structure of phospholipase A2 in complex with atropine at 1.23A resolution

• PDB DOI: https://doi.org/10.2210/pdb1TH6/pdb

• Classification: HYDROLASE
• Organism(s): Daboia russelii russelii
• Mutation(s): No 


• Deposited: 2004-06-01 Released: 2004-06-15 
• Deposition Author(s): Singh, N., Pal, A., Jabeen, T., Sharma, S., Perbandt, M., Betzel, C., Singh, T.P.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.23 Å
• R-Value Free: 
  0.204 (Depositor) 
• R-Value Work: 
  0.189 (Depositor) 
• R-Value Observed: 
  0.189 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of phospholipase A2 in complex with atropine at 1.23A resolution

Singh, N., Pal, A., Jabeen, T., Sharma, S., Perbandt, M., Betzel, C., Singh, T.P.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 14.3 kDa 
• Atom Count: 1,231 
• Modeled Residue Count: 121 
• Deposited Residue Count: 121 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Phospholipase A2	A	121	Daboia russelii russelii	Mutation(s): 0  EC: 3.1.1.4
UniProt
Find proteins for P59071 (Daboia russelii) Explore P59071  Go to UniProtKB:  P59071

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
OIN	B [auth A]	(1R,5S)-8-METHYL-8-AZABICYCLO[3.2.1]OCT-3-YL (2R)-3-HYDROXY-2-PHENYLPROPANOATE C17 H23 N O3 RKUNBYITZUJHSG-QKPAOTATSA-N
SO4	C [auth A], D [auth A], E [auth A], F [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.23 Å
• R-Value Free:  0.204 (Depositor) 
• R-Value Work:  0.189 (Depositor) 
• R-Value Observed: 0.189 (Depositor) 

Space Group: P 4₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 52.331	α = 90
b = 52.331	β = 90
c = 48.071	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
SCALEPACK	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-06-15 
Deposition Author(s): Singh, N., Pal, A., Jabeen, T., Sharma, S., Perbandt, M., Betzel, C., Singh, T.P.

Revision History  

• Version 1.0: 2004-06-15
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2023-08-23
  Changes: Data collection, Database references, Derived calculations, Refinement description
• Version 1.4: 2023-11-29
  Changes: Database references
• Version 1.5: 2024-11-06
  Changes: Structure summary