SMTL ID : 1ldq.1

avidin-homobiotin complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-tetramer

Ligands

4 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1: 5 residues within 4Å: Chain A: G.15, N.17, T.34, A.36, L.123 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.17 NAG.3: 4 residues within 4Å: Chain B: G.15, N.17, T.34, L.123 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.15, B:N.17 NAG.5: 5 residues within 4Å: Chain C: G.15, N.17, T.34, A.36, L.123 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.17 NAG.7: 4 residues within 4Å: Chain D: G.15, N.17, T.34, L.123 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:G.15, D:N.17

4 x SHM: HOMOBIOTIN(Non-covalent)

SHM.2: 10 residues within 4Å: Chain A: N.12, L.14, S.16, Y.33, W.70, T.77, W.97, L.99, N.118 Chain C: W.110 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:W.70, A:L.99 Hydrogen bonds: A:N.12, A:S.16, A:N.118 SHM.4: 12 residues within 4Å: Chain B: N.12, L.14, S.16, Y.33, W.70, F.72, T.77, W.97, L.99, R.114, N.118 Chain D: W.110 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:W.70, B:F.72, B:L.99 Hydrogen bonds: B:N.12, B:S.16, B:Y.33, B:N.118 Salt bridges: B:R.114 SHM.6: 10 residues within 4Å: Chain A: W.110 Chain C: N.12, L.14, S.16, Y.33, W.70, T.77, W.97, L.99, N.118 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:W.70, C:L.99 Hydrogen bonds: C:N.12, C:S.16, C:N.118 SHM.8: 12 residues within 4Å: Chain B: W.110 Chain D: N.12, L.14, S.16, Y.33, W.70, F.72, T.77, W.97, L.99, R.114, N.118 8 PLIP interactions: 8 interactions with chain D Hydrophobic interactions: D:W.70, D:F.72, D:L.99 Hydrogen bonds: D:N.12, D:S.16, D:Y.33, D:N.118 Salt bridges: D:R.114

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pazy, Y. et al., Ligand exchange between proteins: exchange of biotin and biotin derivatives between avidin and streptavidin. J.Biol.Chem. (2002)

Release Date

2002-11-06

Peptides

Avidin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Avidin

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