2EF2 | pdb_00002ef2

Crystal Structure of an Artificial Metalloprotein:Rh(Phebox-Ph)/apo-A71G Myoglobin

• PDB DOI: https://doi.org/10.2210/pdb2EF2/pdb

• Classification: OXYGEN STORAGE/TRANSPORT
• Organism(s): Physeter macrocephalus
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2007-02-20 Released: 2007-10-02 
• Deposition Author(s): Abe, S., Satake, Y., Okazaki, S., Ueno, T., Hikage, T., Suzuki, A., Yamane, T., Nakajima, H., Watanabe, Y.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 
  0.264 (Depositor) 
• R-Value Work: 
  0.200 (Depositor), 0.208 (DCC) 
• R-Value Observed: 
  0.203 (Depositor) 

Starting Model: experimental

Literature

Incorporation of a Phebox Rhodium Complex into apo-Myoglobin Affords a Stable Organometallic Protein Showing Unprecedented Arrangement of the Complex in the Cavity

Satake, Y., Abe, S., Okazaki, S., Ban, N., Hikage, T., Ueno, T., Nakajima, H., Suzuki, A., Yamane, T., Nishiyama, H., Watanabe, Y.

(2007) Organometallics 26: 4904-4908

• DOI: https://doi.org/10.1021/om700471a

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 18.11 kDa 
• Atom Count: 1,372 
• Modeled Residue Count: 153 
• Deposited Residue Count: 154 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Myoglobin	A	154	Physeter macrocephalus	Mutation(s): 1  EC: 1.11.1 (UniProt), 1.7 (UniProt)
UniProt
Find proteins for P02185 (Physeter macrocephalus) Explore P02185  Go to UniProtKB:  P02185

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
RHX	E [auth A]	[2,6-BIS(4-PHENYL)-1,3-OXAZOLIN-2-YL]RHODIUM(III) C24 H19 N2 O2 Rh FCXWDODCDHPSDA-HLUKFBSCSA-N
PO4	B [auth A], C [auth A], D [auth A]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free:  0.264 (Depositor) 
• R-Value Work:  0.200 (Depositor), 0.208 (DCC) 
• R-Value Observed: 0.203 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 33.046	α = 90
b = 57.82	β = 90
c = 75.426	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-10-02 
Deposition Author(s): Abe, S., Satake, Y., Okazaki, S., Ueno, T., Hikage, T., Suzuki, A., Yamane, T., Nakajima, H., Watanabe, Y.

Revision History  

• Version 1.0: 2007-10-02
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2021-11-10
  Changes: Database references, Derived calculations
• Version 1.3: 2023-10-25
  Changes: Data collection, Refinement description