SMTL ID : 7r20.1

Anti-Arc nanobody E5

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.42 Å

Oligo State

monomer

Ligands

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 7 residues within 4Å: Chain A: Y.61, V.65, K.66, G.67, R.68, F.69, T.70 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.67, A:R.68, A:F.69 GOL.2: 6 residues within 4Å: Chain A: P.89, T.92, T.117, V.118, S.119, S.120 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.120, A:S.120 GOL.3: 3 residues within 4Å: Chain A: G.28, S.32, N.78 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.32, A:N.78, A:N.78 GOL.8: 7 residues within 4Å: Chain A: R.40, E.48, V.49, V.50, V.62, S.64 Ligands: SO4.6 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.40, A:R.40, A:V.49, A:S.64 Water bridges: A:R.40, A:E.90 GOL.9: 4 residues within 4Å: Chain A: R.21, T.70, S.72, Q.83 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.21, A:R.21, A:S.72 Water bridges: A:T.70, A:Q.83 GOL.10: 4 residues within 4Å: Chain A: Q.15, A.16, G.17, G.18 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.16

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 3 residues within 4Å: Chain A: G.11, G.12, L.13 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.13 SO4.5: 6 residues within 4Å: Chain A: Q.41, Q.46, R.47, Q.105, W.106, W.110 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:R.47, A:Q.105, A:W.110 Water bridges: A:Q.41, A:R.47, A:G.107, A:G.107 Salt bridges: A:R.47 SO4.6: 4 residues within 4Å: Chain A: V.62, D.63, S.64 Ligands: GOL.8 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.64 Water bridges: A:D.63, A:D.63 SO4.7: 5 residues within 4Å: Chain A: S.9, G.10, G.11, T.114, L.115 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.10, A:T.114, A:L.115 Water bridges: A:E.8

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Markusson, S. et al., High-affinity anti-Arc nanobodies provide tools for structural and functional studies. Plos One (2022)

Release Date

2022-06-01

Peptides

Anti-Arc nanobody E5: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Anti-Arc nanobody E5

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