Atomistry » Calcium » PDB 7esy-7f9c » 7f9b
Atomistry »
  Calcium »
    PDB 7esy-7f9c »
      7f9b »

Calcium in PDB 7f9b: Homo Sapiens Prolyl-Trna Synthetase (Hsprs) in Complex with L-Proline and Compound L95

Enzymatic activity of Homo Sapiens Prolyl-Trna Synthetase (Hsprs) in Complex with L-Proline and Compound L95

All present enzymatic activity of Homo Sapiens Prolyl-Trna Synthetase (Hsprs) in Complex with L-Proline and Compound L95:
6.1.1.15; 6.1.1.17;

Protein crystallography data

The structure of Homo Sapiens Prolyl-Trna Synthetase (Hsprs) in Complex with L-Proline and Compound L95, PDB code: 7f9b was solved by Y.Manickam, N.Malhotra, A.Sharma, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.48 / 2.00
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 70.73, 90.96, 83.49, 90, 110.03, 90
R / Rfree (%) 18.9 / 23.6

Other elements in 7f9b:

The structure of Homo Sapiens Prolyl-Trna Synthetase (Hsprs) in Complex with L-Proline and Compound L95 also contains other interesting chemical elements:

Chlorine (Cl) 3 atoms
Zinc (Zn) 2 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Homo Sapiens Prolyl-Trna Synthetase (Hsprs) in Complex with L-Proline and Compound L95 (pdb code 7f9b). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 6 binding sites of Calcium where determined in the Homo Sapiens Prolyl-Trna Synthetase (Hsprs) in Complex with L-Proline and Compound L95, PDB code: 7f9b:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6;

Calcium binding site 1 out of 6 in 7f9b

Go back to Calcium Binding Sites List in 7f9b
Calcium binding site 1 out of 6 in the Homo Sapiens Prolyl-Trna Synthetase (Hsprs) in Complex with L-Proline and Compound L95


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Homo Sapiens Prolyl-Trna Synthetase (Hsprs) in Complex with L-Proline and Compound L95 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1903

b:71.1
occ:0.95
 O A:HOH2058 2.2 60.8 1.0
OE1 A:GLU1100 2.4 85.6 1.0
O A:ASP1096 2.6 54.0 1.0
CD A:GLU1100 3.3 74.1 1.0
OD1 A:ASP1096 3.4 79.0 1.0
OE2 A:GLU1100 3.6 77.2 1.0
C A:ASP1096 3.8 49.8 1.0
CG A:ASP1096 4.4 71.5 1.0
OE2 A:GLU1154 4.5 74.9 1.0
CA A:PHE1097 4.6 51.4 1.0
CG A:GLU1100 4.6 55.5 1.0
N A:PHE1097 4.7 52.0 1.0
CA A:ASP1096 4.7 49.4 1.0

Calcium binding site 2 out of 6 in 7f9b

Go back to Calcium Binding Sites List in 7f9b
Calcium binding site 2 out of 6 in the Homo Sapiens Prolyl-Trna Synthetase (Hsprs) in Complex with L-Proline and Compound L95


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Homo Sapiens Prolyl-Trna Synthetase (Hsprs) in Complex with L-Proline and Compound L95 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1904

b:76.7
occ:0.92
 OD1 A:ASN1356 2.6 91.5 1.0
CG A:ASN1356 3.2 80.7 1.0
ND2 A:ASN1356 3.3 82.0 1.0
O A:HOH2025 4.1 58.1 1.0
CB A:PHE1355 4.1 52.1 1.0
O A:GLY1352 4.2 71.6 1.0
OE1 A:GLU1359 4.3 78.2 1.0
N A:ASN1356 4.3 61.7 1.0
CB A:ASN1356 4.5 67.4 1.0
CA A:ASN1356 4.6 60.2 1.0
CD A:GLU1359 4.8 76.2 1.0
C A:PHE1355 4.9 51.9 1.0
OE2 A:GLU1359 4.9 77.9 1.0
CD2 A:PHE1355 4.9 51.3 1.0

Calcium binding site 3 out of 6 in 7f9b

Go back to Calcium Binding Sites List in 7f9b
Calcium binding site 3 out of 6 in the Homo Sapiens Prolyl-Trna Synthetase (Hsprs) in Complex with L-Proline and Compound L95


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Homo Sapiens Prolyl-Trna Synthetase (Hsprs) in Complex with L-Proline and Compound L95 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca1903

b:63.5
occ:0.85
 O B:HOH2054 2.3 57.2 1.0
O B:HOH2120 2.5 47.6 1.0
O B:ASP1096 2.6 47.9 1.0
OE2 B:GLU1100 2.7 72.7 1.0
OE1 B:GLU1100 3.2 69.5 1.0
CD B:GLU1100 3.4 68.9 1.0
C B:ASP1096 3.8 53.3 1.0
OD1 B:ASP1096 4.4 68.0 1.0
CG B:ASP1096 4.6 63.9 1.0
CA B:ASP1096 4.6 51.6 1.0
OE2 B:GLU1154 4.6 66.7 1.0
CA B:PHE1097 4.6 48.8 1.0
N B:PHE1097 4.7 48.4 1.0
CG B:GLU1100 4.9 50.5 1.0
OD2 B:ASP1096 4.9 58.8 1.0
CB B:ASP1096 5.0 53.0 1.0

Calcium binding site 4 out of 6 in 7f9b

Go back to Calcium Binding Sites List in 7f9b
Calcium binding site 4 out of 6 in the Homo Sapiens Prolyl-Trna Synthetase (Hsprs) in Complex with L-Proline and Compound L95


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Homo Sapiens Prolyl-Trna Synthetase (Hsprs) in Complex with L-Proline and Compound L95 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca1904

b:42.0
occ:0.45
 CA B:CA1904 0.0 42.0 0.5
O B:HOH2125 2.4 52.5 1.0
CA B:CA1904 2.5 63.5 0.6
OD1 B:ASP1220 2.5 59.5 1.0
O B:ASP1220 2.5 41.3 1.0
C B:ASP1220 3.4 42.3 1.0
O B:HOH2122 3.6 45.8 1.0
CG B:ASP1220 3.7 51.4 1.0
NZ B:LYS1215 3.8 53.7 1.0
CA B:ASP1220 4.0 41.8 1.0
N B:TYR1221 4.4 34.6 1.0
OE1 B:GLU1212 4.4 82.4 1.0
CB B:ASP1220 4.5 44.5 1.0
O B:HOH2012 4.5 49.3 1.0
CB B:TYR1221 4.6 39.2 1.0
O B:HOH2128 4.6 49.5 1.0
O B:HOH2133 4.6 53.4 1.0
OD2 B:ASP1220 4.6 58.4 1.0
CA B:TYR1221 4.8 36.9 1.0
CD1 B:TYR1221 5.0 34.8 1.0

Calcium binding site 5 out of 6 in 7f9b

Go back to Calcium Binding Sites List in 7f9b
Calcium binding site 5 out of 6 in the Homo Sapiens Prolyl-Trna Synthetase (Hsprs) in Complex with L-Proline and Compound L95


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Homo Sapiens Prolyl-Trna Synthetase (Hsprs) in Complex with L-Proline and Compound L95 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca1904

b:63.5
occ:0.55
 CA B:CA1904 0.0 63.5 0.6
O B:HOH2012 2.4 49.3 1.0
OD1 B:ASP1220 2.4 59.5 1.0
CA B:CA1904 2.5 42.0 0.5
O B:HOH2133 2.7 53.4 1.0
CG B:ASP1220 3.4 51.4 1.0
O B:HOH2125 3.7 52.5 1.0
OD2 B:ASP1220 3.7 58.4 1.0
O B:ASP1220 4.5 41.3 1.0
CB B:ASP1220 4.8 44.5 1.0
C B:ASP1220 4.9 42.3 1.0
CD1 B:TYR1221 5.0 34.8 1.0

Calcium binding site 6 out of 6 in 7f9b

Go back to Calcium Binding Sites List in 7f9b
Calcium binding site 6 out of 6 in the Homo Sapiens Prolyl-Trna Synthetase (Hsprs) in Complex with L-Proline and Compound L95


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Homo Sapiens Prolyl-Trna Synthetase (Hsprs) in Complex with L-Proline and Compound L95 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca1905

b:76.0
occ:0.92
 O B:GLY1263 2.5 77.0 1.0
C B:GLY1263 3.6 73.4 1.0
CA B:GLY1263 3.9 67.0 1.0
OE1 B:GLU1257 4.3 87.2 1.0
N B:GLU1264 4.7 74.4 1.0

Reference:

N.Malhotra, Y.Manickam, A.Sharma. Hsprs with Atp Binding Pocket Inhibitor To Be Published.
Page generated: Fri Jul 19 00:40:09 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy