Calcium in PDB 6bvd: Structure of Botulinum Neurotoxin Serotype Ha Light Chain

Protein crystallography data

The structure of Structure of Botulinum Neurotoxin Serotype Ha Light Chain, PDB code: 6bvd was solved by R.Jin, K.Lam, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 54.05 / 2.09
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 76.249, 160.745, 219.099, 90.00, 90.00, 90.00
R / Rfree (%) 17.6 / 19.1

Other elements in 6bvd:

The structure of Structure of Botulinum Neurotoxin Serotype Ha Light Chain also contains other interesting chemical elements:

Zinc (Zn) 2 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Structure of Botulinum Neurotoxin Serotype Ha Light Chain (pdb code 6bvd). 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 Structure of Botulinum Neurotoxin Serotype Ha Light Chain, PDB code: 6bvd:

Calcium binding site 1 out of 1 in 6bvd

Go back to Calcium Binding Sites List in 6bvd
Calcium binding site 1 out of 1 in the Structure of Botulinum Neurotoxin Serotype Ha Light Chain


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structure of Botulinum Neurotoxin Serotype Ha Light Chain within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca501

b:21.3
occ:1.00
OD2 A:ASP382 2.3 22.9 1.0
OE2 B:GLU387 2.4 20.6 1.0
OD2 B:ASP382 2.4 23.4 1.0
OD1 A:ASP382 2.4 21.2 1.0
OD1 B:ASP382 2.5 25.0 1.0
OE1 A:GLU387 2.5 22.2 1.0
OE1 B:GLU387 2.5 24.0 1.0
CG A:ASP382 2.7 28.6 1.0
OE2 A:GLU387 2.8 24.1 1.0
CG B:ASP382 2.8 26.6 1.0
CD B:GLU387 2.8 29.8 1.0
CD A:GLU387 3.0 28.1 1.0
NZ B:LYS93 3.9 18.3 1.0
CE B:LYS93 4.1 13.4 1.0
NZ A:LYS93 4.1 16.3 1.0
CB A:ASP382 4.2 20.9 1.0
CE A:LYS93 4.2 18.4 1.0
CB B:ASP382 4.4 20.5 1.0
CG B:GLU387 4.4 17.5 1.0
O B:HOH667 4.5 32.3 1.0
CG A:GLU387 4.6 23.7 1.0
O B:HOH664 4.7 22.3 1.0
O B:HOH688 4.7 22.3 1.0
O A:HOH645 4.8 27.3 1.0
CD B:LYS93 4.8 16.0 1.0

Reference:

K.H.Lam, S.Sikorra, J.Weisemann, H.Maatsch, K.Perry, A.Rummel, T.Binz, R.Jin. Structural and Biochemical Characterization of the Protease Domain of the Mosaic Botulinum Neurotoxin Type Ha. Pathog Dis V. 76 2018.
ISSN: ISSN 2049-632X
PubMed: 29688327
DOI: 10.1093/FEMSPD/FTY044
Page generated: Sat Dec 12 06:00:28 2020

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