Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Hetero 4-mer - A2B2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 42.95 kDa 
• Atom Count: 2229 
• Modelled Residue Count: 281 
• Deposited Residue Count: 380 
• Unique protein chains: 2

4GYC

Structure of the SRII(D75N mutant)/HtrII Complex in I212121 space group ("U" shape)

• DOI: 10.2210/pdb4GYC/pdb

• Classification: MEMBRANE PROTEIN
• Organism(s): Natronomonas pharaonis
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2012-09-05 Released: 2013-05-08 
• Deposition Author(s): Ishchenko, A., Round, E., Borshchevskiy, V., Grudinin, S., Gushchin, I., Klare, J., Remeeva, A., Utrobin, P., Balandin, T., Engelhard, M., Bueldt, G., Gordeliy, V.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.05 Å
• R-Value Free: 0.223 
• R-Value Work: 0.203 
• R-Value Observed: 0.204 

Literature

Ground state structure of D75N mutant of sensory rhodopsin II in complex with its cognate transducer.

Ishchenko, A., Round, E., Borshchevskiy, V., Grudinin, S., Gushchin, I., Klare, J.P., Balandin, T., Remeeva, A., Engelhard, M., Buldt, G., Gordeliy, V.

(2013) J Photochem Photobiol B 123C: 55-58

• PubMed: 23619282 
• DOI: 10.1016/j.jphotobiol.2013.03.008
• Primary Citation of Related Structures:  
  4GYC


• PubMed Abstract: 
  

The complex of sensory rhodopsin II (NpSRII) with its cognate transducer (NpHtrII) mediates negative phototaxis in halobacteria Natronomonas pharaonis. Upon light activation NpSRII triggers, by means of NpHtrII, a signal transduction chain homologous to the two component system in eubacterial chemotaxis. Here we report on the crystal structure of the ground state of the mutant NpSRII-D75N/NpHtrII complex in the space group I212121. Mutations of this aspartic acid in light-driven proton pumps dramatically modify or/and inhibit protein functions. However, in vivo studies show that the similar D75N mutation retains functionality of the NpSRII/NpHtrII complex. The structure provides the molecular basis for the explanation of the unexpected observation that the wild and the mutant complexes display identical physiological response on light excitation.

---

Organizational Affiliation: 

Institute of Complex Systems (ICS), ICS-5: Molecular Biophysics, Research Centre Juelich, 52425 Juelich, Germany.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Sensory rhodopsin-2	A	245	Natronomonas pharaonis	Mutation(s): 1  Gene Names: sop2, sopII
Find proteins for P42196 (Natronomonas pharaonis) Explore P42196  Go to UniProtKB:  P42196

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Sensory rhodopsin II transducer	B	135	Natronomonas pharaonis	Mutation(s): 0  Gene Names: htr2, htrII
Find proteins for P42259 (Natronomonas pharaonis) Explore P42259  Go to UniProtKB:  P42259

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
RET	A	RETINAL C20 H28 O NCYCYZXNIZJOKI-OVSJKPMPSA-N
LFA	A	EICOSANE C20 H42 CBFCDTFDPHXCNY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.05 Å
• R-Value Free: 0.223 
• R-Value Work: 0.203 
• R-Value Observed: 0.204 
• Space Group: I 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 49.465	α = 90
b = 113.674	β = 90
c = 126.185	γ = 90

Software Package:

Software Name	Purpose
ADSC	data collection
MOLREP	phasing
PHENIX	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2012-09-05 
• Released Date: 2013-05-08 
Deposition Author(s): Ishchenko, A., Round, E., Borshchevskiy, V., Grudinin, S., Gushchin, I., Klare, J., Remeeva, A., Utrobin, P., Balandin, T., Engelhard, M., Bueldt, G., Gordeliy, V.

Revision History  

• Version 1.0: 2013-05-08
  Type: Initial release
  
• Version 1.1: 2017-03-08
  Changes: Structure summary