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Sodium in PDB 7asq: Orotidine 5'-Monophosphate Decarboxylase-Domain of Human Umps in Complex with the Reaction Product Ump at 0.95 Angstrom Resolution

Enzymatic activity of Orotidine 5'-Monophosphate Decarboxylase-Domain of Human Umps in Complex with the Reaction Product Ump at 0.95 Angstrom Resolution

All present enzymatic activity of Orotidine 5'-Monophosphate Decarboxylase-Domain of Human Umps in Complex with the Reaction Product Ump at 0.95 Angstrom Resolution:
2.4.2.10; 4.1.1.23;

Protein crystallography data

The structure of Orotidine 5'-Monophosphate Decarboxylase-Domain of Human Umps in Complex with the Reaction Product Ump at 0.95 Angstrom Resolution, PDB code: 7asq was solved by S.Rindfleisch, F.Rabe Von Pappenheim, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 38.83 / 0.95
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 77.67, 116.86, 61.83, 90, 90, 90
R / Rfree (%) 10.7 / 12

Sodium Binding Sites:

The binding sites of Sodium atom in the Orotidine 5'-Monophosphate Decarboxylase-Domain of Human Umps in Complex with the Reaction Product Ump at 0.95 Angstrom Resolution (pdb code 7asq). 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 Orotidine 5'-Monophosphate Decarboxylase-Domain of Human Umps in Complex with the Reaction Product Ump at 0.95 Angstrom Resolution, PDB code: 7asq:

Sodium binding site 1 out of 1 in 7asq

Go back to Sodium Binding Sites List in 7asq
Sodium binding site 1 out of 1 in the Orotidine 5'-Monophosphate Decarboxylase-Domain of Human Umps in Complex with the Reaction Product Ump at 0.95 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Orotidine 5'-Monophosphate Decarboxylase-Domain of Human Umps in Complex with the Reaction Product Ump at 0.95 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na605

b:15.9
occ:0.42
 H A:ASN253 2.0 6.9 1.0
OD1 A:ASN253 2.4 7.4 1.0
HA A:ARG467 2.5 7.2 1.0
HB3 A:ALA470 2.6 8.0 1.0
O A:ARG467 2.7 6.5 1.0
N A:ASN253 2.8 5.8 1.0
HG3 A:ARG467 2.9 7.7 1.0
HA A:THR252 2.9 7.3 1.0
HB2 A:TRP471 3.1 8.4 1.0
H A:TRP471 3.2 7.6 1.0
CA A:ARG467 3.2 6.0 1.0
C A:ARG467 3.3 6.1 1.0
HG2 A:ARG467 3.3 7.7 1.0
CB A:ALA470 3.4 6.7 1.0
H A:LEU254 3.4 6.7 1.0
CG A:ASN253 3.4 6.0 1.0
CG A:ARG467 3.4 6.4 1.0
HB2 A:LEU254 3.5 7.2 1.0
N A:TRP471 3.5 6.3 1.0
N A:LEU254 3.5 5.5 1.0
C A:ASN253 3.5 5.3 1.0
HB1 A:ALA470 3.6 8.0 1.0
CA A:ASN253 3.6 5.7 1.0
CA A:THR252 3.7 6.1 1.0
C A:THR252 3.7 6.0 1.0
HE3 A:TRP471 3.8 9.2 1.0
OG1 A:THR252 3.8 6.5 1.0
CB A:ARG467 3.9 6.3 1.0
CB A:TRP471 3.9 7.0 1.0
C A:ALA470 4.0 6.2 1.0
HA A:TRP471 4.0 8.0 1.0
HB3 A:LEU254 4.1 7.2 1.0
CA A:TRP471 4.1 6.6 1.0
H A:ALA470 4.1 7.1 1.0
CB A:ASN253 4.1 5.7 1.0
CB A:LEU254 4.1 6.0 1.0
HB2 A:ALA470 4.1 8.0 1.0
CA A:ALA470 4.2 6.0 1.0
HB2 A:ARG467 4.2 7.6 1.0
O A:ASN253 4.2 6.2 1.0
O A:TYR466 4.2 6.4 1.0
CA A:LEU254 4.3 5.4 1.0
HG1 A:THR252 4.3 7.8 1.0
CB A:THR252 4.3 6.6 1.0
O A:GLU251 4.4 5.9 0.2
HB3 A:TRP471 4.4 8.4 1.0
N A:ARG467 4.4 5.9 1.0
N A:ALA470 4.4 5.9 1.0
HA A:ASN253 4.5 6.8 1.0
O A:GLU251 4.5 7.7 0.8
ND2 A:ASN253 4.5 6.7 1.0
HA A:LEU254 4.5 6.5 1.0
HD21 A:ASN253 4.6 8.1 1.0
HB3 A:ASN253 4.6 6.8 1.0
CE3 A:TRP471 4.6 7.7 1.0
HB A:THR252 4.6 7.9 1.0
N A:LYS468 4.6 6.3 0.3
N A:LYS468 4.6 6.1 0.7
HB3 A:ARG467 4.7 7.6 1.0
C A:TYR466 4.8 5.9 1.0
N A:THR252 4.8 6.3 1.0
HB2 A:ASN253 4.8 6.8 1.0
CD A:ARG467 4.8 7.3 1.0
HG12 A:ILE447 4.9 7.3 1.0
HD2 A:ARG467 4.9 8.7 1.0
O A:ALA470 4.9 6.8 1.0
O A:THR252 4.9 7.3 1.0
CG A:TRP471 5.0 7.4 1.0
C A:GLU251 5.0 6.5 0.2

Reference:

S.Rindfleisch, F.Rabe Von Pappenheim. Orotidine 5'-Monophosphate Decarboxylase-Domain of Human Umps in Complex with the Reaction Product Ump at 0.95 Angstrom Resolution To Be Published.
Page generated: Thu Nov 25 10:31:20 2021

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