SMTL ID : 3c8o.1 (2 other biounits)

The Crystal Structure of RraA from PAO1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-hexamer

Ligands

123 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 2 residues within 4Å: Chain A: M.22, L.112 Ligand excluded by PLIP EDO.2: 5 residues within 4Å: Chain A: S.46, K.49, E.50, K.121 Ligands: PEG.24 Ligand excluded by PLIP EDO.3: 3 residues within 4Å: Chain A: H.2, Y.3 Ligands: EDO.17 Ligand excluded by PLIP EDO.4: 8 residues within 4Å: Chain A: N.45, A.72, L.74, G.75, L.78, R.97, K.118, K.121 Ligand excluded by PLIP EDO.5: 5 residues within 4Å: Chain A: Q.51, D.55, K.59, W.87 Ligands: EDO.14 Ligand excluded by PLIP EDO.6: 3 residues within 4Å: Chain A: N.128, P.140, G.141 Ligand excluded by PLIP EDO.7: 4 residues within 4Å: Chain A: P.140, G.141, E.142, P.155 Ligand excluded by PLIP EDO.8: 3 residues within 4Å: Chain A: E.80, K.81, K.84 Ligand excluded by PLIP EDO.9: 3 residues within 4Å: Chain A: G.123, I.124, G.125 Ligand excluded by PLIP EDO.10: 4 residues within 4Å: Chain A: N.25, F.26, G.27, A.103 Ligand excluded by PLIP EDO.11: 3 residues within 4Å: Chain A: V.101, Q.104 Ligands: PEG.57 Ligand excluded by PLIP EDO.12: 6 residues within 4Å: Chain A: K.49, K.118, K.121 Chain B: K.84, N.85 Ligands: PGE.50 Ligand excluded by PLIP EDO.13: 3 residues within 4Å: Chain A: D.53, D.55, N.85 Ligand excluded by PLIP EDO.14: 2 residues within 4Å: Chain A: K.59 Ligands: EDO.5 Ligand excluded by PLIP EDO.15: 3 residues within 4Å: Chain A: G.67, Y.93, L.112 Ligand excluded by PLIP EDO.16: 2 residues within 4Å: Chain A: D.76 Chain B: D.53 Ligand excluded by PLIP EDO.17: 3 residues within 4Å: Chain A: R.29, E.88 Ligands: EDO.3 Ligand excluded by PLIP EDO.18: 2 residues within 4Å: Chain A: Q.104, D.106 Ligand excluded by PLIP EDO.19: 3 residues within 4Å: Chain A: V.99, D.100 Ligands: PEG.29 Ligand excluded by PLIP EDO.20: 2 residues within 4Å: Chain A: P.13, V.16 Ligand excluded by PLIP EDO.21: 3 residues within 4Å: Chain A: D.126, L.127, V.129 Ligand excluded by PLIP EDO.30: 4 residues within 4Å: Chain B: A.11, Y.12, K.159 Ligands: PGE.52 Ligand excluded by PLIP EDO.31: 7 residues within 4Å: Chain B: N.45, L.74, G.75, L.78, R.97, K.118, K.121 Ligand excluded by PLIP EDO.32: 8 residues within 4Å: Chain B: D.98, V.99, D.100, V.101 Chain D: V.4, P.6, N.149 Ligands: EDO.42 Ligand excluded by PLIP EDO.33: 4 residues within 4Å: Chain B: Y.12, L.15, Q.156, A.157 Ligand excluded by PLIP EDO.34: 2 residues within 4Å: Chain B: D.126, V.129 Ligand excluded by PLIP EDO.35: 2 residues within 4Å: Chain A: E.80 Chain B: K.54 Ligand excluded by PLIP EDO.36: 4 residues within 4Å: Chain B: N.25, F.26, G.27, D.30 Ligand excluded by PLIP EDO.37: 3 residues within 4Å: Chain B: N.128, P.140, G.141 Ligand excluded by PLIP EDO.38: 3 residues within 4Å: Chain B: A.130, V.131, T.132 Ligand excluded by PLIP EDO.39: 4 residues within 4Å: Chain B: D.76, M.77, E.80, V.101 Ligand excluded by PLIP EDO.40: 4 residues within 4Å: Chain B: G.28, A.103, Q.104, D.106 Ligand excluded by PLIP EDO.41: 2 residues within 4Å: Chain B: F.143, A.157 Ligand excluded by PLIP EDO.42: 4 residues within 4Å: Chain B: D.100 Chain D: V.4 Ligands: EDO.32, EDO.49 Ligand excluded by PLIP EDO.43: 4 residues within 4Å: Chain B: S.46, E.50, K.121, G.123 Ligand excluded by PLIP EDO.44: 2 residues within 4Å: Chain B: E.35, K.59 Ligand excluded by PLIP EDO.45: 3 residues within 4Å: Chain B: K.49, K.118, K.121 Ligand excluded by PLIP EDO.46: 3 residues within 4Å: Chain B: R.122, I.124 Ligands: PEG.54 Ligand excluded by PLIP EDO.47: 4 residues within 4Å: Chain B: Q.51, K.54, D.55, K.59 Ligand excluded by PLIP EDO.48: 3 residues within 4Å: Chain B: E.35, K.57, G.58 Ligand excluded by PLIP EDO.49: 4 residues within 4Å: Chain B: D.100, V.101, Q.104 Ligands: EDO.42 Ligand excluded by PLIP EDO.58: 2 residues within 4Å: Chain C: M.22, L.112 Ligand excluded by PLIP EDO.59: 5 residues within 4Å: Chain C: S.46, K.49, E.50, K.121 Ligands: PEG.81 Ligand excluded by PLIP EDO.60: 3 residues within 4Å: Chain C: H.2, Y.3 Ligands: EDO.74 Ligand excluded by PLIP EDO.61: 8 residues within 4Å: Chain C: N.45, A.72, L.74, G.75, L.78, R.97, K.118, K.121 Ligand excluded by PLIP EDO.62: 5 residues within 4Å: Chain C: Q.51, D.55, K.59, W.87 Ligands: EDO.71 Ligand excluded by PLIP EDO.63: 3 residues within 4Å: Chain C: N.128, P.140, G.141 Ligand excluded by PLIP EDO.64: 4 residues within 4Å: Chain C: P.140, G.141, E.142, P.155 Ligand excluded by PLIP EDO.65: 3 residues within 4Å: Chain C: E.80, K.81, K.84 Ligand excluded by PLIP EDO.66: 3 residues within 4Å: Chain C: G.123, I.124, G.125 Ligand excluded by PLIP EDO.67: 4 residues within 4Å: Chain C: N.25, F.26, G.27, A.103 Ligand excluded by PLIP EDO.68: 3 residues within 4Å: Chain C: V.101, Q.104 Ligands: PEG.114 Ligand excluded by PLIP EDO.69: 6 residues within 4Å: Chain C: K.49, K.118, K.121 Chain D: K.84, N.85 Ligands: PGE.107 Ligand excluded by PLIP EDO.70: 3 residues within 4Å: Chain C: D.53, D.55, N.85 Ligand excluded by PLIP EDO.71: 2 residues within 4Å: Chain C: K.59 Ligands: EDO.62 Ligand excluded by PLIP EDO.72: 3 residues within 4Å: Chain C: G.67, Y.93, L.112 Ligand excluded by PLIP EDO.73: 2 residues within 4Å: Chain C: D.76 Chain D: D.53 Ligand excluded by PLIP EDO.74: 3 residues within 4Å: Chain C: R.29, E.88 Ligands: EDO.60 Ligand excluded by PLIP EDO.75: 2 residues within 4Å: Chain C: Q.104, D.106 Ligand excluded by PLIP EDO.76: 3 residues within 4Å: Chain C: V.99, D.100 Ligands: PEG.86 Ligand excluded by PLIP EDO.77: 2 residues within 4Å: Chain C: P.13, V.16 Ligand excluded by PLIP EDO.78: 3 residues within 4Å: Chain C: D.126, L.127, V.129 Ligand excluded by PLIP EDO.87: 4 residues within 4Å: Chain D: A.11, Y.12, K.159 Ligands: PGE.109 Ligand excluded by PLIP EDO.88: 7 residues within 4Å: Chain D: N.45, L.74, G.75, L.78, R.97, K.118, K.121 Ligand excluded by PLIP EDO.89: 8 residues within 4Å: Chain D: D.98, V.99, D.100, V.101 Chain F: V.4, P.6, N.149 Ligands: EDO.99 Ligand excluded by PLIP EDO.90: 4 residues within 4Å: Chain D: Y.12, L.15, Q.156, A.157 Ligand excluded by PLIP EDO.91: 2 residues within 4Å: Chain D: D.126, V.129 Ligand excluded by PLIP EDO.92: 2 residues within 4Å: Chain C: E.80 Chain D: K.54 Ligand excluded by PLIP EDO.93: 4 residues within 4Å: Chain D: N.25, F.26, G.27, D.30 Ligand excluded by PLIP EDO.94: 3 residues within 4Å: Chain D: N.128, P.140, G.141 Ligand excluded by PLIP EDO.95: 3 residues within 4Å: Chain D: A.130, V.131, T.132 Ligand excluded by PLIP EDO.96: 4 residues within 4Å: Chain D: D.76, M.77, E.80, V.101 Ligand excluded by PLIP EDO.97: 4 residues within 4Å: Chain D: G.28, A.103, Q.104, D.106 Ligand excluded by PLIP EDO.98: 2 residues within 4Å: Chain D: F.143, A.157 Ligand excluded by PLIP EDO.99: 4 residues within 4Å: Chain D: D.100 Chain F: V.4 Ligands: EDO.89, EDO.106 Ligand excluded by PLIP EDO.100: 4 residues within 4Å: Chain D: S.46, E.50, K.121, G.123 Ligand excluded by PLIP EDO.101: 2 residues within 4Å: Chain D: E.35, K.59 Ligand excluded by PLIP EDO.102: 3 residues within 4Å: Chain D: K.49, K.118, K.121 Ligand excluded by PLIP EDO.103: 3 residues within 4Å: Chain D: R.122, I.124 Ligands: PEG.111 Ligand excluded by PLIP EDO.104: 4 residues within 4Å: Chain D: Q.51, K.54, D.55, K.59 Ligand excluded by PLIP EDO.105: 3 residues within 4Å: Chain D: E.35, K.57, G.58 Ligand excluded by PLIP EDO.106: 4 residues within 4Å: Chain D: D.100, V.101, Q.104 Ligands: EDO.99 Ligand excluded by PLIP EDO.115: 2 residues within 4Å: Chain E: M.22, L.112 Ligand excluded by PLIP EDO.116: 5 residues within 4Å: Chain E: S.46, K.49, E.50, K.121 Ligands: PEG.138 Ligand excluded by PLIP EDO.117: 3 residues within 4Å: Chain E: H.2, Y.3 Ligands: EDO.131 Ligand excluded by PLIP EDO.118: 8 residues within 4Å: Chain E: N.45, A.72, L.74, G.75, L.78, R.97, K.118, K.121 Ligand excluded by PLIP EDO.119: 5 residues within 4Å: Chain E: Q.51, D.55, K.59, W.87 Ligands: EDO.128 Ligand excluded by PLIP EDO.120: 3 residues within 4Å: Chain E: N.128, P.140, G.141 Ligand excluded by PLIP EDO.121: 4 residues within 4Å: Chain E: P.140, G.141, E.142, P.155 Ligand excluded by PLIP EDO.122: 3 residues within 4Å: Chain E: E.80, K.81, K.84 Ligand excluded by PLIP EDO.123: 3 residues within 4Å: Chain E: G.123, I.124, G.125 Ligand excluded by PLIP EDO.124: 4 residues within 4Å: Chain E: N.25, F.26, G.27, A.103 Ligand excluded by PLIP EDO.125: 3 residues within 4Å: Chain E: V.101, Q.104 Ligands: PEG.171 Ligand excluded by PLIP EDO.126: 6 residues within 4Å: Chain E: K.49, K.118, K.121 Chain F: K.84, N.85 Ligands: PGE.164 Ligand excluded by PLIP EDO.127: 3 residues within 4Å: Chain E: D.53, D.55, N.85 Ligand excluded by PLIP EDO.128: 2 residues within 4Å: Chain E: K.59 Ligands: EDO.119 Ligand excluded by PLIP EDO.129: 3 residues within 4Å: Chain E: G.67, Y.93, L.112 Ligand excluded by PLIP EDO.130: 2 residues within 4Å: Chain E: D.76 Chain F: D.53 Ligand excluded by PLIP EDO.131: 3 residues within 4Å: Chain E: R.29, E.88 Ligands: EDO.117 Ligand excluded by PLIP EDO.132: 2 residues within 4Å: Chain E: Q.104, D.106 Ligand excluded by PLIP EDO.133: 3 residues within 4Å: Chain E: V.99, D.100 Ligands: PEG.143 Ligand excluded by PLIP EDO.134: 2 residues within 4Å: Chain E: P.13, V.16 Ligand excluded by PLIP EDO.135: 3 residues within 4Å: Chain E: D.126, L.127, V.129 Ligand excluded by PLIP EDO.144: 4 residues within 4Å: Chain F: A.11, Y.12, K.159 Ligands: PGE.166 Ligand excluded by PLIP EDO.145: 7 residues within 4Å: Chain F: N.45, L.74, G.75, L.78, R.97, K.118, K.121 Ligand excluded by PLIP EDO.146: 8 residues within 4Å: Chain B: V.4, P.6, N.149 Chain F: D.98, V.99, D.100, V.101 Ligands: EDO.156 Ligand excluded by PLIP EDO.147: 4 residues within 4Å: Chain F: Y.12, L.15, Q.156, A.157 Ligand excluded by PLIP EDO.148: 2 residues within 4Å: Chain F: D.126, V.129 Ligand excluded by PLIP EDO.149: 2 residues within 4Å: Chain E: E.80 Chain F: K.54 Ligand excluded by PLIP EDO.150: 4 residues within 4Å: Chain F: N.25, F.26, G.27, D.30 Ligand excluded by PLIP EDO.151: 3 residues within 4Å: Chain F: N.128, P.140, G.141 Ligand excluded by PLIP EDO.152: 3 residues within 4Å: Chain F: A.130, V.131, T.132 Ligand excluded by PLIP EDO.153: 4 residues within 4Å: Chain F: D.76, M.77, E.80, V.101 Ligand excluded by PLIP EDO.154: 4 residues within 4Å: Chain F: G.28, A.103, Q.104, D.106 Ligand excluded by PLIP EDO.155: 2 residues within 4Å: Chain F: F.143, A.157 Ligand excluded by PLIP EDO.156: 4 residues within 4Å: Chain B: V.4 Chain F: D.100 Ligands: EDO.146, EDO.163 Ligand excluded by PLIP EDO.157: 4 residues within 4Å: Chain F: S.46, E.50, K.121, G.123 Ligand excluded by PLIP EDO.158: 2 residues within 4Å: Chain F: E.35, K.59 Ligand excluded by PLIP EDO.159: 3 residues within 4Å: Chain F: K.49, K.118, K.121 Ligand excluded by PLIP EDO.160: 3 residues within 4Å: Chain F: R.122, I.124 Ligands: PEG.168 Ligand excluded by PLIP EDO.161: 4 residues within 4Å: Chain F: Q.51, K.54, D.55, K.59 Ligand excluded by PLIP EDO.162: 3 residues within 4Å: Chain F: E.35, K.57, G.58 Ligand excluded by PLIP EDO.163: 4 residues within 4Å: Chain F: D.100, V.101, Q.104 Ligands: EDO.156 Ligand excluded by PLIP

12 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.22: 8 residues within 4Å: Chain A: P.13, E.14, V.16, Q.17, V.18, G.135, V.136 Ligands: PEG.23 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:P.13, A:G.135 Water bridges: A:V.18 PGE.50: 5 residues within 4Å: Chain A: K.118 Chain B: K.81, K.84, N.85 Ligands: EDO.12 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.81 PGE.51: 5 residues within 4Å: Chain B: E.14, L.15, E.142, V.153, P.155 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.142 PGE.52: 4 residues within 4Å: Chain B: D.7, A.11, P.161 Ligands: EDO.30 No protein-ligand interaction detected (PLIP) PGE.79: 8 residues within 4Å: Chain C: P.13, E.14, V.16, Q.17, V.18, G.135, V.136 Ligands: PEG.80 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:P.13, C:G.135 Water bridges: C:V.18 PGE.107: 5 residues within 4Å: Chain C: K.118 Chain D: K.81, K.84, N.85 Ligands: EDO.69 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:K.81 PGE.108: 5 residues within 4Å: Chain D: E.14, L.15, E.142, V.153, P.155 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:E.142 PGE.109: 4 residues within 4Å: Chain D: D.7, A.11, P.161 Ligands: EDO.87 No protein-ligand interaction detected (PLIP) PGE.136: 8 residues within 4Å: Chain E: P.13, E.14, V.16, Q.17, V.18, G.135, V.136 Ligands: PEG.137 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:P.13, E:G.135 Water bridges: E:V.18 PGE.164: 5 residues within 4Å: Chain E: K.118 Chain F: K.81, K.84, N.85 Ligands: EDO.126 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:K.81 PGE.165: 5 residues within 4Å: Chain F: E.14, L.15, E.142, V.153, P.155 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:E.142 PGE.166: 4 residues within 4Å: Chain F: D.7, A.11, P.161 Ligands: EDO.144 No protein-ligand interaction detected (PLIP)

33 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.23: 8 residues within 4Å: Chain A: E.14, L.15, Q.17, E.142, V.153, S.154, P.155 Ligands: PGE.22 Ligand excluded by PLIP PEG.24: 6 residues within 4Å: Chain A: S.46, E.50, K.121, R.122, G.123 Ligands: EDO.2 Ligand excluded by PLIP PEG.25: 4 residues within 4Å: Chain A: S.68, L.69, R.70 Ligands: PEG.26 Ligand excluded by PLIP PEG.26: 2 residues within 4Å: Chain A: L.69 Ligands: PEG.25 Ligand excluded by PLIP PEG.27: 4 residues within 4Å: Chain A: E.43, R.71, T.119, D.120 Ligand excluded by PLIP PEG.28: 8 residues within 4Å: Chain A: P.21, F.23, S.24, N.25, Q.110, D.147, N.148, N.149 Ligand excluded by PLIP PEG.29: 5 residues within 4Å: Chain A: S.24, N.25, F.26, L.112 Ligands: EDO.19 Ligand excluded by PLIP PEG.54: 6 residues within 4Å: Chain B: F.42, E.43, R.71, T.119, D.120 Ligands: EDO.46 Ligand excluded by PLIP PEG.55: 6 residues within 4Å: Chain B: M.22, L.69, L.112 Chain D: P.21 Ligands: PEG.112, PEG.169 Ligand excluded by PLIP PEG.56: 4 residues within 4Å: Chain B: G.67, S.68, L.69, R.70 Ligand excluded by PLIP PEG.57: 6 residues within 4Å: Chain A: D.76, E.80 Chain B: E.50, D.53, K.54 Ligands: EDO.11 Ligand excluded by PLIP PEG.80: 8 residues within 4Å: Chain C: E.14, L.15, Q.17, E.142, V.153, S.154, P.155 Ligands: PGE.79 Ligand excluded by PLIP PEG.81: 6 residues within 4Å: Chain C: S.46, E.50, K.121, R.122, G.123 Ligands: EDO.59 Ligand excluded by PLIP PEG.82: 4 residues within 4Å: Chain C: S.68, L.69, R.70 Ligands: PEG.83 Ligand excluded by PLIP PEG.83: 2 residues within 4Å: Chain C: L.69 Ligands: PEG.82 Ligand excluded by PLIP PEG.84: 4 residues within 4Å: Chain C: E.43, R.71, T.119, D.120 Ligand excluded by PLIP PEG.85: 8 residues within 4Å: Chain C: P.21, F.23, S.24, N.25, Q.110, D.147, N.148, N.149 Ligand excluded by PLIP PEG.86: 5 residues within 4Å: Chain C: S.24, N.25, F.26, L.112 Ligands: EDO.76 Ligand excluded by PLIP PEG.111: 6 residues within 4Å: Chain D: F.42, E.43, R.71, T.119, D.120 Ligands: EDO.103 Ligand excluded by PLIP PEG.112: 6 residues within 4Å: Chain D: M.22, L.69, L.112 Chain F: P.21 Ligands: PEG.55, PEG.169 Ligand excluded by PLIP PEG.113: 4 residues within 4Å: Chain D: G.67, S.68, L.69, R.70 Ligand excluded by PLIP PEG.114: 6 residues within 4Å: Chain C: D.76, E.80 Chain D: E.50, D.53, K.54 Ligands: EDO.68 Ligand excluded by PLIP PEG.137: 8 residues within 4Å: Chain E: E.14, L.15, Q.17, E.142, V.153, S.154, P.155 Ligands: PGE.136 Ligand excluded by PLIP PEG.138: 6 residues within 4Å: Chain E: S.46, E.50, K.121, R.122, G.123 Ligands: EDO.116 Ligand excluded by PLIP PEG.139: 4 residues within 4Å: Chain E: S.68, L.69, R.70 Ligands: PEG.140 Ligand excluded by PLIP PEG.140: 2 residues within 4Å: Chain E: L.69 Ligands: PEG.139 Ligand excluded by PLIP PEG.141: 4 residues within 4Å: Chain E: E.43, R.71, T.119, D.120 Ligand excluded by PLIP PEG.142: 8 residues within 4Å: Chain E: P.21, F.23, S.24, N.25, Q.110, D.147, N.148, N.149 Ligand excluded by PLIP PEG.143: 5 residues within 4Å: Chain E: S.24, N.25, F.26, L.112 Ligands: EDO.133 Ligand excluded by PLIP PEG.168: 6 residues within 4Å: Chain F: F.42, E.43, R.71, T.119, D.120 Ligands: EDO.160 Ligand excluded by PLIP PEG.169: 6 residues within 4Å: Chain B: P.21 Chain F: M.22, L.69, L.112 Ligands: PEG.55, PEG.112 Ligand excluded by PLIP PEG.170: 4 residues within 4Å: Chain F: G.67, S.68, L.69, R.70 Ligand excluded by PLIP PEG.171: 6 residues within 4Å: Chain E: D.76, E.80 Chain F: E.50, D.53, K.54 Ligands: EDO.125 Ligand excluded by PLIP

3 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.53: 9 residues within 4Å: Chain B: P.21, M.22, F.23, S.24, N.25, D.147, N.148, N.149 Chain F: S.114 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain F Hydrogen bonds: B:N.25, B:N.25 Water bridges: B:Q.110, F:S.114 PG4.110: 9 residues within 4Å: Chain B: S.114 Chain D: P.21, M.22, F.23, S.24, N.25, D.147, N.148, N.149 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain B Hydrogen bonds: D:N.25, D:N.25 Water bridges: D:Q.110, B:S.114 PG4.167: 9 residues within 4Å: Chain D: S.114 Chain F: P.21, M.22, F.23, S.24, N.25, D.147, N.148, N.149 4 PLIP interactions: 1 interactions with chain D, 3 interactions with chain F Water bridges: D:S.114, F:Q.110 Hydrogen bonds: F:N.25, F:N.25

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Luo, M. et al., The Crystal Structure of RraA from PAO1. To be published

Release Date

2009-02-17

Peptides

Regulator of ribonuclease activity A: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

E
A

F
B

Regulator of ribonuclease activity A

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