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      3gvn
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    PDB 4fkx-8ici
    PDB 8ruc-9rub

Magnesium in the structure of Crystal Structure of A Laci-Family Transcriptional Regulatory Protein From Corynebacterium Glutamicum (pdb 3gyb)






The binding sites of Magnesium atom in the structure of Crystal Structure of A Laci-Family Transcriptional Regulatory Protein From Corynebacterium Glutamicum (pdb code 3gyb). This binding sites where shown with 5.0 Angstroms radius around Magnesium atom.
The 3gyb structure was solved by K.PALANI, S.K.BURLEY, S.SWAMINATHAN, NEW YORK SGX RESEARCHCENTER FOR STRUCTURAL GENOMICS (NYSGXRC), with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A)32.5-1.6
Space groupP1
a (A)38.073
b (A)61.882
c (A)65.604
alpha (°)115.83
beta (°)106.37
gamma (°)90.50
Rfactor (%)21.5
Rfree (%)23.1


Magnesium Binding Sites:

Magnesium binding site 1 out of 2 in 3gyb


Magnesium binding site 1 out of 2 in 3gyb
Click to enlarge
stereopicture of Magnesium binding site 1 out of 2 in 3gyb
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Magnesium in the PDB 3gyb. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Magnesium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Trp77, A: Asp80, A: Asp270, A: Asn271, A: Thr272, A: Asp286, A: Asp287, A: Asn288, A: Ser289, A: Hoh16, A: Hoh356, A: Hoh357, A: Hoh463, A: Hoh464, A: Hoh465,

conact list:


AtomAtomDistance (A)
MgO A:Trp774.30
MgOD2 A:Asp804.05
MgOD1 A:Asp804.05
MgCG A:Asp804.49
MgO A:Asp2702.16
MgCB A:Asp2704.48
MgC A:Asp2703.30
MgCA A:Asp2703.98
MgO A:Asn2714.04
MgN A:Asn2714.36
MgCB A:Asn2714.45
MgC A:Asn2714.29
MgCA A:Asn2714.60
MgN A:Thr2724.89
MgOD1 A:Asp2864.45
MgN A:Asp2874.33
MgCB A:Asp2874.42
MgOD2 A:Asp2873.45
MgC A:Asp2874.85
MgOD1 A:Asp2872.12
MgCG A:Asp2873.10
MgCA A:Asp2874.77
MgN A:Asn2884.77
MgN A:Ser2893.91
MgCB A:Ser2893.17
MgOG A:Ser2892.23
MgCA A:Ser2894.17
MgO A:Hoh164.73
MgO A:Hoh3564.93
MgO A:Hoh3574.12
MgO A:Hoh4632.17
MgO A:Hoh4642.21
MgO A:Hoh4652.23

interactive model:


Magnesium binding site 2 out of 2 in 3gyb


Magnesium binding site 2 out of 2 in 3gyb
Click to enlarge
stereopicture of Magnesium binding site 2 out of 2 in 3gyb
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Magnesium in the PDB 3gyb. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Magnesium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: B: Trp77, B: Asp80, B: Asp270, B: Asn271, B: Thr272, B: Asp286, B: Asp287, B: Asn288, B: Ser289, B: Hoh14, B: Hoh22, B: Hoh36, B: Hoh447, B: Hoh448, B: Hoh449,

conact list:


AtomAtomDistance (A)
MgO B:Trp774.30
MgOD2 B:Asp804.03
MgOD1 B:Asp803.99
MgCG B:Asp804.44
MgO B:Asp2702.14
MgCB B:Asp2704.45
MgC B:Asp2703.29
MgCA B:Asp2703.97
MgO B:Asn2714.10
MgN B:Asn2714.36
MgCB B:Asn2714.43
MgC B:Asn2714.34
MgCA B:Asn2714.61
MgN B:Thr2724.95
MgOD1 B:Asp2864.43
MgN B:Asp2874.30
MgCB B:Asp2874.42
MgOD2 B:Asp2873.54
MgC B:Asp2874.87
MgOD1 B:Asp2872.12
MgCG B:Asp2873.14
MgCA B:Asp2874.76
MgN B:Asn2884.81
MgN B:Ser2893.95
MgCB B:Ser2893.18
MgOG B:Ser2892.18
MgCA B:Ser2894.19
MgO B:Hoh144.63
MgO B:Hoh224.85
MgO B:Hoh364.12
MgO B:Hoh4472.22
MgO B:Hoh4482.18
MgO B:Hoh4492.19

interactive model:




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