SMTL ID : 3fdc.1

Crystal Structure of Avidin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

homo-tetramer

Ligands

4 x BTF: iron(II) tetracyano-5-(2-Oxo-hexahydro-thieno[3,4-d]imidazol-6-yl)-pentanoic acid (4'-methyl-[2,2']bipyridinyl-4-ylmethyl)-amide(Non-covalent)

BTF.1: 14 residues within 4Å: Chain A: N.12, S.16, Y.33, T.35, T.38, A.39, W.70, S.73, S.75, T.77, W.97, L.99, N.118 Chain C: W.110 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:A.39, A:W.70 Hydrogen bonds: A:N.12, A:S.16, A:T.35, A:T.35, A:T.38, A:A.39, A:S.73, A:S.75, A:W.97, A:N.118 pi-Stacking: A:W.97 BTF.2: 22 residues within 4Å: Chain B: N.12, L.14, S.16, Y.33, T.35, V.37, T.38, A.39, T.40, S.41, N.42, W.70, S.73, E.74, S.75, T.77, W.97, L.99, S.101, S.102, N.118 Chain D: W.110 15 PLIP interactions: 13 interactions with chain B, 2 interactions with chain D, Hydrophobic interactions: B:V.37, B:A.39, B:L.99, D:W.110 Hydrogen bonds: B:N.12, B:S.16, B:T.35, B:T.35, B:A.39, B:T.40, B:S.73, B:S.75, B:W.97, B:N.118 pi-Stacking: D:W.110 BTF.3: 14 residues within 4Å: Chain A: W.110 Chain C: N.12, S.16, Y.33, T.35, T.38, A.39, W.70, S.73, S.75, T.77, W.97, L.99, N.118 13 PLIP interactions: 13 interactions with chain C Hydrophobic interactions: C:A.39, C:W.70 Hydrogen bonds: C:N.12, C:S.16, C:Y.33, C:T.35, C:T.35, C:A.39, C:S.73, C:S.75, C:W.97, C:N.118 pi-Stacking: C:W.97 BTF.4: 22 residues within 4Å: Chain B: W.110 Chain D: N.12, L.14, S.16, Y.33, T.35, V.37, T.38, A.39, T.40, S.41, N.42, W.70, S.73, E.74, S.75, T.77, W.97, L.99, S.101, S.102, N.118 14 PLIP interactions: 12 interactions with chain D, 2 interactions with chain B, Hydrophobic interactions: D:V.37, D:A.39, D:L.99, B:W.110 Hydrogen bonds: D:N.12, D:S.16, D:Y.33, D:T.35, D:A.39, D:S.73, D:S.75, D:W.97, D:N.118 pi-Stacking: B:W.110

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Barker, K.D. et al., Protein Binding and the Electronic Properties of Iron(II) Complexes: An Electrochemical and Optical Investigation of Outer Sphere Effects. Bioconjug.Chem. (2009)

Release Date

2009-12-01

Peptides

Avidin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Avidin

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