SMTL ID : 3mq1.3 (3 other biounits)

Crystal Structure of Dust Mite Allergen Der p 5

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-dimer

Ligands

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

MPD.1: 3 residues within 4Å: Chain A: K.67, Q.74 Ligands: MRD.6 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.74 MPD.2: 6 residues within 4Å: Chain A: I.13, G.16, L.20, S.83 Chain B: I.9 Ligands: MRD.5 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:I.13, A:L.20, B:I.9 MPD.7: 3 residues within 4Å: Chain A: A.19, Y.22, E.45 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:A.19, A:Y.22, A:E.45 Hydrogen bonds: A:E.45 MPD.8: 6 residues within 4Å: Chain A: L.23, Q.24, L.91, E.94 Chain B: N.3, L.5 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.23, A:L.91 Hydrogen bonds: A:E.94 MPD.9: 9 residues within 4Å: Chain A: L.5, M.6, I.9 Chain B: L.20, L.23, Q.24, I.27, I.49, L.91 7 PLIP interactions: 5 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:L.20, B:L.23, B:I.49, B:L.91, A:L.5, A:L.5 Hydrogen bonds: B:Q.24 MPD.10: 2 residues within 4Å: Chain A: Y.22 Chain B: N.76 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:Y.22

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

MRD.3: 6 residues within 4Å: Chain A: L.63, E.73, N.76, L.77 Chain B: A.19, I.49 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:A.19, A:N.76, A:L.77 MRD.4: 1 residues within 4Å: Chain A: H.10 No protein-ligand interaction detected (PLIP) MRD.5: 5 residues within 4Å: Chain A: Q.12, I.13 Chain B: M.52, V.56 Ligands: MPD.2 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Q.12, A:I.13 MRD.6: 2 residues within 4Å: Chain A: K.67 Ligands: MPD.1 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:K.67

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mueller, G.A. et al., Der p 5 crystal structure provides insight into the group 5 dust mite allergens. J.Biol.Chem. (2010)

Release Date

2010-06-02

Peptides

Mite allergen Der p 5: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Mite allergen Der p 5

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