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Sodium in PDB 2v6k: Structure of Maleyl Pyruvate Isomerase, A Bacterial Glutathione-S- Transferase in Zeta Class, in Complex with Substrate Analogue Dicarboxyethyl Glutathione

Enzymatic activity of Structure of Maleyl Pyruvate Isomerase, A Bacterial Glutathione-S- Transferase in Zeta Class, in Complex with Substrate Analogue Dicarboxyethyl Glutathione

All present enzymatic activity of Structure of Maleyl Pyruvate Isomerase, A Bacterial Glutathione-S- Transferase in Zeta Class, in Complex with Substrate Analogue Dicarboxyethyl Glutathione:
5.2.1.2;

Protein crystallography data

The structure of Structure of Maleyl Pyruvate Isomerase, A Bacterial Glutathione-S- Transferase in Zeta Class, in Complex with Substrate Analogue Dicarboxyethyl Glutathione, PDB code: 2v6k was solved by D.K.Shoemark, N.-Y.Zhou, P.A.Williams, A.T.Hadfield, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 43.11 / 1.30
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 52.659, 60.340, 81.680, 90.00, 93.22, 90.00
R / Rfree (%) 15 / 16.5

Sodium Binding Sites:

The binding sites of Sodium atom in the Structure of Maleyl Pyruvate Isomerase, A Bacterial Glutathione-S- Transferase in Zeta Class, in Complex with Substrate Analogue Dicarboxyethyl Glutathione (pdb code 2v6k). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Structure of Maleyl Pyruvate Isomerase, A Bacterial Glutathione-S- Transferase in Zeta Class, in Complex with Substrate Analogue Dicarboxyethyl Glutathione, PDB code: 2v6k:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 2v6k

Go back to Sodium Binding Sites List in 2v6k
Sodium binding site 1 out of 2 in the Structure of Maleyl Pyruvate Isomerase, A Bacterial Glutathione-S- Transferase in Zeta Class, in Complex with Substrate Analogue Dicarboxyethyl Glutathione


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of Maleyl Pyruvate Isomerase, A Bacterial Glutathione-S- Transferase in Zeta Class, in Complex with Substrate Analogue Dicarboxyethyl Glutathione within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1214

b:49.9
occ:1.00
 O A:HOH2139 2.4 37.2 1.0
O A:HOH2325 2.6 27.7 1.0
O A:HOH2141 2.9 42.5 1.0
NH2 A:ARG175 3.4 3.0 0.5
O A:HOH2159 3.9 33.4 1.0
CZ A:ARG175 4.0 10.0 0.5
O A:HOH2138 4.1 13.7 1.0
O A:HOH2293 4.1 27.7 1.0
NH1 A:ARG175 4.3 7.4 0.5
NH1 A:ARG175 4.4 11.7 0.5
O A:HOH2155 4.4 36.9 1.0
O A:HOH2324 4.4 11.4 1.0
O A:HOH2158 4.6 20.9 1.0
O A:HOH2300 4.6 42.9 1.0
NE A:ARG175 4.6 11.8 0.5
OE1 A:GLU172 4.6 14.5 1.0
O A:HOH2166 4.7 14.3 1.0
O A:HOH2323 4.7 17.6 1.0
O A:HOH2294 4.7 43.6 1.0
OD2 A:ASP191 4.7 12.0 1.0
O A:HOH2328 4.9 18.5 1.0
O A:HOH2170 4.9 41.4 1.0

Sodium binding site 2 out of 2 in 2v6k

Go back to Sodium Binding Sites List in 2v6k
Sodium binding site 2 out of 2 in the Structure of Maleyl Pyruvate Isomerase, A Bacterial Glutathione-S- Transferase in Zeta Class, in Complex with Substrate Analogue Dicarboxyethyl Glutathione


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Structure of Maleyl Pyruvate Isomerase, A Bacterial Glutathione-S- Transferase in Zeta Class, in Complex with Substrate Analogue Dicarboxyethyl Glutathione within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na1214

b:42.1
occ:1.00
 O B:HOH2133 2.5 38.9 1.0
O B:HOH2309 2.6 25.7 1.0
O B:HOH2284 2.9 46.9 1.0
NH2 B:ARG175 3.3 2.0 0.5
CZ B:ARG175 3.8 7.1 0.5
NH1 B:ARG175 4.1 6.0 0.5
O B:HOH2145 4.1 41.1 1.0
NH1 B:ARG175 4.2 10.6 0.5
O B:HOH2132 4.2 14.2 1.0
O B:HOH2275 4.2 28.0 1.0
O B:HOH2144 4.3 35.3 1.0
NE B:ARG175 4.4 10.1 0.5
O B:HOH2311 4.4 11.2 1.0
OE1 B:GLU172 4.6 13.2 1.0
OD2 B:ASP191 4.7 11.1 1.0
O B:HOH2152 4.8 20.6 1.0
O B:HOH2310 4.8 17.9 1.0
O B:HOH2149 4.8 15.6 1.0
O B:HOH2157 4.9 39.9 1.0
O B:HOH2277 5.0 38.5 1.0

Reference:

M.Marsh, D.K.Shoemark, A.Jacob, C.Robinson, B.Cahill, N.-Y.Zhou, P.A.Williams, A.T.Hadfield. Structure of Bacterial Glutathione-S-Transferase Maleyl Pyruvate Isomerase and Implications For Mechanism of Isomerisation. J.Mol.Biol. V. 384 165 2008.
ISSN: ISSN 0022-2836
PubMed: 18824004
DOI: 10.1016/J.JMB.2008.09.028
Page generated: Mon Oct 7 04:27:06 2024

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