SMTL ID : 3p3n.1

Factor inhibiting HIF-1 Alpha in complex with Notch 1 fragment mouse notch (1930-1949) peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

hetero-2-2-mer

Ligands

2 x FE2: FE (II) ION(Non-covalent)

FE2.1: 4 residues within 4Å: Chain A: H.199, D.201, H.279 Ligands: AKG.4 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.199, A:D.201, A:H.279, H2O.3 FE2.9: 4 residues within 4Å: Chain C: H.199, D.201, H.279 Ligands: AKG.12 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:H.199, C:D.201, C:H.279, H2O.9

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 4 residues within 4Å: Chain A: R.138, G.140, E.141, E.142 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.141, A:E.142 Salt bridges: A:R.138 SO4.3: 3 residues within 4Å: Chain A: K.311, A.312 Ligands: GOL.8 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.312 SO4.10: 4 residues within 4Å: Chain C: R.138, G.140, E.141, E.142 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:E.141, C:E.142 Salt bridges: C:R.138 SO4.11: 3 residues within 4Å: Chain C: K.311, A.312 Ligands: GOL.16 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:A.312

2 x AKG: 2-OXOGLUTARIC ACID(Non-covalent)

AKG.4: 13 residues within 4Å: Chain A: Y.145, L.188, T.196, H.199, D.201, N.205, F.207, K.214, H.279, I.281, N.294, W.296 Ligands: FE2.1 11 PLIP interactions: 10 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:L.188, A:T.196, A:F.207, A:I.281 Hydrogen bonds: A:Y.145, A:T.196, A:N.205, A:N.294 Salt bridges: A:K.214, A:H.279 Water bridges: B:N.16 AKG.12: 13 residues within 4Å: Chain C: Y.145, L.188, T.196, H.199, D.201, N.205, F.207, K.214, H.279, I.281, N.294, W.296 Ligands: FE2.9 11 PLIP interactions: 10 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: C:L.188, C:T.196, C:F.207, C:I.281 Hydrogen bonds: C:Y.145, C:N.205, C:N.294 Water bridges: C:T.196, D:N.16 Salt bridges: C:K.214, C:H.279

8 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 7 residues within 4Å: Chain A: K.99, L.101, Y.230, S.240, Q.241, V.242, D.243 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.230, A:Y.230 Water bridges: A:F.244 GOL.6: 4 residues within 4Å: Chain A: F.224, K.315, M.319 Chain C: T.342 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain C Water bridges: A:E.225, C:T.342 Hydrogen bonds: C:T.342 GOL.7: 3 residues within 4Å: Chain A: I.42, P.43, R.44 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.44 GOL.8: 7 residues within 4Å: Chain A: N.58, E.60, P.220, D.222, Y.261, W.277 Ligands: SO4.3 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.58, A:Y.261 Water bridges: A:D.222, A:D.222 GOL.13: 7 residues within 4Å: Chain C: K.99, L.101, Y.230, S.240, Q.241, V.242, D.243 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:Y.230 Water bridges: C:F.244 GOL.14: 4 residues within 4Å: Chain A: T.342 Chain C: F.224, K.315, M.319 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain C Water bridges: A:T.342, C:E.225, C:E.225 GOL.15: 3 residues within 4Å: Chain C: I.42, P.43, R.44 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:R.44 GOL.16: 7 residues within 4Å: Chain C: N.58, E.60, P.220, D.222, Y.261, W.277 Ligands: SO4.11 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:N.58, C:Y.261, C:Y.261 Water bridges: C:D.222, C:D.222

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Coleman, M.L. et al., Asparaginyl hydroxylation of the Notch ankyrin repeat domain by factor inhibiting hypoxia-inducible factor. J.Biol.Chem. (2007)

Release Date

2010-11-24

Peptides

Hypoxia-inducible factor 1-alpha inhibitor: AC
Notch 1 protein: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

B
B

D
B

Hypoxia-inducible factor 1-alpha inhibitor

Notch 1 protein

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