SMTL ID : 7g94.1

ARHGEF2 PanDDA analysis group deposition -- ARHGEF2 and RhoA in complex with Z1575337975

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.47 Å

Oligo State

hetero-1-1-mer

Ligands

3 x ZC9: (2P)-5-fluoro-2-(1H-pyrazol-5-yl)pyridine(Non-covalent)

ZC9.1: 7 residues within 4Å: Chain A: D.68, R.71, P.72, P.102, E.103, H.106, F.107 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:E.103 Water bridges: A:H.106 pi-Stacking: A:F.107 ZC9.9: 4 residues within 4Å: Chain A: T.38 Chain B: L.193, S.196, R.197 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:R.197, B:R.197 Hydrogen bonds: B:R.197 pi-Cation interactions: B:R.197 ZC9.10: 2 residues within 4Å: Chain B: K.52, R.56 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.56 pi-Cation interactions: B:R.56

4 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.2: 3 residues within 4Å: Chain A: R.146, Y.157, E.159 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.146 Salt bridges: A:E.159 DMS.11: 3 residues within 4Å: Chain B: Q.100, A.101, L.102 No protein-ligand interaction detected (PLIP) DMS.12: 7 residues within 4Å: Chain B: E.29, V.30, Q.33, H.201, S.202, H.203, G.204 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.204 Water bridges: B:H.203, B:I.205 DMS.13: 2 residues within 4Å: Chain B: L.23, H.26 No protein-ligand interaction detected (PLIP)

13 x FMT: FORMIC ACID(Non-functional Binders)

FMT.3: 2 residues within 4Å: Chain A: R.146, N.150 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.146 Water bridges: A:R.146, A:N.150 FMT.4: 4 residues within 4Å: Chain A: Y.43, V.44 Chain B: K.173, R.174 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:Y.43, A:V.44, B:R.174 FMT.5: 1 residues within 4Å: Chain A: P.109 No protein-ligand interaction detected (PLIP) FMT.6: 4 residues within 4Å: Chain A: E.65, R.71, K.99, W.100 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.71 Water bridges: A:D.14, A:R.71 FMT.7: 2 residues within 4Å: Chain A: H.106, F.107 No protein-ligand interaction detected (PLIP) FMT.8: 5 residues within 4Å: Chain A: P.72, L.73, P.76, F.107 Chain B: S.143 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.143 FMT.14: 3 residues within 4Å: Chain B: H.113, R.114, I.205 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.114 Water bridges: B:H.113 FMT.15: 5 residues within 4Å: Chain B: R.97, V.111, I.112, H.113, R.114 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.97, B:H.113, B:R.114 FMT.16: 3 residues within 4Å: Chain B: P.192, S.196, K.220 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.196, B:K.220 FMT.17: 5 residues within 4Å: Chain B: C.79, E.82, K.133, T.134, E.137 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.82 FMT.18: 2 residues within 4Å: Chain B: I.120, S.124 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.124 FMT.19: 2 residues within 4Å: Chain B: K.144, L.233 2 PLIP interactions: 2 interactions with chain B Water bridges: B:R.141, B:E.234 FMT.20: 1 residues within 4Å: Chain B: H.113 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:H.113

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bradshaw, W.J. et al., ARHGEF2 PanDDA analysis group deposition. To Be Published

Release Date

2023-07-12

Peptides

Transforming protein RhoA: A
Rho guanine nucleotide exchange factor 2: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Transforming protein RhoA

Rho guanine nucleotide exchange factor 2

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