The binding sites of Yttrium atom in the structure of Crystal Structure Of CHP2 In Complex With Its Binding Region in NHE1 and Insights Into the Mechanism of pH Regulation (pdb code 2bec). This binding sites where shown with 5.0 Angstroms radius around Yttrium atom.
The 2bec structure was solved by Y.BEN AMMAR, S.TAKEDA, T.HISAMITSU, H.MORI, S.WAKABAYASHI, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
| Resolution (A) | 50.0-2.7 | | Space group | P43 | | a (A) | 49.262 | | b (A) | 49.262 | | c (A) | 102.587 | | alpha (°) | 90.00 | | beta (°) | 90.00 | | gamma (°) | 90.00 | | Rfactor (%) | 21.8 | | Rfree (%) | 28.7 |
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Yttrium binding site 1 out of 2 in 2bec
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Click to enlarge | 
Click to enlarge | Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Yttrium in the PDB 2bec. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Yttrium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Asp165, A: Glu166, A: Asp167, A: Gly168, A: Asp169, A: Gly170, A: Ala171, A: Val172, A: Ser173, A: Glu176, | conact list:
| Atom | Atom | Distance (A) | | Y | CB A:Asp165 | 4.72 | | Y | OD2 A:Asp165 | 4.71 | | Y | OD1 A:Asp165 | 2.68 | | Y | CG A:Asp165 | 3.88 | | Y | CA A:Asp165 | 4.66 | | Y | N A:Glu166 | 4.71 | | Y | N A:Asp167 | 4.42 | | Y | CB A:Asp167 | 4.44 | | Y | OD2 A:Asp167 | 3.89 | | Y | C A:Asp167 | 4.77 | | Y | OD1 A:Asp167 | 2.18 | | Y | CG A:Asp167 | 3.31 | | Y | CA A:Asp167 | 4.79 | | Y | N A:Gly168 | 4.80 | | Y | N A:Asp169 | 4.16 | | Y | CB A:Asp169 | 4.08 | | Y | OD2 A:Asp169 | 2.28 | | Y | C A:Asp169 | 4.87 | | Y | OD1 A:Asp169 | 3.11 | | Y | CG A:Asp169 | 2.88 | | Y | CA A:Asp169 | 4.58 | | Y | N A:Gly170 | 4.82 | | Y | O A:Ala171 | 2.33 | | Y | N A:Ala171 | 4.20 | | Y | C A:Ala171 | 3.35 | | Y | CB A:Ala171 | 4.86 | | Y | CA A:Ala171 | 4.31 | | Y | N A:Val172 | 4.12 | | Y | C A:Val172 | 4.53 | | Y | CA A:Val172 | 4.12 | | Y | N A:Ser173 | 4.05 | | Y | CB A:Ser173 | 4.84 | | Y | OG A:Ser173 | 4.70 | | Y | OE1 A:Glu176 | 2.46 | | Y | OE2 A:Glu176 | 2.84 | | Y | CD A:Glu176 | 2.89 | | Y | CG A:Glu176 | 4.23 |
| interactive model:
| Yttrium binding site 2 out of 2 in 2bec
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Click to enlarge | 
Click to enlarge | Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Yttrium in the PDB 2bec. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Yttrium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Asp124, A: Leu125, A: Asp126, A: Arg127, A: Asp128, A: Gly129, A: Lys130, A: Ile131, A: Ser132, A: Glu135, | conact list:
| Atom | Atom | Distance (A) | | Y | CB A:Asp124 | 4.13 | | Y | OD2 A:Asp124 | 2.22 | | Y | C A:Asp124 | 4.72 | | Y | OD1 A:Asp124 | 3.93 | | Y | CG A:Asp124 | 3.22 | | Y | CA A:Asp124 | 4.23 | | Y | N A:Leu125 | 4.99 | | Y | N A:Asp126 | 4.67 | | Y | CB A:Asp126 | 4.50 | | Y | OD2 A:Asp126 | 3.51 | | Y | OD1 A:Asp126 | 2.39 | | Y | CG A:Asp126 | 3.23 | | Y | CA A:Asp126 | 4.96 | | Y | N A:Arg127 | 4.88 | | Y | N A:Asp128 | 4.23 | | Y | CB A:Asp128 | 3.98 | | Y | OD2 A:Asp128 | 2.34 | | Y | OD1 A:Asp128 | 2.83 | | Y | CG A:Asp128 | 2.75 | | Y | CA A:Asp128 | 4.62 | | Y | N A:Gly129 | 4.93 | | Y | O A:Lys130 | 2.31 | | Y | N A:Lys130 | 4.27 | | Y | C A:Lys130 | 3.52 | | Y | CG A:Lys130 | 4.39 | | Y | CA A:Lys130 | 4.43 | | Y | N A:Ile131 | 4.43 | | Y | C A:Ile131 | 4.95 | | Y | CA A:Ile131 | 4.48 | | Y | N A:Ser132 | 4.34 | | Y | OG A:Ser132 | 4.87 | | Y | OE1 A:Glu135 | 2.13 | | Y | CB A:Glu135 | 4.95 | | Y | OE2 A:Glu135 | 2.40 | | Y | CD A:Glu135 | 2.55 | | Y | CG A:Glu135 | 4.04 |
| interactive model:
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