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Potassium in PDB 1m5h: Formylmethanofuran:Tetrahydromethanopterin Formyltransferase From Archaeoglobus Fulgidus

Enzymatic activity of Formylmethanofuran:Tetrahydromethanopterin Formyltransferase From Archaeoglobus Fulgidus

All present enzymatic activity of Formylmethanofuran:Tetrahydromethanopterin Formyltransferase From Archaeoglobus Fulgidus:
2.3.1.101;

Protein crystallography data

The structure of Formylmethanofuran:Tetrahydromethanopterin Formyltransferase From Archaeoglobus Fulgidus, PDB code: 1m5h was solved by B.Mamat, A.Roth, C.Grimm, U.Ermler, C.Tziatzios, D.Schubert, R.K.Thauer, S.Shima, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.25 / 2.00
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 77.100, 81.810, 99.100, 90.10, 110.04, 93.75
R / Rfree (%) 22.9 / 28.2

Potassium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 24;

Binding sites:

The binding sites of Potassium atom in the Formylmethanofuran:Tetrahydromethanopterin Formyltransferase From Archaeoglobus Fulgidus (pdb code 1m5h). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 24 binding sites of Potassium where determined in the Formylmethanofuran:Tetrahydromethanopterin Formyltransferase From Archaeoglobus Fulgidus, PDB code: 1m5h:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Potassium binding site 1 out of 24 in 1m5h

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Potassium binding site 1 out of 24 in the Formylmethanofuran:Tetrahydromethanopterin Formyltransferase From Archaeoglobus Fulgidus


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Formylmethanofuran:Tetrahydromethanopterin Formyltransferase From Archaeoglobus Fulgidus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K8002

b:10.8
occ:1.00
 O A:VAL190 2.7 6.8 1.0
O A:VAL193 2.9 7.4 1.0
O A:GLU57 2.9 8.2 1.0
O A:ILE187 3.0 10.5 1.0
O A:HOH8846 3.2 11.3 1.0
O A:SER188 3.4 16.1 1.0
C A:VAL193 3.7 7.8 1.0
C A:SER188 3.7 13.9 1.0
C A:GLU57 3.8 9.2 1.0
C A:VAL190 3.8 10.2 1.0
CA A:SER188 3.9 14.7 1.0
C A:ILE187 4.0 12.0 1.0
N A:VAL190 4.0 11.1 1.0
CA A:GLU57 4.2 7.7 1.0
CG A:GLU57 4.3 7.6 1.0
CA A:VAL190 4.3 11.0 1.0
N A:VAL193 4.4 9.2 1.0
CA A:VAL193 4.4 9.5 1.0
N A:SER188 4.4 11.3 1.0
CB A:VAL193 4.5 11.3 1.0
CB A:VAL190 4.5 9.5 1.0
CG2 A:ILE187 4.5 9.2 1.0
N A:ASP189 4.6 14.2 1.0
N A:ILE194 4.6 7.2 1.0
CG1 A:VAL193 4.7 18.1 1.0
CA A:ILE194 4.8 7.1 1.0
C A:ASP189 4.8 12.6 1.0
O A:HOH8215 4.9 37.9 1.0
N A:ILE58 4.9 8.0 1.0
CB A:GLU57 4.9 5.1 1.0
O A:ILE56 4.9 10.5 1.0
N A:GLU191 4.9 11.0 1.0
CB A:ILE58 5.0 12.1 1.0

Potassium binding site 2 out of 24 in 1m5h

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Potassium binding site 2 out of 24 in the Formylmethanofuran:Tetrahydromethanopterin Formyltransferase From Archaeoglobus Fulgidus


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Formylmethanofuran:Tetrahydromethanopterin Formyltransferase From Archaeoglobus Fulgidus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K8011

b:11.5
occ:1.00
 O A:ALA99 2.8 8.6 1.0
O A:LEU97 3.0 10.4 1.0
OG1 A:THR102 3.0 8.8 1.0
OE2 A:GLU146 3.2 15.4 1.0
O A:VAL96 3.4 10.7 1.0
C A:LEU97 3.5 11.5 1.0
CE A:MET144 3.6 19.8 1.0
CD1 A:PHE149 3.6 13.0 1.0
O A:HOH9010 3.8 45.1 1.0
C A:ALA99 3.9 9.7 1.0
CE1 A:PHE149 4.1 12.8 1.0
O A:THR102 4.1 10.0 1.0
CA A:LEU97 4.1 9.6 1.0
N A:ALA99 4.1 11.2 1.0
CG A:PHE149 4.1 15.5 1.0
N A:THR102 4.2 10.4 1.0
CD A:GLU146 4.2 9.9 1.0
N A:THR98 4.3 10.6 1.0
CB A:THR102 4.3 7.4 1.0
CB A:PHE149 4.4 12.1 1.0
SD A:MET144 4.4 15.8 1.0
C A:THR98 4.4 11.7 1.0
CB B:ALA1203 4.4 11.2 1.0
C A:VAL96 4.5 10.5 1.0
CA A:THR102 4.5 10.8 1.0
CA A:ALA99 4.6 10.3 1.0
C A:THR102 4.6 11.6 1.0
CA A:THR98 4.6 11.2 1.0
N A:THR101 4.7 7.5 1.0
N A:LEU97 4.8 9.4 1.0
OE1 A:GLU146 4.8 10.4 1.0
CZ A:PHE149 4.9 11.7 1.0
N A:PRO100 4.9 9.1 1.0
CD2 A:PHE149 5.0 9.1 1.0
O A:THR98 5.0 14.5 1.0
C A:THR101 5.0 10.3 1.0

Potassium binding site 3 out of 24 in 1m5h

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Potassium binding site 3 out of 24 in the Formylmethanofuran:Tetrahydromethanopterin Formyltransferase From Archaeoglobus Fulgidus


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Formylmethanofuran:Tetrahydromethanopterin Formyltransferase From Archaeoglobus Fulgidus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K8019

b:14.8
occ:1.00
 O A:ALA54 2.9 8.7 1.0
O A:PRO196 3.0 6.8 1.0
OE1 B:GLU1039 3.0 11.9 1.0
O A:THR41 3.1 13.7 1.0
OE2 B:GLU1039 3.2 15.6 1.0
O A:GLY44 3.2 13.9 1.0
CD B:GLU1039 3.5 13.3 1.0
O A:HOH8905 3.5 16.7 1.0
O A:HOH8642 3.6 19.2 1.0
C A:GLY44 3.7 12.7 1.0
C A:PRO196 3.8 8.2 1.0
C A:ALA54 4.0 7.8 1.0
CA A:PRO196 4.1 8.2 1.0
C A:THR41 4.2 11.5 1.0
CA A:GLY44 4.3 11.9 1.0
N A:GLY44 4.3 13.2 1.0
N A:THR45 4.4 10.3 1.0
CA A:GLY55 4.6 9.4 1.0
CA A:GLY42 4.7 10.5 1.0
CB A:PRO196 4.7 10.9 1.0
N A:GLY55 4.7 8.2 1.0
CA A:THR45 4.8 10.4 1.0
N A:ALA54 4.8 8.9 1.0
CG2 A:THR45 4.8 7.8 1.0
CA A:ALA54 4.9 7.4 1.0
O B:HOH9883 4.9 39.3 1.0
N A:GLY42 4.9 11.4 1.0
CB A:THR41 4.9 11.6 1.0
CG B:GLU1039 4.9 9.3 1.0
C A:GLY42 4.9 11.9 1.0
O A:PHE197 5.0 10.2 1.0

Potassium binding site 4 out of 24 in 1m5h

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Potassium binding site 4 out of 24 in the Formylmethanofuran:Tetrahydromethanopterin Formyltransferase From Archaeoglobus Fulgidus


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Formylmethanofuran:Tetrahydromethanopterin Formyltransferase From Archaeoglobus Fulgidus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K8005

b:11.3
occ:1.00
 O B:PRO1196 2.9 9.5 1.0
O B:ALA1054 3.0 12.8 1.0
O B:THR1041 3.0 13.9 1.0
OE1 A:GLU39 3.1 15.9 1.0
OE2 A:GLU39 3.2 16.1 1.0
O B:GLY1044 3.3 10.7 1.0
CD A:GLU39 3.6 16.7 1.0
O B:HOH9024 3.6 13.3 1.0
O B:HOH9403 3.7 43.0 1.0
C B:GLY1044 3.8 12.0 1.0
C B:ALA1054 3.9 11.9 1.0
C B:PRO1196 3.9 11.5 1.0
C B:THR1041 4.2 10.8 1.0
CA B:PRO1196 4.3 11.6 1.0
CA B:GLY1044 4.3 11.9 1.0
N B:GLY1044 4.4 9.3 1.0
N B:THR1045 4.5 10.9 1.0
O A:HOH9802 4.5 36.9 1.0
CA B:GLY1055 4.6 11.2 1.0
N B:GLY1055 4.6 11.4 1.0
N B:ALA1054 4.6 9.4 1.0
CA B:GLY1042 4.8 9.7 1.0
CA B:ALA1054 4.8 10.6 1.0
CB B:THR1041 4.8 11.2 1.0
CA B:THR1045 4.9 11.8 1.0
O B:PHE1197 4.9 11.9 1.0
CG2 B:THR1045 4.9 14.8 1.0
O A:HOH9753 4.9 35.7 1.0
N B:GLY1042 4.9 10.6 1.0

Potassium binding site 5 out of 24 in 1m5h

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Potassium binding site 5 out of 24 in the Formylmethanofuran:Tetrahydromethanopterin Formyltransferase From Archaeoglobus Fulgidus


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Formylmethanofuran:Tetrahydromethanopterin Formyltransferase From Archaeoglobus Fulgidus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K8015

b:13.7
occ:1.00
 O B:ALA1099 2.9 10.2 1.0
OE2 B:GLU1146 3.1 19.0 1.0
O B:LEU1097 3.2 9.5 1.0
OG1 B:THR1102 3.2 16.4 1.0
O B:VAL1096 3.4 9.9 1.0
CD1 B:PHE1149 3.5 9.3 1.0
CE B:MET1144 3.5 23.6 1.0
C B:LEU1097 3.6 9.4 1.0
O B:THR1102 3.9 13.2 1.0
C B:ALA1099 4.0 8.8 1.0
CE1 B:PHE1149 4.1 11.7 1.0
N B:THR1102 4.1 11.3 1.0
CA B:LEU1097 4.1 10.0 1.0
CG B:PHE1149 4.1 13.0 1.0
CD B:GLU1146 4.2 15.5 1.0
CB B:PHE1149 4.2 9.3 1.0
N B:ALA1099 4.3 9.9 1.0
SD B:MET1144 4.4 14.9 1.0
N B:THR1098 4.4 8.6 1.0
CB B:THR1102 4.4 12.7 1.0
C B:THR1102 4.4 11.1 1.0
CA B:THR1102 4.5 11.8 1.0
C B:VAL1096 4.5 10.4 1.0
C B:THR1098 4.6 11.3 1.0
CB A:ALA203 4.6 8.5 1.0
CA B:ALA1099 4.7 10.7 1.0
N B:THR1101 4.8 10.0 1.0
N B:LEU1097 4.8 8.7 1.0
CA B:THR1098 4.8 9.7 1.0
OE1 B:GLU1146 4.8 16.6 1.0
CA B:PHE1149 4.9 12.5 1.0
C B:THR1101 4.9 10.0 1.0
C B:PRO1100 5.0 9.3 1.0

Potassium binding site 6 out of 24 in 1m5h

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Potassium binding site 6 out of 24 in the Formylmethanofuran:Tetrahydromethanopterin Formyltransferase From Archaeoglobus Fulgidus


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of Formylmethanofuran:Tetrahydromethanopterin Formyltransferase From Archaeoglobus Fulgidus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K8017

b:11.2
occ:1.00
 O B:VAL1190 2.8 10.4 1.0
O B:VAL1193 2.9 14.0 1.0
O B:ILE1187 2.9 9.3 1.0
O B:GLU1057 3.0 12.7 1.0
O B:SER1188 3.6 13.6 1.0
C B:VAL1193 3.7 13.5 1.0
C B:SER1188 3.8 12.8 1.0
CA B:SER1188 3.8 10.4 1.0
C B:GLU1057 3.8 12.8 1.0
C B:VAL1190 3.9 11.7 1.0
CG2 B:ILE1058 4.0 19.5 1.0
C B:ILE1187 4.0 8.9 1.0
N B:VAL1190 4.1 13.0 1.0
CA B:GLU1057 4.2 11.3 1.0
CG B:GLU1057 4.3 13.4 1.0
N B:SER1188 4.4 8.1 1.0
CB B:VAL1193 4.4 12.9 1.0
CA B:VAL1193 4.4 13.2 1.0
CA B:VAL1190 4.4 12.0 1.0
N B:VAL1193 4.5 13.7 1.0
N B:ASP1189 4.5 11.9 1.0
N B:ILE1194 4.6 12.7 1.0
CB B:VAL1190 4.6 12.7 1.0
CG2 B:ILE1187 4.7 10.1 1.0
CG1 B:VAL1193 4.7 18.0 1.0
CA B:ILE1194 4.8 12.0 1.0
O B:ILE1056 4.8 9.1 1.0
C B:ASP1189 4.9 13.9 1.0
O B:HOH9339 4.9 25.1 1.0
O B:HOH9751 4.9 23.8 1.0
N B:ILE1058 4.9 11.9 1.0
CB B:GLU1057 4.9 12.2 1.0

Potassium binding site 7 out of 24 in 1m5h

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Potassium binding site 7 out of 24 in the Formylmethanofuran:Tetrahydromethanopterin Formyltransferase From Archaeoglobus Fulgidus


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 7 of Formylmethanofuran:Tetrahydromethanopterin Formyltransferase From Archaeoglobus Fulgidus within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K8001

b:11.0
occ:1.00
 O C:VAL2190 2.8 9.9 1.0
O C:GLU2057 2.9 10.1 1.0
O C:VAL2193 2.9 12.3 1.0
O C:ILE2187 3.1 13.2 1.0
O C:HOH8888 3.3 14.1 1.0
O C:SER2188 3.4 16.7 1.0
C C:SER2188 3.7 14.0 1.0
C C:VAL2193 3.8 10.9 1.0
CA C:SER2188 3.8 13.8 1.0
C C:GLU2057 3.8 12.6 1.0
C C:VAL2190 3.8 12.8 1.0
C C:ILE2187 4.0 12.2 1.0
N C:VAL2190 4.1 12.3 1.0
CA C:GLU2057 4.3 10.3 1.0
CG C:GLU2057 4.3 7.8 1.0
CA C:VAL2190 4.3 12.4 1.0
N C:SER2188 4.4 12.1 1.0
CA C:VAL2193 4.4 11.8 1.0
N C:VAL2193 4.4 11.7 1.0
CB C:VAL2193 4.4 13.3 1.0
N C:ASP2189 4.5 15.6 1.0
CB C:VAL2190 4.5 8.2 1.0
CG1 C:VAL2193 4.7 19.4 1.0
N C:ILE2194 4.7 9.5 1.0
C C:ASP2189 4.7 15.2 1.0
CG2 C:ILE2187 4.7 12.6 1.0
O C:HOH8600 4.8 19.0 1.0
O C:ILE2056 4.9 10.3 1.0
N C:ILE2058 4.9 10.3 1.0
CA C:ILE2194 4.9 6.4 1.0
CB C:GLU2057 4.9 10.2 1.0
N C:GLU2191 4.9 13.4 1.0
CB C:ILE2058 5.0 14.7 1.0

Potassium binding site 8 out of 24 in 1m5h

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Potassium binding site 8 out of 24 in the Formylmethanofuran:Tetrahydromethanopterin Formyltransferase From Archaeoglobus Fulgidus


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 8 of Formylmethanofuran:Tetrahydromethanopterin Formyltransferase From Archaeoglobus Fulgidus within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K8007

b:11.4
occ:1.00
 O C:PRO2196 2.9 7.6 1.0
O C:ALA2054 3.0 10.9 1.0
OE1 D:GLU3039 3.1 10.7 1.0
O C:THR2041 3.1 13.5 1.0
OE2 D:GLU3039 3.2 11.8 1.0
CD D:GLU3039 3.5 14.7 1.0
O C:HOH9440 3.6 24.6 1.0
O C:GLY2044 3.6 16.4 1.0
C C:PRO2196 3.8 8.2 1.0
C C:GLY2044 3.9 13.5 1.0
C C:ALA2054 3.9 10.0 1.0
CA C:PRO2196 4.0 8.4 1.0
O C:HOH8837 4.1 24.9 1.0
C C:THR2041 4.2 11.8 1.0
CA C:GLY2044 4.4 13.3 1.0
N C:GLY2044 4.4 13.4 1.0
O C:HOH9299 4.5 20.0 1.0
CA C:GLY2055 4.5 8.6 1.0
N C:THR2045 4.6 12.9 1.0
CB C:PRO2196 4.6 8.7 1.0
N C:GLY2055 4.7 7.9 1.0
CA C:GLY2042 4.7 11.6 1.0
N C:ALA2054 4.8 11.1 1.0
O C:HOH9612 4.9 15.3 1.0
CB C:THR2041 4.9 12.2 1.0
CA C:ALA2054 4.9 9.8 1.0
O C:PHE2197 4.9 12.6 1.0
N C:GLY2042 4.9 11.9 1.0
CG D:GLU3039 4.9 10.1 1.0
N C:PHE2197 4.9 8.4 1.0
C C:GLY2042 5.0 12.5 1.0
CA C:THR2045 5.0 13.3 1.0
CG2 C:THR2045 5.0 11.8 1.0

Potassium binding site 9 out of 24 in 1m5h

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Potassium binding site 9 out of 24 in the Formylmethanofuran:Tetrahydromethanopterin Formyltransferase From Archaeoglobus Fulgidus


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 9 of Formylmethanofuran:Tetrahydromethanopterin Formyltransferase From Archaeoglobus Fulgidus within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K8014

b:15.8
occ:1.00
 O C:ALA2099 2.8 6.4 1.0
OG1 C:THR2102 3.0 15.6 1.0
O C:LEU2097 3.2 9.5 1.0
OE2 C:GLU2146 3.3 16.5 1.0
CE C:MET2144 3.5 22.7 1.0
O C:VAL2096 3.5 9.5 1.0
CD1 C:PHE2149 3.5 11.1 1.0
C C:LEU2097 3.7 10.4 1.0
O C:THR2102 3.9 12.7 1.0
O C:HOH8930 3.9 40.7 1.0
C C:ALA2099 4.0 7.6 1.0
CG C:PHE2149 4.0 11.6 1.0
CE1 C:PHE2149 4.0 13.0 1.0
N C:THR2102 4.1 13.9 1.0
CD C:GLU2146 4.1 12.3 1.0
N C:ALA2099 4.2 8.5 1.0
CA C:LEU2097 4.2 10.4 1.0
CB C:THR2102 4.2 14.4 1.0
CB C:PHE2149 4.2 10.0 1.0
SD C:MET2144 4.3 13.6 1.0
CB D:ALA3203 4.4 13.2 1.0
CA C:THR2102 4.4 13.8 1.0
N C:THR2098 4.4 9.6 1.0
C C:THR2102 4.5 14.3 1.0
C C:VAL2096 4.6 9.7 1.0
C C:THR2098 4.6 9.2 1.0
CA C:ALA2099 4.7 8.1 1.0
N C:THR2101 4.7 11.7 1.0
OE1 C:GLU2146 4.8 10.6 1.0
CG2 C:THR2102 4.8 13.9 1.0
CD2 C:PHE2149 4.8 12.2 1.0
CZ C:PHE2149 4.8 10.4 1.0
CA C:THR2098 4.8 9.7 1.0
N C:LEU2097 4.9 9.4 1.0
CG C:GLU2146 4.9 10.9 1.0
C C:THR2101 4.9 12.7 1.0
CA C:PHE2149 5.0 9.6 1.0

Potassium binding site 10 out of 24 in 1m5h

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Potassium binding site 10 out of 24 in the Formylmethanofuran:Tetrahydromethanopterin Formyltransferase From Archaeoglobus Fulgidus


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 10 of Formylmethanofuran:Tetrahydromethanopterin Formyltransferase From Archaeoglobus Fulgidus within 5.0Å range:
probe atom residue distance (Å) B Occ
D:K8003

b:10.6
occ:1.00
 O D:PRO3196 3.0 12.5 1.0
O D:ALA3054 3.0 11.9 1.0
O D:THR3041 3.0 10.6 1.0
OE1 C:GLU2039 3.1 13.8 1.0
OE2 C:GLU2039 3.2 13.6 1.0
O D:HOH8592 3.4 14.2 1.0
O D:GLY3044 3.5 6.5 1.0
CD C:GLU2039 3.5 18.8 1.0
O D:HOH8566 3.6 26.0 1.0
C D:ALA3054 3.9 10.5 1.0
C D:PRO3196 3.9 13.2 1.0
C D:GLY3044 4.0 9.6 1.0
C D:THR3041 4.1 9.4 1.0
CA D:PRO3196 4.3 12.3 1.0
O C:HOH8628 4.4 24.4 1.0
O C:HOH8657 4.5 21.6 1.0
CA D:GLY3044 4.5 10.2 1.0
CA D:GLY3055 4.5 9.8 1.0
N D:GLY3044 4.5 9.4 1.0
N D:GLY3055 4.6 11.1 1.0
N D:THR3045 4.7 9.5 1.0
CA D:GLY3042 4.7 11.1 1.0
CB D:THR3041 4.7 7.8 1.0
N D:ALA3054 4.8 10.8 1.0
CA D:ALA3054 4.8 10.1 1.0
N D:GLY3042 4.9 10.3 1.0
O D:PHE3197 4.9 9.4 1.0
CA D:THR3045 5.0 9.3 1.0
CG C:GLU2039 5.0 12.8 1.0

Reference:

B.Mamat, A.Roth, C.Grimm, U.Ermler, C.Tziatzios, D.Schubert, R.K.Thauer, S.Shima. Crystal Structures and Enzymatic Properties of Three Formyltransferases From Archaea: Environmental Adaptation and Evolutionary Relationship. Protein Sci. V. 11 2168 2002.
ISSN: ISSN 0961-8368
PubMed: 12192072
DOI: 10.1110/PS.0211002
Page generated: Mon Aug 12 04:56:07 2024

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