1YJH | pdb_00001yjh

Crystal Structure of Cimex Nitrophorin Ferrous NO Complex

• PDB DOI: https://doi.org/10.2210/pdb1YJH/pdb

• Classification: OXYGEN STORAGE/TRANSPORT
• Organism(s): Cimex lectularius
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2005-01-14 Released: 2005-12-27 
• Deposition Author(s): Weichsel, A., Badgandi, H., Montfort, W.R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.65 Å
• R-Value Free: 
  0.250 (Depositor), 0.260 (DCC) 
• R-Value Work: 
  0.203 (Depositor), 0.210 (DCC) 
• R-Value Observed: 
  0.205 (Depositor) 

Starting Model: experimental

Literature

Crystal Structure of Cimex Nitrophorin NO Complex

Weichsel, A., Badgandi, H., Montfort, W.R.

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: 32.39 kDa 
• Atom Count: 2,494 
• Modeled Residue Count: 280 
• Deposited Residue Count: 282 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
salivary nitrophorin	A	282	Cimex lectularius	Mutation(s): 0
UniProt
Find proteins for O76745 (Cimex lectularius) Explore O76745  Go to UniProtKB:  O76745

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HEM	C [auth A]	PROTOPORPHYRIN IX CONTAINING FE C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L
NO	B [auth A]	NITRIC OXIDE N O ODUCDPQEXGNKDN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.65 Å
• R-Value Free:  0.250 (Depositor), 0.260 (DCC) 
• R-Value Work:  0.203 (Depositor), 0.210 (DCC) 
• R-Value Observed: 0.205 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 49	α = 90
b = 41.56	β = 95.29
c = 65.37	γ = 90

Software Package:

Software Name	Purpose
Blu-Ice	data collection
d*TREK	data reduction
REFMAC	refinement
d*TREK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-12-27 
Deposition Author(s): Weichsel, A., Badgandi, H., Montfort, W.R.

Revision History  

• Version 1.0: 2005-12-27
  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