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Zinc in PDB 2rgv: The Crystal Structure of Perr-Ox Highlights 2-Oxo-Histidine Formation

Protein crystallography data

The structure of The Crystal Structure of Perr-Ox Highlights 2-Oxo-Histidine Formation, PDB code: 2rgv was solved by D.A.K.Traore, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 36.00 / 2.05
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 41.250, 42.700, 53.020, 82.05, 79.98, 61.63
R / Rfree (%) 21.1 / 30.8

Zinc Binding Sites:

The binding sites of Zinc atom in the The Crystal Structure of Perr-Ox Highlights 2-Oxo-Histidine Formation (pdb code 2rgv). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the The Crystal Structure of Perr-Ox Highlights 2-Oxo-Histidine Formation, PDB code: 2rgv:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 2rgv

Go back to Zinc Binding Sites List in 2rgv
Zinc binding site 1 out of 2 in the The Crystal Structure of Perr-Ox Highlights 2-Oxo-Histidine Formation


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of The Crystal Structure of Perr-Ox Highlights 2-Oxo-Histidine Formation within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn146

b:14.8
occ:1.00
SG A:CYS96 2.3 10.1 1.0
SG A:CYS99 2.3 10.5 1.0
SG A:CYS139 2.4 12.5 1.0
SG A:CYS136 2.4 9.7 1.0
CB A:CYS96 3.1 6.7 1.0
CB A:CYS99 3.3 9.6 1.0
CB A:CYS139 3.3 14.0 1.0
N A:CYS99 3.5 9.6 1.0
CB A:CYS136 3.6 12.3 1.0
CA A:CYS99 3.9 8.9 1.0
N A:CYS136 4.0 10.1 1.0
N A:CYS139 4.3 14.2 1.0
CA A:CYS136 4.4 11.2 1.0
CA A:CYS139 4.4 14.0 1.0
CB A:ASN98 4.5 11.2 1.0
CA A:CYS96 4.5 7.2 1.0
C A:ASN98 4.5 10.3 1.0
C A:CYS99 4.6 8.1 1.0
CB A:LYS101 4.7 9.3 1.0
O A:HOH230 4.8 13.1 1.0
N A:GLY100 4.8 8.8 1.0
NZ A:LYS101 4.8 11.5 1.0
CA A:ASN98 4.9 10.9 1.0
C A:CYS96 5.0 6.8 1.0
N A:ASN98 5.0 10.5 1.0
CE A:LYS101 5.0 10.0 1.0
O A:CYS136 5.0 11.6 1.0

Zinc binding site 2 out of 2 in 2rgv

Go back to Zinc Binding Sites List in 2rgv
Zinc binding site 2 out of 2 in the The Crystal Structure of Perr-Ox Highlights 2-Oxo-Histidine Formation


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of The Crystal Structure of Perr-Ox Highlights 2-Oxo-Histidine Formation within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn146

b:12.4
occ:1.00
SG B:CYS136 2.2 12.4 1.0
SG B:CYS96 2.3 10.8 1.0
SG B:CYS139 2.3 13.0 1.0
SG B:CYS99 2.4 13.2 1.0
CB B:CYS96 3.1 6.2 1.0
CB B:CYS139 3.3 19.1 1.0
CB B:CYS99 3.3 12.1 1.0
CB B:CYS136 3.5 7.5 1.0
N B:CYS99 3.7 13.0 1.0
N B:CYS136 4.0 8.4 1.0
CA B:CYS99 4.1 12.3 1.0
N B:CYS139 4.2 20.3 1.0
CA B:CYS136 4.3 11.1 1.0
CA B:CYS139 4.4 19.2 1.0
CA B:CYS96 4.5 6.2 1.0
CB B:ASN98 4.5 15.2 1.0
CE B:LYS101 4.6 17.7 1.0
CB B:LYS101 4.7 12.7 1.0
O B:CYS136 4.8 14.4 1.0
C B:CYS99 4.8 11.6 1.0
C B:ASN98 4.8 15.1 1.0
N B:GLY100 4.8 10.6 1.0
C B:CYS136 4.9 13.4 1.0
N B:ASN98 5.0 14.4 1.0
C B:CYS96 5.0 7.2 1.0
CD B:LYS101 5.0 13.4 1.0
NZ B:LYS101 5.0 14.5 1.0

Reference:

D.A.Traore, A.El Ghazouani, L.Jacquamet, F.Borel, J.L.Ferrer, D.Lascoux, J.L.Ravanat, M.Jaquinod, G.Blondin, C.Caux-Thang, V.Duarte, J.M.Latour. Structural and Functional Characterization of 2-Oxo-Histidine in Oxidized Perr Protein. Nat.Chem.Biol. V. 5 53 2009.
ISSN: ISSN 1552-4450
PubMed: 19079268
DOI: 10.1038/NCHEMBIO.133
Page generated: Wed Dec 16 03:52:09 2020

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