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Calcium in PDB 5xzm: Catpo Mutant - V228I

Enzymatic activity of Catpo Mutant - V228I

All present enzymatic activity of Catpo Mutant - V228I:
1.11.1.6;

Protein crystallography data

The structure of Catpo Mutant - V228I, PDB code: 5xzm was solved by Y.Yuzugullu Karakus, S.Balci, 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) 112.84 / 1.41
Space group I 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 125.471, 120.251, 183.665, 90.00, 101.97, 90.00
R / Rfree (%) 15.8 / 18.3

Other elements in 5xzm:

The structure of Catpo Mutant - V228I also contains other interesting chemical elements:

Iron (Fe) 4 atoms

Calcium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 11;

Binding sites:

The binding sites of Calcium atom in the Catpo Mutant - V228I (pdb code 5xzm). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 11 binding sites of Calcium where determined in the Catpo Mutant - V228I, PDB code: 5xzm:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 11 in 5xzm

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Calcium binding site 1 out of 11 in the Catpo Mutant - V228I


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Catpo Mutant - V228I within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca702

b:13.9
occ:0.50
 O B:HOH972 1.9 17.4 1.0
O D:HOH977 1.9 16.4 1.0
O B:HOH1343 2.0 28.3 1.0
O B:HOH1304 2.1 19.7 1.0
O C:HOH1283 2.1 20.6 1.0
O A:HOH1298 2.2 28.0 1.0
O B:GLY378 4.1 13.2 1.0
O A:GLY378 4.1 13.1 1.0
O C:GLY378 4.2 14.8 1.0
O D:GLY378 4.2 13.6 1.0
O B:HOH1059 4.2 18.8 1.0
O D:HOH1119 4.3 18.4 1.0
O C:HOH1075 4.3 18.4 1.0
O A:HOH1152 4.3 18.9 1.0
O C:HOH1216 4.5 24.4 1.0
O D:HOH1246 4.5 21.1 1.0
O A:HOH1215 4.5 24.7 1.0
O B:HOH1240 4.5 21.7 1.0
CA A:GLY378 4.7 9.5 1.0
CA B:GLY378 4.7 9.5 1.0
CA C:GLY378 4.7 9.6 1.0
CA D:GLY378 4.8 9.8 1.0
C B:GLY378 4.9 10.8 1.0
C A:GLY378 4.9 10.6 1.0
C C:GLY378 4.9 11.0 1.0
C D:GLY378 4.9 11.6 1.0

Calcium binding site 2 out of 11 in 5xzm

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Calcium binding site 2 out of 11 in the Catpo Mutant - V228I


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Catpo Mutant - V228I within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca703

b:15.7
occ:1.00
 O A:HOH1277 3.1 20.2 1.0
ND1 A:HIS190 3.1 10.9 1.0
O B:HOH1201 3.2 17.5 1.0
N A:SER192 3.2 11.9 1.0
OG A:SER192 3.4 11.2 1.0
CB A:SER192 3.6 11.5 1.0
N A:ASP191 3.7 11.7 1.0
CD A:ARG178 3.7 10.4 1.0
CB A:HIS190 3.8 11.5 1.0
CG A:HIS190 3.9 10.2 1.0
CG A:ARG178 4.0 10.8 1.0
CA A:SER192 4.0 11.0 1.0
CB A:ARG178 4.0 9.9 1.0
CB A:ASP191 4.1 12.7 1.0
C A:ASP191 4.2 10.9 1.0
CA A:ASP191 4.2 11.3 1.0
CE1 A:HIS190 4.3 11.7 1.0
C A:HIS190 4.3 11.6 1.0
O A:HOH1095 4.5 12.0 1.0
CE1 B:TYR412 4.5 11.7 1.0
CA A:HIS190 4.6 10.9 1.0
O A:HOH1264 4.8 24.9 1.0
CA A:ARG178 4.9 9.1 1.0
O A:HIS190 4.9 12.2 1.0
NE A:ARG178 5.0 11.1 1.0
NH1 A:ARG178 5.0 15.0 1.0

Calcium binding site 3 out of 11 in 5xzm

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Calcium binding site 3 out of 11 in the Catpo Mutant - V228I


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Catpo Mutant - V228I within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca704

b:25.0
occ:1.00
 O A:HOH1289 2.9 18.9 1.0
NH1 B:ARG449 3.2 12.5 1.0
O A:HOH887 3.2 22.7 1.0
N A:THR437 3.3 12.3 1.0
CD B:ARG449 3.7 11.4 1.0
CA A:PHE436 3.9 12.0 1.0
CB A:THR437 3.9 12.3 1.0
CG B:ARG449 4.0 11.5 1.0
OG1 A:THR437 4.0 13.1 1.0
CB A:PHE436 4.1 13.4 1.0
O B:HOH1132 4.1 22.7 1.0
C A:PHE436 4.1 11.5 1.0
CA A:THR437 4.2 11.7 1.0
CZ B:ARG449 4.2 13.6 1.0
O A:HOH1187 4.2 15.8 1.0
CB B:ARG449 4.3 12.8 1.0
NE B:ARG449 4.4 11.5 1.0
O A:HOH1066 4.5 19.6 1.0
O A:THR437 4.6 13.8 1.0
O B:HOH1339 4.8 25.2 1.0
N B:ARG449 4.9 12.3 1.0
C A:THR437 4.9 13.3 1.0
CD1 D:LEU49 5.0 12.8 1.0
O A:PHE435 5.0 12.0 1.0

Calcium binding site 4 out of 11 in 5xzm

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Calcium binding site 4 out of 11 in the Catpo Mutant - V228I


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Catpo Mutant - V228I within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca705

b:13.5
occ:0.50
 O B:HOH1330 2.8 18.9 1.0
NH1 A:ARG449 3.2 13.6 1.0
O B:HOH885 3.2 18.8 1.0
N B:THR437 3.3 11.4 1.0
CD A:ARG449 3.7 12.9 1.0
CA B:PHE436 3.8 12.1 1.0
CB B:THR437 3.9 12.1 1.0
OG1 B:THR437 4.0 12.1 1.0
CB B:PHE436 4.0 12.2 1.0
C B:PHE436 4.0 12.2 1.0
CG A:ARG449 4.1 13.0 1.0
O B:HOH1267 4.1 14.7 1.0
O A:HOH1131 4.2 26.2 1.0
CA B:THR437 4.2 11.2 1.0
CZ A:ARG449 4.2 13.7 1.0
NE A:ARG449 4.4 11.8 1.0
CB A:ARG449 4.5 12.8 1.0
O B:HOH936 4.5 16.4 1.0
O B:THR437 4.6 12.8 1.0
O A:HOH1295 4.9 24.3 1.0
N A:ARG449 4.9 12.1 1.0
O B:PHE435 4.9 11.1 1.0
C B:THR437 4.9 12.6 1.0
O B:HOH932 5.0 13.9 1.0

Calcium binding site 5 out of 11 in 5xzm

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Calcium binding site 5 out of 11 in the Catpo Mutant - V228I


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Catpo Mutant - V228I within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca706

b:18.4
occ:0.50
 OE2 A:GLU383 2.7 9.0 1.0
O D:HOH991 2.8 11.0 1.0
O D:HOH1319 2.8 15.6 1.0
O D:HOH1045 3.1 10.2 1.0
CD A:GLU383 3.6 8.8 1.0
CG A:GLU383 3.6 9.4 1.0
CD1 A:LEU370 3.9 9.3 1.0
NE2 A:GLN346 3.9 9.8 1.0
CB D:GLN66 4.1 8.4 1.0
O D:HOH1160 4.3 9.8 1.0
NE2 A:HIS349 4.4 9.5 1.0
CE1 A:PHE382 4.5 9.2 1.0
OD2 D:ASP38 4.6 9.9 1.0
CB D:ASP38 4.6 8.2 1.0
OE1 A:GLU383 4.7 9.9 1.0
O A:HOH1048 4.8 15.5 1.0
O A:HOH1141 4.8 11.7 1.0
CD2 A:HIS349 4.8 9.8 1.0
CZ A:PHE382 4.8 9.9 1.0
CD A:GLN346 4.8 10.5 1.0
CG D:GLN66 4.9 8.2 1.0
OE1 A:GLN346 5.0 10.4 1.0
CB A:GLU383 5.0 9.2 1.0

Calcium binding site 6 out of 11 in 5xzm

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Calcium binding site 6 out of 11 in the Catpo Mutant - V228I


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Catpo Mutant - V228I within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca702

b:14.7
occ:1.00
 O B:HOH1319 3.1 18.2 1.0
O A:HOH1213 3.1 21.2 1.0
ND1 B:HIS190 3.2 11.6 1.0
N B:SER192 3.3 10.9 1.0
OG B:SER192 3.5 10.6 1.0
CB B:SER192 3.7 10.0 1.0
N B:ASP191 3.7 12.1 1.0
CD B:ARG178 3.7 10.9 1.0
CB B:HIS190 3.8 9.6 1.0
CG B:HIS190 3.9 9.2 1.0
CG B:ARG178 3.9 10.3 1.0
CB B:ARG178 4.0 10.1 1.0
CA B:SER192 4.1 9.9 1.0
CB B:ASP191 4.1 12.2 1.0
CA B:ASP191 4.2 11.7 1.0
C B:ASP191 4.2 11.4 1.0
C B:HIS190 4.2 10.1 1.0
CE1 B:HIS190 4.3 10.8 1.0
O B:HOH1097 4.4 11.0 1.0
CE1 A:TYR412 4.5 13.8 1.0
CA B:HIS190 4.6 10.3 1.0
O B:HOH1298 4.8 22.8 1.0
CA B:ARG178 4.8 9.0 1.0
NE B:ARG178 4.9 10.7 1.0
O B:HIS190 4.9 10.4 1.0

Calcium binding site 7 out of 11 in 5xzm

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Calcium binding site 7 out of 11 in the Catpo Mutant - V228I


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Catpo Mutant - V228I within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca703

b:23.3
occ:1.00
 O B:HOH1085 3.0 16.7 1.0
OG B:SER255 3.0 16.9 1.0
O B:HOH1122 3.2 24.1 1.0
O B:HOH949 3.3 15.1 1.0
CD2 B:PHE476 3.8 17.6 1.0
CA B:GLY213 3.8 11.5 1.0
CB B:SER255 3.8 12.5 1.0
CG2 B:VAL539 4.1 32.8 1.0
N B:GLY213 4.1 10.8 1.0
CE2 B:PHE476 4.2 19.5 1.0
O B:HOH1056 4.4 15.9 1.0
NH1 B:ARG689 4.6 18.3 1.0
OE2 B:GLU473 4.7 23.6 1.0
O B:LEU256 4.7 12.8 1.0
CG B:GLU473 4.7 23.9 1.0
CB B:ILE538 4.9 18.5 1.0
CG B:PHE476 4.9 15.4 1.0
CD1 B:ILE538 5.0 18.9 1.0
CG2 B:ILE538 5.0 20.2 1.0

Calcium binding site 8 out of 11 in 5xzm

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Calcium binding site 8 out of 11 in the Catpo Mutant - V228I


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Catpo Mutant - V228I within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca702

b:14.3
occ:1.00
 O C:HOH1228 3.1 17.4 1.0
O C:HOH1290 3.1 19.4 1.0
ND1 C:HIS190 3.2 10.5 1.0
N C:SER192 3.2 9.3 1.0
OG C:SER192 3.4 8.9 1.0
CB C:SER192 3.6 10.1 1.0
N C:ASP191 3.7 10.3 1.0
CD C:ARG178 3.7 10.0 1.0
CB C:HIS190 3.8 10.2 1.0
CG C:ARG178 3.9 9.2 1.0
CG C:HIS190 3.9 9.6 1.0
CB C:ARG178 3.9 8.8 1.0
CA C:SER192 4.0 9.7 1.0
CB C:ASP191 4.1 11.2 1.0
C C:ASP191 4.2 10.8 1.0
CA C:ASP191 4.2 10.4 1.0
CE1 C:HIS190 4.3 9.2 1.0
C C:HIS190 4.3 11.4 1.0
O C:HOH1132 4.4 9.4 1.0
CE1 D:TYR412 4.5 12.4 1.0
CA C:HIS190 4.6 9.8 1.0
O C:HOH1266 4.7 20.0 1.0
CA C:ARG178 4.8 8.4 1.0
NE C:ARG178 4.9 10.8 1.0
O C:HIS190 5.0 11.3 1.0
NH1 C:ARG178 5.0 13.8 1.0

Calcium binding site 9 out of 11 in 5xzm

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Calcium binding site 9 out of 11 in the Catpo Mutant - V228I


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of Catpo Mutant - V228I within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca703

b:26.7
occ:1.00
 O C:HOH1068 2.9 15.8 1.0
OG C:SER255 3.0 19.9 1.0
O C:HOH1011 3.2 16.9 1.0
CD2 C:PHE476 3.7 16.6 1.0
CA C:GLY213 3.8 12.4 1.0
CB C:SER255 4.0 15.6 1.0
CG2 C:VAL539 4.0 29.6 1.0
CE2 C:PHE476 4.1 17.6 1.0
N C:GLY213 4.1 12.6 1.0
O C:HOH1053 4.3 15.0 1.0
CG C:GLU473 4.4 22.5 1.0
OE2 C:GLU473 4.6 21.1 1.0
O C:LEU256 4.7 13.4 1.0
NH1 C:ARG689 4.7 26.1 1.0
CB C:ILE538 4.8 19.0 1.0
CG C:PHE476 4.8 14.4 1.0
CG2 C:ILE538 4.9 18.3 1.0
CD1 C:ILE538 4.9 19.1 1.0

Calcium binding site 10 out of 11 in 5xzm

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Calcium binding site 10 out of 11 in the Catpo Mutant - V228I


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 10 of Catpo Mutant - V228I within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca702

b:12.7
occ:1.00
 O D:HOH1290 3.1 15.7 1.0
O D:HOH1236 3.2 16.6 1.0
ND1 D:HIS190 3.2 7.8 1.0
N D:SER192 3.3 7.5 1.0
OG D:SER192 3.4 8.1 1.0
CB D:SER192 3.7 7.9 1.0
CD D:ARG178 3.7 9.2 1.0
N D:ASP191 3.7 8.6 1.0
CB D:HIS190 3.8 8.7 1.0
CG D:ARG178 3.9 8.2 1.0
CG D:HIS190 3.9 8.1 1.0
CB D:ARG178 4.0 7.8 1.0
CA D:SER192 4.1 7.8 1.0
CB D:ASP191 4.1 9.6 1.0
CA D:ASP191 4.2 9.2 1.0
C D:ASP191 4.2 8.6 1.0
CE1 D:HIS190 4.3 7.1 1.0
C D:HIS190 4.3 8.4 1.0
O D:HOH1075 4.5 10.5 1.0
CE1 C:TYR412 4.5 10.6 1.0
O D:HOH1259 4.6 20.9 1.0
CA D:HIS190 4.6 7.9 1.0
CA D:ARG178 4.8 7.4 1.0
NE D:ARG178 4.9 8.8 1.0
O D:HIS190 4.9 8.6 1.0
NH1 D:ARG178 5.0 11.6 1.0

Reference:

Y.Yuzugullu Karakus, S.Balci, G.Goc, A.R.Pearson, B.Yorke. Catpo Mutant - V228I To Be Published.
Page generated: Wed Jul 9 11:50:47 2025

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