SMTL ID : 5czx.2 (1 other biounit)

Crystal structure of Notch3 NRR in complex with 20358 Fab

Coordinates

PDB Format

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: 3 residues within 4Å: Chain A: N.61, V.240 Chain C: S.67 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain A Hydrogen bonds: C:S.67, A:N.61

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:K.18, A:D.25, A:D.36, 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: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:R.64, A:D.66, A:D.77, A:D.77, H2O.1 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: 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:E.95 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.8: 6 residues within 4Å: Chain B: L.147, V.175, S.183, L.184, S.185 Chain C: T.178 5 PLIP interactions: 2 interactions with chain C, 3 interactions with chain B Hydrogen bonds: C:T.178, B:S.185 Water bridges: C:S.176, B:S.185, B:S.185 EDO.9: 6 residues within 4Å: Chain C: T.197, H.198, L.201, S.202, S.203, P.204 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:H.198, C:H.198, C:S.202 EDO.10: 7 residues within 4Å: Chain C: Q.37, K.45, L.47, P.59, F.62, E.81, D.82 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:Q.37, C:K.45, C:D.82, C:D.82

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

CL.7: 3 residues within 4Å: Chain B: T.28, F.29, R.98 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
B

B
C

C
D

Neurogenic locus notch homolog protein 3

20358 Fab heavy chain

20358 Fab light chain

Related Entries With Identical Sequence