Atomistry » Chlorine » PDB 5dif-5dsx » 5dqd
Atomistry »
  Chlorine »
    PDB 5dif-5dsx »
      5dqd »

Chlorine in PDB 5dqd: Structure of S55-5 Fab in Complex with Lipid A Carbohydrate Backbone

Protein crystallography data

The structure of Structure of S55-5 Fab in Complex with Lipid A Carbohydrate Backbone, PDB code: 5dqd was solved by O.Haji-Ghassemi, S.V.Evans, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 24.09 / 1.94
Space group P 2 21 21
Cell size a, b, c (Å), α, β, γ (°) 56.385, 64.793, 129.771, 90.00, 90.00, 90.00
R / Rfree (%) 17.2 / 22.2

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Structure of S55-5 Fab in Complex with Lipid A Carbohydrate Backbone (pdb code 5dqd). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 2 binding sites of Chlorine where determined in the Structure of S55-5 Fab in Complex with Lipid A Carbohydrate Backbone, PDB code: 5dqd:
Jump to Chlorine binding site number: 1; 2;

Chlorine binding site 1 out of 2 in 5dqd

Go back to Chlorine Binding Sites List in 5dqd
Chlorine binding site 1 out of 2 in the Structure of S55-5 Fab in Complex with Lipid A Carbohydrate Backbone


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Structure of S55-5 Fab in Complex with Lipid A Carbohydrate Backbone within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Cl301

b:12.4
occ:1.00
O H:HOH468 3.0 20.9 1.0
O H:HOH434 3.1 29.1 1.0
N L:PHE98 3.2 8.8 1.0
N H:TRP47 3.3 10.9 1.0
CA L:THR97 3.6 10.2 1.0
CA H:GLU46 3.7 11.3 1.0
CD1 L:PHE98 3.8 11.6 1.0
C L:THR97 3.9 12.8 1.0
C H:GLU46 4.0 13.3 1.0
CB L:PHE98 4.1 10.1 1.0
O L:ARG96 4.1 11.9 1.0
O H:LEU45 4.1 15.4 1.0
CB L:THR97 4.2 14.0 1.0
CB H:TRP47 4.2 10.1 1.0
CA L:PHE98 4.2 11.0 1.0
CG H:GLU46 4.2 21.7 1.0
O L:HOH353 4.3 19.1 1.0
CA H:TRP47 4.4 13.8 1.0
CG2 L:THR97 4.4 14.7 1.0
CG L:PHE98 4.5 8.9 1.0
CB H:GLU46 4.5 15.6 1.0
O L:PHE98 4.6 8.3 1.0
O H:TRP47 4.7 11.8 1.0
N H:GLU46 4.7 14.0 1.0
N L:THR97 4.7 10.2 1.0
O H:HOH436 4.8 28.5 1.0
C H:LEU45 4.8 13.6 1.0
C L:ARG96 4.9 14.6 1.0
CE1 L:PHE98 4.9 11.3 1.0
C L:PHE98 4.9 12.6 1.0

Chlorine binding site 2 out of 2 in 5dqd

Go back to Chlorine Binding Sites List in 5dqd
Chlorine binding site 2 out of 2 in the Structure of S55-5 Fab in Complex with Lipid A Carbohydrate Backbone


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Structure of S55-5 Fab in Complex with Lipid A Carbohydrate Backbone within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Cl302

b:15.2
occ:1.00
NE H:ARG100 3.7 14.2 1.0
CZ H:ARG100 3.7 12.8 1.0
CD H:ARG100 3.7 12.3 1.0
NH1 H:ARG100 3.8 10.6 1.0
NH2 H:ARG100 4.3 10.3 1.0
O H:HOH454 4.6 18.7 1.0
CG H:ARG100 4.6 18.3 1.0

Reference:

O.Haji-Ghassemi, S.Muller-Loennies, T.Rodriguez, L.Brade, P.Kosma, H.Brade, S.V.Evans. Lipid A-Antibody Structures Reveal A Widely-Utilized Pocket Specific For Negatively Charged Groups Derived From Unrelated V-Genes J.Biol.Chem. 2015.
ISSN: ESSN 1083-351X
Page generated: Sat Dec 12 11:39:22 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy