SMTL ID : 7rsc.1

NMR-driven structure of the KRAS4B-G12D "alpha-alpha" dimer on a lipid bilayer nanodisc

Coordinates

PDB Format Compare

Method

SOLUTION NMR

Oligo State

hetero-2-2-mer

Ligands

2 x GSP: 5'-GUANOSINE-DIPHOSPHATE-MONOTHIOPHOSPHATE(Non-covalent)

GSP.1: 27 residues within 4Å: Chain A: A.11, D.12, G.13, V.14, G.15, K.16, S.17, A.18, F.28, V.29, Y.32, D.33, P.34, T.35, D.57, T.58, A.59, G.60, N.116, K.117, D.119, L.120, S.145, A.146, K.147, T.148 Ligands: MG.2 20 PLIP interactions: 20 interactions with chain A Hydrogen bonds: A:G.13, A:V.14, A:G.15, A:K.16, A:K.16, A:S.17, A:S.17, A:S.17, A:A.18, A:T.35, A:D.57, A:G.60, A:N.116, A:K.117, A:K.117, A:S.145, A:S.145, A:A.146, A:K.147 Salt bridges: A:K.16 GSP.21: 26 residues within 4Å: Chain B: A.11, D.12, G.13, V.14, G.15, K.16, S.17, A.18, F.28, V.29, Y.32, D.33, P.34, T.35, D.57, T.58, A.59, G.60, N.116, K.117, D.119, L.120, S.145, A.146, K.147 Ligands: MG.22 20 PLIP interactions: 20 interactions with chain B Hydrogen bonds: B:G.13, B:V.14, B:G.15, B:K.16, B:S.17, B:A.18, B:D.33, B:D.33, B:T.35, B:G.60, B:N.116, B:K.117, B:K.117, B:A.146, B:K.147, B:K.147 Salt bridges: B:K.16, B:D.119 pi-Stacking: B:F.28, B:F.28

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: S.17, T.35, D.57 Ligands: GSP.1 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:S.17, A:T.35, A:D.57 MG.22: 5 residues within 4Å: Chain B: S.17, D.33, T.35, D.57 Ligands: GSP.21 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:S.17, B:T.35, B:D.57, B:D.57

128 x 7Q9: [(2~{R})-3-[oxidanyl-[2-(trimethyl-$l^{4}-azanyl)ethoxy]phosphoryl]oxy-2-propanoyloxy-propyl] (~{Z})-octadec-9-enoate(Non-covalent)(Non-functional Binders)

7Q9.3: 6 residues within 4Å: Chain A: K.178 Ligands: 7Q9.4, 7Q9.5, 17F.8, 7Q9.23, 7Q9.25 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:K.178, A:K.178, A:K.178 7Q9.4: 5 residues within 4Å: Chain B: K.180 Ligands: 7Q9.3, 7Q9.5, 7Q9.11, 7Q9.23 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:K.180 7Q9.5: 6 residues within 4Å: Ligands: 7Q9.3, 7Q9.4, 17F.8, 7Q9.10, 7Q9.12, 17F.92 No protein-ligand interaction detected (PLIP) 7Q9.6: 6 residues within 4Å: Chain B: T.183, K.184 Ligands: 7Q9.7, 17F.13, 7Q9.23, 7Q9.90 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:T.183 7Q9.7: 7 residues within 4Å: Ligands: 7Q9.6, 7Q9.15, 7Q9.16, 7Q9.23, 7Q9.27, 7Q9.90, 7Q9.107 No protein-ligand interaction detected (PLIP) 7Q9.9: 5 residues within 4Å: Chain B: K.182, T.183, K.184 Ligands: 7Q9.14, 7Q9.18 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:K.182 7Q9.10: 5 residues within 4Å: Ligands: 7Q9.5, 7Q9.11, 7Q9.17, 17F.20, 7Q9.32 No protein-ligand interaction detected (PLIP) 7Q9.11: 4 residues within 4Å: Chain B: K.180 Ligands: 7Q9.4, 7Q9.10, 17F.20 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:K.180 7Q9.12: 4 residues within 4Å: Ligands: 7Q9.5, 17F.8, 17F.19, 7Q9.35 No protein-ligand interaction detected (PLIP) 7Q9.14: 5 residues within 4Å: Chain B: K.182 Ligands: 7Q9.9, 7Q9.18, 7Q9.37, 7Q9.43 No protein-ligand interaction detected (PLIP) 7Q9.15: 6 residues within 4Å: Ligands: 7Q9.7, 7Q9.16, 7Q9.18, 17F.40, 17F.41, 17F.47 No protein-ligand interaction detected (PLIP) 7Q9.16: 6 residues within 4Å: Ligands: 7Q9.7, 7Q9.15, 7Q9.27, 7Q9.36, 17F.47, 7Q9.107 No protein-ligand interaction detected (PLIP) 7Q9.17: 6 residues within 4Å: Ligands: 7Q9.10, 7Q9.32, 7Q9.44, 7Q9.46, 7Q9.84, 7Q9.112 No protein-ligand interaction detected (PLIP) 7Q9.18: 6 residues within 4Å: Ligands: 7Q9.9, 7Q9.14, 7Q9.15, 17F.41, 7Q9.43, 7Q9.100 No protein-ligand interaction detected (PLIP) 7Q9.23: 9 residues within 4Å: Chain B: K.179, K.180, S.181, T.183 Ligands: 7Q9.3, 7Q9.4, 7Q9.6, 7Q9.7, 7Q9.24 No protein-ligand interaction detected (PLIP) 7Q9.24: 8 residues within 4Å: Chain A: K.177 Ligands: 7Q9.23, 7Q9.25, 7Q9.26, 7Q9.27, 17F.88, 7Q9.93, 17F.98 No protein-ligand interaction detected (PLIP) 7Q9.25: 7 residues within 4Å: Chain A: K.178 Ligands: 7Q9.3, 7Q9.24, 7Q9.26, 17F.28, 7Q9.91, 17F.98 No protein-ligand interaction detected (PLIP) 7Q9.26: 8 residues within 4Å: Ligands: 7Q9.24, 7Q9.25, 7Q9.27, 7Q9.29, 7Q9.30, 7Q9.31, 7Q9.95, 17F.98 No protein-ligand interaction detected (PLIP) 7Q9.27: 6 residues within 4Å: Ligands: 7Q9.7, 7Q9.16, 7Q9.24, 7Q9.26, 7Q9.36, 7Q9.95 No protein-ligand interaction detected (PLIP) 7Q9.29: 5 residues within 4Å: Ligands: 7Q9.26, 17F.28, 7Q9.30, 17F.50, 7Q9.109 No protein-ligand interaction detected (PLIP) 7Q9.30: 7 residues within 4Å: Ligands: 7Q9.26, 7Q9.29, 7Q9.31, 17F.50, 7Q9.51, 7Q9.109, 7Q9.113 No protein-ligand interaction detected (PLIP) 7Q9.31: 5 residues within 4Å: Ligands: 7Q9.26, 7Q9.30, 7Q9.51, 7Q9.95, 7Q9.113 No protein-ligand interaction detected (PLIP) 7Q9.32: 7 residues within 4Å: Ligands: 7Q9.10, 7Q9.17, 17F.20, 7Q9.44, 7Q9.45, 7Q9.55, 7Q9.108 No protein-ligand interaction detected (PLIP) 7Q9.33: 3 residues within 4Å: Ligands: 17F.13, 17F.20, 7Q9.111 No protein-ligand interaction detected (PLIP) 7Q9.34: 6 residues within 4Å: Chain A: K.180, T.183, K.184 Ligands: 17F.19, 7Q9.38, 7Q9.53 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.184, A:K.184 7Q9.35: 7 residues within 4Å: Ligands: 7Q9.12, 17F.19, 7Q9.46, 17F.48, 7Q9.58, 7Q9.84, 7Q9.118 No protein-ligand interaction detected (PLIP) 7Q9.36: 7 residues within 4Å: Ligands: 7Q9.16, 7Q9.27, 17F.47, 7Q9.71, 17F.104, 7Q9.107, 17F.125 No protein-ligand interaction detected (PLIP) 7Q9.37: 6 residues within 4Å: Ligands: 17F.13, 7Q9.14, 7Q9.39, 7Q9.42, 7Q9.57, 7Q9.100 No protein-ligand interaction detected (PLIP) 7Q9.38: 4 residues within 4Å: Ligands: 7Q9.34, 7Q9.53, 7Q9.54, 7Q9.87 No protein-ligand interaction detected (PLIP) 7Q9.39: 5 residues within 4Å: Ligands: 17F.13, 7Q9.37, 7Q9.56, 7Q9.57, 7Q9.61 No protein-ligand interaction detected (PLIP) 7Q9.42: 4 residues within 4Å: Ligands: 7Q9.37, 17F.64, 7Q9.66, 7Q9.123 No protein-ligand interaction detected (PLIP) 7Q9.43: 5 residues within 4Å: Ligands: 7Q9.14, 7Q9.18, 17F.41, 7Q9.62, 17F.64 No protein-ligand interaction detected (PLIP) 7Q9.44: 7 residues within 4Å: Ligands: 7Q9.17, 7Q9.32, 7Q9.46, 7Q9.55, 7Q9.67, 7Q9.76, 7Q9.131 No protein-ligand interaction detected (PLIP) 7Q9.45: 6 residues within 4Å: Ligands: 17F.20, 7Q9.32, 17F.49, 7Q9.55, 7Q9.77, 7Q9.108 No protein-ligand interaction detected (PLIP) 7Q9.46: 6 residues within 4Å: Ligands: 7Q9.17, 7Q9.35, 7Q9.44, 7Q9.67, 7Q9.78, 7Q9.140 No protein-ligand interaction detected (PLIP) 7Q9.51: 4 residues within 4Å: Ligands: 7Q9.30, 7Q9.31, 7Q9.72, 7Q9.127 No protein-ligand interaction detected (PLIP) 7Q9.52: 2 residues within 4Å: Ligands: 7Q9.59, 7Q9.83 No protein-ligand interaction detected (PLIP) 7Q9.53: 6 residues within 4Å: Ligands: 7Q9.34, 7Q9.38, 17F.50, 7Q9.80, 17F.82, 7Q9.132 No protein-ligand interaction detected (PLIP) 7Q9.54: 4 residues within 4Å: Ligands: 7Q9.38, 17F.69, 7Q9.73, 7Q9.87 No protein-ligand interaction detected (PLIP) 7Q9.55: 4 residues within 4Å: Ligands: 7Q9.32, 7Q9.44, 7Q9.45, 7Q9.77 No protein-ligand interaction detected (PLIP) 7Q9.56: 4 residues within 4Å: Ligands: 7Q9.39, 17F.49, 7Q9.61, 7Q9.74 No protein-ligand interaction detected (PLIP) 7Q9.57: 7 residues within 4Å: Chain C: R.108, A.111 Chain D: W.67 Ligands: 7Q9.37, 7Q9.39, 7Q9.61, 7Q9.66 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: C:R.108, C:A.111, D:W.67 7Q9.58: 4 residues within 4Å: Ligands: 7Q9.35, 17F.48, 7Q9.81, 17F.159 No protein-ligand interaction detected (PLIP) 7Q9.59: 5 residues within 4Å: Chain C: K.53 Ligands: 7Q9.52, 7Q9.71, 7Q9.83, 7Q9.144 1 PLIP interactions: 1 interactions with chain C Salt bridges: C:K.53 7Q9.60: 3 residues within 4Å: Ligands: 17F.40, 17F.41, 7Q9.85 No protein-ligand interaction detected (PLIP) 7Q9.61: 4 residues within 4Å: Chain C: R.112 Ligands: 7Q9.39, 7Q9.56, 7Q9.57 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:R.112 7Q9.62: 4 residues within 4Å: Chain C: R.82 Ligands: 17F.41, 7Q9.43, 17F.64 No protein-ligand interaction detected (PLIP) 7Q9.65: 3 residues within 4Å: Chain C: L.133, A.134, L.137 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:L.133, C:L.133, C:A.134, C:L.137, C:L.137 7Q9.66: 3 residues within 4Å: Chain C: R.108 Ligands: 7Q9.42, 7Q9.57 1 PLIP interactions: 1 interactions with chain C Salt bridges: C:R.108 7Q9.67: 13 residues within 4Å: Chain C: Y.151, H.152, A.155, T.156, H.158, L.159 Chain D: T.27, Q.28 Ligands: 7Q9.44, 7Q9.46, 7Q9.76, 7Q9.78, 7Q9.86 7 PLIP interactions: 6 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: C:Y.151, C:Y.151, C:A.155, C:H.158, C:L.159, D:T.27 Hydrogen bonds: C:T.156 7Q9.68: 7 residues within 4Å: Chain C: A.89, R.90, K.92, L.93, H.94, Q.97 Ligands: 17F.64 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:R.90, C:L.93, C:Q.97 Salt bridges: C:H.94 7Q9.71: 4 residues within 4Å: Ligands: 7Q9.36, 17F.47, 7Q9.59, 17F.63 No protein-ligand interaction detected (PLIP) 7Q9.72: 5 residues within 4Å: Chain C: E.39, R.42 Ligands: 7Q9.51, 17F.70, 7Q9.83 No protein-ligand interaction detected (PLIP) 7Q9.73: 6 residues within 4Å: Chain C: T.196, L.199 Ligands: 7Q9.54, 17F.82, 17F.157, 7Q9.158 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:L.199 7Q9.74: 5 residues within 4Å: Chain C: R.119, S.126, R.130 Ligands: 7Q9.56, 7Q9.163 No protein-ligand interaction detected (PLIP) 7Q9.75: 4 residues within 4Å: Chain C: E.21 Ligands: 17F.50, 17F.70, 7Q9.80 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:E.21 7Q9.76: 5 residues within 4Å: Chain C: L.148, H.152 Ligands: 7Q9.44, 7Q9.67, 7Q9.86 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:L.148, C:L.148, C:H.152 7Q9.77: 4 residues within 4Å: Chain C: K.141 Ligands: 7Q9.45, 17F.49, 7Q9.55 1 PLIP interactions: 1 interactions with chain C Salt bridges: C:K.141 7Q9.78: 5 residues within 4Å: Chain C: L.159, S.160, S.163 Ligands: 7Q9.46, 7Q9.67 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:L.159, C:L.159 7Q9.79: 8 residues within 4Å: Chain C: L.178, L.181, K.185 Ligands: 17F.69, 7Q9.81, 7Q9.137, 7Q9.156, 7Q9.162 No protein-ligand interaction detected (PLIP) 7Q9.80: 3 residues within 4Å: Ligands: 7Q9.53, 7Q9.75, 17F.82 No protein-ligand interaction detected (PLIP) 7Q9.81: 4 residues within 4Å: Ligands: 17F.48, 7Q9.58, 7Q9.79, 7Q9.87 No protein-ligand interaction detected (PLIP) 7Q9.83: 4 residues within 4Å: Ligands: 7Q9.52, 7Q9.59, 7Q9.72, 7Q9.144 No protein-ligand interaction detected (PLIP) 7Q9.84: 6 residues within 4Å: Ligands: 7Q9.17, 7Q9.35, 7Q9.114, 7Q9.118, 7Q9.133, 7Q9.134 No protein-ligand interaction detected (PLIP) 7Q9.85: 8 residues within 4Å: Chain C: M.71, Y.74 Chain D: R.108, R.112 Ligands: 7Q9.60, 7Q9.119, 7Q9.138, 17F.143 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:M.71, C:Y.74 7Q9.86: 7 residues within 4Å: Chain C: Y.151 Chain D: Q.28 Ligands: 7Q9.67, 7Q9.76, 7Q9.131, 7Q9.140, 7Q9.151 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:Q.28 7Q9.87: 5 residues within 4Å: Ligands: 17F.19, 7Q9.38, 17F.48, 7Q9.54, 7Q9.81 No protein-ligand interaction detected (PLIP) 7Q9.89: 3 residues within 4Å: Ligands: 17F.92, 17F.94, 17F.96 No protein-ligand interaction detected (PLIP) 7Q9.90: 6 residues within 4Å: Ligands: 7Q9.6, 7Q9.7, 17F.88, 7Q9.93, 17F.94, 7Q9.101 No protein-ligand interaction detected (PLIP) 7Q9.91: 8 residues within 4Å: Ligands: 17F.8, 7Q9.25, 17F.28, 17F.88, 17F.92, 17F.98, 7Q9.99, 7Q9.102 No protein-ligand interaction detected (PLIP) 7Q9.93: 8 residues within 4Å: Ligands: 7Q9.24, 17F.88, 7Q9.90, 7Q9.95, 17F.98, 7Q9.101, 17F.104, 7Q9.107 No protein-ligand interaction detected (PLIP) 7Q9.95: 5 residues within 4Å: Ligands: 7Q9.26, 7Q9.27, 7Q9.31, 7Q9.93, 17F.104 No protein-ligand interaction detected (PLIP) 7Q9.97: 5 residues within 4Å: Ligands: 17F.20, 17F.96, 7Q9.103, 7Q9.108, 7Q9.112 No protein-ligand interaction detected (PLIP) 7Q9.99: 4 residues within 4Å: Ligands: 7Q9.91, 7Q9.102, 7Q9.103, 7Q9.114 No protein-ligand interaction detected (PLIP) 7Q9.100: 6 residues within 4Å: Ligands: 7Q9.18, 7Q9.37, 17F.94, 17F.105, 17F.106, 7Q9.116 No protein-ligand interaction detected (PLIP) 7Q9.101: 4 residues within 4Å: Ligands: 7Q9.90, 7Q9.93, 17F.104, 7Q9.107 No protein-ligand interaction detected (PLIP) 7Q9.102: 5 residues within 4Å: Ligands: 7Q9.91, 7Q9.99, 7Q9.110, 7Q9.114, 7Q9.117 No protein-ligand interaction detected (PLIP) 7Q9.103: 5 residues within 4Å: Ligands: 17F.92, 7Q9.97, 7Q9.99, 7Q9.112, 7Q9.118 No protein-ligand interaction detected (PLIP) 7Q9.107: 9 residues within 4Å: Ligands: 7Q9.7, 7Q9.16, 7Q9.36, 7Q9.93, 7Q9.101, 17F.104, 7Q9.119, 7Q9.120, 17F.125 No protein-ligand interaction detected (PLIP) 7Q9.108: 6 residues within 4Å: Ligands: 17F.20, 7Q9.32, 7Q9.45, 7Q9.97, 7Q9.112, 7Q9.130 No protein-ligand interaction detected (PLIP) 7Q9.109: 6 residues within 4Å: Ligands: 7Q9.29, 7Q9.30, 17F.98, 7Q9.110, 7Q9.113, 7Q9.126 No protein-ligand interaction detected (PLIP) 7Q9.110: 5 residues within 4Å: Ligands: 17F.98, 7Q9.102, 7Q9.109, 7Q9.126, 7Q9.132 No protein-ligand interaction detected (PLIP) 7Q9.111: 4 residues within 4Å: Ligands: 7Q9.33, 17F.96, 17F.105, 17F.128 No protein-ligand interaction detected (PLIP) 7Q9.112: 5 residues within 4Å: Ligands: 7Q9.17, 7Q9.97, 7Q9.103, 7Q9.108, 7Q9.131 No protein-ligand interaction detected (PLIP) 7Q9.113: 7 residues within 4Å: Ligands: 7Q9.30, 7Q9.31, 17F.50, 7Q9.109, 7Q9.121, 7Q9.127, 7Q9.136 No protein-ligand interaction detected (PLIP) 7Q9.114: 7 residues within 4Å: Ligands: 17F.19, 7Q9.84, 7Q9.99, 7Q9.102, 7Q9.117, 7Q9.133, 7Q9.137 No protein-ligand interaction detected (PLIP) 7Q9.116: 5 residues within 4Å: Ligands: 7Q9.100, 17F.106, 17F.115, 7Q9.139, 7Q9.149 No protein-ligand interaction detected (PLIP) 7Q9.117: 4 residues within 4Å: Ligands: 7Q9.102, 7Q9.114, 7Q9.132, 7Q9.137 No protein-ligand interaction detected (PLIP) 7Q9.118: 5 residues within 4Å: Ligands: 7Q9.35, 7Q9.84, 7Q9.103, 7Q9.134, 7Q9.140 No protein-ligand interaction detected (PLIP) 7Q9.119: 7 residues within 4Å: Ligands: 7Q9.85, 7Q9.107, 17F.115, 17F.125, 7Q9.135, 7Q9.138, 17F.143 No protein-ligand interaction detected (PLIP) 7Q9.120: 4 residues within 4Å: Ligands: 17F.104, 7Q9.107, 17F.125, 7Q9.144 No protein-ligand interaction detected (PLIP) 7Q9.121: 4 residues within 4Å: Ligands: 7Q9.113, 7Q9.136, 17F.142, 7Q9.154 No protein-ligand interaction detected (PLIP) 7Q9.122: 4 residues within 4Å: Ligands: 17F.13, 17F.105, 7Q9.123, 7Q9.124 No protein-ligand interaction detected (PLIP) 7Q9.123: 4 residues within 4Å: Ligands: 7Q9.42, 17F.106, 7Q9.122, 7Q9.139 No protein-ligand interaction detected (PLIP) 7Q9.124: 4 residues within 4Å: Ligands: 17F.105, 7Q9.122, 17F.128, 7Q9.153 No protein-ligand interaction detected (PLIP) 7Q9.126: 7 residues within 4Å: Ligands: 17F.50, 7Q9.109, 7Q9.110, 7Q9.127, 7Q9.152, 7Q9.155, 7Q9.160 No protein-ligand interaction detected (PLIP) 7Q9.127: 5 residues within 4Å: Ligands: 7Q9.51, 7Q9.113, 7Q9.126, 7Q9.136, 7Q9.150 No protein-ligand interaction detected (PLIP) 7Q9.129: 2 residues within 4Å: Ligands: 7Q9.130, 7Q9.146 No protein-ligand interaction detected (PLIP) 7Q9.130: 5 residues within 4Å: Ligands: 7Q9.108, 7Q9.129, 7Q9.131, 7Q9.146, 7Q9.151 No protein-ligand interaction detected (PLIP) 7Q9.131: 5 residues within 4Å: Ligands: 7Q9.44, 7Q9.86, 7Q9.112, 7Q9.130, 7Q9.151 No protein-ligand interaction detected (PLIP) 7Q9.132: 4 residues within 4Å: Ligands: 7Q9.53, 7Q9.110, 7Q9.117, 7Q9.152 No protein-ligand interaction detected (PLIP) 7Q9.133: 5 residues within 4Å: Ligands: 17F.19, 7Q9.84, 7Q9.114, 7Q9.134, 7Q9.156 No protein-ligand interaction detected (PLIP) 7Q9.134: 6 residues within 4Å: Ligands: 7Q9.84, 7Q9.118, 7Q9.133, 7Q9.140, 7Q9.156, 17F.159 No protein-ligand interaction detected (PLIP) 7Q9.135: 2 residues within 4Å: Ligands: 7Q9.119, 7Q9.138 No protein-ligand interaction detected (PLIP) 7Q9.136: 5 residues within 4Å: Ligands: 7Q9.113, 7Q9.121, 7Q9.127, 7Q9.150, 7Q9.154 No protein-ligand interaction detected (PLIP) 7Q9.137: 5 residues within 4Å: Ligands: 7Q9.79, 7Q9.114, 7Q9.117, 17F.157, 7Q9.162 No protein-ligand interaction detected (PLIP) 7Q9.138: 6 residues within 4Å: Chain C: Y.74 Chain D: L.100, R.108 Ligands: 7Q9.85, 7Q9.119, 7Q9.135 No protein-ligand interaction detected (PLIP) 7Q9.139: 4 residues within 4Å: Ligands: 17F.106, 7Q9.116, 7Q9.123, 7Q9.145 No protein-ligand interaction detected (PLIP) 7Q9.140: 5 residues within 4Å: Ligands: 7Q9.46, 7Q9.86, 7Q9.118, 7Q9.134, 17F.159 No protein-ligand interaction detected (PLIP) 7Q9.141: 2 residues within 4Å: Chain D: R.75 Ligands: 7Q9.145 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:R.75 7Q9.144: 7 residues within 4Å: Chain D: S.126, D.127, R.130 Ligands: 7Q9.59, 7Q9.83, 7Q9.120, 17F.142 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:R.130 Salt bridges: D:R.130 7Q9.145: 8 residues within 4Å: Chain D: V.78, E.79, R.82, Q.86, R.90 Ligands: 7Q9.139, 7Q9.141, 7Q9.164 3 PLIP interactions: 3 interactions with chain D Hydrophobic interactions: D:V.78, D:R.82 Salt bridges: D:R.90 7Q9.146: 4 residues within 4Å: Chain D: R.42 Ligands: 7Q9.129, 7Q9.130, 7Q9.151 No protein-ligand interaction detected (PLIP) 7Q9.147: 3 residues within 4Å: Chain D: Q.68, M.71, R.75 No protein-ligand interaction detected (PLIP) 7Q9.148: 5 residues within 4Å: Chain D: S.46, L.49, E.50, K.53 Ligands: 7Q9.163 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:L.49, D:E.50 7Q9.149: 5 residues within 4Å: Chain D: L.93, H.94, Q.97 Ligands: 7Q9.116, 7Q9.164 4 PLIP interactions: 4 interactions with chain D Hydrophobic interactions: D:L.93, D:L.93 Salt bridges: D:H.94, D:H.94 7Q9.150: 4 residues within 4Å: Ligands: 7Q9.127, 7Q9.136, 7Q9.154, 7Q9.160 No protein-ligand interaction detected (PLIP) 7Q9.151: 4 residues within 4Å: Ligands: 7Q9.86, 7Q9.130, 7Q9.131, 7Q9.146 No protein-ligand interaction detected (PLIP) 7Q9.152: 3 residues within 4Å: Ligands: 7Q9.126, 7Q9.132, 7Q9.155 No protein-ligand interaction detected (PLIP) 7Q9.153: 6 residues within 4Å: Chain D: L.60, Q.64, W.67 Ligands: 7Q9.124, 17F.128, 7Q9.163 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:L.60, D:W.67 7Q9.154: 5 residues within 4Å: Chain D: K.141 Ligands: 7Q9.121, 7Q9.136, 17F.142, 7Q9.150 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:K.141 Salt bridges: D:K.141 7Q9.155: 3 residues within 4Å: Ligands: 7Q9.126, 7Q9.152, 7Q9.160 No protein-ligand interaction detected (PLIP) 7Q9.156: 6 residues within 4Å: Chain D: L.199 Ligands: 7Q9.79, 7Q9.133, 7Q9.134, 17F.159, 7Q9.162 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:L.199 7Q9.158: 2 residues within 4Å: Ligands: 7Q9.73, 17F.157 No protein-ligand interaction detected (PLIP) 7Q9.160: 5 residues within 4Å: Chain D: L.159, L.162 Ligands: 7Q9.126, 7Q9.150, 7Q9.155 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:L.162 7Q9.162: 9 residues within 4Å: Chain C: L.181 Chain D: F.188, A.191, L.192, Y.195, T.196 Ligands: 7Q9.79, 7Q9.137, 7Q9.156 8 PLIP interactions: 7 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: D:F.188, D:L.192, D:L.192, D:L.192, D:Y.195, D:Y.195, D:T.196, C:L.181 7Q9.163: 8 residues within 4Å: Chain C: L.129, L.133 Chain D: E.50, K.53 Ligands: 7Q9.74, 17F.128, 7Q9.148, 7Q9.153 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: C:L.129, C:L.133, D:K.53 7Q9.164: 7 residues within 4Å: Chain C: K.92 Chain D: A.89, R.90, K.92, L.93 Ligands: 7Q9.145, 7Q9.149 8 PLIP interactions: 8 interactions with chain D Hydrophobic interactions: D:A.89, D:R.90, D:R.90, D:K.92, D:L.93, D:L.93, D:L.93 Salt bridges: D:R.90

32 x 17F: O-[(S)-({(2R)-2,3-bis[(9Z)-octadec-9-enoyloxy]propyl}oxy)(hydroxy)phosphoryl]-L-serine(Non-covalent)(Non-functional Binders)

17F.8: 9 residues within 4Å: Chain A: K.180, K.182, T.183 Ligands: 7Q9.3, 7Q9.5, 7Q9.12, 17F.19, 17F.28, 7Q9.91 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:T.183 Hydrogen bonds: A:K.182 Salt bridges: A:K.180, A:K.180 17F.13: 7 residues within 4Å: Chain B: K.184 Ligands: 7Q9.6, 7Q9.33, 7Q9.37, 7Q9.39, 17F.105, 7Q9.122 4 PLIP interactions: 4 interactions with chain B Salt bridges: B:K.182, B:K.184, B:K.184, B:K.184 17F.19: 8 residues within 4Å: Ligands: 17F.8, 7Q9.12, 7Q9.34, 7Q9.35, 17F.48, 7Q9.87, 7Q9.114, 7Q9.133 No protein-ligand interaction detected (PLIP) 17F.20: 7 residues within 4Å: Ligands: 7Q9.10, 7Q9.11, 7Q9.32, 7Q9.33, 7Q9.45, 7Q9.97, 7Q9.108 No protein-ligand interaction detected (PLIP) 17F.28: 10 residues within 4Å: Chain A: K.178, K.180, S.181, K.182, T.183 Ligands: 17F.8, 7Q9.25, 7Q9.29, 7Q9.91, 17F.98 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.181, A:S.181, A:K.182, A:T.183 Salt bridges: A:K.178, A:K.182 17F.40: 4 residues within 4Å: Ligands: 7Q9.15, 17F.47, 7Q9.60, 17F.63 No protein-ligand interaction detected (PLIP) 17F.41: 5 residues within 4Å: Ligands: 7Q9.15, 7Q9.18, 7Q9.43, 7Q9.60, 7Q9.62 No protein-ligand interaction detected (PLIP) 17F.47: 6 residues within 4Å: Ligands: 7Q9.15, 7Q9.16, 7Q9.36, 17F.40, 17F.63, 7Q9.71 No protein-ligand interaction detected (PLIP) 17F.48: 5 residues within 4Å: Ligands: 17F.19, 7Q9.35, 7Q9.58, 7Q9.81, 7Q9.87 No protein-ligand interaction detected (PLIP) 17F.49: 3 residues within 4Å: Ligands: 7Q9.45, 7Q9.56, 7Q9.77 No protein-ligand interaction detected (PLIP) 17F.50: 6 residues within 4Å: Ligands: 7Q9.29, 7Q9.30, 7Q9.53, 7Q9.75, 7Q9.113, 7Q9.126 No protein-ligand interaction detected (PLIP) 17F.63: 4 residues within 4Å: Chain C: Q.64 Ligands: 17F.40, 17F.47, 7Q9.71 No protein-ligand interaction detected (PLIP) 17F.64: 4 residues within 4Å: Ligands: 7Q9.42, 7Q9.43, 7Q9.62, 7Q9.68 No protein-ligand interaction detected (PLIP) 17F.69: 6 residues within 4Å: Chain C: F.184, K.185, F.188, L.189 Ligands: 7Q9.54, 7Q9.79 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:F.184, C:K.185, C:F.188 17F.70: 7 residues within 4Å: Chain C: Q.28, W.31, D.32, E.35 Chain D: Y.151 Ligands: 7Q9.72, 7Q9.75 4 PLIP interactions: 1 interactions with chain D, 3 interactions with chain C Hydrophobic interactions: D:Y.151, C:Q.28, C:W.31, C:D.32 17F.82: 5 residues within 4Å: Chain C: S.14, N.200 Ligands: 7Q9.53, 7Q9.73, 7Q9.80 No protein-ligand interaction detected (PLIP) 17F.88: 5 residues within 4Å: Ligands: 7Q9.24, 7Q9.90, 7Q9.91, 7Q9.93, 17F.94 No protein-ligand interaction detected (PLIP) 17F.92: 4 residues within 4Å: Ligands: 7Q9.5, 7Q9.89, 7Q9.91, 7Q9.103 No protein-ligand interaction detected (PLIP) 17F.94: 7 residues within 4Å: Ligands: 17F.88, 7Q9.89, 7Q9.90, 17F.96, 7Q9.100, 17F.105, 17F.106 No protein-ligand interaction detected (PLIP) 17F.96: 5 residues within 4Å: Ligands: 7Q9.89, 17F.94, 7Q9.97, 17F.105, 7Q9.111 No protein-ligand interaction detected (PLIP) 17F.98: 8 residues within 4Å: Ligands: 7Q9.24, 7Q9.25, 7Q9.26, 17F.28, 7Q9.91, 7Q9.93, 7Q9.109, 7Q9.110 No protein-ligand interaction detected (PLIP) 17F.104: 7 residues within 4Å: Ligands: 7Q9.36, 7Q9.93, 7Q9.95, 7Q9.101, 7Q9.107, 7Q9.120, 17F.125 No protein-ligand interaction detected (PLIP) 17F.105: 9 residues within 4Å: Ligands: 17F.13, 17F.94, 17F.96, 7Q9.100, 17F.106, 7Q9.111, 7Q9.122, 7Q9.124, 17F.128 No protein-ligand interaction detected (PLIP) 17F.106: 6 residues within 4Å: Ligands: 17F.94, 7Q9.100, 17F.105, 7Q9.116, 7Q9.123, 7Q9.139 No protein-ligand interaction detected (PLIP) 17F.115: 2 residues within 4Å: Ligands: 7Q9.116, 7Q9.119 No protein-ligand interaction detected (PLIP) 17F.125: 7 residues within 4Å: Ligands: 7Q9.36, 17F.104, 7Q9.107, 7Q9.119, 7Q9.120, 17F.143, 17F.161 No protein-ligand interaction detected (PLIP) 17F.128: 5 residues within 4Å: Ligands: 17F.105, 7Q9.111, 7Q9.124, 7Q9.153, 7Q9.163 No protein-ligand interaction detected (PLIP) 17F.142: 3 residues within 4Å: Ligands: 7Q9.121, 7Q9.144, 7Q9.154 No protein-ligand interaction detected (PLIP) 17F.143: 4 residues within 4Å: Ligands: 7Q9.85, 7Q9.119, 17F.125, 17F.161 No protein-ligand interaction detected (PLIP) 17F.157: 3 residues within 4Å: Ligands: 7Q9.73, 7Q9.137, 7Q9.158 No protein-ligand interaction detected (PLIP) 17F.159: 6 residues within 4Å: Chain D: S.14, S.17 Ligands: 7Q9.58, 7Q9.134, 7Q9.140, 7Q9.156 No protein-ligand interaction detected (PLIP) 17F.161: 4 residues within 4Å: Chain D: R.119, S.126 Ligands: 17F.125, 17F.143 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:R.119 Salt bridges: D:R.119

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, K.Y. et al., Oncogenic KRAS G12D mutation promotes dimerization through a second, phosphatidylserine-dependent interface: a model for KRAS oligomerization. Chem Sci (2021)

Release Date

2021-09-22

Peptides

GTPase KRas: AB
Apolipoprotein A-I: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
D

D
E

GTPase KRas

Apolipoprotein A-I

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