SMTL ID : 5jd2.1

SFX structure of corestreptavidin-selenobiotin complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-tetramer

Ligands

4 x BYY: 5-[(3aS,4S,6aR)-2-oxohexahydro-1H-selenopheno[3,4-d]imidazol-4-yl]pentanoic acid(Non-covalent)

BYY.1: 16 residues within 4Å: Chain A: N.8, L.10, S.12, Y.28, S.30, V.32, G.33, N.34, W.64, A.71, S.73, T.75, W.77, W.93, D.113 Chain C: W.105 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:W.64, A:W.64, A:W.64 Hydrogen bonds: A:N.8, A:S.12, A:Y.28, A:S.30, A:N.34, A:S.73, A:D.113 BYY.2: 17 residues within 4Å: Chain B: N.8, L.10, S.12, Y.28, S.30, V.32, G.33, N.34, A.35, W.64, A.71, S.73, T.75, W.77, W.93, D.113 Chain D: W.105 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:A.35, B:W.64, B:W.64, B:W.64 Hydrogen bonds: B:N.8, B:S.12, B:S.30, B:N.34, B:S.73, B:S.73, B:D.113 Water bridges: B:S.97 BYY.3: 16 residues within 4Å: Chain A: W.105 Chain C: N.8, S.12, Y.28, S.30, V.32, G.33, N.34, A.35, W.64, A.71, S.73, T.75, W.77, W.93, D.113 12 PLIP interactions: 12 interactions with chain C Hydrophobic interactions: C:A.35, C:W.64, C:W.64, C:W.64 Hydrogen bonds: C:N.8, C:S.12, C:Y.28, C:S.30, C:N.34, C:S.73, C:S.73, C:D.113 BYY.4: 12 residues within 4Å: Chain B: W.105 Chain D: N.8, S.12, Y.28, V.32, W.64, A.71, S.73, T.75, W.77, W.93, D.113 6 PLIP interactions: 6 interactions with chain D Hydrophobic interactions: D:W.64, D:W.64 Hydrogen bonds: D:N.8, D:S.12, D:S.73, D:D.113

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hunter, M.S. et al., Selenium single-wavelength anomalous diffraction de novo phasing using an X-ray-free electron laser. Nat Commun (2016)

Release Date

2016-11-16

Peptides

Streptavidin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Streptavidin

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