SMTL ID : 4a83.1

Crystal Structure of Major Birch Pollen Allergen Bet v 1 a in complex with deoxycholate.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.54 Å

Oligo State

monomer

Ligands

2 x DXC: (3ALPHA,5BETA,12ALPHA)-3,12-DIHYDROXYCHOLAN-24-OIC ACID(Non-covalent)

DXC.1: 14 residues within 4Å: Chain A: F.58, F.62, P.63, F.64, P.90, L.95, I.98, Y.120, Q.132, V.133, A.135, S.136, M.139 Ligands: DXC.2 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:F.58, A:F.58, A:F.64, A:P.90, A:I.98, A:Y.120, A:Q.132, A:A.135, A:M.139 Hydrogen bonds: A:F.64, A:F.64 DXC.2: 18 residues within 4Å: Chain A: F.22, I.23, G.26, D.27, F.30, K.54, F.58, V.67, D.69, Y.81, Y.83, N.100, N.118, S.136, M.139, L.143 Ligands: DXC.1, MPD.8 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:F.22, A:F.30, A:F.58, A:V.67, A:Y.81, A:Y.83, A:L.143 Hydrogen bonds: A:I.23, A:Y.83, A:N.100 Water bridges: A:D.27 Salt bridges: A:K.54

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

SO4.3: 4 residues within 4Å: Chain A: E.8, T.9, T.10, R.145 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.9, A:T.10, A:T.10, A:R.145 SO4.4: 3 residues within 4Å: Chain A: S.39, P.59, E.60 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.60 SO4.5: 4 residues within 4Å: Chain A: G.1, V.2, H.121, T.122 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.122 Water bridges: A:H.121 Salt bridges: A:H.121 SO4.6: 4 residues within 4Å: Chain A: E.6, T.7, E.8, K.137 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:T.7, A:T.7, A:E.8 Water bridges: A:K.137, A:K.137 Salt bridges: A:K.137 SO4.7: 4 residues within 4Å: Chain A: R.145, E.148, S.149, L.152 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.145, A:E.148, A:S.149

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

MPD.8: 7 residues within 4Å: Chain A: T.9, F.22, Y.83, L.114, I.116, G.140 Ligands: DXC.2 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.114, A:I.116 Water bridges: A:E.141

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kofler, S. et al., Crystallographically Mapped Ligand Binding Differs in High and Low Ige Binding Isoforms of Birch Pollen Allergen Bet V 1. J.Mol.Biol. (2012)

Release Date

2012-05-30

Peptides

MAJOR POLLEN ALLERGEN BET V 1-A: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

MAJOR POLLEN ALLERGEN BET V 1-A

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