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Zinc in PDB 5k6i: Crystal Structure of Prefusion-Stabilized Rsv F Single-Chain 9-10 Ds- CAV1 A149C-Y458C, S46G-E92D-S215P-K465Q Variant.

Protein crystallography data

The structure of Crystal Structure of Prefusion-Stabilized Rsv F Single-Chain 9-10 Ds- CAV1 A149C-Y458C, S46G-E92D-S215P-K465Q Variant., PDB code: 5k6i was solved by M.G.Joyce, B.Zhang, J.R.Mascola, P.D.Kwong, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.03 / 2.92
Space group P 41 3 2
Cell size a, b, c (Å), α, β, γ (°) 169.561, 169.561, 169.561, 90.00, 90.00, 90.00
R / Rfree (%) 22 / 25.3

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Prefusion-Stabilized Rsv F Single-Chain 9-10 Ds- CAV1 A149C-Y458C, S46G-E92D-S215P-K465Q Variant. (pdb code 5k6i). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of Prefusion-Stabilized Rsv F Single-Chain 9-10 Ds- CAV1 A149C-Y458C, S46G-E92D-S215P-K465Q Variant., PDB code: 5k6i:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 5k6i

Go back to Zinc Binding Sites List in 5k6i
Zinc binding site 1 out of 2 in the Crystal Structure of Prefusion-Stabilized Rsv F Single-Chain 9-10 Ds- CAV1 A149C-Y458C, S46G-E92D-S215P-K465Q Variant.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Prefusion-Stabilized Rsv F Single-Chain 9-10 Ds- CAV1 A149C-Y458C, S46G-E92D-S215P-K465Q Variant. within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn601

b:0.3
occ:1.00
OE2 F:GLU60 2.5 0.8 1.0
OE1 F:GLU60 2.5 0.3 1.0
CD F:GLU60 2.8 0.2 1.0
OD2 F:ASP194 3.3 0.6 1.0
NZ F:LYS191 3.9 0.8 1.0
NZ F:LYS196 4.0 0.5 1.0
OD1 F:ASP194 4.0 92.0 1.0
CG F:ASP194 4.0 94.8 1.0
CG F:GLU60 4.2 90.9 1.0
CE F:LYS196 4.4 0.4 1.0
CE F:LYS191 4.9 0.7 1.0

Zinc binding site 2 out of 2 in 5k6i

Go back to Zinc Binding Sites List in 5k6i
Zinc binding site 2 out of 2 in the Crystal Structure of Prefusion-Stabilized Rsv F Single-Chain 9-10 Ds- CAV1 A149C-Y458C, S46G-E92D-S215P-K465Q Variant.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Prefusion-Stabilized Rsv F Single-Chain 9-10 Ds- CAV1 A149C-Y458C, S46G-E92D-S215P-K465Q Variant. within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn602

b:0.8
occ:1.00
O F:HOH719 2.2 53.5 1.0
ND1 F:HIS317 2.4 68.1 1.0
O F:HOH722 2.7 57.4 1.0
CE1 F:HIS317 2.8 78.6 1.0
O F:HOH720 3.2 48.3 1.0
CG F:HIS317 3.6 64.3 1.0
CE F:LYS315 3.9 65.9 1.0
NE2 F:HIS317 4.0 81.8 1.0
CG1 F:VAL406 4.3 47.3 1.0
CB F:HIS317 4.3 62.0 1.0
CD2 F:HIS317 4.4 61.0 1.0
NZ F:LYS315 4.5 68.9 1.0
CA F:HIS317 4.6 55.1 1.0
O F:LEU316 4.6 54.4 1.0
O F:ILE407 4.7 61.0 1.0
CD F:LYS315 4.8 71.9 1.0
CG F:LYS315 5.0 45.2 1.0

Reference:

M.G.Joyce, B.Zhang, L.Ou, M.Chen, G.Y.Chuang, A.Druz, W.P.Kong, Y.T.Lai, E.J.Rundlet, Y.Tsybovsky, Y.Yang, I.S.Georgiev, M.Guttman, C.R.Lees, M.Pancera, M.Sastry, C.Soto, G.B.Stewart-Jones, P.V.Thomas, J.G.Van Galen, U.Baxa, K.K.Lee, J.R.Mascola, B.S.Graham, P.D.Kwong. Iterative Structure-Based Improvement of A Fusion-Glycoprotein Vaccine Against Rsv. Nat.Struct.Mol.Biol. V. 23 811 2016.
ISSN: ESSN 1545-9985
PubMed: 27478931
DOI: 10.1038/NSMB.3267
Page generated: Wed Dec 16 06:26:23 2020

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