3TGA

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

PDB DOI: https://doi.org/10.2210/pdb3TGA/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.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.30 Å
R-Value Free: 0.172
R-Value Work: 0.145
R-Value Observed: 0.147

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.0 of the entry. See complete history.

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

Organizational Affiliation

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

Macromolecule Content

Total Structure Weight: 20.95 kDa
Atom Count: 1,811
Modelled Residue Count: 184
Deposited Residue Count: 184
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Nitrophorin-4	A	184	Rhodnius prolixus	Mutation(s): 1
UniProt
Find proteins for Q94734 (Rhodnius prolixus) Explore Q94734 Go to UniProtKB: Q94734
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q94734
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
HEM Query on HEM Download Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A]	B [auth A]	PROTOPORPHYRIN IX CONTAINING FE C₃₄ H₃₂ Fe N₄ O₄ KABFMIBPWCXCRK-RGGAHWMASA-L		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.30 Å
R-Value Free: 0.172
R-Value Work: 0.145
R-Value Observed: 0.147
Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 69.89	α = 90
b = 43.061	β = 94.36
c = 52.585	γ = 90

Software Package:

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

Structure Validation

View Full Validation Report

Ligand Structure Quality Assessment

Entry History

Deposition Data

Released Date: 2012-05-30

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2012-05-30
Type: Initial release

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.