SMTL ID : 4a8u.1

Crystal Structure of native Birch Pollen Allergen Bet v 1 isoform j

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.16 Å

Oligo State

monomer

Ligands

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

MPD.1: 5 residues within 4Å: Chain A: F.58, V.67, D.69, Y.83 Ligands: MPD.2 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.58 Hydrogen bonds: A:D.69, A:Y.83 Water bridges: A:N.100 MPD.2: 9 residues within 4Å: Chain A: F.58, F.64, V.67, P.90, I.98, A.135, S.136, M.139 Ligands: MPD.1 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.58, A:F.64, A:V.67, A:M.139 Water bridges: A:Y.120, A:S.136 MPD.3: 10 residues within 4Å: Chain A: G.26, D.27, F.30, V.41, K.54, D.69, Y.81, Y.83 Ligands: TRS.11, MRD.12 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:F.30, A:F.30, A:V.41, A:K.54, A:D.69, A:Y.81, A:Y.83 Hydrogen bonds: A:Y.81 Water bridges: A:G.26, A:D.27

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

SO4.4: 3 residues within 4Å: Chain A: E.6, T.7, E.8 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.7, A:T.7, A:E.8 SO4.5: 5 residues within 4Å: Chain A: E.8, A.9, T.10, E.141, R.145 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.10, A:T.10 Water bridges: A:T.10 Salt bridges: A:R.145 SO4.6: 2 residues within 4Å: Chain A: K.134, E.138 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.134 SO4.7: 4 residues within 4Å: Chain A: R.145, E.148, S.149, L.152 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.145, A:E.148 SO4.8: 4 residues within 4Å: Chain A: S.149, Y.150, A.153, H.154 4 PLIP interactions: 4 interactions with chain A Water bridges: A:S.149, A:S.149, A:Y.150 Salt bridges: A:H.154 SO4.9: 2 residues within 4Å: Chain A: L.24, H.76 3 PLIP interactions: 3 interactions with chain A Water bridges: A:H.76 Salt bridges: A:K.20, A:H.76 SO4.10: 1 residues within 4Å: Chain A: E.45 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.45 SO4.13: 0 residues within 4Å: (No contacts) 1 PLIP interactions: 1 interactions with chain A Water bridges: A:Q.36

1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.11: 7 residues within 4Å: Chain A: I.23, D.27, G.48, K.54, V.74, Y.81 Ligands: MPD.3 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.81 Water bridges: A:G.26, A:D.27, A:G.48

1 x MRD: (4R)-2-METHYLPENTANE-2,4-DIOL(Non-functional Binders)

MRD.12: 6 residues within 4Å: Chain A: F.22, Y.83, I.102, I.116, G.140 Ligands: MPD.3 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.22, A:F.22, A:Y.83, A:I.116 Hydrogen bonds: A:Y.83, A:Y.83 Water bridges: A:Y.83

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-J: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

MAJOR POLLEN ALLERGEN BET V 1-J

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