SMTL ID : 5n99.2 (2 other biounits)

CRYSTAL STRUCTURE OF STREPTAVIDIN with cyclic peptide NQpWQ

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-tetramer

Ligands

4 x ASN- GLN- DPR- TRP- GLN: ASN-GLN-DPR-TRP-GLN(Non-covalent)

ASN-GLN-DPR-TRP-GLN.1: 14 residues within 4Å: Chain A: L.49, S.51, S.69, A.70, Y.78, W.103, R.108, N.109, A.110, S.112, T.114, W.132, L.134 Chain D: W.144 17 PLIP interactions: 3 interactions with chain D, 14 interactions with chain A Hydrophobic interactions: D:W.144, D:W.144, D:W.144, A:L.49, A:A.70, A:R.108, A:A.110 Hydrogen bonds: A:L.49, A:S.51, A:S.69, A:S.112, A:W.132 Water bridges: A:Y.78, A:R.108, A:R.108, A:S.136, A:S.136 ASN-GLN-DPR-TRP-GLN.2: 16 residues within 4Å: Chain B: L.49, S.51, S.69, A.70, N.73, Y.78, W.103, R.108, N.109, A.110, S.112, T.114, W.116, W.132, L.134 Chain C: W.144 20 PLIP interactions: 17 interactions with chain B, 3 interactions with chain C Hydrophobic interactions: B:A.70, B:R.108, B:A.110, C:W.144, C:W.144, C:W.144 Hydrogen bonds: B:L.49, B:S.51, B:S.69, B:S.112, B:T.114, B:W.132 Water bridges: B:N.47, B:Y.78, B:Y.78, B:Y.78, B:R.108, B:A.110, B:S.136, B:S.136 ASN-GLN-DPR-TRP-GLN.3: 15 residues within 4Å: Chain B: W.144 Chain C: L.49, S.51, S.69, A.70, Y.78, W.103, R.108, N.109, A.110, S.112, T.114, W.132, L.134, S.136 17 PLIP interactions: 14 interactions with chain C, 3 interactions with chain B Hydrophobic interactions: C:A.70, C:R.108, C:R.108, C:A.110, B:W.144, B:W.144, B:W.144 Hydrogen bonds: C:L.49, C:S.51, C:S.69, C:S.112, C:T.114, C:W.132 Water bridges: C:Y.78, C:R.108, C:A.110, C:S.136 ASN-GLN-DPR-TRP-GLN.4: 17 residues within 4Å: Chain A: W.144 Chain D: L.49, S.51, Y.67, S.69, A.70, Y.78, W.103, R.108, N.109, A.110, S.112, T.114, W.116, W.132, L.134, S.136 17 PLIP interactions: 14 interactions with chain D, 3 interactions with chain A Hydrophobic interactions: D:A.70, D:R.108, D:R.108, D:A.110, A:W.144, A:W.144, A:W.144 Hydrogen bonds: D:S.51, D:S.51, D:Y.67, D:S.69, D:S.112, D:W.132 Water bridges: D:Y.78, D:R.108, D:R.108, D:S.136

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lyamichev, V.I. et al., Stepwise Evolution Improves Identification of Diverse Peptides Binding to a Protein Target. Sci Rep (2017)

Release Date

2017-10-04

Peptides

Streptavidin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

B
I

C
K

D
Q

Streptavidin

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