SMTL ID : 3tlr.1

Crystal Structure of the tetrameric Beta-2 microglobulin DIMC20 mutant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.45 Å

Oligo State

homo-tetramer

Ligands

10 x CD: CADMIUM ION(Non-covalent)

CD.1: 3 residues within 4Å: Chain A: M.1, H.32 Chain C: D.35 5 PLIP interactions: 2 interactions with chain A, 2 interactions with chain C, 1 Ligand-Water interactions Metal complexes: A:M.1, A:H.32, C:D.35, C:D.35, H2O.2 CD.2: 3 residues within 4Å: Chain A: E.51, E.70 Chain D: H.14 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain D Metal complexes: A:E.51, A:E.51, A:E.70, A:E.70, D:H.14 CD.3: 1 residues within 4Å: Chain A: E.17 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.17, A:E.17 CD.5: 2 residues within 4Å: Chain B: H.14 Chain C: E.70 3 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: B:H.14, C:E.70, H2O.2 CD.6: 3 residues within 4Å: Chain B: M.1, H.32 Chain D: D.35 5 PLIP interactions: 2 interactions with chain B, 2 interactions with chain D, 1 Ligand-Water interactions Metal complexes: B:M.1, B:H.32, D:D.35, D:D.35, H2O.3 CD.7: 4 residues within 4Å: Chain B: E.48, T.69, E.70 Chain C: H.14 4 PLIP interactions: 1 interactions with chain C, 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: C:H.14, B:E.48, B:E.70, H2O.3 CD.8: 1 residues within 4Å: Chain B: E.17 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:E.17, B:E.17 CD.10: 3 residues within 4Å: Chain A: D.35 Chain C: M.1, H.32 5 PLIP interactions: 2 interactions with chain C, 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: C:M.1, C:H.32, A:D.35, A:D.35, H2O.1 CD.11: 3 residues within 4Å: Chain B: D.35 Chain D: M.1, H.32 5 PLIP interactions: 2 interactions with chain B, 2 interactions with chain D, 1 Ligand-Water interactions Metal complexes: B:D.35, B:D.35, D:M.1, D:H.32, H2O.1 CD.12: 3 residues within 4Å: Chain A: H.14 Chain D: E.51, E.70 5 PLIP interactions: 4 interactions with chain D, 1 interactions with chain A Metal complexes: D:E.51, D:E.51, D:E.70, D:E.70, A:H.14

2 x NA: SODIUM ION(Non-functional Binders)

NA.4: 2 residues within 4Å: Chain A: D.97, D.99 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.97 NA.9: 2 residues within 4Å: Chain B: D.97, D.99 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.97, B:D.99

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Colombo, M. et al., A recurrent D-strand association interface is observed in beta-2 microglobulin oligomers. Febs J. (2012)

Release Date

2012-09-05

Peptides

Beta-2-microglobulin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Beta-2-microglobulin