Calcium in PDB 3deb: Crystal Structure of Apo Form (Zinc Removed) of the Botulinum Neurotoxin Type C Light Chain

Enzymatic activity of Crystal Structure of Apo Form (Zinc Removed) of the Botulinum Neurotoxin Type C Light Chain

All present enzymatic activity of Crystal Structure of Apo Form (Zinc Removed) of the Botulinum Neurotoxin Type C Light Chain:
3.4.24.69;

Protein crystallography data

The structure of Crystal Structure of Apo Form (Zinc Removed) of the Botulinum Neurotoxin Type C Light Chain, PDB code: 3deb was solved by R.Rawat, D.Kumaran, S.Swaminathan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	49.88 / 1.95
*Space group*	P 3₁ 2 1
*Cell size a, b, c (Å), α, β, γ (°)*	106.740, 106.740, 140.240, 90.00, 90.00, 120.00
*R / R_free (%)*	19.4 / 20

Other elements in 3deb:

The structure of Crystal Structure of Apo Form (Zinc Removed) of the Botulinum Neurotoxin Type C Light Chain also contains other interesting chemical elements:

Sodium

(Na)

1 atom

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of Apo Form (Zinc Removed) of the Botulinum Neurotoxin Type C Light Chain (pdb code 3deb). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the Crystal Structure of Apo Form (Zinc Removed) of the Botulinum Neurotoxin Type C Light Chain, PDB code: 3deb:

Calcium binding site 1 out of 1 in 3deb

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Calcium Binding Sites List in 3deb

Calcium binding site 1 out of 1 in the Crystal Structure of Apo Form (Zinc Removed) of the Botulinum Neurotoxin Type C Light Chain

Mono view

Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Apo Form (Zinc Removed) of the Botulinum Neurotoxin Type C Light Chain within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Ca500 b:21.6 occ:1.00	O	A:HOH874	2.3	29.4	1.0
	OG	A:SER135	2.3	22.7	1.0
	OXT	A:ACT501	2.3	44.2	1.0
	O	A:ACT501	2.4	42.4	1.0
	O	A:SER135	2.4	20.5	1.0
	O	A:HOH557	2.5	22.2	1.0
	O	A:HOH875	2.5	22.0	1.0
	O	A:HOH640	2.6	32.8	1.0
	C	A:ACT501	2.7	45.6	1.0
	C	A:SER135	3.4	20.9	1.0
	CB	A:SER135	3.6	20.0	1.0
	CA	A:SER135	3.9	19.9	1.0
	O	A:HOH921	4.0	40.3	1.0
	CH3	A:ACT501	4.2	43.4	1.0
	N	A:SER135	4.2	19.3	1.0
	O	A:HOH909	4.3	45.4	1.0
	N	A:VAL136	4.4	21.4	1.0
	O	A:HOH927	4.4	46.5	1.0
	OD1	A:ASP137	4.5	29.4	1.0
	O	A:ASP130	4.6	22.4	1.0
	O	A:HOH648	4.6	28.4	1.0
	OD1	A:ASP130	4.7	27.2	1.0
	O	A:ASP132	4.8	22.6	1.0
	CA	A:VAL136	4.8	21.8	1.0
	O	A:HOH734	4.9	40.9	1.0

Reference:

R.Rawat, D.Kumaran, S.Swaminathan. Crystal Structure of Apo Form (Zinc Removed) of the Botulinum Neurotoxin Type C Light Chain To Be Published.

Page generated: Tue Jul 8 11:36:41 2025

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