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Nickel in PDB 2eaq: Crystal Structure of Pdz Domain of KIAA0858 (Lim), MS0793 From Homo Sapiens

Protein crystallography data

The structure of Crystal Structure of Pdz Domain of KIAA0858 (Lim), MS0793 From Homo Sapiens, PDB code: 2eaq was solved by Y.Xie, S.Kishishita, K.Murayama, C.Takemoto, M.Shirozu, S.Yokoyama, Riken Structural Genomics/Proteomics Initiative(Rsgi), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 27.93 / 1.46
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 43.996, 61.311, 27.931, 90.00, 90.00, 90.00
R / Rfree (%) 16 / 19.4

Nickel Binding Sites:

The binding sites of Nickel atom in the Crystal Structure of Pdz Domain of KIAA0858 (Lim), MS0793 From Homo Sapiens (pdb code 2eaq). This binding sites where shown within 5.0 Angstroms radius around Nickel atom.
In total 2 binding sites of Nickel where determined in the Crystal Structure of Pdz Domain of KIAA0858 (Lim), MS0793 From Homo Sapiens, PDB code: 2eaq:
Jump to Nickel binding site number: 1; 2;

Nickel binding site 1 out of 2 in 2eaq

Go back to Nickel Binding Sites List in 2eaq
Nickel binding site 1 out of 2 in the Crystal Structure of Pdz Domain of KIAA0858 (Lim), MS0793 From Homo Sapiens


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Crystal Structure of Pdz Domain of KIAA0858 (Lim), MS0793 From Homo Sapiens within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ni2126

b:3.1
occ:0.50
O A:HOH124 2.1 16.4 1.0
O A:HOH123 2.1 14.8 1.0
NE2 A:HIS1116 2.2 9.5 1.0
CD2 A:HIS1116 3.1 8.9 1.0
CE1 A:HIS1116 3.2 10.8 1.0
O A:THR1114 4.2 8.5 1.0
CG A:HIS1116 4.3 6.6 1.0
ND1 A:HIS1116 4.3 7.6 1.0
CG A:PRO1049 4.8 10.5 1.0

Nickel binding site 2 out of 2 in 2eaq

Go back to Nickel Binding Sites List in 2eaq
Nickel binding site 2 out of 2 in the Crystal Structure of Pdz Domain of KIAA0858 (Lim), MS0793 From Homo Sapiens


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 2 of Crystal Structure of Pdz Domain of KIAA0858 (Lim), MS0793 From Homo Sapiens within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ni2127

b:14.1
occ:1.00
O A:HOH125 2.2 73.9 1.0
O A:HOH136 2.3 41.7 1.0
OD1 A:ASP1085 2.4 17.1 1.0
O A:HOH126 2.5 46.1 1.0
OD2 A:ASP1085 2.5 20.2 1.0
CG A:ASP1085 2.8 16.8 1.0
O A:HOH134 2.8 51.6 1.0
O A:HOH73 4.0 31.8 1.0
CB A:ASP1085 4.3 10.8 1.0
O A:HOH99 4.4 26.6 1.0
O A:HOH95 4.6 24.9 1.0
NZ A:LYS1060 4.9 30.0 1.0

Reference:

Y.Xie, S.Kishishita, K.Murayama, C.Takemoto, M.Shirozu, S.Yokoyama. Crystal Structure of Pdz Domain of KIAA0858 (Lim), MS0793 From Homo Sapiens To Be Published.
Page generated: Fri Sep 25 08:08:10 2020
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