SMTL ID : 5czx.1 (1 other biounit)

Crystal structure of Notch3 NRR in complex with 20358 Fab

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

hetero-1-1-1-mer

Ligands

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

NAG.1: 5 residues within 4Å: Chain A: N.61, N.62, V.240, R.242 Chain C: S.67 4 PLIP interactions: 1 interactions with chain C, 3 interactions with chain A Hydrogen bonds: C:S.67, A:V.240, A:R.242 Water bridges: A:R.242

3 x CA: CALCIUM ION(Non-covalent)

CA.2: 6 residues within 4Å: Chain A: K.18, D.21, R.23, D.25, D.36, D.39 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.21, A:R.23, A:D.25, A:D.36, A:D.39 CA.3: 5 residues within 4Å: Chain A: L.59, N.62, R.64, D.66, D.77 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:L.59, A:R.64, A:D.66, A:D.77, A:D.77 CA.4: 6 residues within 4Å: Chain A: H.101, D.104, R.106, D.108, D.119, D.122 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:H.101, A:D.104, A:R.106, A:D.108, A:D.122

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

EDO.5: 6 residues within 4Å: Chain A: T.89, P.92 Chain B: Y.104 Chain C: Y.32, A.91, Y.92 1 PLIP interactions: 1 interactions with chain A Water bridges: A:C.90 EDO.6: 6 residues within 4Å: Chain A: F.102, G.120, L.121, S.165, L.166, R.167 1 PLIP interactions: 1 interactions with chain A Water bridges: A:R.167 EDO.7: 5 residues within 4Å: Chain A: C.90, E.95, Q.156, R.157, A.160 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.156 Water bridges: A:R.157 EDO.9: 2 residues within 4Å: Chain B: Q.1, G.26 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.26 EDO.11: 8 residues within 4Å: Chain C: Q.37, K.45, L.47, P.59, R.61, F.62, E.81, D.82 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:Q.37, C:K.45, C:K.45, C:R.61, C:E.81, C:D.82

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

CL.8: 2 residues within 4Å: Chain B: F.29, R.98 Ligand excluded by PLIP CL.10: 4 residues within 4Å: Chain C: Q.38, K.39, G.41, K.42 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bernasconi-Elias, P. et al., Characterization of activating mutations of NOTCH3 in T-cell acute lymphoblastic leukemia and anti-leukemic activity of NOTCH3 inhibitory antibodies. Oncogene (2016)

Release Date

2016-06-01

Peptides

Neurogenic locus notch homolog protein 3: A
20358 Fab heavy chain: B
20358 Fab light chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
H

C
L

Neurogenic locus notch homolog protein 3

20358 Fab heavy chain

20358 Fab light chain

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