3S6B | pdb_00003s6b

Crystal structure of methionine aminopeptidase 1b from Plasmodium Falciparum, PF10_0150

• PDB DOI: https://doi.org/10.2210/pdb3S6B/pdb

• Classification: HYDROLASE
• Organism(s): Plasmodium falciparum 3D7
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2011-05-25 Released: 2011-06-29 
• Deposition Author(s): Wernimont, A.K., Artz, J.D., Crombet, L., Lew, J., Weadge, J., Tempel, W., Arrowsmith, C.H., Edwards, A.M., Weigelt, J., Bountra, C., Hui, R., Hills, T., Structural Genomics Consortium (SGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 
  0.227 (Depositor), 0.232 (DCC) 
• R-Value Work: 
  0.178 (Depositor), 0.184 (DCC) 
• R-Value Observed: 
  0.180 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of methionine aminopeptidase 1b from Plasmodium Falciparum, PF10_0150

Wernimont, A.K., Artz, J.D., Crombet, L., Lew, J., Weadge, J., Arrowsmith, C.H., Edwards, A.M., Weigelt, J., Bountra, C., Hui, R., Hills, T.

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: 42.7 kDa 
• Atom Count: 3,081 
• Modeled Residue Count: 345 
• Deposited Residue Count: 368 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Methionine aminopeptidase	A	368	Plasmodium falciparum 3D7	Mutation(s): 0  Gene Names: PF10_0150 EC: 3.4.11.18
UniProt
Find proteins for Q8IJP2 (Plasmodium falciparum (isolate 3D7)) Explore Q8IJP2  Go to UniProtKB:  Q8IJP2

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	B [auth A], D [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
FE	C [auth A]	FE (III) ION Fe VTLYFUHAOXGGBS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free:  0.227 (Depositor), 0.232 (DCC) 
• R-Value Work:  0.178 (Depositor), 0.184 (DCC) 
• R-Value Observed: 0.180 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 58.868	α = 90
b = 52.581	β = 116.67
c = 63.506	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
JDirector	data collection
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-06-29 
Deposition Author(s): Wernimont, A.K., Artz, J.D., Crombet, L., Lew, J., Weadge, J., Tempel, W., Arrowsmith, C.H., Edwards, A.M., Weigelt, J., Bountra, C., Hui, R., Hills, T., Structural Genomics Consortium (SGC)

Revision History  

• Version 1.0: 2011-06-29
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-11-08
  Changes: Refinement description
• Version 1.3: 2023-09-13
  Changes: Data collection, Database references, Derived calculations, Refinement description