SMTL ID : 3ry1.1

Wild-type core streptavidin at atomic resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.03 Å

Oligo State

homo-tetramer

Ligands

3 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.1: 6 residues within 4Å: Chain A: G.36, N.37, W.67, S.76, S.100, L.112 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:W.67, A:L.112 Hydrogen bonds: A:N.37 MPD.4: 5 residues within 4Å: Chain B: Y.42, W.67, R.72, A.74 Ligands: MRD.3 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:Y.42, B:W.67 Water bridges: B:A.74 MPD.10: 11 residues within 4Å: Chain A: W.108 Chain D: N.11, S.15, Y.31, W.67, T.78, W.80, W.96, L.98, D.116 Ligands: MRD.9 8 PLIP interactions: 7 interactions with chain D, 1 interactions with chain A Hydrophobic interactions: D:T.78, D:W.96, D:W.96, D:L.98, A:W.108 Hydrogen bonds: D:T.78, D:T.78 Water bridges: D:N.11

7 x MRD: (4R)-2-METHYLPENTANE-2,4-DIOL(Non-functional Binders)

MRD.2: 10 residues within 4Å: Chain A: N.11, L.13, V.35, W.67, T.78, W.80, W.96, L.98, D.116 Chain D: W.108 11 PLIP interactions: 8 interactions with chain A, 3 interactions with chain D Hydrophobic interactions: A:L.13, A:V.35, A:W.67, A:W.96, D:W.108, D:W.108, D:W.108 Hydrogen bonds: A:N.11, A:T.78, A:T.78, A:W.80 MRD.3: 6 residues within 4Å: Chain B: Y.42, W.67, R.72, A.74 Ligands: MPD.4, MRD.5 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:W.67, B:A.74 MRD.5: 8 residues within 4Å: Chain B: L.13, W.67, T.78, W.80, W.96, L.98, D.116 Ligands: MRD.3 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:L.13, B:W.67, B:W.96 Hydrogen bonds: B:Y.31, B:T.78, B:T.78, B:W.80 MRD.6: 6 residues within 4Å: Chain C: S.33, Y.42, W.67, A.74, S.76 Ligands: MRD.7 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:W.67, C:A.74 MRD.7: 7 residues within 4Å: Chain C: L.13, W.67, T.78, W.80, W.96, L.98 Ligands: MRD.6 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:L.13, C:W.67, C:T.78, C:W.96 Hydrogen bonds: C:Y.31, C:T.78, C:W.80 Water bridges: C:N.11 MRD.8: 5 residues within 4Å: Chain A: W.108 Chain D: W.67, A.74, S.76, L.98 4 PLIP interactions: 4 interactions with chain D Hydrophobic interactions: D:W.67, D:W.67, D:A.74, D:L.98 MRD.9: 9 residues within 4Å: Chain A: W.108 Chain D: L.13, W.67, T.78, W.80, W.96, L.98, D.116 Ligands: MPD.10 8 PLIP interactions: 6 interactions with chain D, 2 interactions with chain A Hydrophobic interactions: D:L.13, D:T.78, D:W.80, A:W.108, A:W.108 Hydrogen bonds: D:T.78, D:W.80 Water bridges: D:N.11

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Le Trong, I. et al., Streptavidin and its biotin complex at atomic resolution. Acta Crystallogr.,Sect.D (2011)

Release Date

2011-08-24

Peptides

Streptavidin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Streptavidin

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