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Calcium in PDB 5gxp: Cationic Trypsin with Gol/Pge As Dimer at pH 4.6

Enzymatic activity of Cationic Trypsin with Gol/Pge As Dimer at pH 4.6

All present enzymatic activity of Cationic Trypsin with Gol/Pge As Dimer at pH 4.6:
3.4.21.4;

Protein crystallography data

The structure of Cationic Trypsin with Gol/Pge As Dimer at pH 4.6, PDB code: 5gxp was solved by R.Manohar, K.Gunasekaran, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 31.05 / 2.80
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 60.840, 102.590, 115.710, 90.00, 90.00, 90.00
R / Rfree (%) 27.5 / 30.9

Calcium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Calcium atom in the Cationic Trypsin with Gol/Pge As Dimer at pH 4.6 (pdb code 5gxp). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 12 binding sites of Calcium where determined in the Cationic Trypsin with Gol/Pge As Dimer at pH 4.6, PDB code: 5gxp:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 12 in 5gxp

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Calcium binding site 1 out of 12 in the Cationic Trypsin with Gol/Pge As Dimer at pH 4.6


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Cationic Trypsin with Gol/Pge As Dimer at pH 4.6 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca301

b:30.0
occ:1.00
 O A:CYS22 2.3 8.2 1.0
OD1 A:ASP71 2.4 5.7 1.0
OD2 A:ASP71 2.4 7.3 1.0
CG A:ASP71 2.7 5.6 1.0
CG1 A:VAL154 2.8 9.4 1.0
C A:CYS22 3.4 6.3 1.0
C1 A:PGE310 3.4 20.0 1.0
C A:GLY23 3.6 5.8 1.0
N A:ALA24 3.7 6.6 1.0
O A:GLY23 3.7 6.2 1.0
CA A:ALA24 3.9 6.5 1.0
O1 A:PGE310 4.1 20.0 1.0
CA A:GLY23 4.1 7.0 1.0
N A:GLY23 4.2 6.1 1.0
CG2 A:THR21 4.2 8.0 1.0
CB A:ASP71 4.3 5.1 1.0
O2 A:PGE310 4.3 20.0 1.0
CB A:VAL154 4.3 6.8 1.0
CA A:CYS22 4.3 5.5 1.0
C2 A:PGE310 4.5 20.0 1.0
CB A:CYS22 4.5 5.4 1.0
N A:CYS22 4.5 5.5 1.0
O A:LEU155 4.6 4.9 1.0
CB A:ALA24 4.7 8.0 1.0
O A:HOH418 4.7 30.0 1.0
CG2 A:VAL154 4.8 8.7 1.0
N A:LEU155 4.8 4.5 1.0

Calcium binding site 2 out of 12 in 5gxp

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Calcium binding site 2 out of 12 in the Cationic Trypsin with Gol/Pge As Dimer at pH 4.6


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Cationic Trypsin with Gol/Pge As Dimer at pH 4.6 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca302

b:30.0
occ:1.00
 N A:ILE16 2.6 4.3 1.0
O A:GLY142 2.7 5.1 1.0
O A:GLY140 2.8 4.0 1.0
CG A:LYS156 3.0 5.1 1.0
CB A:LYS156 3.3 5.3 1.0
N A:GLY142 3.4 4.5 1.0
CB A:ILE16 3.5 4.6 1.0
CG A:PRO152 3.5 6.7 1.0
CA A:ILE16 3.6 4.2 1.0
C A:GLY142 3.6 4.7 1.0
CG1 A:ILE16 3.6 4.7 1.0
C A:GLY140 3.6 3.6 1.0
CG2 A:THR144 3.8 6.9 1.0
C A:TRP141 3.9 4.5 1.0
O A:ILE16 4.0 5.2 1.0
OD1 A:ASP194 4.0 4.6 1.0
CA A:GLY142 4.0 5.1 1.0
CA A:TRP141 4.1 3.8 1.0
N A:TRP141 4.2 3.6 1.0
CD A:PRO152 4.3 5.3 1.0
C A:ILE16 4.3 4.6 1.0
CD A:LYS156 4.5 7.2 1.0
CA A:LYS156 4.5 4.4 1.0
N A:LYS156 4.5 4.1 1.0
OD2 A:ASP194 4.6 4.5 1.0
O A:ASN143 4.6 5.5 1.0
CA A:GLY140 4.6 3.6 1.0
CB A:PRO152 4.6 6.6 1.0
C A:ASN143 4.7 5.3 1.0
N A:ASN143 4.7 5.3 1.0
CG A:ASP194 4.7 3.9 1.0
O A:TRP141 4.8 5.7 1.0
CD1 A:ILE16 4.9 5.3 1.0
N A:THR144 4.9 5.5 1.0
CG2 A:ILE16 5.0 6.0 1.0
CB A:THR144 5.0 6.4 1.0

Calcium binding site 3 out of 12 in 5gxp

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Calcium binding site 3 out of 12 in the Cationic Trypsin with Gol/Pge As Dimer at pH 4.6


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Cationic Trypsin with Gol/Pge As Dimer at pH 4.6 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca303

b:30.0
occ:1.00
 O A:HIS91 2.5 4.5 1.0
CG1 A:VAL90 2.8 5.2 1.0
C A:HIS91 3.5 4.1 1.0
CB A:VAL90 3.5 4.5 1.0
O A:VAL90 3.8 5.2 1.0
C A:VAL90 3.9 4.3 1.0
CA A:PRO92 3.9 4.9 1.0
CB A:TYR94 4.0 4.3 1.0
N A:PRO92 4.1 4.3 1.0
O A:PRO92 4.2 8.7 1.0
N A:HIS91 4.2 4.2 1.0
C A:PRO92 4.2 5.5 1.0
CA A:VAL90 4.3 4.2 1.0
O A:HOH407 4.4 30.0 1.0
CA A:HIS91 4.5 4.1 1.0
CD2 A:TYR94 4.5 4.3 1.0
N A:TYR94 4.6 4.4 1.0
CG2 A:VAL90 4.7 5.2 1.0
CG A:TYR94 4.8 4.0 1.0
O A:TYR94 4.8 5.0 1.0
CA A:TYR94 4.8 4.0 1.0

Calcium binding site 4 out of 12 in 5gxp

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Calcium binding site 4 out of 12 in the Cationic Trypsin with Gol/Pge As Dimer at pH 4.6


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Cationic Trypsin with Gol/Pge As Dimer at pH 4.6 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca304

b:30.0
occ:1.00
 OG A:SER110 2.8 13.9 1.0
CB A:LYS109 3.4 9.4 1.0
CD A:LYS109 3.8 17.7 1.0
CG A:LYS109 4.0 11.0 1.0
CB A:SER110 4.1 12.4 1.0
N A:SER110 4.1 8.2 1.0
C A:LYS109 4.6 7.9 1.0
CA A:LYS109 4.6 7.2 1.0
CA A:SER110 4.7 9.5 1.0
NZ A:LYS109 4.9 43.9 1.0
CE A:LYS109 5.0 29.8 1.0
CG2 A:ILE83 5.0 7.0 1.0

Calcium binding site 5 out of 12 in 5gxp

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Calcium binding site 5 out of 12 in the Cationic Trypsin with Gol/Pge As Dimer at pH 4.6


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Cationic Trypsin with Gol/Pge As Dimer at pH 4.6 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca305

b:30.0
occ:1.00
 O A:ILE47 4.3 6.8 1.0
CA A:CA306 4.3 30.0 1.0
ND2 A:ASN48 4.4 9.9 1.0
CB A:ASN48 4.7 6.6 1.0
CD1 A:ILE242 4.8 13.4 1.0

Calcium binding site 6 out of 12 in 5gxp

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Calcium binding site 6 out of 12 in the Cationic Trypsin with Gol/Pge As Dimer at pH 4.6


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Cationic Trypsin with Gol/Pge As Dimer at pH 4.6 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca306

b:30.0
occ:1.00
 N A:LEU123 3.0 6.7 1.0
CA A:SER122 3.5 5.7 1.0
O A:ILE121 3.5 6.8 1.0
C A:SER122 3.7 5.9 1.0
CG A:LEU123 3.7 9.3 1.0
O A:ILE47 3.8 6.8 1.0
CB A:LEU123 3.9 7.5 1.0
CA A:LEU123 4.1 6.5 1.0
OG A:SER122 4.2 10.7 1.0
CA A:CA305 4.3 30.0 1.0
C A:ILE121 4.3 5.6 1.0
N A:SER122 4.4 6.3 1.0
CB A:SER122 4.4 7.5 1.0
CB A:ILE47 4.5 30.0 1.0
CD1 A:LEU123 4.5 12.6 1.0
C A:ILE47 4.7 6.0 1.0
CG2 A:ILE47 4.7 30.0 1.0
CD2 A:LEU123 4.7 11.4 1.0
CA A:ILE47 4.7 6.5 1.0
O A:SER122 4.8 6.4 1.0

Calcium binding site 7 out of 12 in 5gxp

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Calcium binding site 7 out of 12 in the Cationic Trypsin with Gol/Pge As Dimer at pH 4.6


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Cationic Trypsin with Gol/Pge As Dimer at pH 4.6 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca307

b:30.0
occ:1.00
 N A:SER164 2.9 7.2 1.0
OG A:SER164 3.3 10.1 1.0
OG A:SER167 3.5 15.7 1.0
CA A:LEU163 3.6 5.9 1.0
CB A:SER164 3.7 9.4 1.0
C A:LEU163 3.7 6.3 1.0
CB A:LEU163 3.8 30.0 1.0
CA A:SER164 3.9 8.0 1.0
CD2 A:LEU163 4.0 30.0 1.0
CB A:SER167 4.0 11.9 1.0
CG A:LEU163 4.6 30.0 1.0
O A:ILE162 4.7 6.1 1.0
N A:LEU163 4.9 5.4 1.0
O A:SER164 4.9 7.2 1.0
C A:SER164 4.9 8.0 1.0
O A:LEU163 4.9 7.1 1.0
CB A:ALA132 5.0 11.4 1.0

Calcium binding site 8 out of 12 in 5gxp

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Calcium binding site 8 out of 12 in the Cationic Trypsin with Gol/Pge As Dimer at pH 4.6


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Cationic Trypsin with Gol/Pge As Dimer at pH 4.6 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca308

b:30.0
occ:1.00
 NZ A:LYS87 3.1 11.4 1.0
O A:HOH424 3.1 30.0 1.0
NZ A:LYS107 3.3 9.6 1.0
CE A:LYS107 3.8 7.9 1.0
CD A:LYS107 4.0 7.4 1.0
CE A:LYS87 4.1 10.3 1.0
CD A:LYS87 4.5 9.4 1.0
OG A:SER86 4.6 7.5 1.0
O A:ASN245 4.8 10.5 1.0
CG A:LYS87 4.9 9.1 1.0

Calcium binding site 9 out of 12 in 5gxp

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Calcium binding site 9 out of 12 in the Cationic Trypsin with Gol/Pge As Dimer at pH 4.6


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of Cationic Trypsin with Gol/Pge As Dimer at pH 4.6 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca309

b:30.0
occ:1.00
 OE1 A:GLU70 2.3 5.4 1.0
O A:VAL75 2.3 5.3 1.0
OE2 A:GLU80 2.3 5.2 1.0
O A:ASN72 2.3 4.8 1.0
OE1 A:GLU77 2.9 8.5 1.0
CD A:GLU80 3.3 5.2 1.0
CD A:GLU70 3.3 4.5 1.0
C A:VAL75 3.4 5.1 1.0
C A:ASN72 3.4 4.6 1.0
CD A:GLU77 3.6 8.7 1.0
CG A:GLU80 3.6 6.4 1.0
O A:HOH428 3.7 30.0 1.0
OE2 A:GLU70 3.7 5.4 1.0
CA A:VAL76 3.9 5.8 1.0
N A:GLU77 4.0 6.0 1.0
CG A:GLU77 4.0 7.5 1.0
N A:VAL76 4.1 5.4 1.0
CA A:ILE73 4.3 4.4 1.0
N A:ILE73 4.3 4.6 1.0
C A:VAL76 4.3 6.3 1.0
OE1 A:GLU80 4.3 5.8 1.0
N A:ASN72 4.3 4.9 1.0
CB A:GLU77 4.3 7.0 1.0
N A:VAL75 4.4 4.8 1.0
CA A:ASN72 4.4 5.0 1.0
CG A:GLU70 4.5 4.6 1.0
CA A:VAL75 4.5 5.0 1.0
OE2 A:GLU77 4.5 16.0 1.0
C A:ILE73 4.6 4.5 1.0
CB A:ASN72 4.7 5.9 1.0
N A:ASP71 4.7 4.6 1.0
CB A:GLU70 4.8 4.2 1.0
CA A:GLU77 4.8 7.3 1.0
N A:ASN74 4.9 4.4 1.0
CA A:GLU70 4.9 4.3 1.0
CG2 A:VAL76 4.9 9.5 1.0

Calcium binding site 10 out of 12 in 5gxp

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Calcium binding site 10 out of 12 in the Cationic Trypsin with Gol/Pge As Dimer at pH 4.6


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 10 of Cationic Trypsin with Gol/Pge As Dimer at pH 4.6 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca301

b:30.0
occ:1.00
 O B:ASN72 2.4 4.8 1.0
OE2 B:GLU80 2.4 5.2 1.0
OE1 B:GLU77 2.5 8.5 1.0
OE1 B:GLU70 2.5 5.4 1.0
O B:HOH406 2.5 30.0 1.0
O B:VAL75 2.5 5.3 1.0
CD B:GLU77 3.3 8.7 1.0
C B:ASN72 3.4 4.6 1.0
CD B:GLU80 3.5 5.2 1.0
CD B:GLU70 3.6 4.5 1.0
N B:ASN72 3.7 4.9 1.0
C B:VAL75 3.7 5.1 1.0
CG B:GLU77 3.8 7.5 1.0
CA B:ASN72 4.0 5.0 1.0
N B:GLU77 4.0 6.0 1.0
CG B:GLU80 4.0 6.4 1.0
CB B:GLU77 4.0 7.0 1.0
N B:ASP71 4.1 4.6 1.0
OE2 B:GLU77 4.2 16.0 1.0
CB B:ASN72 4.2 5.9 1.0
OE2 B:GLU70 4.2 5.4 1.0
CA B:VAL76 4.3 5.8 1.0
N B:ILE73 4.4 4.6 1.0
N B:VAL76 4.5 5.4 1.0
C B:VAL76 4.5 6.3 1.0
OE1 B:GLU80 4.5 5.8 1.0
CA B:GLU70 4.6 4.3 1.0
CG B:GLU70 4.6 4.6 1.0
CA B:GLU77 4.7 7.3 1.0
C B:ASP71 4.7 4.5 1.0
CB B:GLU70 4.7 4.2 1.0
CA B:ILE73 4.7 4.4 1.0
N B:VAL75 4.8 4.8 1.0
CA B:VAL75 4.8 5.0 1.0
C B:GLU70 4.9 4.4 1.0
CA B:ASP71 5.0 4.5 1.0

Reference:

R.Manohar, K.Gunasekaran. Cationic Trypsin with Gol/Pge As Dimer at pH 4.6 To Be Published.
Page generated: Sun Jul 14 19:46:19 2024

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