SMTL ID : 5ii8.1

Orthorhombic crystal structure of red abalone lysin at 0.99 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 0.99 Å

Oligo State

monomer

Ligands

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

SO4.1: 3 residues within 4Å: Chain A: K.35, R.38 Ligands: SO4.6 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.38 Salt bridges: A:K.35, A:R.38 SO4.2: 3 residues within 4Å: Chain A: K.11, N.14, K.15 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.15 Water bridges: A:N.14, A:A.16 Salt bridges: A:K.11 SO4.3: 1 residues within 4Å: Chain A: Y.102 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.102 SO4.4: 5 residues within 4Å: Chain A: F.12, V.133, K.134, Y.135, M.136 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.135, A:M.136 Salt bridges: A:K.134 SO4.5: 5 residues within 4Å: Chain A: W.70, K.74, E.93, R.97 Ligands: MES.14 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:W.70 Water bridges: A:R.97 Salt bridges: A:K.74, A:R.97 SO4.6: 3 residues within 4Å: Chain A: R.31, K.35 Ligands: SO4.1 4 PLIP interactions: 4 interactions with chain A Water bridges: A:K.35, A:K.35 Salt bridges: A:R.31, A:K.35 SO4.7: 3 residues within 4Å: Chain A: R.31, V.34, R.38 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.31, A:R.38 SO4.8: 3 residues within 4Å: Chain A: V.83, G.85, D.86 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.85, A:G.85 SO4.9: 3 residues within 4Å: Chain A: H.40, T.43, K.108 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.43, A:T.43 Water bridges: A:K.108 Salt bridges: A:H.40, A:K.108 SO4.10: 2 residues within 4Å: Chain A: V.8, E.9 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.9 SO4.11: 2 residues within 4Å: Chain A: K.15, A.16 3 PLIP interactions: 3 interactions with chain A Water bridges: A:K.15, A:A.16 Salt bridges: A:K.15 SO4.12: 4 residues within 4Å: Chain A: K.50, Y.116, E.121, R.125 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.116 Salt bridges: A:K.50, A:R.125 SO4.13: 2 residues within 4Å: Chain A: A.27, R.31 No protein-ligand interaction detected (PLIP)

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.14: 8 residues within 4Å: Chain A: N.66, Y.67, W.70, E.93, I.94, R.97, I.98 Ligands: SO4.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.97 Water bridges: A:W.70, A:W.70

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Raj, I. et al., Structural Basis of Egg Coat-Sperm Recognition at Fertilization. Cell (2017)

Release Date

2017-06-14

Peptides

Egg-lysin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Egg-lysin

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