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Sodium in PDB 4yo7: Crystal Structure of An Abc Transporter Solute Binding Protein (IPR025997) From Bacillus Halodurans C-125 (BH2323, Target Efi- 511484) with Bound Myo-Inositol

Protein crystallography data

The structure of Crystal Structure of An Abc Transporter Solute Binding Protein (IPR025997) From Bacillus Halodurans C-125 (BH2323, Target Efi- 511484) with Bound Myo-Inositol, PDB code: 4yo7 was solved by U.Yadava, M.W.Vetting, N.F.Al Obaidi, R.Toro, L.L.Morisco, J.Benach, J.Koss, S.R.Wasserman, J.D.Attonito, A.Scott Glenn, S.Chamala, S.Chowdhury, J.Lafleur, J.Love, R.D.Seidel, K.L.Whalen, J.A.Gerlt, S.C.Almo, Enzyme Function Initiative (Efi), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 24.54 / 1.70
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 68.155, 79.845, 118.337, 90.00, 90.00, 90.00
R / Rfree (%) 13.9 / 16.9

Other elements in 4yo7:

The structure of Crystal Structure of An Abc Transporter Solute Binding Protein (IPR025997) From Bacillus Halodurans C-125 (BH2323, Target Efi- 511484) with Bound Myo-Inositol also contains other interesting chemical elements:

Magnesium (Mg) 3 atoms
Chlorine (Cl) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of An Abc Transporter Solute Binding Protein (IPR025997) From Bacillus Halodurans C-125 (BH2323, Target Efi- 511484) with Bound Myo-Inositol (pdb code 4yo7). 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 Crystal Structure of An Abc Transporter Solute Binding Protein (IPR025997) From Bacillus Halodurans C-125 (BH2323, Target Efi- 511484) with Bound Myo-Inositol, PDB code: 4yo7:

Sodium binding site 1 out of 1 in 4yo7

Go back to Sodium Binding Sites List in 4yo7
Sodium binding site 1 out of 1 in the Crystal Structure of An Abc Transporter Solute Binding Protein (IPR025997) From Bacillus Halodurans C-125 (BH2323, Target Efi- 511484) with Bound Myo-Inositol


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 An Abc Transporter Solute Binding Protein (IPR025997) From Bacillus Halodurans C-125 (BH2323, Target Efi- 511484) with Bound Myo-Inositol within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na406

b:16.8
occ:1.00
O A:HOH653 2.4 24.2 1.0
O A:LEU197 2.4 14.8 1.0
O A:HOH656 2.4 22.0 1.0
O A:HIS194 2.4 15.3 1.0
O A:ILE191 2.4 16.2 1.0
O A:HOH682 2.5 32.1 1.0
HG22 A:ILE191 3.2 17.1 1.0
HA A:GLU192 3.3 17.1 1.0
C A:HIS194 3.4 20.1 1.0
HA A:ASP195 3.4 21.8 1.0
C A:ILE191 3.5 17.1 1.0
HB2 A:LEU197 3.5 14.9 1.0
C A:LEU197 3.5 15.5 1.0
HG23 A:ILE191 3.5 17.1 1.0
H A:HIS194 3.6 19.5 1.0
H A:LEU197 3.6 17.5 1.0
CG2 A:ILE191 3.8 14.2 1.0
CA A:ASP195 4.0 18.2 1.0
CA A:GLU192 4.0 14.3 1.0
N A:ASP195 4.1 16.7 1.0
N A:LEU197 4.1 14.6 1.0
HA A:GLU198 4.2 22.4 1.0
N A:GLU192 4.2 13.6 1.0
CA A:LEU197 4.2 17.0 1.0
O A:ASP195 4.2 19.2 1.0
C A:ASP195 4.2 17.7 1.0
N A:HIS194 4.2 16.3 1.0
CB A:LEU197 4.3 12.4 1.0
CA A:HIS194 4.3 20.4 1.0
C A:GLU192 4.4 13.9 1.0
HB2 A:HIS194 4.5 22.7 1.0
HG21 A:ILE191 4.5 17.1 1.0
CA A:ILE191 4.5 11.4 1.0
HA A:ILE191 4.5 13.7 1.0
N A:GLU198 4.6 13.8 1.0
HB3 A:LEU197 4.6 14.9 1.0
O A:GLU192 4.6 18.0 1.0
CA A:GLU198 4.8 18.7 1.0
CB A:ILE191 4.9 16.4 1.0
O A:HOH649 4.9 17.0 1.0
N A:GLY196 4.9 18.0 1.0
H A:ASP195 4.9 20.0 1.0
CB A:HIS194 5.0 18.9 1.0
H A:GLU192 5.0 16.3 1.0

Reference:

U.Yadava, M.W.Vetting, N.F.Al Obaidi, R.Toro, L.L.Morisco, J.Benach, J.Koss, S.R.Wasserman, J.D.Attonito, A.Scott Glenn, S.Chamala, S.Chowdhury, J.Lafleur, J.Love, R.D.Seidel, K.L.Whalen, J.A.Gerlt, S.C.Almo, Enzyme Function Initiative (Efi). Crystal Structure of An Abc Transporter Solute Binding Protein (IPR025997) From Bacillus Halodurans C-125 (BH2323, Target Efi-511484) with Bound Myo-Inositol To Be Published.
Page generated: Tue Dec 15 10:04:21 2020

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