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Magnesium in PDB 1yfz: Novel Imp Binding in Feedback Inhibition of Hypoxanthine-Guanine Phosphoribosyltransferase From Thermoanaerobacter Tengcongensis

Enzymatic activity of Novel Imp Binding in Feedback Inhibition of Hypoxanthine-Guanine Phosphoribosyltransferase From Thermoanaerobacter Tengcongensis

All present enzymatic activity of Novel Imp Binding in Feedback Inhibition of Hypoxanthine-Guanine Phosphoribosyltransferase From Thermoanaerobacter Tengcongensis:
2.4.2.8;

Protein crystallography data

The structure of Novel Imp Binding in Feedback Inhibition of Hypoxanthine-Guanine Phosphoribosyltransferase From Thermoanaerobacter Tengcongensis, PDB code: 1yfz was solved by Q.Chen, Y.Liang, X.Su, X.Gu, X.Zheng, M.Luo, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.60 / 2.20
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 65.770, 137.730, 95.270, 90.00, 90.00, 90.00
R / Rfree (%) 21.9 / 24.9

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Novel Imp Binding in Feedback Inhibition of Hypoxanthine-Guanine Phosphoribosyltransferase From Thermoanaerobacter Tengcongensis (pdb code 1yfz). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Novel Imp Binding in Feedback Inhibition of Hypoxanthine-Guanine Phosphoribosyltransferase From Thermoanaerobacter Tengcongensis, PDB code: 1yfz:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 1yfz

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Magnesium binding site 1 out of 4 in the Novel Imp Binding in Feedback Inhibition of Hypoxanthine-Guanine Phosphoribosyltransferase From Thermoanaerobacter Tengcongensis


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Novel Imp Binding in Feedback Inhibition of Hypoxanthine-Guanine Phosphoribosyltransferase From Thermoanaerobacter Tengcongensis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1191

b:43.3
occ:1.00
 O A:HOH1269 2.0 42.9 1.0
O A:HOH1270 2.1 45.3 1.0
OE2 A:GLU101 2.1 37.8 1.0
O A:HOH1251 2.2 27.0 1.0
OD1 A:ASP102 2.3 33.8 1.0
CD A:GLU101 3.0 34.9 1.0
OE1 A:GLU101 3.3 35.7 1.0
CG A:ASP102 3.3 31.3 1.0
OD2 A:ASP102 3.7 33.4 1.0
O A:HOH1237 4.0 28.6 1.0
O A:ILE103 4.1 34.7 1.0
N A:ASP102 4.2 29.1 1.0
CG A:GLU101 4.4 33.3 1.0
N A:ILE103 4.5 29.8 1.0
O4' A:IMP1210 4.6 59.8 1.0
CB A:ASP102 4.6 31.3 1.0
C4' A:IMP1210 4.6 60.5 1.0
C5' A:IMP1210 4.6 58.5 1.0
CB A:VAL43 4.7 25.9 1.0
CB A:GLU101 4.8 30.0 1.0
O A:VAL43 4.8 25.4 1.0
CH3 A:ACT1200 4.8 45.3 1.0
CA A:GLU101 4.9 28.3 1.0
CA A:ASP102 4.9 30.1 1.0
CG2 A:ILE103 4.9 30.3 1.0
O A:HOH1284 5.0 51.6 1.0

Magnesium binding site 2 out of 4 in 1yfz

Go back to Magnesium Binding Sites List in 1yfz
Magnesium binding site 2 out of 4 in the Novel Imp Binding in Feedback Inhibition of Hypoxanthine-Guanine Phosphoribosyltransferase From Thermoanaerobacter Tengcongensis


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Novel Imp Binding in Feedback Inhibition of Hypoxanthine-Guanine Phosphoribosyltransferase From Thermoanaerobacter Tengcongensis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1192

b:44.9
occ:1.00
 OD1 A:ASP161 1.9 34.4 1.0
O A:HOH1274 2.0 35.0 1.0
O A:HOH1257 2.0 37.0 1.0
O2P A:IMP1210 2.0 48.6 1.0
O A:HOH1260 2.3 48.6 1.0
O A:HOH1236 2.3 33.2 1.0
CG A:ASP161 3.0 32.9 1.0
P A:IMP1210 3.2 48.4 1.0
O5' A:IMP1210 3.3 53.7 1.0
OD2 A:ASP161 3.6 35.1 1.0
C5' A:IMP1210 3.6 58.5 1.0
NH1 A:ARG167 3.9 25.9 1.0
NH2 A:ARG167 4.0 26.1 1.0
N3 A:IMP1210 4.1 55.6 1.0
O A:ASP161 4.1 32.8 1.0
O3P A:IMP1210 4.1 47.8 1.0
N A:ASP161 4.2 33.5 1.0
CB A:ASP161 4.3 33.3 1.0
O1P A:IMP1210 4.3 48.5 1.0
CZ A:ARG167 4.4 26.9 1.0
C2 A:IMP1210 4.4 53.9 1.0
C A:ASP161 4.4 33.2 1.0
C4' A:IMP1210 4.5 60.5 1.0
CA A:ASP161 4.5 33.8 1.0
C3' A:IMP1210 4.6 62.1 1.0
O4' A:IMP1210 4.8 59.8 1.0
C2' A:IMP1210 4.9 60.6 1.0

Magnesium binding site 3 out of 4 in 1yfz

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Magnesium binding site 3 out of 4 in the Novel Imp Binding in Feedback Inhibition of Hypoxanthine-Guanine Phosphoribosyltransferase From Thermoanaerobacter Tengcongensis


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Novel Imp Binding in Feedback Inhibition of Hypoxanthine-Guanine Phosphoribosyltransferase From Thermoanaerobacter Tengcongensis within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg2191

b:37.0
occ:1.00
 O B:HOH2285 1.8 40.7 1.0
OE2 B:GLU101 1.9 30.3 1.0
OD1 B:ASP102 2.0 33.9 1.0
O B:HOH2273 2.1 30.8 1.0
O B:HOH2279 2.1 42.7 1.0
O B:HOH2288 2.2 39.6 1.0
CD B:GLU101 2.9 28.3 1.0
CG B:ASP102 3.1 30.8 1.0
OE1 B:GLU101 3.2 28.2 1.0
OD2 B:ASP102 3.5 32.7 1.0
N B:ASP102 3.9 22.3 1.0
O B:ILE103 4.0 28.3 1.0
N B:ILE103 4.2 23.9 1.0
CG B:GLU101 4.2 26.9 1.0
CB B:ASP102 4.4 27.4 1.0
CB B:GLU101 4.6 23.6 1.0
CA B:ASP102 4.7 24.5 1.0
O B:VAL43 4.7 23.4 1.0
CA B:GLU101 4.7 21.8 1.0
C5' B:IMP2210 4.7 66.5 1.0
C4' B:IMP2210 4.8 67.8 1.0
CG2 B:ILE103 4.8 26.4 1.0
CH3 B:ACT2200 4.8 34.8 1.0
C B:GLU101 4.9 21.7 1.0
CB B:VAL43 4.9 28.6 1.0
O4' B:IMP2210 4.9 68.2 1.0
C B:ILE103 4.9 26.0 1.0
C B:ASP102 5.0 23.4 1.0

Magnesium binding site 4 out of 4 in 1yfz

Go back to Magnesium Binding Sites List in 1yfz
Magnesium binding site 4 out of 4 in the Novel Imp Binding in Feedback Inhibition of Hypoxanthine-Guanine Phosphoribosyltransferase From Thermoanaerobacter Tengcongensis


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Novel Imp Binding in Feedback Inhibition of Hypoxanthine-Guanine Phosphoribosyltransferase From Thermoanaerobacter Tengcongensis within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg2192

b:40.2
occ:1.00
 O B:HOH2278 1.9 40.8 1.0
OD1 B:ASP161 2.0 23.2 1.0
O2P B:IMP2210 2.1 55.0 1.0
O B:HOH2283 2.2 41.2 1.0
O B:HOH2258 2.3 43.8 1.0
O B:HOH2253 2.5 27.3 1.0
CG B:ASP161 3.0 23.4 1.0
OD2 B:ASP161 3.3 24.2 1.0
P B:IMP2210 3.3 56.4 1.0
C5' B:IMP2210 3.3 66.5 1.0
O5' B:IMP2210 3.4 61.6 1.0
NH2 B:ARG167 4.0 18.8 1.0
O B:ASP161 4.1 22.9 1.0
NH1 B:ARG167 4.1 20.5 1.0
O3P B:IMP2210 4.2 58.8 1.0
C4' B:IMP2210 4.3 67.8 1.0
N3 B:IMP2210 4.3 64.6 1.0
O B:HOH2291 4.3 51.0 1.0
CB B:ASP161 4.3 24.3 1.0
O1P B:IMP2210 4.3 56.9 1.0
N B:ASP161 4.4 23.6 1.0
C3' B:IMP2210 4.4 69.5 1.0
CZ B:ARG167 4.4 21.5 1.0
O B:HOH2217 4.4 36.2 1.0
O4' B:IMP2210 4.5 68.2 1.0
C B:ASP161 4.5 24.1 1.0
C2 B:IMP2210 4.6 63.4 1.0
CA B:ASP161 4.7 24.2 1.0

Reference:

Q.Chen, Y.Liang, X.Su, X.Gu, X.Zheng, M.Luo. Alternative Imp Binding in Feedback Inhibition of Hypoxanthine-Guanine Phosphoribosyltransferase From Thermoanaerobacter Tengcongensis. J.Mol.Biol. V. 348 1199 2005.
ISSN: ISSN 0022-2836
PubMed: 15854655
DOI: 10.1016/J.JMB.2005.02.064
Page generated: Sun Aug 10 07:46:15 2025

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