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Sodium in PDB 3k2q: Crystal Structure of Pyrophosphate-Dependent Phosphofructokinase From Marinobacter Aquaeolei, Northeast Structural Genomics Consortium Target MQR88

Enzymatic activity of Crystal Structure of Pyrophosphate-Dependent Phosphofructokinase From Marinobacter Aquaeolei, Northeast Structural Genomics Consortium Target MQR88

All present enzymatic activity of Crystal Structure of Pyrophosphate-Dependent Phosphofructokinase From Marinobacter Aquaeolei, Northeast Structural Genomics Consortium Target MQR88:
2.7.1.90;

Protein crystallography data

The structure of Crystal Structure of Pyrophosphate-Dependent Phosphofructokinase From Marinobacter Aquaeolei, Northeast Structural Genomics Consortium Target MQR88, PDB code: 3k2q was solved by J.Seetharaman, S.Lew, D.Wang, H.Neely, K.Janjua, K.Cunningham, L.Owens, R.Xiao, J.Liu, M.C.Baran, T.B.Acton, B.Rost, G.T.Montelione, J.F.Hunt, L.Tong, Northeast Structuralgenomics Consortium (Nesg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 44.70 / 2.50
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 151.526, 100.752, 101.584, 90.00, 110.34, 90.00
R / Rfree (%) 23.4 / 26

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Pyrophosphate-Dependent Phosphofructokinase From Marinobacter Aquaeolei, Northeast Structural Genomics Consortium Target MQR88 (pdb code 3k2q). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the Crystal Structure of Pyrophosphate-Dependent Phosphofructokinase From Marinobacter Aquaeolei, Northeast Structural Genomics Consortium Target MQR88, PDB code: 3k2q:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in 3k2q

Go back to Sodium Binding Sites List in 3k2q
Sodium binding site 1 out of 3 in the Crystal Structure of Pyrophosphate-Dependent Phosphofructokinase From Marinobacter Aquaeolei, Northeast Structural Genomics Consortium Target MQR88


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 Pyrophosphate-Dependent Phosphofructokinase From Marinobacter Aquaeolei, Northeast Structural Genomics Consortium Target MQR88 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na421

b:6.7
occ:1.00
 NH2 A:ARG80 2.4 48.2 1.0
O A:HOH438 2.9 33.4 1.0
CZ A:ARG80 3.3 48.2 1.0
NE A:ARG80 3.8 46.8 1.0
N A:GLY13 4.0 19.9 1.0
NZ A:LYS141 4.0 14.3 1.0
CA A:GLY12 4.0 20.0 1.0
NH1 A:ARG80 4.3 48.0 1.0
C A:GLY12 4.5 21.3 1.0

Sodium binding site 2 out of 3 in 3k2q

Go back to Sodium Binding Sites List in 3k2q
Sodium binding site 2 out of 3 in the Crystal Structure of Pyrophosphate-Dependent Phosphofructokinase From Marinobacter Aquaeolei, Northeast Structural Genomics Consortium Target MQR88


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 Pyrophosphate-Dependent Phosphofructokinase From Marinobacter Aquaeolei, Northeast Structural Genomics Consortium Target MQR88 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na421

b:1.8
occ:1.00
 NH2 B:ARG80 2.5 47.8 1.0
CZ B:ARG80 3.4 48.4 1.0
NE B:ARG80 3.8 47.2 1.0
CA B:GLY12 4.0 21.1 1.0
N B:GLY13 4.1 20.7 1.0
NZ B:LYS141 4.1 18.9 1.0
NH1 B:ARG80 4.3 48.4 1.0
O B:HOH492 4.4 23.9 1.0
C B:GLY12 4.6 21.2 1.0
O B:HOH527 4.8 26.3 1.0

Sodium binding site 3 out of 3 in 3k2q

Go back to Sodium Binding Sites List in 3k2q
Sodium binding site 3 out of 3 in the Crystal Structure of Pyrophosphate-Dependent Phosphofructokinase From Marinobacter Aquaeolei, Northeast Structural Genomics Consortium Target MQR88


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 Pyrophosphate-Dependent Phosphofructokinase From Marinobacter Aquaeolei, Northeast Structural Genomics Consortium Target MQR88 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Na421

b:8.8
occ:1.00
 NH2 C:ARG80 2.5 46.1 1.0
O C:HOH526 2.7 42.9 1.0
CZ C:ARG80 3.4 47.1 1.0
O C:HOH434 3.6 44.6 1.0
NE C:ARG80 3.9 45.4 1.0
CA C:GLY12 4.2 20.8 1.0
N C:GLY13 4.2 21.8 1.0
NZ C:LYS141 4.2 15.4 1.0
NH1 C:ARG80 4.3 46.3 1.0
C C:GLY12 4.8 21.2 1.0

Reference:

J.Seetharaman, S.Lew, D.Wang, H.Neely, K.Janjua, K.Cunningham, L.Owens, R.Xiao, J.Liu, M.C.Baran, T.B.Acton, B.Rost, G.T.Montelione, J.F.Hunt, L.Tong. Crystal Structure of Pyrophosphate-Dependent Phosphofructokinase From Marinobacter Aquaeolei, Northeast Structural Genomics Consortium Target MQR88 To Be Published.
Page generated: Mon Oct 7 11:09:21 2024

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