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Cadmium in PDB 5jvp: The Neck-Linker and Alpha 7 Helix of Homo Sapiens Cenp-E

Protein crystallography data

The structure of The Neck-Linker and Alpha 7 Helix of Homo Sapiens Cenp-E, PDB code: 5jvp was solved by R.K.Phillips, I.Rayment, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.79 / 2.10
Space group P 32 2 1
Cell size a, b, c (Å), α, β, γ (°) 100.609, 100.609, 107.627, 90.00, 90.00, 120.00
R / Rfree (%) 23.7 / 27.4

Cadmium Binding Sites:

The binding sites of Cadmium atom in the The Neck-Linker and Alpha 7 Helix of Homo Sapiens Cenp-E (pdb code 5jvp). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 3 binding sites of Cadmium where determined in the The Neck-Linker and Alpha 7 Helix of Homo Sapiens Cenp-E, PDB code: 5jvp:
Jump to Cadmium binding site number: 1; 2; 3;

Cadmium binding site 1 out of 3 in 5jvp

Go back to Cadmium Binding Sites List in 5jvp
Cadmium binding site 1 out of 3 in the The Neck-Linker and Alpha 7 Helix of Homo Sapiens Cenp-E


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of The Neck-Linker and Alpha 7 Helix of Homo Sapiens Cenp-E within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd101

b:0.7
occ:0.97
O A:HOH271 3.9 34.3 1.0
CE A:LYS24 4.0 28.7 1.0
CD A:LYS24 4.3 23.3 1.0
CG A:LYS24 4.8 20.6 1.0

Cadmium binding site 2 out of 3 in 5jvp

Go back to Cadmium Binding Sites List in 5jvp
Cadmium binding site 2 out of 3 in the The Neck-Linker and Alpha 7 Helix of Homo Sapiens Cenp-E


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of The Neck-Linker and Alpha 7 Helix of Homo Sapiens Cenp-E within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd101

b:0.8
occ:1.00
O B:HOH307 2.9 53.8 1.0
OE1 B:GLU84 2.9 54.7 1.0
O B:HOH309 2.9 60.7 1.0
O B:HOH313 2.9 62.1 1.0
O B:HOH223 3.0 63.1 1.0
OE2 B:GLU84 3.2 50.6 1.0
CD B:GLU84 3.4 49.8 1.0
O B:HOH263 3.4 52.9 1.0
CG B:GLU84 4.9 42.4 1.0

Cadmium binding site 3 out of 3 in 5jvp

Go back to Cadmium Binding Sites List in 5jvp
Cadmium binding site 3 out of 3 in the The Neck-Linker and Alpha 7 Helix of Homo Sapiens Cenp-E


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 3 of The Neck-Linker and Alpha 7 Helix of Homo Sapiens Cenp-E within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cd101

b:0.8
occ:0.50
O B:HOH201 3.1 20.1 1.0
OD2 B:ASP69 3.3 55.3 1.0
OD1 B:ASP69 3.7 58.0 1.0
CG B:ASP69 3.8 55.4 1.0

Reference:

R.K.Phillips, L.G.Peter, S.P.Gilbert, I.Rayment. Family-Specific Kinesin Structures Reveal Neck-Linker Length Based on Initiation of the Coiled-Coil. J.Biol.Chem. V. 291 20372 2016.
ISSN: ESSN 1083-351X
PubMed: 27462072
DOI: 10.1074/JBC.M116.737577
Page generated: Sat Dec 12 08:26:55 2020

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