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Cobalt in PDB 1lfm: Crystal Structure of Cobalt(III)-Substituted Cytochrome C (Tuna)

Protein crystallography data

The structure of Crystal Structure of Cobalt(III)-Substituted Cytochrome C (Tuna), PDB code: 1lfm was solved by F.A.Tezcan, W.M.Findley, B.R.Crane, S.A.Ross, J.G.Lyubovitsky, H.B.Gray, J.R.Winkler, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 15.69 / 1.50
Space group P 43
Cell size a, b, c (Å), α, β, γ (°) 74.175, 74.175, 35.561, 90.00, 90.00, 90.00
R / Rfree (%) 18.3 / 22

Cobalt Binding Sites:

The binding sites of Cobalt atom in the Crystal Structure of Cobalt(III)-Substituted Cytochrome C (Tuna) (pdb code 1lfm). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total 2 binding sites of Cobalt where determined in the Crystal Structure of Cobalt(III)-Substituted Cytochrome C (Tuna), PDB code: 1lfm:
Jump to Cobalt binding site number: 1; 2;

Cobalt binding site 1 out of 2 in 1lfm

Go back to Cobalt Binding Sites List in 1lfm
Cobalt binding site 1 out of 2 in the Crystal Structure of Cobalt(III)-Substituted Cytochrome C (Tuna)


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Crystal Structure of Cobalt(III)-Substituted Cytochrome C (Tuna) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co104

b:10.1
occ:1.00
CO A:COH104 0.0 10.1 1.0
NB A:COH104 1.9 8.4 1.0
NC A:COH104 1.9 8.0 1.0
NA A:COH104 2.0 7.5 1.0
ND A:COH104 2.0 9.4 1.0
NE2 A:HIS18 2.1 8.4 1.0
SD A:MET80 2.4 10.2 1.0
C4B A:COH104 2.9 8.8 1.0
C1B A:COH104 2.9 9.0 1.0
C4C A:COH104 3.0 6.8 1.0
CE1 A:HIS18 3.0 10.6 1.0
C1D A:COH104 3.0 7.5 1.0
C1C A:COH104 3.0 8.7 1.0
C4A A:COH104 3.0 6.6 1.0
CD2 A:HIS18 3.1 8.5 1.0
C1A A:COH104 3.1 9.0 1.0
C4D A:COH104 3.1 10.3 1.0
CE A:MET80 3.3 6.6 1.0
CHC A:COH104 3.4 6.9 1.0
CHB A:COH104 3.4 6.4 1.0
CG A:MET80 3.4 8.4 1.0
CHD A:COH104 3.4 9.4 1.0
CHA A:COH104 3.5 6.5 1.0
ND1 A:HIS18 4.1 9.3 1.0
C3B A:COH104 4.2 8.7 1.0
CB A:MET80 4.2 9.3 1.0
C2B A:COH104 4.2 7.6 1.0
CG A:HIS18 4.2 8.2 1.0
C2C A:COH104 4.2 7.8 1.0
C3C A:COH104 4.2 6.6 1.0
C3A A:COH104 4.3 8.7 1.0
C2D A:COH104 4.3 6.6 1.0
C3D A:COH104 4.3 8.0 1.0
C2A A:COH104 4.3 8.5 1.0
OH A:TYR67 4.7 15.1 1.0

Cobalt binding site 2 out of 2 in 1lfm

Go back to Cobalt Binding Sites List in 1lfm
Cobalt binding site 2 out of 2 in the Crystal Structure of Cobalt(III)-Substituted Cytochrome C (Tuna)


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 2 of Crystal Structure of Cobalt(III)-Substituted Cytochrome C (Tuna) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Co104

b:10.4
occ:1.00
CO B:COH104 0.0 10.4 1.0
NA B:COH104 1.9 8.1 1.0
ND B:COH104 1.9 9.1 1.0
NB B:COH104 2.0 8.7 1.0
NE2 B:HIS18 2.0 8.0 1.0
NC B:COH104 2.0 7.5 1.0
SD B:MET80 2.4 9.6 1.0
CE1 B:HIS18 2.9 7.7 1.0
C4A B:COH104 2.9 8.0 1.0
C1A B:COH104 2.9 7.1 1.0
C1D B:COH104 3.0 8.0 1.0
C4D B:COH104 3.0 7.4 1.0
C1B B:COH104 3.0 8.7 1.0
C4C B:COH104 3.0 8.0 1.0
C4B B:COH104 3.1 9.8 1.0
CD2 B:HIS18 3.1 7.1 1.0
C1C B:COH104 3.1 9.6 1.0
CHB B:COH104 3.4 7.2 1.0
CE B:MET80 3.4 10.1 1.0
CHD B:COH104 3.4 9.7 1.0
CHA B:COH104 3.4 6.9 1.0
CG B:MET80 3.4 9.2 1.0
CHC B:COH104 3.5 9.7 1.0
ND1 B:HIS18 4.1 10.4 1.0
C3D B:COH104 4.2 7.6 1.0
C2A B:COH104 4.2 9.2 1.0
CG B:HIS18 4.2 7.2 1.0
C2D B:COH104 4.2 8.5 1.0
C3A B:COH104 4.2 11.1 1.0
CB B:MET80 4.2 8.9 1.0
C3B B:COH104 4.3 8.0 1.0
C3C B:COH104 4.3 8.3 1.0
C2B B:COH104 4.3 9.2 1.0
C2C B:COH104 4.3 10.7 1.0
OH B:TYR67 4.7 14.6 1.0

Reference:

F.A.Tezcan, W.M.Findley, B.R.Crane, S.A.Ross, J.G.Lyubovitsky, H.B.Gray, J.R.Winkler. Using Deeply Trapped Intermediates to Map the Cytochrome C Folding Landscape. Proc.Natl.Acad.Sci.Usa V. 99 8626 2002.
ISSN: ISSN 0027-8424
PubMed: 12084923
DOI: 10.1073/PNAS.132254499
Page generated: Sun Dec 13 10:35:21 2020

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