SMTL ID : 6oq4.1

Crystal Structure of the Ternary Complex of KRIT1 bound to both the Rap1 GTPase and HKi1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

hetero-1-1-mer

Ligands

1 x N0G: 2-{(Z)-[(2-hydroxynaphthalen-1-yl)methylidene]amino}-N-[(1S)-1-phenylethyl]benzamide(Non-covalent)

N0G.1: 12 residues within 4Å: Chain A: L.58, Q.59, K.61, Y.63, H.64, H.69, V.98, F.226, L.303, K.306, L.307, K.310 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:L.58, A:L.58, A:L.58, A:Q.59, A:K.61, A:V.98, A:F.226, A:K.306, A:L.307 Hydrogen bonds: A:K.61, A:K.61 pi-Cation interactions: A:K.61

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain B: S.17, T.35, D.57 Ligands: GNP.3 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:S.17, B:T.35, H2O.4, H2O.5

1 x GNP: PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER(Non-covalent)

GNP.3: 23 residues within 4Å: Chain B: G.12, G.13, V.14, G.15, K.16, S.17, A.18, F.28, V.29, E.30, Y.32, P.34, T.35, A.59, G.60, N.116, K.117, D.119, L.120, S.147, A.148, K.149 Ligands: MG.2 24 PLIP interactions: 24 interactions with chain B Hydrogen bonds: B:G.13, B:V.14, B:G.15, B:K.16, B:K.16, B:K.16, B:S.17, B:A.18, B:V.29, B:Y.32, B:T.35, B:T.35, B:G.60, B:N.116, B:K.117, B:K.117, B:A.148, B:K.149 Water bridges: B:S.17, B:D.33 Salt bridges: B:D.119 pi-Stacking: B:F.28, B:F.28 pi-Cation interactions: B:K.117

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lopez-Ramirez, M.A. et al., Inhibition of the HEG1-KRIT1 interaction increases KLF4 and KLF2 expression in endothelial cells. Faseb Bioadv (2021)

Release Date

2020-06-24

Peptides

Krev interaction trapped protein 1: A
Ras-related protein Rap-1b: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Krev interaction trapped protein 1

Ras-related protein Rap-1b

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