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Cadmium in PDB 1m05: Hla B8 in Complex with An Epstein Barr Virus Determinant

Protein crystallography data

The structure of Hla B8 in Complex with An Epstein Barr Virus Determinant, PDB code: 1m05 was solved by L.Kjer-Nielsen, C.S.Clements, A.G.Brooks, A.W.Purcell, M.R.Fontes, J.Mccluskey, J.Rossjohn, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 1.90
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 85.400, 90.100, 125.300, 90.00, 90.00, 90.00
R / Rfree (%) 24.2 / 28.3

Cadmium Binding Sites:

The binding sites of Cadmium atom in the Hla B8 in Complex with An Epstein Barr Virus Determinant (pdb code 1m05). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 2 binding sites of Cadmium where determined in the Hla B8 in Complex with An Epstein Barr Virus Determinant, PDB code: 1m05:
Jump to Cadmium binding site number: 1; 2;

Cadmium binding site 1 out of 2 in 1m05

Go back to Cadmium Binding Sites List in 1m05
Cadmium binding site 1 out of 2 in the Hla B8 in Complex with An Epstein Barr Virus Determinant


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Hla B8 in Complex with An Epstein Barr Virus Determinant within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd101

b:24.3
occ:1.00
OE2 B:GLU36 2.4 24.6 1.0
OD1 B:ASP38 2.5 27.2 1.0
OD2 B:ASP38 2.6 20.1 1.0
CG B:ASP38 2.9 23.0 1.0
CD B:GLU36 3.4 23.4 1.0
CG B:GLU36 3.6 20.5 1.0
NE B:ARG45 4.0 31.7 1.0
CB B:ASP38 4.4 23.3 1.0
O B:VAL37 4.4 22.6 1.0
OE1 B:GLU36 4.5 26.2 1.0
O B:HOH130 4.6 31.4 1.0
CD B:ARG45 4.6 32.4 1.0
NH2 B:ARG81 4.6 38.1 1.0
O B:HOH128 4.8 30.4 1.0
C B:VAL37 4.9 22.9 1.0
CZ B:ARG45 5.0 32.1 1.0

Cadmium binding site 2 out of 2 in 1m05

Go back to Cadmium Binding Sites List in 1m05
Cadmium binding site 2 out of 2 in the Hla B8 in Complex with An Epstein Barr Virus Determinant


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Hla B8 in Complex with An Epstein Barr Virus Determinant within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cd101

b:25.0
occ:1.00
OE2 D:GLU36 2.5 27.0 1.0
OD1 D:ASP38 2.5 25.7 1.0
OD2 D:ASP38 2.6 23.5 1.0
CG D:ASP38 2.9 22.5 1.0
CD D:GLU36 3.4 25.1 1.0
CG D:GLU36 3.6 23.8 1.0
NE D:ARG45 4.0 30.2 1.0
O D:HOH115 4.1 34.8 1.0
CB D:ASP38 4.4 23.5 1.0
O D:HOH122 4.4 32.6 1.0
NH2 D:ARG81 4.5 38.6 1.0
O D:VAL37 4.5 25.7 1.0
OE1 D:GLU36 4.6 25.8 1.0
CD D:ARG45 4.6 31.9 1.0
O D:HOH133 4.7 25.0 1.0
C D:VAL37 4.9 23.6 1.0
CZ D:ARG45 5.0 30.7 1.0

Reference:

L.Kjer-Nielsen, C.S.Clements, A.G.Brooks, A.W.Purcell, M.R.Fontes, J.Mccluskey, J.Rossjohn. The Structure of Hla-B8 Complexed to An Immunodominant Viral Determinant: Peptide-Induced Conformational Changes and A Mode of Mhc Class I Dimerization. J.Immunol. V. 169 5153 2003.
ISSN: ISSN 0022-1767
PubMed: 12391232
Page generated: Fri Aug 28 12:09:02 2020
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