SMTL ID : 4zlp.1

Crystal Structure of Notch3 Negative Regulatory Region

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.48 Å

Oligo State

homo-dimer

Ligands

1 x NAG- NAG- MAN- MAN: alpha-D-mannopyranose-(1-6)-alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-MAN-MAN.1: 4 residues within 4Å: Chain A: N.61, V.240, E.241, R.242 No protein-ligand interaction detected (PLIP)

6 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: 6 residues within 4Å: Chain A: L.59, N.62, R.64, D.66, D.77, D.80 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:L.59, A:R.64, A:D.66, A:D.77, A:D.80 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:R.106, A:D.108, A:D.119, A:D.122 CA.9: 5 residues within 4Å: Chain B: D.21, R.23, D.25, D.36, D.39 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.21, B:R.23, B:D.25, B:D.36, B:D.39 CA.10: 6 residues within 4Å: Chain B: L.59, N.62, R.64, D.66, D.77, D.80 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:L.59, B:R.64, B:D.66, B:D.77, B:D.80 CA.11: 6 residues within 4Å: Chain B: H.101, D.104, R.106, D.108, D.119, D.122 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:H.101, B:R.106, B:D.108, B:D.119, B:D.122

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 5 residues within 4Å: Chain A: C.214, L.215, Q.216, S.217, N.220 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:C.214, A:Q.216, A:Q.216, A:S.217, A:S.217, A:N.220 GOL.6: 7 residues within 4Å: Chain A: N.78, R.88, I.161, L.237, R.242, L.243, D.244 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.78, A:R.242, A:D.244, A:D.244 Water bridges: A:R.88 GOL.13: 4 residues within 4Å: Chain B: N.112, C.123, A.124, L.213 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.112

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.7: 7 residues within 4Å: Chain A: R.133, G.134, D.226, A.227, Q.228, G.254, E.255 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.227, A:Q.228, A:E.255 ACT.8: 6 residues within 4Å: Chain A: H.82, E.87, E.114, R.163, L.215, H.222 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.215 Hydrogen bonds: A:E.114, A:R.163

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

NAG.12: 4 residues within 4Å: Chain B: N.61, V.240, E.241, R.242 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:V.240, B:E.241

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xu, X. et al., Insights into Autoregulation of Notch3 from Structural and Functional Studies of Its Negative Regulatory Region. Structure (2015)

Release Date

2015-08-19

Peptides

Neurogenic locus notch homolog protein 3: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Neurogenic locus notch homolog protein 3

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