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Nickel in PDB 1nzc: The High Resolution Structures of Rmlc From Streptococcus Suis in Complex with Dtdp-D-Xylose

Enzymatic activity of The High Resolution Structures of Rmlc From Streptococcus Suis in Complex with Dtdp-D-Xylose

All present enzymatic activity of The High Resolution Structures of Rmlc From Streptococcus Suis in Complex with Dtdp-D-Xylose:
5.1.3.13;

Protein crystallography data

The structure of The High Resolution Structures of Rmlc From Streptococcus Suis in Complex with Dtdp-D-Xylose, PDB code: 1nzc was solved by C.Dong, L.L.Major, A.Allen, W.Blankenfeldt, D.Maskell, J.H.Naismith, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 70.71 / 1.80
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 50.850, 140.866, 53.699, 90.00, 92.72, 90.00
R / Rfree (%) 16.4 / 21.6

Nickel Binding Sites:

The binding sites of Nickel atom in the The High Resolution Structures of Rmlc From Streptococcus Suis in Complex with Dtdp-D-Xylose (pdb code 1nzc). This binding sites where shown within 5.0 Angstroms radius around Nickel atom.
In total 2 binding sites of Nickel where determined in the The High Resolution Structures of Rmlc From Streptococcus Suis in Complex with Dtdp-D-Xylose, PDB code: 1nzc:
Jump to Nickel binding site number: 1; 2;

Nickel binding site 1 out of 2 in 1nzc

Go back to Nickel Binding Sites List in 1nzc
Nickel binding site 1 out of 2 in the The High Resolution Structures of Rmlc From Streptococcus Suis in Complex with Dtdp-D-Xylose


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of The High Resolution Structures of Rmlc From Streptococcus Suis in Complex with Dtdp-D-Xylose within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ni9603

b:0.2
occ:1.00
O B:HOH9656 1.3 49.8 1.0
O B:HOH9632 1.9 31.7 1.0
O B:HOH9620 2.1 31.2 1.0
O B:HOH9692 3.5 35.2 1.0
OE2 B:GLU52 3.9 24.8 1.0
CD B:GLU52 4.8 24.3 1.0

Nickel binding site 2 out of 2 in 1nzc

Go back to Nickel Binding Sites List in 1nzc
Nickel binding site 2 out of 2 in the The High Resolution Structures of Rmlc From Streptococcus Suis in Complex with Dtdp-D-Xylose


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 2 of The High Resolution Structures of Rmlc From Streptococcus Suis in Complex with Dtdp-D-Xylose within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ni9602

b:49.7
occ:1.00
O C:HOH9772 2.0 25.9 1.0
O C:HOH9814 2.1 24.0 1.0
OE1 C:GLU52 2.2 24.5 1.0
CD C:GLU52 3.2 25.1 1.0
OE2 C:GLU52 3.4 26.1 1.0
O C:HOH9624 3.6 42.7 1.0
O C:LEU46 4.0 16.4 1.0
O C:PHE50 4.1 17.8 1.0
N C:GLU52 4.4 17.8 1.0
CG C:GLU52 4.5 21.6 1.0
O C:HOH9642 4.6 36.4 1.0
O C:HOH9662 4.8 28.2 1.0
CA C:PRO51 4.8 18.0 1.0
CB C:GLU52 4.8 18.7 1.0
O C:HOH9751 4.9 39.3 1.0
C C:LEU46 5.0 17.3 1.0
C C:PHE50 5.0 17.9 1.0

Reference:

C.Dong, L.L.Major, A.Allen, W.Blankenfeldt, D.Maskell, J.H.Naismith. High-Resolution Structures of Rmlc From Streptococcus Suis in Complex with Substrate Analogs Locate the Active Site of This Class of Enzyme Structure V. 11 715 2003.
ISSN: ISSN 0969-2126
PubMed: 12791259
DOI: 10.1016/S0969-2126(03)00098-4
Page generated: Fri Sep 25 07:57:21 2020
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