Atomistry » Calcium » PDB 5xuf-5yj7 » 5yem
Atomistry »
  Calcium »
    PDB 5xuf-5yj7 »
      5yem »

Calcium in PDB 5yem: Catpo Mutant - T188F

Enzymatic activity of Catpo Mutant - T188F

All present enzymatic activity of Catpo Mutant - T188F:
1.11.1.6;

Protein crystallography data

The structure of Catpo Mutant - T188F, PDB code: 5yem 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) 112.89 / 1.49
Space group I 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 125.109, 121.539, 186.025, 90.00, 101.82, 90.00
R / Rfree (%) 15.8 / 18.7

Other elements in 5yem:

The structure of Catpo Mutant - T188F also contains other interesting chemical elements:

Iron (Fe) 4 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Catpo Mutant - T188F (pdb code 5yem). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 10 binding sites of Calcium where determined in the Catpo Mutant - T188F, PDB code: 5yem:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 10 in 5yem

Go back to Calcium Binding Sites List in 5yem
Calcium binding site 1 out of 10 in the Catpo Mutant - T188F


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Catpo Mutant - T188F within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca701

b:14.9
occ:1.00
 O A:HOH1345 3.1 16.7 1.0
ND1 A:HIS190 3.2 9.3 1.0
N A:SER192 3.2 8.6 1.0
O B:HOH1130 3.2 15.1 1.0
OG A:SER192 3.4 8.5 1.0
CB A:SER192 3.6 8.3 1.0
CD A:ARG178 3.7 9.4 1.0
N A:ASP191 3.7 8.7 1.0
CB A:HIS190 3.7 9.4 1.0
CG A:HIS190 3.9 9.4 1.0
CG A:ARG178 4.0 9.1 1.0
CA A:SER192 4.0 8.2 1.0
CB A:ARG178 4.0 8.0 1.0
CB A:ASP191 4.1 10.8 1.0
C A:ASP191 4.1 8.6 1.0
CA A:ASP191 4.2 8.8 1.0
CE1 A:HIS190 4.3 10.8 1.0
C A:HIS190 4.3 8.8 1.0
CE1 B:TYR412 4.4 9.7 1.0
O A:HOH1161 4.5 11.8 1.0
CA A:HIS190 4.6 9.1 1.0
CA A:ARG178 4.8 7.6 1.0
O A:HOH1270 4.8 24.9 1.0
NE A:ARG178 4.9 10.0 1.0
CG A:ASP191 5.0 11.9 1.0

Calcium binding site 2 out of 10 in 5yem

Go back to Calcium Binding Sites List in 5yem
Calcium binding site 2 out of 10 in the Catpo Mutant - T188F


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Catpo Mutant - T188F within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca702

b:17.7
occ:0.70
 O A:HOH1358 3.0 13.9 1.0
NH1 B:ARG449 3.1 10.2 1.0
N A:THR437 3.2 10.1 1.0
O A:HOH866 3.3 17.2 1.0
CD B:ARG449 3.7 10.7 1.0
CA A:PHE436 3.8 9.5 1.0
CB A:THR437 3.8 10.7 1.0
O B:HOH1067 3.9 19.4 1.0
OG1 A:THR437 3.9 10.4 1.0
C A:PHE436 4.0 9.4 1.0
CB A:PHE436 4.1 10.0 1.0
CA A:THR437 4.1 10.2 1.0
CG B:ARG449 4.1 10.4 1.0
CZ B:ARG449 4.1 11.2 1.0
O A:HOH1257 4.2 11.8 1.0
NE B:ARG449 4.3 10.6 1.0
CB B:ARG449 4.5 10.7 1.0
O A:THR437 4.5 10.9 1.0
O A:HOH987 4.5 12.2 1.0
C A:THR437 4.8 10.7 1.0
CD1 D:LEU49 4.8 8.8 1.0
O A:PHE435 4.9 10.6 1.0
O A:HOH1051 4.9 12.1 1.0
N B:ARG449 5.0 10.7 1.0

Calcium binding site 3 out of 10 in 5yem

Go back to Calcium Binding Sites List in 5yem
Calcium binding site 3 out of 10 in the Catpo Mutant - T188F


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Catpo Mutant - T188F within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca703

b:26.6
occ:1.00
 O B:HOH1297 3.0 17.8 1.0
O A:HOH1181 3.0 29.3 1.0
NH1 A:ARG449 3.0 11.6 1.0
N B:THR437 3.1 10.0 1.0
O B:HOH832 3.6 18.8 1.0
CD A:ARG449 3.7 9.6 1.0
CB B:THR437 3.8 9.6 1.0
CA B:PHE436 3.8 10.0 1.0
OG1 B:THR437 3.8 10.0 1.0
C B:PHE436 4.0 9.8 1.0
CA B:THR437 4.0 9.5 1.0
CZ A:ARG449 4.1 11.1 1.0
CB B:PHE436 4.1 10.5 1.0
CG A:ARG449 4.1 9.9 1.0
O A:HOH1029 4.3 20.8 1.0
NE A:ARG449 4.3 10.0 1.0
O B:HOH1227 4.3 9.0 1.0
CB A:ARG449 4.5 10.4 1.0
O B:THR437 4.6 10.9 1.0
O B:HOH996 4.7 14.4 1.0
O B:HOH911 4.8 11.3 1.0
O B:PHE435 4.8 9.1 1.0
C B:THR437 4.8 10.4 1.0
O A:HOH1364 4.9 17.6 1.0
CD1 C:LEU49 5.0 10.7 1.0

Calcium binding site 4 out of 10 in 5yem

Go back to Calcium Binding Sites List in 5yem
Calcium binding site 4 out of 10 in the Catpo Mutant - T188F


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Catpo Mutant - T188F within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca705

b:16.5
occ:0.50
 O A:HOH814 2.6 24.5 1.0
O B:HOH810 2.6 25.5 1.0
O A:HOH1329 2.7 24.2 1.0
O D:HOH1313 2.8 29.1 1.0
O A:HOH1388 2.8 37.3 1.0
O B:HOH1339 2.9 38.1 1.0
O C:GLY378 4.1 13.6 1.0
O B:GLY378 4.1 15.0 1.0
O D:GLY378 4.1 14.3 1.0
O A:GLY378 4.2 14.2 1.0
O D:HOH1095 4.3 18.0 1.0
O C:HOH1234 4.3 32.8 1.0
O C:HOH1125 4.3 19.0 1.0
O A:HOH1200 4.4 18.8 1.0
O B:HOH1150 4.4 16.5 1.0
O D:HOH1286 4.4 36.1 1.0
CA C:GLY378 4.7 10.8 1.0
CA D:GLY378 4.7 12.8 1.0
CA B:GLY378 4.7 12.4 1.0
CA A:GLY378 4.8 12.1 1.0
C C:GLY378 4.8 11.5 1.0
C D:GLY378 4.9 13.7 1.0
C B:GLY378 4.9 14.3 1.0
C A:GLY378 5.0 13.3 1.0

Calcium binding site 5 out of 10 in 5yem

Go back to Calcium Binding Sites List in 5yem
Calcium binding site 5 out of 10 in the Catpo Mutant - T188F


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Catpo Mutant - T188F within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca701

b:14.8
occ:1.00
 O B:HOH1290 3.1 15.9 1.0
O A:HOH1143 3.1 14.1 1.0
ND1 B:HIS190 3.3 10.4 1.0
N B:SER192 3.3 9.9 1.0
OG B:SER192 3.4 8.7 1.0
CB B:SER192 3.6 9.1 1.0
N B:ASP191 3.7 8.8 1.0
CD B:ARG178 3.7 9.1 1.0
CB B:HIS190 3.7 10.4 1.0
CG B:HIS190 3.9 9.1 1.0
CG B:ARG178 4.0 8.1 1.0
CA B:SER192 4.0 8.9 1.0
CB B:ARG178 4.1 8.3 1.0
CB B:ASP191 4.1 10.7 1.0
CA B:ASP191 4.2 10.0 1.0
C B:ASP191 4.2 9.7 1.0
C B:HIS190 4.3 9.0 1.0
CE1 B:HIS190 4.4 9.7 1.0
CE1 A:TYR412 4.4 11.1 1.0
O B:HOH1158 4.5 11.5 1.0
CA B:HIS190 4.6 9.7 1.0
O B:HOH1100 4.8 22.5 1.0
CA B:ARG178 4.9 8.1 1.0
NE B:ARG178 4.9 9.2 1.0
NH1 B:ARG178 5.0 12.4 1.0

Calcium binding site 6 out of 10 in 5yem

Go back to Calcium Binding Sites List in 5yem
Calcium binding site 6 out of 10 in the Catpo Mutant - T188F


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Catpo Mutant - T188F within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca702

b:18.8
occ:1.00
 O B:HOH1185 3.0 12.2 1.0
OG B:SER255 3.0 14.1 1.0
O B:HOH1109 3.1 26.6 1.0
O B:HOH951 3.3 13.8 1.0
CD2 B:PHE476 3.8 13.3 1.0
CA B:GLY213 3.8 9.8 1.0
CB B:SER255 3.9 12.2 1.0
CG2 B:VAL539 4.1 22.6 1.0
CE2 B:PHE476 4.2 15.3 1.0
N B:GLY213 4.2 10.2 1.0
O B:HOH1168 4.4 11.8 1.0
NH1 B:ARG689 4.6 16.4 1.0
OE2 B:GLU473 4.7 17.2 1.0
CB B:ILE538 4.7 15.3 1.0
CG B:GLU473 4.7 17.1 1.0
O B:LEU256 4.8 11.3 1.0
CG2 B:ILE538 4.8 17.0 1.0
CG B:PHE476 4.9 13.2 1.0
CD1 B:ILE538 5.0 16.7 1.0

Calcium binding site 7 out of 10 in 5yem

Go back to Calcium Binding Sites List in 5yem
Calcium binding site 7 out of 10 in the Catpo Mutant - T188F


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Catpo Mutant - T188F within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca701

b:15.8
occ:1.00
 O C:HOH1325 3.1 12.2 1.0
O D:HOH1098 3.1 12.3 1.0
ND1 C:HIS190 3.2 10.2 1.0
N C:SER192 3.3 10.6 1.0
OG C:SER192 3.4 10.1 1.0
CB C:SER192 3.6 10.0 1.0
N C:ASP191 3.7 9.2 1.0
CB C:HIS190 3.7 10.3 1.0
CD C:ARG178 3.8 10.2 1.0
CG C:HIS190 3.9 9.3 1.0
CA C:SER192 4.0 9.5 1.0
CG C:ARG178 4.1 9.8 1.0
CB C:ARG178 4.1 10.0 1.0
CB C:ASP191 4.2 10.7 1.0
C C:ASP191 4.2 10.4 1.0
CA C:ASP191 4.2 9.8 1.0
C C:HIS190 4.3 9.8 1.0
CE1 C:HIS190 4.3 10.4 1.0
CE1 D:TYR412 4.4 11.7 1.0
O C:HOH1056 4.4 10.4 1.0
CA C:HIS190 4.6 10.9 1.0
O C:HOH1099 4.9 27.1 1.0
CA C:ARG178 4.9 9.6 1.0
NE C:ARG178 5.0 11.0 1.0
CG C:ASP191 5.0 11.9 1.0
O C:HIS190 5.0 10.5 1.0

Calcium binding site 8 out of 10 in 5yem

Go back to Calcium Binding Sites List in 5yem
Calcium binding site 8 out of 10 in the Catpo Mutant - T188F


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Catpo Mutant - T188F within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca702

b:9.4
occ:0.60
 OG C:SER255 3.0 11.5 1.0
O C:HOH1110 3.0 12.2 1.0
O C:HOH981 3.1 17.3 1.0
O C:HOH991 3.2 12.5 1.0
CD2 C:PHE476 3.8 15.3 1.0
CB C:SER255 3.9 11.0 1.0
CA C:GLY213 3.9 8.5 1.0
CG2 C:VAL539 3.9 18.6 1.0
CE2 C:PHE476 4.2 17.8 1.0
N C:GLY213 4.2 8.8 1.0
O C:HOH1132 4.4 12.2 1.0
OE2 C:GLU473 4.6 15.5 1.0
NH1 C:ARG689 4.6 11.7 1.0
CB C:ILE538 4.7 14.1 1.0
CG2 C:ILE538 4.7 13.8 1.0
CG C:GLU473 4.7 15.2 1.0
O C:LEU256 4.8 10.1 1.0
CG C:PHE476 4.9 12.5 1.0

Calcium binding site 9 out of 10 in 5yem

Go back to Calcium Binding Sites List in 5yem
Calcium binding site 9 out of 10 in the Catpo Mutant - T188F


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of Catpo Mutant - T188F within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca701

b:9.7
occ:0.70
 O C:HOH1094 3.1 14.4 1.0
O D:HOH1318 3.1 14.7 1.0
ND1 D:HIS190 3.3 10.3 1.0
N D:SER192 3.3 10.4 1.0
OG D:SER192 3.5 9.6 1.0
CB D:SER192 3.6 9.8 1.0
N D:ASP191 3.7 9.9 1.0
CB D:HIS190 3.8 11.3 1.0
CD D:ARG178 3.8 10.4 1.0
CG D:ARG178 4.0 10.1 1.0
CG D:HIS190 4.0 9.5 1.0
CA D:SER192 4.0 8.8 1.0
CB D:ARG178 4.1 10.0 1.0
CB D:ASP191 4.1 11.6 1.0
CA D:ASP191 4.2 10.3 1.0
C D:ASP191 4.2 10.8 1.0
C D:HIS190 4.3 9.7 1.0
CE1 D:HIS190 4.4 10.6 1.0
CE1 C:TYR412 4.4 11.3 1.0
O D:HOH1126 4.5 10.1 1.0
CA D:HIS190 4.6 10.4 1.0
O D:HOH1220 4.8 22.7 1.0
CA D:ARG178 4.9 9.3 1.0
O D:HIS190 5.0 11.2 1.0
NE D:ARG178 5.0 11.2 1.0

Calcium binding site 10 out of 10 in 5yem

Go back to Calcium Binding Sites List in 5yem
Calcium binding site 10 out of 10 in the Catpo Mutant - T188F


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 10 of Catpo Mutant - T188F within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca702

b:12.9
occ:0.70
 OG D:SER255 3.0 13.2 1.0
O D:HOH1037 3.0 13.6 1.0
O D:HOH1137 3.2 21.1 1.0
O D:HOH1097 3.3 12.1 1.0
CB D:SER255 3.8 11.3 1.0
CA D:GLY213 3.9 9.0 1.0
CD2 D:PHE476 3.9 14.7 1.0
CG2 D:VAL539 4.0 22.1 1.0
N D:GLY213 4.2 8.7 1.0
CE2 D:PHE476 4.2 15.1 1.0
O D:HOH1121 4.4 12.3 1.0
OE2 D:GLU473 4.5 17.7 1.0
NH1 D:ARG689 4.6 14.1 1.0
CB D:ILE538 4.6 15.1 1.0
CG D:GLU473 4.7 17.9 1.0
CG2 D:ILE538 4.7 15.6 1.0
CD1 D:ILE538 4.8 16.2 1.0
O D:LEU256 4.9 12.2 1.0
CG D:PHE476 5.0 12.8 1.0

Reference:

Y.Yuzugullu Karakus, S.Balci, G.Goc, A.R.Pearson, B.Yorke. Catpo Mutant - T188F To Be Published.
Page generated: Wed Jul 9 11:56:52 2025

Last articles

Cl in 5GRQ
Cl in 5GRN
Cl in 5GSU
Cl in 5GS8
Cl in 5GQQ
Cl in 5G6U
Cl in 5GQN
Cl in 5GQM
Cl in 5GQL
Cl in 5GQK
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy