SMTL ID : 4dyy.1

Crystal Structure of the Cu-adduct of Human H-Ferritin variant MIC1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-24-mer

Ligands

72 x CU: COPPER (II) ION(Non-covalent)

CU.1: 3 residues within 4Å: Chain A: E.23, E.58, H.61 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.23, A:E.58, A:H.61, H2O.1 CU.2: 4 residues within 4Å: Chain A: H.52, H.56 Chain R: H.59, H.63 5 PLIP interactions: 2 interactions with chain R, 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: R:H.59, R:H.63, A:H.52, A:H.56, H2O.4 CU.3: 7 residues within 4Å: Chain A: H.169 Chain C: H.169 Chain U: H.169 Chain W: H.169 Ligands: CU.17, CU.143, CU.157 6 PLIP interactions: 6 Ligand-Water interactions Metal complexes: H2O.4, H2O.5, H2O.18, H2O.131, H2O.143, H2O.144 CU.8: 3 residues within 4Å: Chain B: E.23, E.58, H.61 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.23, B:E.58, B:H.61, H2O.7 CU.9: 4 residues within 4Å: Chain B: H.52, H.56 Chain T: H.59, H.63 5 PLIP interactions: 2 interactions with chain B, 2 interactions with chain T, 1 Ligand-Water interactions Metal complexes: B:H.52, B:H.56, T:H.59, T:H.63, H2O.11 CU.10: 7 residues within 4Å: Chain B: H.169 Chain D: H.169 Chain V: H.169 Chain X: H.169 Ligands: CU.24, CU.150, CU.164 6 PLIP interactions: 6 Ligand-Water interactions Metal complexes: H2O.10, H2O.11, H2O.24, H2O.136, H2O.138, H2O.150 CU.15: 3 residues within 4Å: Chain C: E.23, E.58, H.61 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:E.23, C:E.58, C:H.61, H2O.14 CU.16: 4 residues within 4Å: Chain C: H.52, H.56 Chain Q: H.59, H.63 5 PLIP interactions: 2 interactions with chain C, 2 interactions with chain Q, 1 Ligand-Water interactions Metal complexes: C:H.52, C:H.56, Q:H.59, Q:H.63, H2O.17 CU.17: 7 residues within 4Å: Chain A: H.169 Chain C: H.169 Chain U: H.169 Chain W: H.169 Ligands: CU.3, CU.143, CU.157 6 PLIP interactions: 6 Ligand-Water interactions Metal complexes: H2O.5, H2O.16, H2O.18, H2O.130, H2O.131, H2O.144 CU.22: 3 residues within 4Å: Chain D: E.23, E.58, H.61 4 PLIP interactions: 3 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:E.23, D:E.58, D:H.61, H2O.20 CU.23: 4 residues within 4Å: Chain D: H.52, H.56 Chain S: H.59, H.63 5 PLIP interactions: 2 interactions with chain S, 2 interactions with chain D, 1 Ligand-Water interactions Metal complexes: S:H.59, S:H.63, D:H.52, D:H.56, H2O.23 CU.24: 7 residues within 4Å: Chain B: H.169 Chain D: H.169 Chain V: H.169 Chain X: H.169 Ligands: CU.10, CU.150, CU.164 6 PLIP interactions: 6 Ligand-Water interactions Metal complexes: H2O.11, H2O.23, H2O.24, H2O.138, H2O.149, H2O.150 CU.29: 3 residues within 4Å: Chain E: E.23, E.58, H.61 4 PLIP interactions: 3 interactions with chain E, 1 Ligand-Water interactions Metal complexes: E:E.23, E:E.58, E:H.61, H2O.26 CU.30: 4 residues within 4Å: Chain E: H.52, H.56 Chain O: H.59, H.63 5 PLIP interactions: 2 interactions with chain E, 2 interactions with chain O, 1 Ligand-Water interactions Metal complexes: E:H.52, E:H.56, O:H.59, O:H.63, H2O.30 CU.31: 7 residues within 4Å: Chain E: H.169 Chain G: H.169 Chain R: H.169 Chain T: H.169 Ligands: CU.45, CU.122, CU.136 6 PLIP interactions: 6 Ligand-Water interactions Metal complexes: H2O.29, H2O.30, H2O.43, H2O.112, H2O.124, H2O.125 CU.36: 3 residues within 4Å: Chain F: E.23, E.58, H.61 4 PLIP interactions: 3 interactions with chain F, 1 Ligand-Water interactions Metal complexes: F:E.23, F:E.58, F:H.61, H2O.33 CU.37: 4 residues within 4Å: Chain F: H.52, H.56 Chain M: H.59, H.63 5 PLIP interactions: 2 interactions with chain F, 2 interactions with chain M, 1 Ligand-Water interactions Metal complexes: F:H.52, F:H.56, M:H.59, M:H.63, H2O.36 CU.38: 7 residues within 4Å: Chain F: H.169 Chain H: H.169 Chain Q: H.169 Chain S: H.169 Ligands: CU.52, CU.115, CU.129 6 PLIP interactions: 6 Ligand-Water interactions Metal complexes: H2O.35, H2O.37, H2O.49, H2O.105, H2O.106, H2O.119 CU.43: 3 residues within 4Å: Chain G: E.23, E.58, H.61 4 PLIP interactions: 3 interactions with chain G, 1 Ligand-Water interactions Metal complexes: G:E.23, G:E.58, G:H.61, H2O.39 CU.44: 4 residues within 4Å: Chain G: H.52, H.56 Chain P: H.59, H.63 5 PLIP interactions: 2 interactions with chain G, 2 interactions with chain P, 1 Ligand-Water interactions Metal complexes: G:H.52, G:H.56, P:H.59, P:H.63, H2O.42 CU.45: 7 residues within 4Å: Chain E: H.169 Chain G: H.169 Chain R: H.169 Chain T: H.169 Ligands: CU.31, CU.122, CU.136 6 PLIP interactions: 6 Ligand-Water interactions Metal complexes: H2O.30, H2O.42, H2O.43, H2O.111, H2O.112, H2O.125 CU.50: 3 residues within 4Å: Chain H: E.23, E.58, H.61 4 PLIP interactions: 3 interactions with chain H, 1 Ligand-Water interactions Metal complexes: H:E.23, H:E.58, H:H.61, H2O.45 CU.51: 4 residues within 4Å: Chain H: H.52, H.56 Chain N: H.59, H.63 5 PLIP interactions: 2 interactions with chain N, 2 interactions with chain H, 1 Ligand-Water interactions Metal complexes: N:H.59, N:H.63, H:H.52, H:H.56, H2O.49 CU.52: 7 residues within 4Å: Chain F: H.169 Chain H: H.169 Chain Q: H.169 Chain S: H.169 Ligands: CU.38, CU.115, CU.129 6 PLIP interactions: 6 Ligand-Water interactions Metal complexes: H2O.37, H2O.48, H2O.49, H2O.106, H2O.117, H2O.119 CU.57: 3 residues within 4Å: Chain I: E.23, E.58, H.61 4 PLIP interactions: 3 interactions with chain I, 1 Ligand-Water interactions Metal complexes: I:E.23, I:E.58, I:H.61, H2O.52 CU.58: 4 residues within 4Å: Chain I: H.52, H.56 Chain U: H.59, H.63 5 PLIP interactions: 2 interactions with chain I, 2 interactions with chain U, 1 Ligand-Water interactions Metal complexes: I:H.52, I:H.56, U:H.59, U:H.63, H2O.55 CU.59: 7 residues within 4Å: Chain I: H.169 Chain K: H.169 Chain M: H.169 Chain O: H.169 Ligands: CU.73, CU.87, CU.101 6 PLIP interactions: 6 Ligand-Water interactions Metal complexes: H2O.54, H2O.56, H2O.68, H2O.79, H2O.81, H2O.93 CU.64: 3 residues within 4Å: Chain J: E.23, E.58, H.61 4 PLIP interactions: 3 interactions with chain J, 1 Ligand-Water interactions Metal complexes: J:E.23, J:E.58, J:H.61, H2O.58 CU.65: 4 residues within 4Å: Chain J: H.52, H.56 Chain W: H.59, H.63 5 PLIP interactions: 2 interactions with chain W, 2 interactions with chain J, 1 Ligand-Water interactions Metal complexes: W:H.59, W:H.63, J:H.52, J:H.56, H2O.61 CU.66: 7 residues within 4Å: Chain J: H.169 Chain L: H.169 Chain N: H.169 Chain P: H.169 Ligands: CU.80, CU.94, CU.108 6 PLIP interactions: 6 Ligand-Water interactions Metal complexes: H2O.61, H2O.62, H2O.75, H2O.87, H2O.98, H2O.100 CU.71: 3 residues within 4Å: Chain K: E.23, E.58, H.61 4 PLIP interactions: 3 interactions with chain K, 1 Ligand-Water interactions Metal complexes: K:E.23, K:E.58, K:H.61, H2O.64 CU.72: 4 residues within 4Å: Chain K: H.52, H.56 Chain V: H.59, H.63 5 PLIP interactions: 2 interactions with chain V, 2 interactions with chain K, 1 Ligand-Water interactions Metal complexes: V:H.59, V:H.63, K:H.52, K:H.56, H2O.68 CU.73: 7 residues within 4Å: Chain I: H.169 Chain K: H.169 Chain M: H.169 Chain O: H.169 Ligands: CU.59, CU.87, CU.101 6 PLIP interactions: 6 Ligand-Water interactions Metal complexes: H2O.56, H2O.67, H2O.68, H2O.81, H2O.92, H2O.93 CU.78: 3 residues within 4Å: Chain L: E.23, E.58, H.61 4 PLIP interactions: 3 interactions with chain L, 1 Ligand-Water interactions Metal complexes: L:E.23, L:E.58, L:H.61, H2O.70 CU.79: 4 residues within 4Å: Chain L: H.52, H.56 Chain X: H.59, H.63 5 PLIP interactions: 2 interactions with chain X, 2 interactions with chain L, 1 Ligand-Water interactions Metal complexes: X:H.59, X:H.63, L:H.52, L:H.56, H2O.74 CU.80: 7 residues within 4Å: Chain J: H.169 Chain L: H.169 Chain N: H.169 Chain P: H.169 Ligands: CU.66, CU.94, CU.108 6 PLIP interactions: 6 Ligand-Water interactions Metal complexes: H2O.62, H2O.73, H2O.75, H2O.86, H2O.87, H2O.100 CU.85: 3 residues within 4Å: Chain M: E.23, E.58, H.61 4 PLIP interactions: 3 interactions with chain M, 1 Ligand-Water interactions Metal complexes: M:E.23, M:E.58, M:H.61, H2O.77 CU.86: 4 residues within 4Å: Chain F: H.59, H.63 Chain M: H.52, H.56 5 PLIP interactions: 2 interactions with chain M, 2 interactions with chain F, 1 Ligand-Water interactions Metal complexes: M:H.52, M:H.56, F:H.59, F:H.63, H2O.80 CU.87: 7 residues within 4Å: Chain I: H.169 Chain K: H.169 Chain M: H.169 Chain O: H.169 Ligands: CU.59, CU.73, CU.101 6 PLIP interactions: 6 Ligand-Water interactions Metal complexes: H2O.56, H2O.67, H2O.68, H2O.79, H2O.81, H2O.93 CU.92: 3 residues within 4Å: Chain N: E.23, E.58, H.61 4 PLIP interactions: 3 interactions with chain N, 1 Ligand-Water interactions Metal complexes: N:E.23, N:E.58, N:H.61, H2O.83 CU.93: 4 residues within 4Å: Chain H: H.59, H.63 Chain N: H.52, H.56 5 PLIP interactions: 2 interactions with chain H, 2 interactions with chain N, 1 Ligand-Water interactions Metal complexes: H:H.59, H:H.63, N:H.52, N:H.56, H2O.86 CU.94: 7 residues within 4Å: Chain J: H.169 Chain L: H.169 Chain N: H.169 Chain P: H.169 Ligands: CU.66, CU.80, CU.108 6 PLIP interactions: 6 Ligand-Water interactions Metal complexes: H2O.61, H2O.62, H2O.75, H2O.86, H2O.87, H2O.100 CU.99: 3 residues within 4Å: Chain O: E.23, E.58, H.61 4 PLIP interactions: 3 interactions with chain O, 1 Ligand-Water interactions Metal complexes: O:E.23, O:E.58, O:H.61, H2O.89 CU.100: 4 residues within 4Å: Chain E: H.59, H.63 Chain O: H.52, H.56 5 PLIP interactions: 2 interactions with chain E, 2 interactions with chain O, 1 Ligand-Water interactions Metal complexes: E:H.59, E:H.63, O:H.52, O:H.56, H2O.93 CU.101: 7 residues within 4Å: Chain I: H.169 Chain K: H.169 Chain M: H.169 Chain O: H.169 Ligands: CU.59, CU.73, CU.87 6 PLIP interactions: 6 Ligand-Water interactions Metal complexes: H2O.54, H2O.56, H2O.68, H2O.81, H2O.92, H2O.93 CU.106: 3 residues within 4Å: Chain P: E.23, E.58, H.61 4 PLIP interactions: 3 interactions with chain P, 1 Ligand-Water interactions Metal complexes: P:E.23, P:E.58, P:H.61, H2O.96 CU.107: 4 residues within 4Å: Chain G: H.59, H.63 Chain P: H.52, H.56 5 PLIP interactions: 2 interactions with chain P, 2 interactions with chain G, 1 Ligand-Water interactions Metal complexes: P:H.52, P:H.56, G:H.59, G:H.63, H2O.99 CU.108: 7 residues within 4Å: Chain J: H.169 Chain L: H.169 Chain N: H.169 Chain P: H.169 Ligands: CU.66, CU.80, CU.94 6 PLIP interactions: 6 Ligand-Water interactions Metal complexes: H2O.62, H2O.73, H2O.75, H2O.87, H2O.98, H2O.100 CU.113: 3 residues within 4Å: Chain Q: E.23, E.58, H.61 4 PLIP interactions: 3 interactions with chain Q, 1 Ligand-Water interactions Metal complexes: Q:E.23, Q:E.58, Q:H.61, H2O.102 CU.114: 4 residues within 4Å: Chain C: H.59, H.63 Chain Q: H.52, H.56 5 PLIP interactions: 2 interactions with chain Q, 2 interactions with chain C, 1 Ligand-Water interactions Metal complexes: Q:H.52, Q:H.56, C:H.59, C:H.63, H2O.105 CU.115: 7 residues within 4Å: Chain F: H.169 Chain H: H.169 Chain Q: H.169 Chain S: H.169 Ligands: CU.38, CU.52, CU.129 6 PLIP interactions: 6 Ligand-Water interactions Metal complexes: H2O.37, H2O.48, H2O.49, H2O.105, H2O.106, H2O.119 CU.120: 3 residues within 4Å: Chain R: E.23, E.58, H.61 4 PLIP interactions: 3 interactions with chain R, 1 Ligand-Water interactions Metal complexes: R:E.23, R:E.58, R:H.61, H2O.108 CU.121: 4 residues within 4Å: Chain A: H.59, H.63 Chain R: H.52, H.56 5 PLIP interactions: 2 interactions with chain A, 2 interactions with chain R, 1 Ligand-Water interactions Metal complexes: A:H.59, A:H.63, R:H.52, R:H.56, H2O.112 CU.122: 7 residues within 4Å: Chain E: H.169 Chain G: H.169 Chain R: H.169 Chain T: H.169 Ligands: CU.31, CU.45, CU.136 6 PLIP interactions: 6 Ligand-Water interactions Metal complexes: H2O.29, H2O.30, H2O.43, H2O.111, H2O.112, H2O.125 CU.127: 3 residues within 4Å: Chain S: E.23, E.58, H.61 4 PLIP interactions: 3 interactions with chain S, 1 Ligand-Water interactions Metal complexes: S:E.23, S:E.58, S:H.61, H2O.115 CU.128: 4 residues within 4Å: Chain D: H.59, H.63 Chain S: H.52, H.56 5 PLIP interactions: 2 interactions with chain D, 2 interactions with chain S, 1 Ligand-Water interactions Metal complexes: D:H.59, D:H.63, S:H.52, S:H.56, H2O.118 CU.129: 7 residues within 4Å: Chain F: H.169 Chain H: H.169 Chain Q: H.169 Chain S: H.169 Ligands: CU.38, CU.52, CU.115 6 PLIP interactions: 6 Ligand-Water interactions Metal complexes: H2O.35, H2O.37, H2O.49, H2O.106, H2O.117, H2O.119 CU.134: 3 residues within 4Å: Chain T: E.23, E.58, H.61 4 PLIP interactions: 3 interactions with chain T, 1 Ligand-Water interactions Metal complexes: T:E.23, T:E.58, T:H.61, H2O.121 CU.135: 4 residues within 4Å: Chain B: H.59, H.63 Chain T: H.52, H.56 5 PLIP interactions: 2 interactions with chain B, 2 interactions with chain T, 1 Ligand-Water interactions Metal complexes: B:H.59, B:H.63, T:H.52, T:H.56, H2O.124 CU.136: 7 residues within 4Å: Chain E: H.169 Chain G: H.169 Chain R: H.169 Chain T: H.169 Ligands: CU.31, CU.45, CU.122 6 PLIP interactions: 6 Ligand-Water interactions Metal complexes: H2O.30, H2O.42, H2O.43, H2O.112, H2O.124, H2O.125 CU.141: 3 residues within 4Å: Chain U: E.23, E.58, H.61 4 PLIP interactions: 3 interactions with chain U, 1 Ligand-Water interactions Metal complexes: U:E.23, U:E.58, U:H.61, H2O.127 CU.142: 4 residues within 4Å: Chain I: H.59, H.63 Chain U: H.52, H.56 5 PLIP interactions: 2 interactions with chain U, 2 interactions with chain I, 1 Ligand-Water interactions Metal complexes: U:H.52, U:H.56, I:H.59, I:H.63, H2O.131 CU.143: 7 residues within 4Å: Chain A: H.169 Chain C: H.169 Chain U: H.169 Chain W: H.169 Ligands: CU.3, CU.17, CU.157 6 PLIP interactions: 6 Ligand-Water interactions Metal complexes: H2O.4, H2O.5, H2O.18, H2O.130, H2O.131, H2O.144 CU.148: 3 residues within 4Å: Chain V: E.23, E.58, H.61 4 PLIP interactions: 3 interactions with chain V, 1 Ligand-Water interactions Metal complexes: V:E.23, V:E.58, V:H.61, H2O.134 CU.149: 4 residues within 4Å: Chain K: H.59, H.63 Chain V: H.52, H.56 5 PLIP interactions: 2 interactions with chain V, 2 interactions with chain K, 1 Ligand-Water interactions Metal complexes: V:H.52, V:H.56, K:H.59, K:H.63, H2O.137 CU.150: 7 residues within 4Å: Chain B: H.169 Chain D: H.169 Chain V: H.169 Chain X: H.169 Ligands: CU.10, CU.24, CU.164 6 PLIP interactions: 6 Ligand-Water interactions Metal complexes: H2O.11, H2O.23, H2O.24, H2O.136, H2O.138, H2O.150 CU.155: 3 residues within 4Å: Chain W: E.23, E.58, H.61 4 PLIP interactions: 3 interactions with chain W, 1 Ligand-Water interactions Metal complexes: W:E.23, W:E.58, W:H.61, H2O.140 CU.156: 4 residues within 4Å: Chain J: H.59, H.63 Chain W: H.52, H.56 5 PLIP interactions: 2 interactions with chain W, 2 interactions with chain J, 1 Ligand-Water interactions Metal complexes: W:H.52, W:H.56, J:H.59, J:H.63, H2O.143 CU.157: 7 residues within 4Å: Chain A: H.169 Chain C: H.169 Chain U: H.169 Chain W: H.169 Ligands: CU.3, CU.17, CU.143 6 PLIP interactions: 6 Ligand-Water interactions Metal complexes: H2O.5, H2O.16, H2O.18, H2O.131, H2O.143, H2O.144 CU.162: 3 residues within 4Å: Chain X: E.23, E.58, H.61 4 PLIP interactions: 3 interactions with chain X, 1 Ligand-Water interactions Metal complexes: X:E.23, X:E.58, X:H.61, H2O.146 CU.163: 4 residues within 4Å: Chain L: H.59, H.63 Chain X: H.52, H.56 5 PLIP interactions: 2 interactions with chain X, 2 interactions with chain L, 1 Ligand-Water interactions Metal complexes: X:H.52, X:H.56, L:H.59, L:H.63, H2O.150 CU.164: 7 residues within 4Å: Chain B: H.169 Chain D: H.169 Chain V: H.169 Chain X: H.169 Ligands: CU.10, CU.24, CU.150 6 PLIP interactions: 6 Ligand-Water interactions Metal complexes: H2O.10, H2O.11, H2O.24, H2O.138, H2O.149, H2O.150

48 x CA: CALCIUM ION(Non-covalent)

CA.4: 2 residues within 4Å: Chain A: Q.82 Chain R: D.80 3 PLIP interactions: 2 interactions with chain R, 1 Ligand-Water interactions Metal complexes: R:D.80, R:D.80, H2O.5 CA.5: 8 residues within 4Å: Chain A: D.127, E.130 Chain E: D.127, E.130 Chain I: D.127, E.130 Ligands: CA.33, CA.61 5 PLIP interactions: 2 interactions with chain E, 2 interactions with chain A, 1 interactions with chain I Metal complexes: E:D.127, E:E.130, A:D.127, A:E.130, I:E.130 CA.11: 2 residues within 4Å: Chain B: Q.82 Chain T: D.80 3 PLIP interactions: 2 interactions with chain T, 1 Ligand-Water interactions Metal complexes: T:D.80, T:D.80, H2O.11 CA.12: 8 residues within 4Å: Chain B: D.127, E.130 Chain G: D.127, E.130 Chain L: D.127, E.130 Ligands: CA.47, CA.82 5 PLIP interactions: 2 interactions with chain G, 1 interactions with chain L, 2 interactions with chain B Metal complexes: G:D.127, G:E.130, L:E.130, B:D.127, B:E.130 CA.18: 2 residues within 4Å: Chain C: Q.82 Chain Q: D.80 3 PLIP interactions: 2 interactions with chain Q, 1 Ligand-Water interactions Metal complexes: Q:D.80, Q:D.80, H2O.17 CA.19: 8 residues within 4Å: Chain C: D.127, E.130 Chain H: D.127, E.130 Chain J: D.127, E.130 Ligands: CA.54, CA.68 5 PLIP interactions: 2 interactions with chain C, 2 interactions with chain H, 1 interactions with chain J Metal complexes: C:D.127, C:E.130, H:D.127, H:E.130, J:E.130 CA.25: 2 residues within 4Å: Chain D: Q.82 Chain S: D.80 3 PLIP interactions: 2 interactions with chain S, 1 Ligand-Water interactions Metal complexes: S:D.80, S:D.80, H2O.24 CA.26: 8 residues within 4Å: Chain D: D.127, E.130 Chain F: D.127, E.130 Chain K: D.127, E.130 Ligands: CA.40, CA.75 5 PLIP interactions: 1 interactions with chain K, 2 interactions with chain F, 2 interactions with chain D Metal complexes: K:E.130, F:D.127, F:E.130, D:D.127, D:E.130 CA.32: 2 residues within 4Å: Chain E: Q.82 Chain O: D.80 3 PLIP interactions: 2 interactions with chain O, 1 Ligand-Water interactions Metal complexes: O:D.80, O:D.80, H2O.30 CA.33: 8 residues within 4Å: Chain A: D.127, E.130 Chain E: D.127, E.130 Chain I: D.127, E.130 Ligands: CA.5, CA.61 5 PLIP interactions: 2 interactions with chain I, 1 interactions with chain A, 2 interactions with chain E Metal complexes: I:D.127, I:E.130, A:E.130, E:D.127, E:E.130 CA.39: 2 residues within 4Å: Chain F: Q.82 Chain M: D.80 3 PLIP interactions: 2 interactions with chain M, 1 Ligand-Water interactions Metal complexes: M:D.80, M:D.80, H2O.36 CA.40: 8 residues within 4Å: Chain D: D.127, E.130 Chain F: D.127, E.130 Chain K: D.127, E.130 Ligands: CA.26, CA.75 5 PLIP interactions: 2 interactions with chain K, 2 interactions with chain F, 1 interactions with chain D Metal complexes: K:D.127, K:E.130, F:D.127, F:E.130, D:E.130 CA.46: 2 residues within 4Å: Chain G: Q.82 Chain P: D.80 3 PLIP interactions: 2 interactions with chain P, 1 Ligand-Water interactions Metal complexes: P:D.80, P:D.80, H2O.43 CA.47: 8 residues within 4Å: Chain B: D.127, E.130 Chain G: D.127, E.130 Chain L: D.127, E.130 Ligands: CA.12, CA.82 5 PLIP interactions: 1 interactions with chain B, 2 interactions with chain G, 2 interactions with chain L Metal complexes: B:E.130, G:D.127, G:E.130, L:D.127, L:E.130 CA.53: 2 residues within 4Å: Chain H: Q.82 Chain N: D.80 3 PLIP interactions: 2 interactions with chain N, 1 Ligand-Water interactions Metal complexes: N:D.80, N:D.80, H2O.49 CA.54: 8 residues within 4Å: Chain C: D.127, E.130 Chain H: D.127, E.130 Chain J: D.127, E.130 Ligands: CA.19, CA.68 5 PLIP interactions: 2 interactions with chain J, 1 interactions with chain C, 2 interactions with chain H Metal complexes: J:D.127, J:E.130, C:E.130, H:D.127, H:E.130 CA.60: 2 residues within 4Å: Chain I: Q.82 Chain U: D.80 3 PLIP interactions: 2 interactions with chain U, 1 Ligand-Water interactions Metal complexes: U:D.80, U:D.80, H2O.55 CA.61: 8 residues within 4Å: Chain A: D.127, E.130 Chain E: D.127, E.130 Chain I: D.127, E.130 Ligands: CA.5, CA.33 5 PLIP interactions: 2 interactions with chain A, 1 interactions with chain E, 2 interactions with chain I Metal complexes: A:D.127, A:E.130, E:E.130, I:D.127, I:E.130 CA.67: 2 residues within 4Å: Chain J: Q.82 Chain W: D.80 3 PLIP interactions: 2 interactions with chain W, 1 Ligand-Water interactions Metal complexes: W:D.80, W:D.80, H2O.61 CA.68: 8 residues within 4Å: Chain C: D.127, E.130 Chain H: D.127, E.130 Chain J: D.127, E.130 Ligands: CA.19, CA.54 5 PLIP interactions: 2 interactions with chain C, 2 interactions with chain J, 1 interactions with chain H Metal complexes: C:D.127, C:E.130, J:D.127, J:E.130, H:E.130 CA.74: 2 residues within 4Å: Chain K: Q.82 Chain V: D.80 3 PLIP interactions: 2 interactions with chain V, 1 Ligand-Water interactions Metal complexes: V:D.80, V:D.80, H2O.68 CA.75: 8 residues within 4Å: Chain D: D.127, E.130 Chain F: D.127, E.130 Chain K: D.127, E.130 Ligands: CA.26, CA.40 5 PLIP interactions: 1 interactions with chain F, 2 interactions with chain K, 2 interactions with chain D Metal complexes: F:E.130, K:D.127, K:E.130, D:D.127, D:E.130 CA.81: 2 residues within 4Å: Chain L: Q.82 Chain X: D.80 3 PLIP interactions: 2 interactions with chain X, 1 Ligand-Water interactions Metal complexes: X:D.80, X:D.80, H2O.74 CA.82: 8 residues within 4Å: Chain B: D.127, E.130 Chain G: D.127, E.130 Chain L: D.127, E.130 Ligands: CA.12, CA.47 5 PLIP interactions: 1 interactions with chain G, 2 interactions with chain B, 2 interactions with chain L Metal complexes: G:E.130, B:D.127, B:E.130, L:D.127, L:E.130 CA.88: 2 residues within 4Å: Chain F: D.80 Chain M: Q.82 3 PLIP interactions: 2 interactions with chain F, 1 Ligand-Water interactions Metal complexes: F:D.80, F:D.80, H2O.80 CA.89: 8 residues within 4Å: Chain M: D.127, E.130 Chain Q: D.127, E.130 Chain U: D.127, E.130 Ligands: CA.117, CA.145 5 PLIP interactions: 2 interactions with chain M, 2 interactions with chain Q, 1 interactions with chain U Metal complexes: M:D.127, M:E.130, Q:D.127, Q:E.130, U:E.130 CA.95: 2 residues within 4Å: Chain H: D.80 Chain N: Q.82 3 PLIP interactions: 2 interactions with chain H, 1 Ligand-Water interactions Metal complexes: H:D.80, H:D.80, H2O.87 CA.96: 8 residues within 4Å: Chain N: D.127, E.130 Chain S: D.127, E.130 Chain X: D.127, E.130 Ligands: CA.131, CA.166 5 PLIP interactions: 2 interactions with chain S, 2 interactions with chain N, 1 interactions with chain X Metal complexes: S:D.127, S:E.130, N:D.127, N:E.130, X:E.130 CA.102: 2 residues within 4Å: Chain E: D.80 Chain O: Q.82 3 PLIP interactions: 2 interactions with chain E, 1 Ligand-Water interactions Metal complexes: E:D.80, E:D.80, H2O.93 CA.103: 8 residues within 4Å: Chain O: D.127, E.130 Chain T: D.127, E.130 Chain V: D.127, E.130 Ligands: CA.138, CA.152 5 PLIP interactions: 2 interactions with chain T, 2 interactions with chain O, 1 interactions with chain V Metal complexes: T:D.127, T:E.130, O:D.127, O:E.130, V:E.130 CA.109: 2 residues within 4Å: Chain G: D.80 Chain P: Q.82 3 PLIP interactions: 2 interactions with chain G, 1 Ligand-Water interactions Metal complexes: G:D.80, G:D.80, H2O.99 CA.110: 8 residues within 4Å: Chain P: D.127, E.130 Chain R: D.127, E.130 Chain W: D.127, E.130 Ligands: CA.124, CA.159 5 PLIP interactions: 2 interactions with chain P, 2 interactions with chain R, 1 interactions with chain W Metal complexes: P:D.127, P:E.130, R:D.127, R:E.130, W:E.130 CA.116: 2 residues within 4Å: Chain C: D.80 Chain Q: Q.82 3 PLIP interactions: 2 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.80, C:D.80, H2O.106 CA.117: 8 residues within 4Å: Chain M: D.127, E.130 Chain Q: D.127, E.130 Chain U: D.127, E.130 Ligands: CA.89, CA.145 5 PLIP interactions: 1 interactions with chain M, 2 interactions with chain Q, 2 interactions with chain U Metal complexes: M:E.130, Q:D.127, Q:E.130, U:D.127, U:E.130 CA.123: 2 residues within 4Å: Chain A: D.80 Chain R: Q.82 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.80, A:D.80, H2O.112 CA.124: 8 residues within 4Å: Chain P: D.127, E.130 Chain R: D.127, E.130 Chain W: D.127, E.130 Ligands: CA.110, CA.159 5 PLIP interactions: 1 interactions with chain P, 2 interactions with chain W, 2 interactions with chain R Metal complexes: P:E.130, W:D.127, W:E.130, R:D.127, R:E.130 CA.130: 2 residues within 4Å: Chain D: D.80 Chain S: Q.82 3 PLIP interactions: 2 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:D.80, D:D.80, H2O.118 CA.131: 8 residues within 4Å: Chain N: D.127, E.130 Chain S: D.127, E.130 Chain X: D.127, E.130 Ligands: CA.96, CA.166 5 PLIP interactions: 2 interactions with chain S, 2 interactions with chain X, 1 interactions with chain N Metal complexes: S:D.127, S:E.130, X:D.127, X:E.130, N:E.130 CA.137: 2 residues within 4Å: Chain B: D.80 Chain T: Q.82 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.80, B:D.80, H2O.125 CA.138: 8 residues within 4Å: Chain O: D.127, E.130 Chain T: D.127, E.130 Chain V: D.127, E.130 Ligands: CA.103, CA.152 5 PLIP interactions: 2 interactions with chain T, 2 interactions with chain V, 1 interactions with chain O Metal complexes: T:D.127, T:E.130, V:D.127, V:E.130, O:E.130 CA.144: 2 residues within 4Å: Chain I: D.80 Chain U: Q.82 3 PLIP interactions: 2 interactions with chain I, 1 Ligand-Water interactions Metal complexes: I:D.80, I:D.80, H2O.131 CA.145: 8 residues within 4Å: Chain M: D.127, E.130 Chain Q: D.127, E.130 Chain U: D.127, E.130 Ligands: CA.89, CA.117 5 PLIP interactions: 2 interactions with chain M, 2 interactions with chain U, 1 interactions with chain Q Metal complexes: M:D.127, M:E.130, U:D.127, U:E.130, Q:E.130 CA.151: 2 residues within 4Å: Chain K: D.80 Chain V: Q.82 3 PLIP interactions: 2 interactions with chain K, 1 Ligand-Water interactions Metal complexes: K:D.80, K:D.80, H2O.137 CA.152: 8 residues within 4Å: Chain O: D.127, E.130 Chain T: D.127, E.130 Chain V: D.127, E.130 Ligands: CA.103, CA.138 5 PLIP interactions: 1 interactions with chain T, 2 interactions with chain O, 2 interactions with chain V Metal complexes: T:E.130, O:D.127, O:E.130, V:D.127, V:E.130 CA.158: 2 residues within 4Å: Chain J: D.80 Chain W: Q.82 3 PLIP interactions: 2 interactions with chain J, 1 Ligand-Water interactions Metal complexes: J:D.80, J:D.80, H2O.143 CA.159: 8 residues within 4Å: Chain P: D.127, E.130 Chain R: D.127, E.130 Chain W: D.127, E.130 Ligands: CA.110, CA.124 5 PLIP interactions: 2 interactions with chain W, 1 interactions with chain R, 2 interactions with chain P Metal complexes: W:D.127, W:E.130, R:E.130, P:D.127, P:E.130 CA.165: 2 residues within 4Å: Chain L: D.80 Chain X: Q.82 3 PLIP interactions: 2 interactions with chain L, 1 Ligand-Water interactions Metal complexes: L:D.80, L:D.80, H2O.150 CA.166: 8 residues within 4Å: Chain N: D.127, E.130 Chain S: D.127, E.130 Chain X: D.127, E.130 Ligands: CA.96, CA.131 5 PLIP interactions: 1 interactions with chain S, 2 interactions with chain N, 2 interactions with chain X Metal complexes: S:E.130, N:D.127, N:E.130, X:D.127, X:E.130

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

EDO.6: 8 residues within 4Å: Chain A: S.27, S.55, H.56, H.59 Chain R: H.59 Ligands: TRS.7, EDO.125, TRS.126 Ligand excluded by PLIP EDO.13: 8 residues within 4Å: Chain B: S.27, S.55, H.56, H.59 Chain T: H.59 Ligands: TRS.14, EDO.139, TRS.140 Ligand excluded by PLIP EDO.20: 8 residues within 4Å: Chain C: S.27, S.55, H.56, H.59 Chain Q: H.59 Ligands: TRS.21, EDO.118, TRS.119 Ligand excluded by PLIP EDO.27: 8 residues within 4Å: Chain D: S.27, S.55, H.56, H.59 Chain S: H.59 Ligands: TRS.28, EDO.132, TRS.133 Ligand excluded by PLIP EDO.34: 8 residues within 4Å: Chain E: S.27, S.55, H.56, H.59 Chain O: H.59 Ligands: TRS.35, EDO.104, TRS.105 Ligand excluded by PLIP EDO.41: 8 residues within 4Å: Chain F: S.27, S.55, H.56, H.59 Chain M: H.59 Ligands: TRS.42, EDO.90, TRS.91 Ligand excluded by PLIP EDO.48: 8 residues within 4Å: Chain G: S.27, S.55, H.56, H.59 Chain P: H.59 Ligands: TRS.49, EDO.111, TRS.112 Ligand excluded by PLIP EDO.55: 8 residues within 4Å: Chain H: S.27, S.55, H.56, H.59 Chain N: H.59 Ligands: TRS.56, EDO.97, TRS.98 Ligand excluded by PLIP EDO.62: 8 residues within 4Å: Chain I: S.27, S.55, H.56, H.59 Chain U: H.59 Ligands: TRS.63, EDO.146, TRS.147 Ligand excluded by PLIP EDO.69: 8 residues within 4Å: Chain J: S.27, S.55, H.56, H.59 Chain W: H.59 Ligands: TRS.70, EDO.160, TRS.161 Ligand excluded by PLIP EDO.76: 8 residues within 4Å: Chain K: S.27, S.55, H.56, H.59 Chain V: H.59 Ligands: TRS.77, EDO.153, TRS.154 Ligand excluded by PLIP EDO.83: 8 residues within 4Å: Chain L: S.27, S.55, H.56, H.59 Chain X: H.59 Ligands: TRS.84, EDO.167, TRS.168 Ligand excluded by PLIP EDO.90: 8 residues within 4Å: Chain F: H.59 Chain M: S.27, S.55, H.56, H.59 Ligands: EDO.41, TRS.42, TRS.91 Ligand excluded by PLIP EDO.97: 8 residues within 4Å: Chain H: H.59 Chain N: S.27, S.55, H.56, H.59 Ligands: EDO.55, TRS.56, TRS.98 Ligand excluded by PLIP EDO.104: 8 residues within 4Å: Chain E: H.59 Chain O: S.27, S.55, H.56, H.59 Ligands: EDO.34, TRS.35, TRS.105 Ligand excluded by PLIP EDO.111: 8 residues within 4Å: Chain G: H.59 Chain P: S.27, S.55, H.56, H.59 Ligands: EDO.48, TRS.49, TRS.112 Ligand excluded by PLIP EDO.118: 8 residues within 4Å: Chain C: H.59 Chain Q: S.27, S.55, H.56, H.59 Ligands: EDO.20, TRS.21, TRS.119 Ligand excluded by PLIP EDO.125: 8 residues within 4Å: Chain A: H.59 Chain R: S.27, S.55, H.56, H.59 Ligands: EDO.6, TRS.7, TRS.126 Ligand excluded by PLIP EDO.132: 8 residues within 4Å: Chain D: H.59 Chain S: S.27, S.55, H.56, H.59 Ligands: EDO.27, TRS.28, TRS.133 Ligand excluded by PLIP EDO.139: 8 residues within 4Å: Chain B: H.59 Chain T: S.27, S.55, H.56, H.59 Ligands: EDO.13, TRS.14, TRS.140 Ligand excluded by PLIP EDO.146: 8 residues within 4Å: Chain I: H.59 Chain U: S.27, S.55, H.56, H.59 Ligands: EDO.62, TRS.63, TRS.147 Ligand excluded by PLIP EDO.153: 8 residues within 4Å: Chain K: H.59 Chain V: S.27, S.55, H.56, H.59 Ligands: EDO.76, TRS.77, TRS.154 Ligand excluded by PLIP EDO.160: 8 residues within 4Å: Chain J: H.59 Chain W: S.27, S.55, H.56, H.59 Ligands: EDO.69, TRS.70, TRS.161 Ligand excluded by PLIP EDO.167: 8 residues within 4Å: Chain L: H.59 Chain X: S.27, S.55, H.56, H.59 Ligands: EDO.83, TRS.84, TRS.168 Ligand excluded by PLIP

24 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.7: 12 residues within 4Å: Chain A: L.24, S.27, Y.28, L.31, S.55, I.81 Chain R: L.24, H.59, I.81 Ligands: EDO.6, EDO.125, TRS.126 Ligand excluded by PLIP TRS.14: 12 residues within 4Å: Chain B: L.24, S.27, Y.28, L.31, S.55, I.81 Chain T: L.24, H.59, I.81 Ligands: EDO.13, EDO.139, TRS.140 Ligand excluded by PLIP TRS.21: 12 residues within 4Å: Chain C: L.24, S.27, Y.28, L.31, S.55, I.81 Chain Q: L.24, H.59, I.81 Ligands: EDO.20, EDO.118, TRS.119 Ligand excluded by PLIP TRS.28: 12 residues within 4Å: Chain D: L.24, S.27, Y.28, L.31, S.55, I.81 Chain S: L.24, H.59, I.81 Ligands: EDO.27, EDO.132, TRS.133 Ligand excluded by PLIP TRS.35: 12 residues within 4Å: Chain E: L.24, S.27, Y.28, L.31, S.55, I.81 Chain O: L.24, H.59, I.81 Ligands: EDO.34, EDO.104, TRS.105 Ligand excluded by PLIP TRS.42: 12 residues within 4Å: Chain F: L.24, S.27, Y.28, L.31, S.55, I.81 Chain M: L.24, H.59, I.81 Ligands: EDO.41, EDO.90, TRS.91 Ligand excluded by PLIP TRS.49: 12 residues within 4Å: Chain G: L.24, S.27, Y.28, L.31, S.55, I.81 Chain P: L.24, H.59, I.81 Ligands: EDO.48, EDO.111, TRS.112 Ligand excluded by PLIP TRS.56: 12 residues within 4Å: Chain H: L.24, S.27, Y.28, L.31, S.55, I.81 Chain N: L.24, H.59, I.81 Ligands: EDO.55, EDO.97, TRS.98 Ligand excluded by PLIP TRS.63: 12 residues within 4Å: Chain I: L.24, S.27, Y.28, L.31, S.55, I.81 Chain U: L.24, H.59, I.81 Ligands: EDO.62, EDO.146, TRS.147 Ligand excluded by PLIP TRS.70: 12 residues within 4Å: Chain J: L.24, S.27, Y.28, L.31, S.55, I.81 Chain W: L.24, H.59, I.81 Ligands: EDO.69, EDO.160, TRS.161 Ligand excluded by PLIP TRS.77: 12 residues within 4Å: Chain K: L.24, S.27, Y.28, L.31, S.55, I.81 Chain V: L.24, H.59, I.81 Ligands: EDO.76, EDO.153, TRS.154 Ligand excluded by PLIP TRS.84: 12 residues within 4Å: Chain L: L.24, S.27, Y.28, L.31, S.55, I.81 Chain X: L.24, H.59, I.81 Ligands: EDO.83, EDO.167, TRS.168 Ligand excluded by PLIP TRS.91: 12 residues within 4Å: Chain F: L.24, H.59, I.81 Chain M: L.24, S.27, Y.28, L.31, S.55, I.81 Ligands: EDO.41, TRS.42, EDO.90 Ligand excluded by PLIP TRS.98: 12 residues within 4Å: Chain H: L.24, H.59, I.81 Chain N: L.24, S.27, Y.28, L.31, S.55, I.81 Ligands: EDO.55, TRS.56, EDO.97 Ligand excluded by PLIP TRS.105: 12 residues within 4Å: Chain E: L.24, H.59, I.81 Chain O: L.24, S.27, Y.28, L.31, S.55, I.81 Ligands: EDO.34, TRS.35, EDO.104 Ligand excluded by PLIP TRS.112: 12 residues within 4Å: Chain G: L.24, H.59, I.81 Chain P: L.24, S.27, Y.28, L.31, S.55, I.81 Ligands: EDO.48, TRS.49, EDO.111 Ligand excluded by PLIP TRS.119: 12 residues within 4Å: Chain C: L.24, H.59, I.81 Chain Q: L.24, S.27, Y.28, L.31, S.55, I.81 Ligands: EDO.20, TRS.21, EDO.118 Ligand excluded by PLIP TRS.126: 12 residues within 4Å: Chain A: L.24, H.59, I.81 Chain R: L.24, S.27, Y.28, L.31, S.55, I.81 Ligands: EDO.6, TRS.7, EDO.125 Ligand excluded by PLIP TRS.133: 12 residues within 4Å: Chain D: L.24, H.59, I.81 Chain S: L.24, S.27, Y.28, L.31, S.55, I.81 Ligands: EDO.27, TRS.28, EDO.132 Ligand excluded by PLIP TRS.140: 12 residues within 4Å: Chain B: L.24, H.59, I.81 Chain T: L.24, S.27, Y.28, L.31, S.55, I.81 Ligands: EDO.13, TRS.14, EDO.139 Ligand excluded by PLIP TRS.147: 12 residues within 4Å: Chain I: L.24, H.59, I.81 Chain U: L.24, S.27, Y.28, L.31, S.55, I.81 Ligands: EDO.62, TRS.63, EDO.146 Ligand excluded by PLIP TRS.154: 12 residues within 4Å: Chain K: L.24, H.59, I.81 Chain V: L.24, S.27, Y.28, L.31, S.55, I.81 Ligands: EDO.76, TRS.77, EDO.153 Ligand excluded by PLIP TRS.161: 12 residues within 4Å: Chain J: L.24, H.59, I.81 Chain W: L.24, S.27, Y.28, L.31, S.55, I.81 Ligands: EDO.69, TRS.70, EDO.160 Ligand excluded by PLIP TRS.168: 12 residues within 4Å: Chain L: L.24, H.59, I.81 Chain X: L.24, S.27, Y.28, L.31, S.55, I.81 Ligands: EDO.83, TRS.84, EDO.167 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Huard, D.J. et al., Re-engineering protein interfaces yields copper-inducible ferritin cage assembly. Nat.Chem.Biol. (2013)

Release Date

2013-01-23

Peptides

Ferritin heavy chain: ABCDEFGHIJKLMNOPQRSTUVWX

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

G
A

H
A

I
A

J
A

K
A

L
A

M
A

N
A

O
A

P
A

Q
A

R
A

S
A

T
A

U
A

V
A

W
A

X
A

Ferritin heavy chain

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