Sodium in PDB 7djq: Crystal Structure of O-Acetyl L-Serine Sulfhydrylase From Haemophilus Influenzae in Complex with C-Terminal Peptide of Ribosomal S4 Domain Protein From Lactobacillus Salivarius.

Enzymatic activity of Crystal Structure of O-Acetyl L-Serine Sulfhydrylase From Haemophilus Influenzae in Complex with C-Terminal Peptide of Ribosomal S4 Domain Protein From Lactobacillus Salivarius.

All present enzymatic activity of Crystal Structure of O-Acetyl L-Serine Sulfhydrylase From Haemophilus Influenzae in Complex with C-Terminal Peptide of Ribosomal S4 Domain Protein From Lactobacillus Salivarius.:
2.5.1.47;

Protein crystallography data

The structure of Crystal Structure of O-Acetyl L-Serine Sulfhydrylase From Haemophilus Influenzae in Complex with C-Terminal Peptide of Ribosomal S4 Domain Protein From Lactobacillus Salivarius., PDB code: 7djq was solved by N.Saini, R.Rahisuddin, S.Kumaran, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 40.86 / 2.30
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 47.080, 98.940, 70.290, 90.00, 95.77, 90.00
R / Rfree (%) 18.9 / 22.9

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of O-Acetyl L-Serine Sulfhydrylase From Haemophilus Influenzae in Complex with C-Terminal Peptide of Ribosomal S4 Domain Protein From Lactobacillus Salivarius. (pdb code 7djq). 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 O-Acetyl L-Serine Sulfhydrylase From Haemophilus Influenzae in Complex with C-Terminal Peptide of Ribosomal S4 Domain Protein From Lactobacillus Salivarius., PDB code: 7djq:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in 7djq

Go back to Sodium Binding Sites List in 7djq
Sodium binding site 1 out of 3 in the Crystal Structure of O-Acetyl L-Serine Sulfhydrylase From Haemophilus Influenzae in Complex with C-Terminal Peptide of Ribosomal S4 Domain Protein From Lactobacillus Salivarius.


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 O-Acetyl L-Serine Sulfhydrylase From Haemophilus Influenzae in Complex with C-Terminal Peptide of Ribosomal S4 Domain Protein From Lactobacillus Salivarius. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na401

b:30.0
occ:1.00
H B:SER70 2.7 41.4 1.0
HB B:THR73 2.9 14.6 1.0
H B:GLY71 3.0 40.1 1.0
H B:THR73 3.1 13.8 1.0
HG1 B:THR69 3.1 37.7 1.0
HE22 B:GLN143 3.1 17.4 1.0
H B:GLY74 3.1 14.7 1.0
HA B:THR69 3.3 46.0 1.0
N B:GLY71 3.3 40.1 1.0
N B:SER70 3.6 41.4 1.0
HA3 B:GLY71 3.7 33.4 1.0
N B:THR73 3.7 13.8 1.0
CB B:THR73 3.8 14.6 1.0
CA B:GLY71 3.8 33.4 1.0
C B:GLY71 3.8 21.9 1.0
OG1 B:THR69 3.8 37.7 1.0
NE2 B:GLN143 3.9 17.4 1.0
N B:GLY74 3.9 14.7 1.0
C B:SER70 4.0 48.4 1.0
O B:GLY71 4.1 22.9 1.0
CA B:THR69 4.1 46.0 1.0
N B:ASN72 4.2 21.8 1.0
H B:ASN72 4.2 21.8 1.0
HE21 B:GLN143 4.2 17.4 1.0
CA B:THR73 4.2 15.1 1.0
CA B:SER70 4.3 48.6 1.0
C B:THR69 4.4 49.4 1.0
OG1 B:THR73 4.4 16.0 1.0
OG B:SER70 4.5 44.9 1.0
C B:THR73 4.5 14.9 1.0
CB B:THR69 4.5 36.0 1.0
HG1 B:THR73 4.7 16.0 1.0
HB B:THR69 4.7 36.0 1.0
HH22 B:ARG100 4.7 37.1 1.0
HA3 B:GLY74 4.7 15.1 1.0
HA2 B:GLY71 4.8 33.4 1.0
O B:SER70 4.8 47.7 1.0
C B:ASN72 4.8 18.1 1.0
O B:PRO68 4.8 37.0 1.0
HG22 B:THR73 4.9 12.1 1.0
CB B:SER70 4.9 49.0 1.0
CD B:GLN143 4.9 18.4 1.0
CG2 B:THR73 4.9 12.1 1.0
CA B:GLY74 4.9 15.1 1.0
HB3 B:SER70 4.9 49.0 1.0
HH21 B:ARG100 5.0 37.1 1.0

Sodium binding site 2 out of 3 in 7djq

Go back to Sodium Binding Sites List in 7djq
Sodium binding site 2 out of 3 in the Crystal Structure of O-Acetyl L-Serine Sulfhydrylase From Haemophilus Influenzae in Complex with C-Terminal Peptide of Ribosomal S4 Domain Protein From Lactobacillus Salivarius.


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 O-Acetyl L-Serine Sulfhydrylase From Haemophilus Influenzae in Complex with C-Terminal Peptide of Ribosomal S4 Domain Protein From Lactobacillus Salivarius. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na402

b:30.0
occ:1.00
HD21 B:ASN72 2.7 12.5 1.0
OG B:SER300 2.9 18.6 1.0
H2'2 B:LLP42 3.2 12.2 1.0
HG B:SER300 3.3 18.6 1.0
H2'1 B:LLP42 3.3 12.2 1.0
H2'3 B:LLP42 3.5 12.2 1.0
C2' B:LLP42 3.5 12.2 1.0
ND2 B:ASN72 3.6 12.5 1.0
O B:HOH553 3.6 16.9 1.0
HB2 B:SER300 3.7 15.6 1.0
CB B:SER300 3.8 15.6 1.0
HB3 B:SER300 3.9 15.6 1.0
HD22 B:ASN72 4.0 12.5 1.0
HA3 B:GLY270 4.2 14.3 1.0
OD1 B:ASN72 4.3 22.3 1.0
CG B:ASN72 4.4 17.6 1.0

Sodium binding site 3 out of 3 in 7djq

Go back to Sodium Binding Sites List in 7djq
Sodium binding site 3 out of 3 in the Crystal Structure of O-Acetyl L-Serine Sulfhydrylase From Haemophilus Influenzae in Complex with C-Terminal Peptide of Ribosomal S4 Domain Protein From Lactobacillus Salivarius.


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 O-Acetyl L-Serine Sulfhydrylase From Haemophilus Influenzae in Complex with C-Terminal Peptide of Ribosomal S4 Domain Protein From Lactobacillus Salivarius. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na401

b:30.0
occ:1.00
OG A:SER300 3.1 19.1 1.0
HA3 A:GLY270 3.6 15.7 1.0
O A:HOH559 3.6 25.4 1.0
HD21 A:ASN72 3.7 18.6 1.0
HG A:SER300 3.7 19.1 1.0
HB2 A:SER300 3.7 17.3 1.0
O A:HOH543 3.8 20.6 1.0
CB A:SER300 4.0 17.3 1.0
H2'2 A:LLP42 4.3 17.8 1.0
HB3 A:SER300 4.4 17.3 1.0
HA2 A:GLY270 4.4 15.7 1.0
HG2 A:GLN227 4.4 36.1 1.0
CA A:GLY270 4.5 15.7 1.0
H2'1 A:LLP42 4.5 17.8 1.0
ND2 A:ASN72 4.5 18.6 1.0
H2'3 A:LLP42 4.6 17.8 1.0
C2' A:LLP42 4.7 17.8 1.0
H A:ILE271 4.8 15.3 1.0
OD1 A:ASN72 4.8 19.1 1.0
HB3 A:GLN227 5.0 29.0 1.0
C A:ALA301 5.0 29.6 1.0

Reference:

N.Saini, R.Rahisuddin, S.Kumaran. Crystal Structure of O-Acetyl L-Serine Sulfhydrylase From Haemophilus Influenzae in Complex with C-Terminal Peptide of Ribosomal S4 Domain Protein From Lactobacillus Salivarius. To Be Published.
Page generated: Tue Dec 15 17:51:04 2020

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