SMTL ID : 7g8e.1

ARHGEF2 PanDDA analysis group deposition -- ARHGEF2 and RhoA in complex with Z104479710

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.79 Å

Oligo State

hetero-1-1-mer

Ligands

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

DMS.1: 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.7: 3 residues within 4Å: Chain B: Q.100, A.101, L.102 No protein-ligand interaction detected (PLIP) DMS.8: 7 residues within 4Å: Chain B: E.29, V.30, Q.33, H.201, S.202, H.203, G.204 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.204 Water bridges: B:Q.33, B:Q.33, B:I.205 DMS.9: 4 residues within 4Å: Chain B: Y.153, A.154, R.155, Q.160 No protein-ligand interaction detected (PLIP) DMS.10: 2 residues within 4Å: Chain B: L.23, H.26 No protein-ligand interaction detected (PLIP)

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

FMT.2: 2 residues within 4Å: Chain A: R.146, N.150 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.146, A:N.150 Water bridges: A:D.147 FMT.3: 3 residues within 4Å: Chain A: Y.43, V.44 Chain B: 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.4: 3 residues within 4Å: Chain A: H.106, F.107, P.109 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:F.107 FMT.5: 4 residues within 4Å: Chain A: F.26, S.27, A.45, D.46 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:F.26 Water bridges: A:D.29, A:Y.43, A:Y.43 FMT.11: 3 residues within 4Å: Chain B: H.113, R.114, I.205 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.114 Water bridges: B:H.113, B:H.113 FMT.12: 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.13: 3 residues within 4Å: Chain A: V.36, P.37 Chain B: R.197 No protein-ligand interaction detected (PLIP) FMT.14: 4 residues within 4Å: Chain B: P.192, L.193, S.196, K.220 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.220 FMT.15: 4 residues within 4Å: Chain B: C.79, E.82, K.133, T.134 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.82 FMT.16: 3 residues within 4Å: Chain B: S.124, T.214, L.218 No protein-ligand interaction detected (PLIP) FMT.17: 2 residues within 4Å: Chain B: K.144, L.233 1 PLIP interactions: 1 interactions with chain B Water bridges: B:E.234 FMT.18: 1 residues within 4Å: Chain B: H.113 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:H.113

1 x YXH: 1-(1H-benzimidazol-2-yl)methanamine(Non-covalent)

YXH.6: 7 residues within 4Å: Chain A: V.34, Y.35 Chain B: M.31, K.32, D.35, R.197, H.201 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:Y.35, B:K.32, B:K.32 Hydrogen bonds: A:V.34

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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