3TGB

Crystal structure of L130R mutant of Nitrophorin 4 from Rhodnius prolixus complexed with imidazole at pH 7.4

• PDB DOI: https://doi.org/10.2210/pdb3TGB/pdb

• Classification: METAL BINDING PROTEIN
• Organism(s): Rhodnius prolixus
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2011-08-17 Released: 2012-05-30 
• Deposition Author(s): Ogata, H., He, C., Knipp, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.35 Å
• R-Value Free: 0.186 
• R-Value Work: 0.143 
• R-Value Observed: 0.145 

Literature

Guanidine-Ferroheme Coordination in the Mutant Protein Nitrophorin 4(L130R).

He, C., Fuchs, M.R., Ogata, H., Knipp, M.

(2012) Angew Chem Int Ed Engl 51: 4470-4473

• PubMed: 22334402 
• DOI: https://doi.org/10.1002/anie.201108691
• Primary Citation of Related Structures:  
  3TGA, 3TGB

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Organizational Affiliation: 

Max-Planck-Institut für Bioanorganische Chemie, Stiftstrasse 34-36, 45470 Mülheim an der Ruhr, Germany.

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: 21.02 kDa 
• Atom Count: 1,785 
• Modelled Residue Count: 184 
• Deposited Residue Count: 184 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Nitrophorin-4	A	184	Rhodnius prolixus	Mutation(s): 1  EC: 1.7.6.1
UniProt
Find proteins for Q94734 (Rhodnius prolixus) Explore Q94734  Go to UniProtKB:  Q94734

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HEM	B [auth A]	PROTOPORPHYRIN IX CONTAINING FE C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L
IMD	C [auth A]	IMIDAZOLE C3 H5 N2 RAXXELZNTBOGNW-UHFFFAOYSA-O

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.35 Å
• R-Value Free: 0.186 
• R-Value Work: 0.143 
• R-Value Observed: 0.145 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 69.719	α = 90
b = 43.058	β = 94.43
c = 52.469	γ = 90

Software Package:

Software Name	Purpose
XDS	data scaling
MOLREP	phasing
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-05-30 
Deposition Author(s): Ogata, H., He, C., Knipp, M.

Revision History  

• Version 1.0: 2012-05-30
  Type: Initial release
  
• Version 1.1: 2024-11-27
  Changes: Data collection, Database references, Derived calculations, Structure summary