Atomistry » Sodium » PDB 8e62-8ezc » 8eyp
Atomistry »
  Sodium »
    PDB 8e62-8ezc »
      8eyp »

Sodium in PDB 8eyp: Joint X-Ray/Neutron Structure of Salmonella Typhimurium Tryptophan Synthase Internal Aldimine From Microgravity-Grown Crystal

Enzymatic activity of Joint X-Ray/Neutron Structure of Salmonella Typhimurium Tryptophan Synthase Internal Aldimine From Microgravity-Grown Crystal

All present enzymatic activity of Joint X-Ray/Neutron Structure of Salmonella Typhimurium Tryptophan Synthase Internal Aldimine From Microgravity-Grown Crystal:
4.2.1.20;

Protein crystallography data

The structure of Joint X-Ray/Neutron Structure of Salmonella Typhimurium Tryptophan Synthase Internal Aldimine From Microgravity-Grown Crystal, PDB code: 8eyp was solved by V.N.Drago, A.Kovalevsky, M.P.Blakeley, V.T.Forsyth, T.C.Mueser, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) N/A / 1.80
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 184.51, 61.86, 67.67, 90, 94.74, 90
R / Rfree (%) 22.4 / 28.8

Sodium Binding Sites:

The binding sites of Sodium atom in the Joint X-Ray/Neutron Structure of Salmonella Typhimurium Tryptophan Synthase Internal Aldimine From Microgravity-Grown Crystal (pdb code 8eyp). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Joint X-Ray/Neutron Structure of Salmonella Typhimurium Tryptophan Synthase Internal Aldimine From Microgravity-Grown Crystal, PDB code: 8eyp:

Sodium binding site 1 out of 1 in 8eyp

Go back to Sodium Binding Sites List in 8eyp
Sodium binding site 1 out of 1 in the Joint X-Ray/Neutron Structure of Salmonella Typhimurium Tryptophan Synthase Internal Aldimine From Microgravity-Grown Crystal


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Joint X-Ray/Neutron Structure of Salmonella Typhimurium Tryptophan Synthase Internal Aldimine From Microgravity-Grown Crystal within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na2001

b:37.2
occ:1.00
O B:SER1308 2.4 33.2 1.0
O B:DOD2140 2.4 44.5 1.0
O B:GLY1232 2.4 33.2 1.0
O B:DOD2185 2.5 33.1 1.0
O B:PHE1306 2.5 44.2 1.0
D1 B:DOD2185 2.9 31.6 1.0
DB3 B:PHE1306 2.9 46.3 0.9
HB3 B:PHE1306 2.9 46.3 0.1
D2 B:DOD2140 3.0 44.0 1.0
D1 B:DOD2140 3.1 44.8 1.0
D2 B:DOD2185 3.3 34.2 1.0
DD2 B:PHE1306 3.3 45.2 0.5
HD2 B:PHE1306 3.3 45.2 0.5
HG3 B:PRO1270 3.4 33.8 0.4
DG3 B:PRO1270 3.4 33.8 0.6
DD2 B:PRO1270 3.4 34.2 0.6
HD2 B:PRO1270 3.4 34.2 0.4
C B:GLY1232 3.5 33.2 1.0
C B:PHE1306 3.5 45.6 1.0
DA2 B:GLY1232 3.6 31.4 1.0
C B:SER1308 3.6 35.7 1.0
D B:SER1308 3.6 35.1 1.0
HG2 B:PRO1270 3.6 34.0 0.1
DG2 B:PRO1270 3.6 34.0 0.9
CG B:PRO1270 3.8 33.9 1.0
DB B:VAL1309 3.8 33.3 1.0
CB B:PHE1306 3.8 46.7 1.0
H B:PHE1306 3.9 48.3 0.4
D B:PHE1306 3.9 48.3 0.6
CD B:PRO1270 3.9 33.0 1.0
DD3 B:PRO1270 3.9 34.0 1.0
HD3 B:PRO1270 3.9 34.0 0.0
N B:SER1308 3.9 36.9 1.0
HA B:VAL1309 4.1 34.1 0.1
DA B:VAL1309 4.1 34.1 0.9
CA B:GLY1232 4.1 33.0 1.0
CA B:PHE1306 4.1 46.4 1.0
CD2 B:PHE1306 4.1 45.1 1.0
HA2 B:GLY1233 4.2 30.8 0.2
DA2 B:GLY1233 4.2 30.8 0.8
O B:GLY1268 4.3 36.1 1.0
N B:PHE1306 4.3 48.3 1.0
CA B:SER1308 4.4 34.7 1.0
DG12 B:VAL1231 4.4 33.6 0.8
HG12 B:VAL1231 4.4 33.6 0.1
CG B:PHE1306 4.4 45.2 1.0
HG21 B:VAL1309 4.4 34.7 0.1
DG21 B:VAL1309 4.4 34.7 0.9
DA B:PRO1307 4.5 40.9 1.0
O B:VAL1231 4.5 34.1 1.0
C B:PRO1307 4.5 39.7 1.0
N B:VAL1309 4.5 33.5 1.0
O B:LEU1304 4.6 42.1 1.0
N B:PRO1307 4.6 44.6 1.0
CA B:VAL1309 4.6 33.8 1.0
N B:GLY1233 4.6 30.3 1.0
CB B:VAL1309 4.6 33.9 1.0
DB2 B:PHE1306 4.6 46.2 0.4
HB2 B:PHE1306 4.6 46.2 0.6
DA B:SER1308 4.7 35.0 0.7
HA B:SER1308 4.7 35.0 0.3
CA B:PRO1307 4.7 41.3 1.0
HA3 B:GLY1232 4.8 32.7 0.2
DA3 B:GLY1232 4.8 32.7 0.8
DD2 B:PRO1257 4.8 32.1 0.9
HD2 B:PRO1257 4.8 32.1 0.1
OE2 B:GLU1256 4.9 31.1 1.0
CA B:GLY1233 5.0 30.1 1.0
N B:GLY1232 5.0 32.6 1.0
HG B:SER1297 5.0 54.0 0.4
DG B:SER1297 5.0 54.0 0.6

Reference:

V.N.Drago, J.M.Devos, M.P.Blakeley, V.T.Forsyth, J.M.Parks, A.Kovalevsky, T.C.Mueser. Microgravity-Assisted Neutron Crystallography Reveals Functional Hydrogen Atoms in the Resting State of Tryptophan Synthase Cell Rep Phys Sci 2024.
ISSN: ESSN 2666-3864
DOI: 10.1016/J.XCRP.2024.101827
Page generated: Wed Oct 9 11:45:12 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