5CYT | pdb_00005cyt

REFINEMENT OF MYOGLOBIN AND CYTOCHROME C

• PDB DOI: https://doi.org/10.2210/pdb5CYT/pdb
• Entry: 5CYT supersedes: 4CYT

• Classification: ELECTRON TRANSPORT (HEME PROTEIN)
• Organism(s): Thunnus alalunga
• Mutation(s): No 


• Deposited: 1988-01-14 Released: 1989-07-12 
• Deposition Author(s): Takano, T.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Work: 
  0.159 (Depositor), 0.160 (DCC) 

Literature

Refinement of Myoglobin and Cytochrome C

Takano, T.

(1984) Methods And Applications In Crystallographic Computing : 262

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 12.03 kDa 
• Atom Count: 937 
• Modeled Residue Count: 104 
• Deposited Residue Count: 104 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CYTOCHROME C	A [auth R]	104	Thunnus alalunga	Mutation(s): 0
UniProt
Find proteins for P81459 (Thunnus alalunga) Explore P81459  Go to UniProtKB:  P81459

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HEC	B [auth R]	HEME C C34 H34 Fe N4 O4 HXQIYSLZKNYNMH-LJNAALQVSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Work:  0.159 (Depositor), 0.160 (DCC) 

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 37.33	α = 90
b = 87.1	β = 90
c = 34.44	γ = 90

Software Package:

Software Name	Purpose
EREF	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 1989-07-12 
Deposition Author(s): Takano, T.
• This entry supersedes: 4CYT

Revision History  

• Version 1.0: 1989-07-12
  Type: Initial release
  
• Version 1.1: 2008-03-25
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-11-29
  Changes: Derived calculations, Other
• Version 2.0: 2021-03-03
  Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Non-polymer description, Structure summary
• Version 2.1: 2024-10-09
  Changes: Data collection, Database references, Structure summary