SMTL ID : 6eg1.2 (1 other biounit)

Crystal structure of Dpr2 Ig1-Ig2 in complex with DIP-Theta Ig1-Ig3

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.95 Å

Oligo State

hetero-1-1-mer

Ligands

2 x NAG- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-FUC.1: 2 residues within 4Å: Chain A: N.15, N.105 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.105 NAG-NAG-FUC.4: 1 residues within 4Å: Chain B: N.160 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- BMA- MAN- FUC: alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-FUC.2: 6 residues within 4Å: Chain A: P.156, N.202, T.204, M.206, A.212, S.214 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:A.212

1 x NAG- NAG- BMA- FUC: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-FUC.3: 5 residues within 4Å: Chain B: N.11, T.13, W.82, Y.98, D.100 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:D.100, B:Y.98 Hydrogen bonds: B:D.100

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.5: 2 residues within 4Å: Chain B: N.217, Y.265 No protein-ligand interaction detected (PLIP)

2 x FLC: CITRATE ANION(Non-covalent)

FLC.6: 3 residues within 4Å: Chain A: I.116, H.136, K.138 5 PLIP interactions: 5 interactions with chain A Salt bridges: A:H.136, A:K.138, A:K.138, A:K.138, A:K.185 FLC.7: 4 residues within 4Å: Chain A: R.44, G.86, I.87, R.103 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:R.44 Hydrogen bonds: A:R.44, A:I.87 Water bridges: A:S.85 Salt bridges: A:R.103

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.8: 1 residues within 4Å: Chain A: L.123 1 PLIP interactions: 1 interactions with chain A Water bridges: A:Y.124 PEG.12: 2 residues within 4Å: Chain B: V.117, H.198 No protein-ligand interaction detected (PLIP)

2 x BU3: (R,R)-2,3-BUTANEDIOL(Non-covalent)

BU3.9: 3 residues within 4Å: Chain A: M.12, P.13, N.27 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:P.13, A:N.27 Hydrogen bonds: A:N.27 BU3.10: 2 residues within 4Å: Chain A: V.65, H.76 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:V.65

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.11: 2 residues within 4Å: Chain B: N.123, V.124 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cosmanescu, F. et al., Neuron-Subtype-Specific Expression, Interaction Affinities, and Specificity Determinants of DIP/Dpr Cell Recognition Proteins. Neuron (2018)

Release Date

2018-11-28

Peptides

Defective proboscis extension response 2, isoform F: A
Dpr-interacting protein theta: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Defective proboscis extension response 2, isoform F

Dpr-interacting protein theta

Related Entries With Identical Sequence