SMTL ID : 7r86.1 (1 other biounit)

Structure of mouse BAI1 (ADGRB1) in complex with mouse Nogo receptor (RTN4R)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

hetero-1-1-mer

Ligands

1 x FUC- BGC: beta-D-glucopyranose-(1-3)-alpha-L-fucopyranose(Post Translational Modification)

FUC-BGC.1: 9 residues within 4Å: Chain A: H.162, H.186, F.210 Chain B: S.15, T.16, C.17, A.51, C.53 Ligands: EDO.10 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.15 Water bridges: B:T.16 Hydrophobic interactions: B:A.51

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

NAG.2: 3 residues within 4Å: Chain A: A.130, A.131, N.155 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:A.131 Water bridges: A:A.131, A:N.155 NAG.3: 4 residues within 4Å: Chain A: A.33, S.34, S.55, N.58 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.58

1 x PAB: 4-AMINOBENZOIC ACID(Non-covalent)

PAB.4: 4 residues within 4Å: Chain A: Y.10, R.37, F.39, W.63 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.39 Salt bridges: A:R.37

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.5: 7 residues within 4Å: Chain A: Q.143, A.144, L.145, P.146, P.167, S.168, P.170 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.145 Water bridges: A:D.147, A:S.168

6 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.6: 7 residues within 4Å: Chain A: F.102, H.103, G.104, L.105, R.127, G.128, L.129 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.104, A:L.105, A:G.128 Water bridges: A:H.103 EDO.7: 7 residues within 4Å: Chain A: P.218, A.219, V.221, L.222, P.246, L.247, W.250 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:V.221, A:L.222 Water bridges: A:P.246, A:W.250 EDO.8: 6 residues within 4Å: Chain A: A.51, S.52, F.53, Q.54, S.55, C.56 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.54, A:S.55 EDO.9: 3 residues within 4Å: Chain A: A.74, D.98, T.100 No protein-ligand interaction detected (PLIP) EDO.10: 6 residues within 4Å: Chain A: Q.138, D.139, H.162 Chain B: L.52 Ligands: FUC-BGC.1, FUC-BGC.1 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:Q.138, B:L.52 Water bridges: A:D.139, A:D.139 EDO.14: 6 residues within 4Å: Chain A: R.182 Chain B: R.22, K.46, F.47, C.48, N.49 6 PLIP interactions: 2 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:R.182, A:R.182, B:R.22, B:R.22, B:N.49, B:N.49

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.11: 6 residues within 4Å: Chain A: Y.208, Y.230, R.232 Chain B: L.12, C.13, R.22 Ligand excluded by PLIP

2 x MAN: alpha-D-mannopyranose(Post Translational Modification)

MAN.12: 5 residues within 4Å: Chain A: Q.229, Y.230 Chain B: P.9, W.10, K.46 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:Q.229, A:Y.230, B:W.10, B:W.10, B:K.46 MAN.13: 3 residues within 4Å: Chain B: E.6, W.7, R.24 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:E.6, B:W.7, B:W.7, B:R.24, B:R.24

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, J. et al., RTN4/NoGo-receptor binding to BAI adhesion-GPCRs regulates neuronal development. Cell (2021)

Release Date

2021-11-10

Peptides

Reticulon-4 receptor: A
Vasculostatin-120: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Reticulon-4 receptor

Vasculostatin-120

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