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Nickel in PDB 3lmw: Crystal Structure of Iota-Carrageenase Family GH82 From A. Fortis in Absence of Chloride Ions

Enzymatic activity of Crystal Structure of Iota-Carrageenase Family GH82 From A. Fortis in Absence of Chloride Ions

All present enzymatic activity of Crystal Structure of Iota-Carrageenase Family GH82 From A. Fortis in Absence of Chloride Ions:
3.2.1.157;

Protein crystallography data

The structure of Crystal Structure of Iota-Carrageenase Family GH82 From A. Fortis in Absence of Chloride Ions, PDB code: 3lmw was solved by E.Rebuffet, T.Barbeyron, A.Jeudy, M.Czjzek, G.Michel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 69.06 / 2.60
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 54.960, 101.390, 95.910, 90.00, 100.40, 90.00
R / Rfree (%) 18 / 26

Other elements in 3lmw:

The structure of Crystal Structure of Iota-Carrageenase Family GH82 From A. Fortis in Absence of Chloride Ions also contains other interesting chemical elements:

Calcium (Ca) 1 atom

Nickel Binding Sites:

The binding sites of Nickel atom in the Crystal Structure of Iota-Carrageenase Family GH82 From A. Fortis in Absence of Chloride Ions (pdb code 3lmw). This binding sites where shown within 5.0 Angstroms radius around Nickel atom.
In total only one binding site of Nickel was determined in the Crystal Structure of Iota-Carrageenase Family GH82 From A. Fortis in Absence of Chloride Ions, PDB code: 3lmw:

Nickel binding site 1 out of 1 in 3lmw

Go back to Nickel Binding Sites List in 3lmw
Nickel binding site 1 out of 1 in the Crystal Structure of Iota-Carrageenase Family GH82 From A. Fortis in Absence of Chloride Ions


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 Iota-Carrageenase Family GH82 From A. Fortis in Absence of Chloride Ions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ni1

b:23.6
occ:1.00
NE2 A:HIS498 2.1 31.7 1.0
ND1 A:HIS496 2.1 22.7 1.0
OD2 A:ASP178 2.1 11.6 1.0
O A:HOH658 2.4 23.0 1.0
CG A:ASP178 2.9 12.7 1.0
CE1 A:HIS498 2.9 34.2 1.0
OD1 A:ASP178 3.0 13.9 1.0
CE1 A:HIS496 3.0 24.1 1.0
CG A:HIS496 3.1 26.8 1.0
CD2 A:HIS498 3.2 32.9 1.0
CB A:HIS496 3.4 30.4 1.0
NZ A:LYS152 3.8 7.5 1.0
ND1 A:HIS498 4.1 35.0 1.0
NE2 A:HIS496 4.1 22.3 1.0
CD2 A:HIS496 4.2 25.2 1.0
CG A:HIS498 4.2 35.9 1.0
CB A:ASP178 4.3 11.5 1.0
CE A:LYS152 4.5 9.6 1.0
CD1 A:LEU148 4.7 10.4 1.0
CE1 A:HIS499 4.7 52.7 1.0
OD1 A:ASN212 4.9 12.1 1.0
O A:HOH603 4.9 15.7 1.0
CD A:LYS152 4.9 14.5 1.0
CA A:HIS496 5.0 31.3 1.0

Reference:

E.Rebuffet, T.Barbeyron, A.Jeudy, M.Jam, M.Czjzek, G.Michel. Identification of Catalytic Residues and Mechanistic Analysis of Family GH82 Iota-Carrageenases Biochemistry V. 49 7590 2010.
ISSN: ISSN 0006-2960
PubMed: 20681629
DOI: 10.1021/BI1003475
Page generated: Thu Oct 29 06:20:43 2020
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