SMTL ID : 6r3v.1

Crystal Structure of RhoA-GDP-Pi in Complex with RhoGAP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

hetero-1-1-mer

Ligands

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 2 residues within 4Å: Chain A: R.264, E.265 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.265 Salt bridges: A:R.264 PO4.5: 12 residues within 4Å: Chain A: R.282 Chain B: G.14, A.15, K.18, P.36, T.37, T.60, A.61, G.62, Q.63 Ligands: GDP.3, MG.4 11 PLIP interactions: 9 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:A.15, B:T.19, B:T.37, B:G.62, B:Q.63, B:Q.63 Water bridges: B:T.19, B:T.19, A:R.282 Salt bridges: B:K.18, A:R.282

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.2: 5 residues within 4Å: Chain B: A.148, N.149, A.153, G.155, Y.156 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.149 Water bridges: B:Y.156

1 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)

GDP.3: 18 residues within 4Å: Chain A: R.282 Chain B: D.13, A.15, C.16, G.17, K.18, T.19, C.20, Y.34, T.37, K.118, D.120, L.121, S.160, A.161, K.162 Ligands: MG.4, PO4.5 21 PLIP interactions: 17 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:D.13, B:A.15, B:C.16, B:G.17, B:K.18, B:T.19, B:C.20, B:T.37, B:K.118, B:K.118, B:A.161, B:K.162 Water bridges: B:L.21, B:T.37, B:T.37, A:R.282, A:R.282 Salt bridges: B:K.18, B:D.120, A:R.282, A:R.282

1 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 4 residues within 4Å: Chain B: T.19, T.37 Ligands: GDP.3, PO4.5 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:T.19, B:T.37, H2O.6, H2O.6

1 x DTT: 2,3-DIHYDROXY-1,4-DITHIOBUTANE(Non-covalent)

DTT.6: 6 residues within 4Å: Chain B: Y.74, D.76, T.77, F.106, C.107, V.110 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Molt Jr., R.W. et al., A GAP-GTPase-GDP-PiIntermediate Crystal Structure Analyzed by DFT Shows GTP Hydrolysis Involves Serial Proton Transfers. Chemistry (2019)

Release Date

2019-05-08

Peptides

Rho GTPase-activating protein 1: A
Transforming protein RhoA: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Rho GTPase-activating protein 1

Transforming protein RhoA

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