SMTL ID : 9sea.1

Mouse otoferlin (216-1931) in complex with a lipid nanodisc (comprising 25% PS and 5% PIP2)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

monomer

Ligands

9 x CA: CALCIUM ION(Non-covalent)

CA.1: 7 residues within 4Å: Chain A: D.1339, D.1345, D.1394, W.1395, D.1396 Ligands: CA.4, PSF.11 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.1339, A:D.1345, A:D.1394, A:W.1395, A:D.1396 CA.2: 6 residues within 4Å: Chain A: D.826, D.832, D.888, Q.889, D.890 Ligands: CA.7 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.826, A:D.832, A:D.888, A:Q.889, A:D.890 CA.4: 7 residues within 4Å: Chain A: A.1338, D.1339, D.1394, D.1396, D.1402 Ligands: CA.1, PSF.3 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:A.1338, A:D.1339, A:D.1396, A:D.1396, A:D.1402 CA.5: 5 residues within 4Å: Chain A: N.283, D.303, D.351, S.352, D.353 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.303, A:D.351, A:S.352 CA.6: 7 residues within 4Å: Chain A: E.1578, D.1579, D.1665, D.1667, D.1673 Ligands: CA.9, CA.10 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.1578, A:D.1579, A:D.1665, A:D.1667, A:D.1673 CA.7: 6 residues within 4Å: Chain A: A.825, D.826, D.888, D.890, D.896 Ligands: CA.2 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:A.825, A:D.826, A:D.888, A:D.890, A:D.896 CA.8: 4 residues within 4Å: Chain A: D.1396, T.1400, D.1402 Ligands: PSF.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.1396, A:T.1400, A:D.1402 CA.9: 5 residues within 4Å: Chain A: D.1667, S.1670, A.1671, D.1673 Ligands: CA.6 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.1667, A:S.1670, A:A.1671, A:D.1673, A:D.1673 CA.10: 6 residues within 4Å: Chain A: D.1579, D.1590, D.1665, A.1666, D.1667 Ligands: CA.6 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.1579, A:D.1665, A:D.1665, A:A.1666, A:D.1667

2 x PSF: 1,2-DICAPROYL-SN-PHOSPHATIDYL-L-SERINE(Non-covalent)

PSF.3: 8 residues within 4Å: Chain A: A.1338, D.1339, I.1340, D.1396, V.1398, D.1402 Ligands: CA.4, CA.8 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.1398 Hydrogen bonds: A:A.1338, A:D.1339 PSF.11: 11 residues within 4Å: Chain A: D.1339, D.1345, K.1366, W.1395, D.1396, L.1397, F.1646, S.1647, W.1648, D.1649 Ligands: CA.1 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.1397, A:F.1646 Hydrogen bonds: A:D.1339, A:L.1397, A:W.1648, A:D.1649 Salt bridges: A:K.1366

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, H. et al., Structure and function of otoferlin, a synaptic protein of sensory hair cells essential for hearing. Sci Adv (2025)

Release Date

2025-11-05

Peptides

Otoferlin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Otoferlin

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