Sodium in PDB 5t9c: Crystal Structure of B. Subtilis 168 Glpq in Complex with Glycerol-3- Phosphate (1 Hour Soak)

Enzymatic activity of Crystal Structure of B. Subtilis 168 Glpq in Complex with Glycerol-3- Phosphate (1 Hour Soak)

All present enzymatic activity of Crystal Structure of B. Subtilis 168 Glpq in Complex with Glycerol-3- Phosphate (1 Hour Soak):
3.1.4.46;

Protein crystallography data

The structure of Crystal Structure of B. Subtilis 168 Glpq in Complex with Glycerol-3- Phosphate (1 Hour Soak), PDB code: 5t9c was solved by F.K.K.Li, N.C.J.Strynadka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	48.49 / 1.48
*Space group*	P 2₁ 2₁ 2₁
*Cell size a, b, c (Å), α, β, γ (°)*	47.101, 58.240, 87.565, 90.00, 90.00, 90.00
*R / R_free (%)*	16.8 / 19.7

Other elements in 5t9c:

The structure of Crystal Structure of B. Subtilis 168 Glpq in Complex with Glycerol-3- Phosphate (1 Hour Soak) also contains other interesting chemical elements:

Calcium

(Ca)

1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of B. Subtilis 168 Glpq in Complex with Glycerol-3- Phosphate (1 Hour Soak) (pdb code 5t9c). 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 B. Subtilis 168 Glpq in Complex with Glycerol-3- Phosphate (1 Hour Soak), PDB code: 5t9c:

Sodium binding site 1 out of 1 in 5t9c

Go back to

Sodium Binding Sites List in 5t9c

Sodium binding site 1 out of 1 in the Crystal Structure of B. Subtilis 168 Glpq in Complex with Glycerol-3- Phosphate (1 Hour Soak)

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 B. Subtilis 168 Glpq in Complex with Glycerol-3- Phosphate (1 Hour Soak) within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
E:Na304 b:33.3 occ:1.00	O	E:ASP90	2.3	28.8	1.0
	O	E:THR93	2.3	27.0	1.0
	O	E:HOH414	2.3	38.6	1.0
	O	E:HOH541	2.5	49.3	1.0
	O	E:HOH536	2.5	44.2	1.0
	O	E:HOH514	2.5	41.1	1.0
	C	E:ASP90	3.5	26.5	1.0
	C	E:THR93	3.5	27.4	1.0
	CA	E:ASN94	4.1	30.1	1.0
	CA	E:ASP90	4.1	27.0	1.0
	O	E:HOH542	4.1	49.9	1.0
	O	E:GLY95	4.2	31.7	1.0
	N	E:ASN94	4.3	27.8	1.0
	O	E:ARG91	4.5	28.4	1.0
	N	E:THR93	4.5	26.6	1.0
	N	E:ARG91	4.6	25.8	1.0
	C	E:ARG91	4.6	25.9	1.0
	C	E:ASN94	4.6	33.0	1.0
	CA	E:THR93	4.7	25.4	1.0
	CA	E:ARG91	4.8	24.8	1.0
	N	E:GLY95	4.8	30.6	1.0
	O	E:LEU89	4.8	25.8	1.0
	CB	E:ASP90	4.9	29.3	1.0

Reference:

C.L.Myers, F.K.Li, B.M.Koo, O.M.El-Halfawy, S.French, C.A.Gross, N.C.Strynadka, E.D.Brown. Identification of Two Phosphate Starvation-Induced Wall Teichoic Acid Hydrolases Provides First Insights Into the Degradative Pathway of A Key Bacterial Cell Wall Component. J. Biol. Chem. V. 291 26066 2016.
ISSN: ESSN 1083-351X
PubMed: 27780866
DOI: 10.1074/JBC.M116.760447

Page generated: Tue Oct 8 00:05:19 2024

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