3Q5L | pdb_00003q5l

Crystal structure of the amino-terminal domain of HSP90 from Leishmania major, LMJF33.0312:M1-K 213 in the presence of 17-AEP-geldanamycin

• PDB DOI: https://doi.org/10.2210/pdb3Q5L/pdb

• Classification: CHAPERONE
• Organism(s): Leishmania major
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2010-12-28 Released: 2011-02-23 
• Deposition Author(s): Wernimont, A.K., Tempel, W., Lin, Y.H., Hutchinson, A., MacKenzie, F., Fairlamb, A., Cossar, D., Zhao, Y., Schapira, M., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Weigelt, J., Ferguson, M.A.J., Hui, R., Pizarro, J.C., Hills, T., Structural Genomics Consortium (SGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.65 Å
• R-Value Free: 
  0.278 (Depositor), 0.262 (DCC) 
• R-Value Work: 
  0.227 (Depositor), 0.219 (DCC) 
• R-Value Observed: 
  0.229 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of the amino-terminal domain of HSP90 from Leishmania major, LMJF33.0312:M1-K 213 in the presence of 17-AEP-geldanamycin.

Wernimont, A.K., Tempel, W., Lin, Y.H., Hutchinson, A., MacKenzie, F., Fairlamb, A., Cossar, D., Zhao, Y., Schapira, M., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Weigelt, J., Ferguson, M.A.J., Hui, R., Pizarro, J.C., Hills, T.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 107.01 kDa 
• Atom Count: 6,607 
• Modeled Residue Count: 854 
• Deposited Residue Count: 924 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Heat shock protein 83-1	A, B, C, D	231	Leishmania major	Mutation(s): 0  Gene Names: LMJF33.0312
UniProt
Find proteins for Q4Q4I6 (Leishmania major) Explore Q4Q4I6  Go to UniProtKB:  Q4Q4I6

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
KX2	E [auth A], F [auth B], G [auth C], H [auth D]	(4E,6Z,8S,9S,10E,12S,13R,14S,16R)-13-hydroxy-8,14-dimethoxy-4,10,12,16-tetramethyl-3,20,22-trioxo-19-{[2-(pyrrolidin-1-yl)ethyl]amino}-2-azabicyclo[16.3.1]docosa-1(21),4,6,10,18-pentaen-9-yl carbamate C34 H50 N4 O8 MNMYYWFEPBLDKF-JEVRCCDFSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.65 Å
• R-Value Free:  0.278 (Depositor), 0.262 (DCC) 
• R-Value Work:  0.227 (Depositor), 0.219 (DCC) 
• R-Value Observed: 0.229 (Depositor) 

Space Group: P 4₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 161.341	α = 90
b = 161.341	β = 90
c = 48.142	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-02-23 
Deposition Author(s): Wernimont, A.K., Tempel, W., Lin, Y.H., Hutchinson, A., MacKenzie, F., Fairlamb, A., Cossar, D., Zhao, Y., Schapira, M., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Weigelt, J., Ferguson, M.A.J., Hui, R., Pizarro, J.C., Hills, T., Structural Genomics Consortium (SGC)

Revision History  

• Version 1.0: 2011-02-23
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2012-12-05
  Changes: Database references, Structure summary
• Version 1.3: 2017-11-08
  Changes: Refinement description
• Version 1.4: 2023-09-13
  Changes: Data collection, Database references, Derived calculations, Refinement description