1M59

Crystal Structure of P40V Mutant of Trypsin-solubilized Fragment of Cytochrome b5

• PDB DOI: https://doi.org/10.2210/pdb1M59/pdb

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


• Deposited: 2002-07-09 Released: 2003-03-18 
• Deposition Author(s): Wang, Z.-Q., Wu, J., Wang, Y.-H., Qian, W., Xie, Y., Xia, Z.-X., Huang, Z.-X.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 
  0.227 (Depositor), 0.220 (DCC) 
• R-Value Work: 
  0.193 (Depositor), 0.190 (DCC) 
• R-Value Observed: 
  0.193 (Depositor) 

Starting Model: experimental

Literature

Proline40 is essential to maintaining cytochrome b5 stability and its electron transfer with cytochrome c

Wang, Z.-Q., Wu, J., Wang, Y.-H., Qian, W., Xie, Y., Xia, Z.-X., Huang, Z.-X.

(2002) Chin J Chem 20: 1212-1224

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 10.09 kDa 
• Atom Count: 806 
• Modelled Residue Count: 82 
• Deposited Residue Count: 82 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytochrome b5	A	82	Bos taurus	Mutation(s): 1
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: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free:  0.227 (Depositor), 0.220 (DCC) 
• R-Value Work:  0.193 (Depositor), 0.190 (DCC) 
• R-Value Observed: 0.193 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 70.709	α = 90
b = 40.388	β = 111.72
c = 39.299	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
X-PLOR	model building
CNS	refinement
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-03-18 
Deposition Author(s): Wang, Z.-Q., Wu, J., Wang, Y.-H., Qian, W., Xie, Y., Xia, Z.-X., Huang, Z.-X.

Revision History  

• Version 1.0: 2003-03-18
  Type: Initial release
  
• Version 1.1: 2008-04-28
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2021-11-10
  Changes: Database references, Derived calculations
• Version 1.4: 2023-10-25
  Changes: Data collection, Refinement description