Atomistry » Sodium » PDB 7a2j-7ala » 7ala
Atomistry »
  Sodium »
    PDB 7a2j-7ala »
      7ala »

Sodium in PDB 7ala: Human Gch-Gfrp Inhibitory Complex

Enzymatic activity of Human Gch-Gfrp Inhibitory Complex

All present enzymatic activity of Human Gch-Gfrp Inhibitory Complex:
3.5.4.16;

Protein crystallography data

The structure of Human Gch-Gfrp Inhibitory Complex, PDB code: 7ala was solved by R.Ebenhoch, H.Nar, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.74 / 1.85
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 162.745, 114.013, 113.83, 90, 130.34, 90
R / Rfree (%) 18.5 / 22

Other elements in 7ala:

The structure of Human Gch-Gfrp Inhibitory Complex also contains other interesting chemical elements:

Fluorine (F) 5 atoms
Zinc (Zn) 5 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Human Gch-Gfrp Inhibitory Complex (pdb code 7ala). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 5 binding sites of Sodium where determined in the Human Gch-Gfrp Inhibitory Complex, PDB code: 7ala:
Jump to Sodium binding site number: 1; 2; 3; 4; 5;

Sodium binding site 1 out of 5 in 7ala

Go back to Sodium Binding Sites List in 7ala
Sodium binding site 1 out of 5 in the Human Gch-Gfrp Inhibitory Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Human Gch-Gfrp Inhibitory Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Na101

b:21.5
occ:1.00
 O F:VAL14 2.2 23.4 1.0
O F:GLN9 2.3 15.8 1.0
O F:ARG11 2.3 21.1 1.0
OG1 F:THR8 2.5 20.1 1.0
C F:ARG11 3.4 20.4 1.0
C F:VAL14 3.4 23.7 1.0
CG2 F:THR8 3.5 17.0 1.0
C F:GLN9 3.5 17.0 1.0
CB F:THR8 3.6 17.8 1.0
O F:HOH238 3.7 26.0 1.0
N F:GLN9 3.9 15.8 1.0
CG1 F:VAL14 3.9 25.4 1.0
CA F:MET12 4.2 21.4 1.0
N F:MET12 4.2 20.6 1.0
N F:VAL14 4.2 23.0 1.0
O F:GLY15 4.2 21.5 1.0
N F:ARG11 4.2 19.7 1.0
CA F:VAL14 4.3 23.8 1.0
N F:GLY15 4.3 23.0 1.0
CA F:GLN9 4.3 16.3 1.0
CA F:ARG11 4.4 19.2 1.0
C F:THR8 4.4 15.7 1.0
CA F:GLY15 4.4 22.1 1.0
C F:GLY15 4.4 21.3 1.0
O F:PRO16 4.4 22.2 1.0
C F:ILE10 4.4 20.4 1.0
C F:MET12 4.4 22.3 1.0
O F:HOH235 4.5 28.3 1.0
CA F:THR8 4.5 15.4 1.0
N F:ILE10 4.5 18.5 1.0
CA F:ILE10 4.5 19.9 1.0
O F:MET12 4.7 22.4 1.0
CB F:VAL14 4.8 25.7 1.0
O F:ILE10 4.8 21.4 1.0
CB F:GLN9 4.9 17.8 1.0

Sodium binding site 2 out of 5 in 7ala

Go back to Sodium Binding Sites List in 7ala
Sodium binding site 2 out of 5 in the Human Gch-Gfrp Inhibitory Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Human Gch-Gfrp Inhibitory Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Na101

b:22.3
occ:1.00
 O G:GLN9 2.3 21.9 1.0
O G:ARG11 2.3 20.4 1.0
O G:VAL14 2.4 19.2 1.0
O G:HOH252 2.4 17.2 1.0
OG1 G:THR8 2.5 19.4 1.0
C G:ARG11 3.4 19.8 1.0
CG2 G:THR8 3.5 17.0 1.0
C G:GLN9 3.5 20.6 1.0
CB G:THR8 3.5 18.4 1.0
C G:VAL14 3.5 19.1 1.0
N G:GLN9 3.7 19.2 1.0
O G:HOH225 4.0 22.0 1.0
N G:ARG11 4.1 19.0 1.0
CG1 G:VAL14 4.1 19.9 1.0
N G:MET12 4.1 19.1 1.0
CA G:MET12 4.1 19.7 1.0
CA G:GLN9 4.2 19.8 1.0
C G:THR8 4.2 18.4 1.0
O G:GLY15 4.3 19.8 1.0
CA G:ARG11 4.3 18.5 1.0
C G:ILE10 4.3 19.5 1.0
N G:VAL14 4.4 18.4 1.0
CA G:THR8 4.4 18.5 1.0
O G:HOH223 4.4 27.0 1.0
O G:PRO16 4.4 18.8 1.0
N G:GLY15 4.4 19.0 1.0
CA G:VAL14 4.5 18.8 1.0
C G:GLY15 4.5 19.5 1.0
C G:MET12 4.5 19.8 1.0
N G:ILE10 4.5 20.0 1.0
CA G:GLY15 4.5 19.2 1.0
CA G:ILE10 4.7 20.3 1.0
O G:ILE10 4.7 19.0 1.0
CB G:GLN9 4.8 22.4 1.0
O G:MET12 4.8 19.6 1.0
CB G:VAL14 4.9 19.3 1.0

Sodium binding site 3 out of 5 in 7ala

Go back to Sodium Binding Sites List in 7ala
Sodium binding site 3 out of 5 in the Human Gch-Gfrp Inhibitory Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Human Gch-Gfrp Inhibitory Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Na101

b:29.8
occ:1.00
 O H:GLN9 2.2 21.6 1.0
O H:ARG11 2.3 19.8 1.0
O H:VAL14 2.4 20.6 1.0
OG1 H:THR8 2.5 21.4 1.0
C H:ARG11 3.4 19.3 1.0
C H:GLN9 3.4 20.9 1.0
CG2 H:THR8 3.5 19.9 1.0
CB H:THR8 3.6 20.2 1.0
C H:VAL14 3.6 21.6 1.0
N H:GLN9 3.7 20.0 1.0
O H:HOH224 3.7 24.5 1.0
N H:ARG11 4.1 19.9 1.0
CG1 H:VAL14 4.1 23.3 1.0
CA H:GLN9 4.1 20.6 1.0
N H:MET12 4.2 18.7 1.0
CA H:MET12 4.2 18.6 1.0
C H:THR8 4.2 19.7 1.0
C H:ILE10 4.3 21.2 1.0
CA H:ARG11 4.3 19.2 1.0
O H:HOH209 4.3 26.3 1.0
O H:GLY15 4.4 22.8 1.0
CA H:THR8 4.4 19.4 1.0
N H:VAL14 4.4 20.9 1.0
O H:PRO16 4.4 24.5 1.0
N H:ILE10 4.4 20.8 1.0
CA H:VAL14 4.5 21.7 1.0
N H:GLY15 4.5 22.1 1.0
C H:GLY15 4.5 22.4 1.0
CA H:GLY15 4.5 22.2 1.0
C H:MET12 4.5 19.0 1.0
O H:ILE10 4.6 21.5 1.0
CA H:ILE10 4.6 20.9 1.0
CB H:GLN9 4.7 22.0 1.0
O H:MET12 4.9 18.6 1.0
CB H:VAL14 4.9 23.2 1.0

Sodium binding site 4 out of 5 in 7ala

Go back to Sodium Binding Sites List in 7ala
Sodium binding site 4 out of 5 in the Human Gch-Gfrp Inhibitory Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of Human Gch-Gfrp Inhibitory Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Na101

b:25.1
occ:1.00
 O I:ARG11 2.2 21.9 1.0
O I:VAL14 2.2 20.6 1.0
O I:GLN9 2.3 20.4 1.0
OG1 I:THR8 2.6 23.6 1.0
C I:ARG11 3.3 21.6 1.0
C I:VAL14 3.4 21.7 1.0
C I:GLN9 3.6 21.0 1.0
CG2 I:THR8 3.6 22.5 1.0
CB I:THR8 3.7 22.5 1.0
O I:HOH222 3.7 20.4 1.0
N I:GLN9 3.9 20.4 1.0
CG1 I:VAL14 4.0 24.3 1.0
N I:ARG11 4.1 21.2 1.0
N I:MET12 4.1 21.0 1.0
CA I:MET12 4.1 21.7 1.0
N I:VAL14 4.2 22.5 1.0
O I:GLY15 4.3 23.1 1.0
CA I:ARG11 4.3 21.3 1.0
CA I:VAL14 4.3 22.5 1.0
N I:GLY15 4.3 22.1 1.0
CA I:GLN9 4.3 20.9 1.0
C I:ILE10 4.4 22.6 1.0
C I:THR8 4.4 20.4 1.0
CA I:GLY15 4.4 22.6 1.0
C I:MET12 4.4 22.6 1.0
C I:GLY15 4.4 22.7 1.0
O I:PRO16 4.5 24.6 1.0
N I:ILE10 4.5 21.7 1.0
CA I:THR8 4.5 21.1 1.0
CA I:ILE10 4.6 23.1 1.0
F19 B:5RW302 4.7 56.7 1.0
O I:MET12 4.7 23.3 1.0
O I:ILE10 4.8 24.4 1.0
CB I:VAL14 4.8 23.8 1.0
CB I:GLN9 4.9 22.4 1.0
N I:GLU13 5.0 22.4 1.0

Sodium binding site 5 out of 5 in 7ala

Go back to Sodium Binding Sites List in 7ala
Sodium binding site 5 out of 5 in the Human Gch-Gfrp Inhibitory Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 5 of Human Gch-Gfrp Inhibitory Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Na101

b:21.8
occ:1.00
 O J:VAL14 2.3 22.1 1.0
O J:ARG11 2.3 19.2 1.0
O J:GLN9 2.4 23.1 1.0
O J:HOH247 2.4 19.2 1.0
OG1 J:THR8 2.6 23.4 1.0
C J:ARG11 3.4 19.5 1.0
C J:VAL14 3.4 22.8 1.0
CG2 J:THR8 3.5 21.6 1.0
C J:GLN9 3.6 23.0 1.0
CB J:THR8 3.6 21.7 1.0
O J:HOH242 3.6 25.0 1.0
N J:GLN9 3.8 21.7 1.0
CG1 J:VAL14 4.0 23.9 1.0
N J:ARG11 4.2 21.7 1.0
O J:GLY15 4.2 22.7 1.0
CA J:MET12 4.2 20.4 1.0
N J:MET12 4.2 19.1 1.0
CA J:GLN9 4.3 22.2 1.0
N J:VAL14 4.3 22.8 1.0
C J:THR8 4.3 21.2 1.0
N J:GLY15 4.3 22.8 1.0
CA J:VAL14 4.4 23.1 1.0
C J:GLY15 4.4 22.5 1.0
O J:PRO16 4.4 21.8 1.0
CA J:GLY15 4.4 22.8 1.0
CA J:ARG11 4.4 20.0 1.0
C J:ILE10 4.4 22.9 1.0
CA J:THR8 4.4 20.3 1.0
C J:MET12 4.5 21.7 1.0
N J:ILE10 4.6 23.4 1.0
O J:HOH211 4.6 31.4 1.0
CB J:GLN9 4.8 22.7 1.0
O J:MET12 4.8 21.8 1.0
O J:ILE10 4.8 22.9 1.0
CA J:ILE10 4.8 24.1 1.0
CB J:VAL14 4.8 24.2 1.0

Reference:

R.Ebenhoch, M.Bauer, D.Reinert, A.Kersting, S.Huber, A.Schmid, I.Hinz, M.Feiler, K.Mueller, H.Nar. Using Hybrid Approaches to Study the Allosteric Regulation of Gtp Cyclohydrolase I To Be Published.
Page generated: Fri Nov 5 16:01:50 2021

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy