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Calcium in PDB 7vn0: Catpo Mutant - T188A

Enzymatic activity of Catpo Mutant - T188A

All present enzymatic activity of Catpo Mutant - T188A:
1.11.1.6;

Protein crystallography data

The structure of Catpo Mutant - T188A, PDB code: 7vn0 was solved by Y.Yuzugullu Karakus, S.Balci Unver, M.Zengin Karatas, G.Goc, A.R.Pearson, B.Yorke, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 56.37 / 1.40
Space group I 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 124.944, 120.786, 184.747, 90, 101.9, 90
R / Rfree (%) 16.1 / 18.2

Other elements in 7vn0:

The structure of Catpo Mutant - T188A also contains other interesting chemical elements:

Iron (Fe) 4 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Catpo Mutant - T188A (pdb code 7vn0). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 9 binding sites of Calcium where determined in the Catpo Mutant - T188A, PDB code: 7vn0:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Calcium binding site 1 out of 9 in 7vn0

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Calcium binding site 1 out of 9 in the Catpo Mutant - T188A


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Catpo Mutant - T188A within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca702

b:12.9
occ:1.00
 O A:HOH1208 3.1 20.0 1.0
O A:HOH1195 3.2 17.7 1.0
ND1 A:HIS190 3.2 9.1 1.0
N A:SER192 3.2 7.5 1.0
OG A:SER192 3.4 8.0 1.0
CB A:SER192 3.7 7.3 1.0
CD A:ARG178 3.7 8.0 1.0
N A:ASP191 3.7 7.9 1.0
CB A:HIS190 3.7 8.1 1.0
CG A:ARG178 3.9 8.0 1.0
CG A:HIS190 3.9 8.1 1.0
CB A:ARG178 3.9 7.7 1.0
CA A:SER192 4.0 7.6 1.0
CB A:ASP191 4.1 9.3 1.0
C A:ASP191 4.2 8.4 1.0
CA A:ASP191 4.2 8.0 1.0
C A:HIS190 4.2 7.5 1.0
CE1 A:HIS190 4.3 9.2 1.0
O A:HOH1030 4.5 8.8 1.0
CA A:HIS190 4.6 8.2 1.0
CE1 B:TYR412 4.6 9.5 1.0
CA A:ARG178 4.8 6.8 1.0
NZ A:LYS489 4.8 18.0 1.0
NE A:ARG178 4.9 8.2 1.0
O A:HIS190 4.9 7.9 1.0
NH1 A:ARG178 4.9 11.2 1.0

Calcium binding site 2 out of 9 in 7vn0

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Calcium binding site 2 out of 9 in the Catpo Mutant - T188A


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Catpo Mutant - T188A within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca703

b:14.1
occ:0.60
 O B:HOH1240 3.0 14.2 1.0
NH1 A:ARG449 3.1 10.2 1.0
N B:THR437 3.2 9.0 1.0
O B:HOH839 3.3 16.1 1.0
CD A:ARG449 3.7 9.0 1.0
CB B:THR437 3.8 8.9 1.0
CA B:PHE436 3.9 9.0 1.0
OG1 B:THR437 3.9 10.1 1.0
CG A:ARG449 4.0 8.5 1.0
O A:HOH1139 4.0 22.8 1.0
C B:PHE436 4.1 8.7 1.0
CA B:THR437 4.1 8.8 1.0
CB B:PHE436 4.1 9.0 1.0
CZ A:ARG449 4.1 9.6 1.0
NE A:ARG449 4.3 9.0 1.0
O B:HOH1121 4.4 11.8 1.0
CB A:ARG449 4.4 9.0 1.0
O B:THR437 4.5 9.7 1.0
O B:HOH1014 4.7 14.6 1.0
O A:HOH1254 4.8 16.3 1.0
C B:THR437 4.9 8.8 1.0
N A:ARG449 4.9 9.9 1.0
CD1 C:LEU49 4.9 8.4 1.0
O B:HOH934 4.9 10.7 1.0
O B:PHE435 5.0 9.5 1.0

Calcium binding site 3 out of 9 in 7vn0

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Calcium binding site 3 out of 9 in the Catpo Mutant - T188A


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Catpo Mutant - T188A within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca704

b:11.9
occ:0.50
 O B:HOH903 1.9 17.1 1.0
O D:HOH913 2.0 17.4 1.0
O A:HOH1263 2.0 25.9 1.0
O B:HOH1257 2.0 26.2 1.0
O B:HOH1230 2.1 18.9 1.0
O C:HOH1253 2.1 19.7 1.0
O B:GLY378 4.1 13.7 1.0
O C:GLY378 4.1 12.7 1.0
O D:GLY378 4.1 11.9 1.0
O A:GLY378 4.2 14.4 1.0
O C:HOH1127 4.2 18.8 1.0
O A:HOH1057 4.3 18.7 1.0
O B:HOH1025 4.3 20.9 1.0
O D:HOH1072 4.3 20.3 1.0
O A:HOH1186 4.4 22.5 1.0
O C:HOH1181 4.5 20.8 1.0
O B:HOH1194 4.5 23.5 1.0
O D:HOH1140 4.6 23.1 1.0
CA B:GLY378 4.6 9.4 1.0
CA C:GLY378 4.7 9.4 1.0
CA D:GLY378 4.7 9.4 1.0
CA A:GLY378 4.7 9.5 1.0
C B:GLY378 4.8 10.3 1.0
C C:GLY378 4.9 9.5 1.0
C D:GLY378 4.9 10.0 1.0
C A:GLY378 4.9 11.5 1.0

Calcium binding site 4 out of 9 in 7vn0

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Calcium binding site 4 out of 9 in the Catpo Mutant - T188A


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Catpo Mutant - T188A within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca702

b:14.3
occ:1.00
 O B:HOH1233 3.1 20.1 1.0
O A:HOH1201 3.1 17.7 1.0
ND1 B:HIS190 3.2 10.8 1.0
N B:SER192 3.3 9.4 1.0
OG B:SER192 3.4 9.8 1.0
CD B:ARG178 3.6 10.0 1.0
CB B:SER192 3.6 8.9 1.0
N B:ASP191 3.7 10.8 1.0
CB B:HIS190 3.9 10.5 1.0
CG B:ARG178 3.9 9.4 1.0
CB B:ARG178 4.0 9.2 1.0
CG B:HIS190 4.0 9.9 1.0
CA B:SER192 4.0 9.3 1.0
CB B:ASP191 4.1 11.5 1.0
C B:ASP191 4.2 10.0 1.0
CA B:ASP191 4.2 10.3 1.0
C B:HIS190 4.3 10.0 1.0
CE1 B:HIS190 4.3 10.4 1.0
CE1 A:TYR412 4.4 12.6 1.0
O B:HOH1028 4.5 10.2 1.0
CA B:HIS190 4.6 10.1 1.0
O B:HOH1224 4.8 25.2 1.0
CA B:ARG178 4.8 8.6 1.0
NE B:ARG178 4.9 10.8 1.0
NH1 B:ARG178 4.9 14.2 1.0
O B:HIS190 5.0 9.8 1.0
CG B:ASP191 5.0 13.0 1.0

Calcium binding site 5 out of 9 in 7vn0

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Calcium binding site 5 out of 9 in the Catpo Mutant - T188A


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Catpo Mutant - T188A within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca703

b:18.9
occ:0.70
 OG B:SER255 2.9 18.5 1.0
O B:HOH1140 3.0 16.5 1.0
O B:HOH942 3.0 30.4 1.0
O B:HOH937 3.2 17.9 1.0
CD2 B:PHE476 3.7 18.2 1.0
CA B:GLY213 3.8 10.8 1.0
CB B:SER255 3.8 14.7 1.0
CE2 B:PHE476 4.1 20.1 1.0
N B:GLY213 4.1 11.4 1.0
CG2 B:VAL539 4.1 36.4 1.0
O B:HOH1008 4.3 17.2 1.0
CG B:GLU473 4.4 22.9 1.0
NH1 B:ARG689 4.6 20.3 1.0
OE2 B:GLU473 4.7 25.5 1.0
O B:LEU256 4.7 13.8 1.0
CG B:PHE476 4.8 16.6 1.0
CD1 B:ILE538 4.8 19.0 1.0
CB B:ILE538 4.8 18.8 1.0
CG2 B:ILE538 4.9 20.1 1.0
CB B:PHE476 5.0 15.8 1.0

Calcium binding site 6 out of 9 in 7vn0

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Calcium binding site 6 out of 9 in the Catpo Mutant - T188A


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Catpo Mutant - T188A within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca702

b:10.0
occ:0.70
 O C:HOH1260 3.1 20.3 1.0
O C:HOH1219 3.2 18.2 1.0
ND1 C:HIS190 3.2 10.3 1.0
N C:SER192 3.2 10.3 1.0
OG C:SER192 3.4 10.1 1.0
CB C:SER192 3.6 10.2 1.0
N C:ASP191 3.7 11.2 1.0
CD C:ARG178 3.7 10.8 1.0
CB C:HIS190 3.8 10.5 1.0
CB C:ARG178 3.9 9.9 1.0
CG C:HIS190 3.9 9.2 1.0
CG C:ARG178 3.9 10.2 1.0
CA C:SER192 4.0 9.4 1.0
CB C:ASP191 4.1 11.3 1.0
C C:ASP191 4.2 10.5 1.0
CA C:ASP191 4.2 11.4 1.0
C C:HIS190 4.2 11.2 1.0
CE1 C:HIS190 4.3 10.5 1.0
O C:HOH999 4.4 9.3 1.0
CE1 D:TYR412 4.5 13.6 1.0
CA C:HIS190 4.6 11.4 1.0
O C:HOH1246 4.8 25.3 1.0
CA C:ARG178 4.8 9.3 1.0
NE C:ARG178 4.9 11.8 1.0
NH1 C:ARG178 4.9 16.2 1.0
O C:HIS190 4.9 10.9 1.0

Calcium binding site 7 out of 9 in 7vn0

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Calcium binding site 7 out of 9 in the Catpo Mutant - T188A


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Catpo Mutant - T188A within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca703

b:14.2
occ:0.70
 O C:HOH1079 2.9 13.0 1.0
OG C:SER255 3.0 13.4 1.0
O C:HOH1003 3.2 14.1 1.0
O C:HOH1104 3.2 22.5 1.0
CD2 C:PHE476 3.8 13.5 1.0
CA C:GLY213 3.8 9.6 1.0
CB C:SER255 3.8 10.9 1.0
CG2 C:VAL539 4.1 26.1 1.0
N C:GLY213 4.1 10.1 1.0
CE2 C:PHE476 4.2 15.3 1.0
O C:HOH1026 4.4 12.7 1.0
OE2 C:GLU473 4.6 19.3 1.0
CG C:GLU473 4.6 19.1 1.0
NH1 C:ARG689 4.7 15.1 1.0
O C:LEU256 4.7 11.8 1.0
CB C:ILE538 4.8 14.8 1.0
CG2 C:ILE538 4.8 14.3 1.0
CG C:PHE476 4.9 11.9 1.0
CD1 C:ILE538 4.9 16.0 1.0

Calcium binding site 8 out of 9 in 7vn0

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Calcium binding site 8 out of 9 in the Catpo Mutant - T188A


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Catpo Mutant - T188A within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca703

b:15.6
occ:1.00
 O C:HOH1220 3.1 19.2 1.0
O D:HOH1247 3.2 19.4 1.0
N D:SER192 3.2 10.1 1.0
ND1 D:HIS190 3.2 11.1 1.0
OG D:SER192 3.4 10.2 1.0
CB D:SER192 3.6 9.1 1.0
CD D:ARG178 3.7 10.3 1.0
N D:ASP191 3.7 11.1 1.0
CB D:HIS190 3.8 9.8 1.0
CG D:ARG178 3.9 9.8 1.0
CG D:HIS190 3.9 9.5 1.0
CA D:SER192 4.0 9.8 1.0
CB D:ARG178 4.0 9.2 1.0
CB D:ASP191 4.1 12.1 1.0
C D:ASP191 4.1 10.9 1.0
CA D:ASP191 4.2 11.7 1.0
C D:HIS190 4.2 9.9 1.0
CE1 D:HIS190 4.3 9.9 1.0
O D:HOH1017 4.5 11.5 1.0
CE1 C:TYR412 4.5 13.4 1.0
CA D:HIS190 4.6 10.1 1.0
O D:HOH1233 4.8 25.8 1.0
CA D:ARG178 4.8 9.1 1.0
NE D:ARG178 4.9 11.5 1.0
O D:HIS190 4.9 10.4 1.0
NH1 D:ARG178 5.0 13.7 1.0

Calcium binding site 9 out of 9 in 7vn0

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Calcium binding site 9 out of 9 in the Catpo Mutant - T188A


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of Catpo Mutant - T188A within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca704

b:15.0
occ:0.60
 OG D:SER255 2.9 18.1 1.0
O D:HOH1182 3.0 16.8 1.0
O D:HOH962 3.3 16.4 1.0
O D:HOH1125 3.3 24.9 1.0
CD2 D:PHE476 3.7 15.0 1.0
CB D:SER255 3.8 15.5 1.0
CA D:GLY213 3.8 10.5 1.0
N D:GLY213 4.2 11.4 1.0
CE2 D:PHE476 4.2 15.4 1.0
CG2 D:VAL539 4.3 31.5 1.0
O D:HOH1014 4.4 14.7 1.0
NH1 D:ARG689 4.6 16.8 1.0
CG D:GLU473 4.6 25.1 1.0
OE2 D:GLU473 4.7 23.6 1.0
O D:LEU256 4.7 11.9 1.0
CG D:PHE476 4.8 13.7 1.0
CD1 D:ILE538 4.8 19.3 1.0
CB D:ILE538 4.8 18.2 1.0
CG2 D:ILE538 4.9 18.3 1.0
CB D:PHE476 5.0 13.9 1.0

Reference:

Y.Yuzugullu Karakus, S.Balci Unver, M.Zengin Karatas, G.Goc, B.Yorke, A.R.Pearson. Catpo Mutant - T188A To Be Published.
Page generated: Fri Jul 19 05:22:38 2024

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