Biological Assembly 1  

 3D View: Structure | 1D-3D View | Validation Report | Ligand Interaction

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 10.13 kDa 
• Atom Count: 716 
• Modelled Residue Count: 82 
• Deposited Residue Count: 82 
• Unique protein chains: 1

1J0Q

Solution Structure of Oxidized Bovine Microsomal Cytochrome b5 mutant V61H

• PDB DOI: 10.2210/pdb1J0Q/pdb

• Classification: ELECTRON TRANSPORT
• Organism(s): Bos taurus
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2002-11-20 Released: 2003-08-12 
• Deposition Author(s): Wu, H., Huang, Z., Cao, C., Zhang, Q., Wang, Y.-H., Ma, J.-B., Xue, L.-L.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 35 
• Conformers Submitted: 35 
• Selection Criteria: all calculated structures submitted, structures with the lowest energy 

Literature

The solution structure of the oxidized bovine microsomal cytochrome b5 mutant V61H

Cao, C., Zhang, Q., Xue, L.-L., Ma, J., Wang, Y.-H., Wu, H., Huang, Z.-X.

(2003) Biochem Biophys Res Commun 307: 600-609

• PubMed: 12893266 
• DOI: 10.1016/s0006-291x(03)01225-7
• Primary Citation of Related Structures:  
  1J0Q


• PubMed Abstract: 
  

Using 1488 NOE constraints, 19 stereo-specific assignments, 13 pairs of H-bond constraints, and 140 pseudo-contact shift constraints, a family of 35 structures of bovine microsomal cytochrome b(5) mutant V61H has been obtained through the program PSEUDYANA. The family has been further refined by restrained energy minimization to give a family of final structures. The RMSD values of final structures with respect to the average structure are 0.45+/-0.11 and 0.96+/-0.10A for backbone and heavy atoms, respectively. The final Deltachi(ax) and Deltachi(rh) values are 2.34 x 10(-32) and -0.67 x 10(-32)m(3), respectively. The comparisons between the solution structures of mutant V61H and WT cytochrome b(5), and X-ray structure of the mutant V61H show that the global folding of the molecule in solution is unchanged and the side-chain of His61 deviates from the heme pocket and extends into the solvent like in its crystal structure. However, the helices around the heme pocket undergo outward global displacement while their local conformations are well maintained. Meanwhile, the heme ring shows a little off the heme pocket, which accounts for the lower stability of the mutant. Additionally, the axial ligand rings counterclockwise rotate around His39 N-Fe axis due to the mutation, which is confirmed by variation of the hyperfine shifts of the heme protons of V61H compared to those of WT cytochrome b(5).

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Organizational Affiliation: 

State Key Laboratory of Bio-Organic and Natural Products Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, Shanghai 200032, PR China.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
cytochrome b5	A	82	Bos taurus	Mutation(s): 1  Gene Names: CYB5A, CYB5
UniProt
Find proteins for P00171 (Bos taurus) Explore P00171  Go to UniProtKB:  P00171

Small Molecules

Ligands 1 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

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 35 
• Conformers Submitted: 35 
• Selection Criteria: all calculated structures submitted, structures with the lowest energy 
• OLDERADO: 1J0Q Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2002-11-20 
• Released Date: 2003-08-12 
Deposition Author(s): Wu, H., Huang, Z., Cao, C., Zhang, Q., Wang, Y.-H., Ma, J.-B., Xue, L.-L.

Revision History  

• Version 1.0: 2003-08-12
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2021-11-10
  Changes: Data collection, Database references, Derived calculations