4WAV | pdb_00004wav

Crystal Structure of Haloquadratum walsbyi bacteriorhodopsin mutant D93N

• PDB DOI: https://doi.org/10.2210/pdb4WAV/pdb

• Classification: TRANSPORT PROTEIN
• Organism(s): Haloquadratum walsbyi C23
• Expression System: Escherichia coli
• Mutation(s): Yes 
• Membrane Protein: Yes  OPMPDBTMMemProtMD


• Deposited: 2014-09-02 Released: 2015-09-23 
• Deposition Author(s): Wang, A.H.J., Hsu, M.F., Yang, C.S., Fu, H.Y.
• Funding Organization(s): National Science Council

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 
  0.239 (Depositor), 0.240 (DCC) 
• R-Value Work: 
  0.182 (Depositor), 0.180 (DCC) 
• R-Value Observed: 
  0.184 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of an acid-tolerant light-driven proton pump at 1.85 Angstroms resolution

Hsu, M.F., Fu, H.Y., Cai, C.J., Yi, S.P., Yang, C.S., Wang, A.H.J.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 58.29 kDa 
• Atom Count: 3,750 
• Modeled Residue Count: 453 
• Deposited Residue Count: 524 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Bacteriorhodopsin-I	A, B	262	Haloquadratum walsbyi C23	Mutation(s): 1  Gene Names: bop1, Hqrw_1016 Membrane Entity: Yes
UniProt
Find proteins for G0LFX8 (Haloquadratum walsbyi (strain DSM 16854 / JCM 12705 / C23)) Explore G0LFX8  Go to UniProtKB:  G0LFX8

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MPG	D [auth A], E [auth A]	[(Z)-octadec-9-enyl] (2R)-2,3-bis(oxidanyl)propanoate C21 H40 O4 JPJYKWFFJCWMPK-GDCKJWNLSA-N
RET	C [auth A], F [auth B]	RETINAL C20 H28 O NCYCYZXNIZJOKI-OVSJKPMPSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free:  0.239 (Depositor), 0.240 (DCC) 
• R-Value Work:  0.182 (Depositor), 0.180 (DCC) 
• R-Value Observed: 0.184 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 29.86	α = 90
b = 131.942	β = 90
c = 235.423	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
Blu-Ice	data reduction
MOLREP	phasing
PDB_EXTRACT	data extraction
HKL-2000	data scaling
HKL	data reduction
HKL	data scaling

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2015-09-23 
Deposition Author(s): Wang, A.H.J., Hsu, M.F., Yang, C.S., Fu, H.Y.

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Funding Organization	Location	Grant Number
National Science Council	Taiwan	NSC 102-2319-B-001-003

Revision History  

• Version 1.0: 2015-09-23
  Type: Initial release
  
• Version 1.1: 2023-11-08
  Changes: Advisory, Data collection, Database references, Derived calculations, Refinement description, Structure summary
• Version 1.2: 2024-10-16
  Changes: Structure summary