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Cadmium in PDB 6dc5: Rsv Prefusion F in Complex with AM22 Fab

Protein crystallography data

The structure of Rsv Prefusion F in Complex with AM22 Fab, PDB code: 6dc5 was solved by H.G.Jones, J.S.Mclellan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.23 / 3.50
Space group P 21 2 21
Cell size a, b, c (Å), α, β, γ (°) 132.450, 152.180, 202.930, 90.00, 90.00, 90.00
R / Rfree (%) 21.7 / 28

Cadmium Binding Sites:

The binding sites of Cadmium atom in the Rsv Prefusion F in Complex with AM22 Fab (pdb code 6dc5). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 3 binding sites of Cadmium where determined in the Rsv Prefusion F in Complex with AM22 Fab, PDB code: 6dc5:
Jump to Cadmium binding site number: 1; 2; 3;

Cadmium binding site 1 out of 3 in 6dc5

Go back to Cadmium Binding Sites List in 6dc5
Cadmium binding site 1 out of 3 in the Rsv Prefusion F in Complex with AM22 Fab


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Rsv Prefusion F in Complex with AM22 Fab within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd602

b:0.3
occ:1.00
ND2 A:ASN165 2.9 0.1 1.0
OE2 A:GLU294 3.0 0.1 1.0
CG A:ASN165 3.7 0.9 1.0
OD1 A:ASN165 3.8 0.4 1.0
N A:GLY162 4.0 97.6 1.0
CD A:GLU294 4.2 0.4 1.0
CA A:GLY162 4.5 98.0 1.0
C A:GLU161 4.9 91.0 1.0
CB A:ASN165 4.9 0.5 1.0
CE A:LYS293 5.0 60.5 1.0
CG A:GLU294 5.0 0.5 1.0

Cadmium binding site 2 out of 3 in 6dc5

Go back to Cadmium Binding Sites List in 6dc5
Cadmium binding site 2 out of 3 in the Rsv Prefusion F in Complex with AM22 Fab


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Rsv Prefusion F in Complex with AM22 Fab within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cd602

b:0.3
occ:1.00
OD1 D:ASN165 2.8 82.8 1.0
O D:GLU161 2.8 0.6 1.0
C D:GLU161 3.9 0.3 1.0
CG D:ASN165 4.0 83.2 1.0
ND2 D:ASN165 4.6 82.9 1.0
CA D:GLY162 4.6 0.2 1.0
N D:GLY162 4.7 0.2 1.0
CA D:GLU161 4.9 0.3 1.0
OE1 D:GLU294 5.0 0.4 1.0

Cadmium binding site 3 out of 3 in 6dc5

Go back to Cadmium Binding Sites List in 6dc5
Cadmium binding site 3 out of 3 in the Rsv Prefusion F in Complex with AM22 Fab


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 3 of Rsv Prefusion F in Complex with AM22 Fab within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Cd602

b:76.5
occ:1.00
OE2 G:GLU294 2.8 98.5 1.0
OD1 G:ASN165 2.8 72.8 1.0
N G:GLY162 3.7 0.5 1.0
CG G:ASN165 3.7 72.5 1.0
ND2 G:ASN165 3.9 72.2 1.0
CD G:GLU294 4.0 96.6 1.0
CA G:GLY162 4.1 0.9 1.0
C G:GLU161 4.7 74.0 1.0
OE1 G:GLU294 4.8 96.5 1.0
CA G:GLU161 4.9 72.8 1.0
CE G:LYS293 4.9 52.8 1.0
CG G:GLU294 4.9 94.1 1.0
NZ G:LYS293 4.9 55.0 1.0
C G:GLY162 5.0 0.7 1.0

Reference:

H.G.Jones, M.B.Battles, C.Lin, J.S.Mclellan. Rsv Prefusion F in Complex with AM22 Fab To Be Published.
Page generated: Thu Jul 10 14:51:41 2025

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