Crystal structure of human cytoglobin at 1.68 angstroms resolution

Experimental Data Snapshot

  • Resolution: 1.68 Å
  • R-Value Free: 0.181 
  • R-Value Work: 0.140 
  • R-Value Observed: 0.142 

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This is version 1.3 of the entry. See complete history


High-resolution structure of human cytoglobin: identification of extra N- and C-termini and a new dimerization mode.

Makino, M.Sugimoto, H.Sawai, H.Kawada, N.Yoshizato, K.Shiro, Y.

(2006) Acta Crystallogr D Biol Crystallogr 62: 671-677

  • DOI: https://doi.org/10.1107/S0907444906013813
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    Cytoglobin (Cgb) is a recently discovered member of the vertebrate haem-containing globin family. The structure of a new crystal form of wild-type human Cgb (space group C2) was determined at a resolution of 1.68 Angstrom. The results show the presence of an additional helix in the N-terminal residues (4-20) prior to the A helix and an ordered loop structure in the C-terminal region (168-188), while these extended peptides were invisible owing to disorder in the previously reported structures using a P3(2)21 crystal at a resolution of 2.4 Angstrom. A detailed comparison of the two crystal structures shows differences in the conformation of the residues (i.e. Arg84) in the haem environment owing to a different dimeric arrangement.

  • Organizational Affiliation

    Biometal Science Laboratory, Harima Institute, RIKEN SPring-8 Center, Harima Institute, Japan.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
A, B
193Homo sapiensMutation(s): 0 
Gene Names: CYGB
UniProt & NIH Common Fund Data Resources
Find proteins for Q8WWM9 (Homo sapiens)
Explore Q8WWM9 
Go to UniProtKB:  Q8WWM9
GTEx:  ENSG00000161544 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8WWM9
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 1.68 Å
  • R-Value Free: 0.181 
  • R-Value Work: 0.140 
  • R-Value Observed: 0.142 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 78.53α = 90
b = 52.76β = 87.75
c = 83.44γ = 90
Software Package:
Software NamePurpose
HKL-2000data reduction
SCALEPACKdata scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2006-05-23
    Type: Initial release
  • Version 1.1: 2008-04-30
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2023-10-25
    Changes: Data collection, Database references, Derived calculations, Refinement description