Zinc in PDB 4h9d: Crystal Structure of Mn-Dependent Gme Hnh Nicking Endonuclease From Geobacter Metallireducens Gs-15, Northeast Structural Genomics Consortium (Nesg) Target GMR87

The structure of Crystal Structure of Mn-Dependent Gme Hnh Nicking Endonuclease From Geobacter Metallireducens Gs-15, Northeast Structural Genomics Consortium (Nesg) Target GMR87, PDB code: 4h9d was solved by A.Kuzin, Y.Chen, J.Seetharaman, F.Fang, R.Xiao, K.Cunningham, L.Ma, L.Owens, C.X.Chen, J.K.Everett, T.B.Acton, G.T.Montelione, J.F.Hunt, L.Tong, Northeast Structural Genomics Consortium (Nesg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.10 / 2.60
Space group	I 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	40.674, 83.385, 225.116, 90.00, 90.00, 90.00
R / Rfree (%)	23.3 / 25.1

The structure of Crystal Structure of Mn-Dependent Gme Hnh Nicking Endonuclease From Geobacter Metallireducens Gs-15, Northeast Structural Genomics Consortium (Nesg) Target GMR87 also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Zinc atom in the Crystal Structure of Mn-Dependent Gme Hnh Nicking Endonuclease From Geobacter Metallireducens Gs-15, Northeast Structural Genomics Consortium (Nesg) Target GMR87 (pdb code 4h9d). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Crystal Structure of Mn-Dependent Gme Hnh Nicking Endonuclease From Geobacter Metallireducens Gs-15, Northeast Structural Genomics Consortium (Nesg) Target GMR87, PDB code: 4h9d:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Crystal Structure of Mn-Dependent Gme Hnh Nicking Endonuclease From Geobacter Metallireducens Gs-15, Northeast Structural Genomics Consortium (Nesg) Target GMR87


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Mn-Dependent Gme Hnh Nicking Endonuclease From Geobacter Metallireducens Gs-15, Northeast Structural Genomics Consortium (Nesg) Target GMR87 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn201 b:52.0 occ:1.00 SG A:CYS41 2.3 47.8 1.0 SG A:CYS38 2.3 53.4 1.0 SG A:CYS73 2.5 58.4 1.0 SG A:CYS76 2.5 56.9 1.0 CB A:CYS76 3.1 58.4 1.0 CB A:CYS38 3.4 39.6 1.0 CB A:CYS41 3.4 39.4 1.0 CB A:CYS73 3.6 49.6 1.0 N A:CYS41 3.7 40.3 1.0 CA A:CYS41 4.1 41.1 1.0 N A:CYS73 4.1 46.1 1.0 CZ A:PHE45 4.3 65.8 1.0 CA A:CYS76 4.3 58.2 1.0 N A:CYS76 4.4 57.7 1.0 CE1 A:PHE45 4.4 64.4 1.0 CA A:CYS73 4.5 49.1 1.0 CB A:TYR40 4.6 44.6 1.0 C A:TYR40 4.7 45.4 1.0 CA A:CYS38 4.8 31.7 1.0 O A:CYS73 4.9 50.3 1.0 N A:TYR40 5.0 41.8 1.0 C A:CYS73 5.0 55.1 1.0 C A:CYS41 5.0 41.7 1.0 CA A:TYR40 5.0 41.5 1.0

Zinc binding site 2 out of 3 in the Crystal Structure of Mn-Dependent Gme Hnh Nicking Endonuclease From Geobacter Metallireducens Gs-15, Northeast Structural Genomics Consortium (Nesg) Target GMR87


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Mn-Dependent Gme Hnh Nicking Endonuclease From Geobacter Metallireducens Gs-15, Northeast Structural Genomics Consortium (Nesg) Target GMR87 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn201 b:57.5 occ:1.00 SG B:CYS38 2.3 43.3 1.0 SG B:CYS73 2.3 56.0 1.0 SG B:CYS41 2.5 52.0 1.0 SG B:CYS76 2.5 58.8 1.0 CB B:CYS76 3.2 50.2 1.0 CB B:CYS38 3.3 34.5 1.0 CB B:CYS73 3.6 52.0 1.0 CB B:CYS41 3.6 57.8 1.0 N B:CYS41 3.9 57.1 1.0 N B:CYS73 4.0 49.7 1.0 N B:CYS76 4.2 70.9 1.0 CZ B:PHE45 4.2 53.5 1.0 CA B:CYS76 4.3 62.2 1.0 CE1 B:PHE45 4.3 50.8 1.0 CA B:CYS41 4.4 59.9 1.0 CA B:CYS73 4.4 51.3 1.0 CB B:TYR40 4.7 53.2 1.0 CA B:CYS38 4.7 37.7 1.0 O B:CYS73 4.9 57.8 1.0 C B:CYS73 5.0 55.4 1.0

Zinc binding site 3 out of 3 in the Crystal Structure of Mn-Dependent Gme Hnh Nicking Endonuclease From Geobacter Metallireducens Gs-15, Northeast Structural Genomics Consortium (Nesg) Target GMR87


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of Mn-Dependent Gme Hnh Nicking Endonuclease From Geobacter Metallireducens Gs-15, Northeast Structural Genomics Consortium (Nesg) Target GMR87 within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn201 b:58.0 occ:1.00 SG C:CYS41 2.4 51.7 1.0 SG C:CYS38 2.5 52.0 1.0 SG C:CYS76 2.5 55.4 1.0 SG C:CYS73 2.5 59.9 1.0 CB C:CYS38 3.2 50.9 1.0 CB C:CYS41 3.3 49.8 1.0 CB C:CYS76 3.3 49.1 1.0 N C:CYS41 3.8 54.0 1.0 CB C:CYS73 3.8 47.6 1.0 CZ C:PHE45 3.9 79.3 1.0 N C:CYS73 4.1 49.5 1.0 CE1 C:PHE45 4.2 77.6 1.0 CA C:CYS41 4.2 56.5 1.0 N C:CYS76 4.4 58.4 1.0 CA C:CYS76 4.5 56.7 1.0 CA C:CYS73 4.5 49.5 1.0 OH C:TYR91 4.6 88.2 1.0 CB C:TYR40 4.7 37.2 1.0 CA C:CYS38 4.7 40.7 1.0 CE2 C:PHE45 4.8 74.5 1.0 C C:TYR40 4.9 51.7 1.0 O C:CYS73 5.0 54.0 1.0

A.Kuzin, Y.Chen, J.Seetharaman, F.Fang, R.Xiao, K.Cunningham, L.Ma, L.Owens, C.X.Chen, J.K.Everett, T.B.Acton, G.T.Montelione, J.F.Hunt, L.Tong. Northeast Structural Genomics Consortium Target GMR87 To Be Published.