Atomistry » Sodium » PDB 1w5n-1x7d » 1x27
Atomistry »
  Sodium »
    PDB 1w5n-1x7d »
      1x27 »

Sodium in PDB 1x27: Crystal Structure of Lck SH2-SH3 with SH2 Binding Site of P130CAS

Enzymatic activity of Crystal Structure of Lck SH2-SH3 with SH2 Binding Site of P130CAS

All present enzymatic activity of Crystal Structure of Lck SH2-SH3 with SH2 Binding Site of P130CAS:
2.7.1.112;

Protein crystallography data

The structure of Crystal Structure of Lck SH2-SH3 with SH2 Binding Site of P130CAS, PDB code: 1x27 was solved by F.Nasertorabi, K.Tars, K.Becherer, R.Kodandapani, L.Liljas, K.Vuori, K.R.Ely, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 2.70
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 77.415, 107.289, 166.389, 90.00, 90.00, 90.00
R / Rfree (%) 24.7 / 31.7

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Lck SH2-SH3 with SH2 Binding Site of P130CAS (pdb code 1x27). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 6 binding sites of Sodium where determined in the Crystal Structure of Lck SH2-SH3 with SH2 Binding Site of P130CAS, PDB code: 1x27:
Jump to Sodium binding site number: 1; 2; 3; 4; 5; 6;

Sodium binding site 1 out of 6 in 1x27

Go back to Sodium Binding Sites List in 1x27
Sodium binding site 1 out of 6 in the Crystal Structure of Lck SH2-SH3 with SH2 Binding Site of P130CAS


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Lck SH2-SH3 with SH2 Binding Site of P130CAS within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na227

b:51.9
occ:1.00
 O A:GLU123 2.5 60.1 1.0
O A:GLU125 2.7 52.8 1.0
O A:PHE128 2.8 63.0 1.0
C A:GLU123 3.7 61.4 1.0
C A:PHE128 3.7 60.9 1.0
C A:GLU125 3.8 53.3 1.0
N A:PHE128 4.3 54.0 1.0
CA A:GLU123 4.4 63.1 1.0
CA A:PHE128 4.4 58.0 1.0
N A:GLU125 4.5 56.4 1.0
C A:PRO124 4.5 57.5 1.0
CE1 A:PHE129 4.6 64.5 1.0
CD1 A:PHE129 4.6 64.3 1.0
N A:PHE129 4.6 62.1 1.0
CB A:PHE128 4.7 58.2 1.0
C A:PRO126 4.7 52.5 1.0
N A:PRO126 4.7 53.4 1.0
CA A:PRO126 4.7 52.2 1.0
CA A:GLU125 4.7 55.3 1.0
N A:PRO124 4.8 59.5 1.0
O A:PRO124 4.8 58.8 1.0
CA A:PHE129 4.9 63.4 1.0
O A:PRO126 4.9 52.9 1.0
CZ A:PHE129 4.9 63.5 1.0
CG A:PHE129 4.9 63.4 1.0
CA A:PRO124 4.9 57.2 1.0
O A:LEU122 5.0 64.0 1.0

Sodium binding site 2 out of 6 in 1x27

Go back to Sodium Binding Sites List in 1x27
Sodium binding site 2 out of 6 in the Crystal Structure of Lck SH2-SH3 with SH2 Binding Site of P130CAS


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of Lck SH2-SH3 with SH2 Binding Site of P130CAS within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na6

b:39.8
occ:1.00
 O B:PHE128 2.7 45.6 1.0
O B:GLU125 2.8 53.7 1.0
O B:GLU123 2.8 60.5 1.0
C B:PHE128 3.9 46.1 1.0
C B:GLU125 3.9 53.4 1.0
C B:GLU123 4.0 60.0 1.0
N B:GLU125 4.4 56.3 1.0
N B:PHE128 4.4 44.0 1.0
C B:PRO124 4.4 58.3 1.0
CA B:PHE128 4.5 46.0 1.0
CB B:PHE128 4.6 47.2 1.0
CA B:GLU125 4.7 55.8 1.0
N B:PRO126 4.8 50.7 1.0
CA B:PRO124 4.8 58.0 1.0
O B:PRO124 4.8 58.4 1.0
N B:PRO124 4.8 58.5 1.0
CA B:PRO126 4.9 48.9 1.0
N B:PHE129 4.9 47.7 1.0
C B:PRO126 4.9 47.6 1.0
CA B:GLU123 4.9 60.8 1.0

Sodium binding site 3 out of 6 in 1x27

Go back to Sodium Binding Sites List in 1x27
Sodium binding site 3 out of 6 in the Crystal Structure of Lck SH2-SH3 with SH2 Binding Site of P130CAS


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Crystal Structure of Lck SH2-SH3 with SH2 Binding Site of P130CAS within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Na14

b:44.5
occ:1.00
 O C:PHE128 2.6 50.9 1.0
O C:GLU123 2.6 60.4 1.0
O C:GLU125 2.7 52.2 1.0
C C:PHE128 3.6 50.6 1.0
C C:GLU123 3.7 61.2 1.0
C C:GLU125 3.8 53.2 1.0
CB C:PHE128 4.0 51.0 1.0
CA C:PHE128 4.1 49.8 1.0
N C:PHE128 4.1 47.5 1.0
O C:HOH232 4.1 50.2 1.0
C C:PRO124 4.2 60.9 1.0
N C:GLU125 4.2 59.3 1.0
O C:LEU122 4.4 59.8 1.0
O C:PRO124 4.4 62.5 1.0
CA C:GLU123 4.5 63.6 1.0
CA C:GLU125 4.6 56.5 1.0
CE1 C:PHE129 4.6 55.2 1.0
CA C:PRO124 4.6 59.5 1.0
CD1 C:PHE129 4.7 54.8 1.0
N C:PRO124 4.7 59.5 1.0
N C:PHE129 4.7 53.3 1.0
N C:PRO126 4.8 51.5 1.0
C C:PRO126 4.8 47.6 1.0
O C:PRO126 4.9 47.2 1.0
CD2 C:PHE128 4.9 55.1 1.0
CG C:PHE128 4.9 53.5 1.0
CA C:PRO126 5.0 48.6 1.0

Sodium binding site 4 out of 6 in 1x27

Go back to Sodium Binding Sites List in 1x27
Sodium binding site 4 out of 6 in the Crystal Structure of Lck SH2-SH3 with SH2 Binding Site of P130CAS


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of Crystal Structure of Lck SH2-SH3 with SH2 Binding Site of P130CAS within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Na10

b:50.5
occ:1.00
 O D:GLU125 2.7 60.2 1.0
O D:GLU123 2.8 67.4 1.0
O D:PHE128 2.8 68.9 1.0
C D:GLU125 3.7 60.4 1.0
O D:PRO124 3.8 64.8 1.0
C D:PHE128 3.9 67.1 1.0
C D:GLU123 4.0 67.7 1.0
C D:PRO124 4.1 64.4 1.0
N D:GLU125 4.4 64.1 1.0
CE1 D:PHE129 4.4 73.6 1.0
N D:PHE128 4.5 60.1 1.0
N D:PRO126 4.5 57.9 1.0
CD1 D:PHE129 4.6 72.3 1.0
CA D:PHE128 4.6 64.4 1.0
CB D:PHE128 4.6 65.3 1.0
CA D:GLU125 4.6 62.6 1.0
CA D:PRO126 4.6 55.3 1.0
O D:PRO126 4.6 54.5 1.0
C D:PRO126 4.7 54.3 1.0
CA D:PRO124 4.7 64.2 1.0
O D:LEU122 4.8 69.2 1.0
N D:PRO124 4.8 64.7 1.0
CA D:GLU123 4.9 70.5 1.0
CZ D:PHE129 4.9 73.3 1.0
N D:PHE129 5.0 69.7 1.0

Sodium binding site 5 out of 6 in 1x27

Go back to Sodium Binding Sites List in 1x27
Sodium binding site 5 out of 6 in the Crystal Structure of Lck SH2-SH3 with SH2 Binding Site of P130CAS


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 5 of Crystal Structure of Lck SH2-SH3 with SH2 Binding Site of P130CAS within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Na227

b:43.8
occ:1.00
 O E:PHE128 2.6 63.4 1.0
O E:GLU125 2.7 54.3 1.0
O E:GLU123 2.7 66.5 1.0
C E:GLU125 3.8 54.7 1.0
C E:PHE128 3.8 62.3 1.0
C E:GLU123 4.0 66.2 1.0
CE1 E:PHE129 4.0 75.0 1.0
CD1 E:PHE129 4.1 74.0 1.0
O E:PRO124 4.3 61.2 1.0
C E:PRO124 4.4 61.0 1.0
N E:PHE128 4.5 53.4 1.0
CA E:PRO126 4.5 51.8 1.0
N E:PRO126 4.5 53.0 1.0
N E:GLU125 4.6 59.6 1.0
CA E:PHE128 4.6 58.6 1.0
C E:PRO126 4.6 50.6 1.0
O E:PRO126 4.6 51.1 1.0
CA E:GLU125 4.8 57.2 1.0
CA E:GLU123 4.8 68.1 1.0
O E:LEU122 4.8 69.5 1.0
CZ E:PHE129 4.8 74.5 1.0
N E:PHE129 4.8 66.5 1.0
N E:PRO124 4.9 63.7 1.0
CB E:PHE128 4.9 58.8 1.0
CA E:PRO124 4.9 62.1 1.0
CA E:PHE129 5.0 70.0 1.0
CG E:PHE129 5.0 74.1 1.0

Sodium binding site 6 out of 6 in 1x27

Go back to Sodium Binding Sites List in 1x27
Sodium binding site 6 out of 6 in the Crystal Structure of Lck SH2-SH3 with SH2 Binding Site of P130CAS


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 6 of Crystal Structure of Lck SH2-SH3 with SH2 Binding Site of P130CAS within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Na21

b:27.7
occ:1.00
 O F:GLU125 2.6 38.0 1.0
O F:PHE128 2.6 54.4 1.0
O F:GLU123 2.6 43.6 1.0
C F:PHE128 3.7 52.5 1.0
C F:GLU125 3.7 41.5 1.0
CE1 F:PHE129 3.8 53.1 1.0
C F:GLU123 3.9 46.9 1.0
O F:PRO124 3.9 44.3 1.0
CD1 F:PHE129 4.0 53.5 1.0
C F:PRO124 4.0 42.4 1.0
N F:PHE128 4.3 46.1 1.0
CZ F:PHE129 4.4 53.3 1.0
N F:GLU125 4.4 42.4 1.0
CA F:PHE128 4.4 51.0 1.0
CA F:PRO124 4.6 41.7 1.0
N F:PRO126 4.6 40.2 1.0
CA F:PRO126 4.6 40.0 1.0
CA F:GLU125 4.6 43.4 1.0
CB F:PHE128 4.6 52.7 1.0
N F:PRO124 4.6 43.4 1.0
CG F:PHE129 4.7 55.5 1.0
C F:PRO126 4.7 42.0 1.0
N F:PHE129 4.7 54.3 1.0
O F:LEU122 4.7 52.5 1.0
CA F:PHE129 4.9 56.4 1.0
O F:PRO126 4.9 43.3 1.0
CA F:GLU123 4.9 51.6 1.0
CE2 F:PHE129 5.0 53.0 1.0

Reference:

F.Nasertorabi, K.Tars, K.Becherer, R.Kodandapani, L.Liljas, K.Vuori, K.R.Ely. Molecular Basis For Regulation of Src By the Docking Protein P130CAS J.Mol.Recog. V. 19 30 2006.
ISSN: ISSN 0952-3499
PubMed: 16245368
DOI: 10.1002/JMR.755
Page generated: Tue Dec 15 05:41:29 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy