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

X-ray structure of Desulfovibrio desulfuricans bacterioferritin: the diiron centre in different catalytic states (as-isolated structure)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-24-mer

Ligands

48 x FE: FE (III) ION(Non-covalent)

FE.1: 5 residues within 4Å: Chain A: E.23, E.56, H.59, E.132 Ligands: FE.2 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.23, A:E.23, A:E.56, A:H.59, A:E.132 FE.2: 5 residues within 4Å: Chain A: E.56, E.99, E.132, H.135 Ligands: FE.1 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.56, A:E.99, A:E.99, A:E.132, A:H.135 FE.10: 5 residues within 4Å: Chain B: E.23, E.56, H.59, E.132 Ligands: FE.11 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:E.23, B:E.23, B:E.56, B:H.59, B:E.132 FE.11: 5 residues within 4Å: Chain B: E.56, E.99, E.132, H.135 Ligands: FE.10 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:E.56, B:E.99, B:E.99, B:E.132, B:H.135 FE.18: 5 residues within 4Å: Chain C: E.23, E.56, H.59, E.132 Ligands: FE.19 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:E.23, C:E.23, C:E.56, C:H.59, C:E.132 FE.19: 5 residues within 4Å: Chain C: E.56, E.99, E.132, H.135 Ligands: FE.18 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:E.56, C:E.99, C:E.99, C:E.132, C:H.135 FE.26: 5 residues within 4Å: Chain D: E.23, E.56, H.59, E.132 Ligands: FE.27 5 PLIP interactions: 5 interactions with chain D Metal complexes: D:E.23, D:E.23, D:E.56, D:H.59, D:E.132 FE.27: 5 residues within 4Å: Chain D: E.56, E.99, E.132, H.135 Ligands: FE.26 5 PLIP interactions: 5 interactions with chain D Metal complexes: D:E.56, D:E.99, D:E.99, D:E.132, D:H.135 FE.33: 5 residues within 4Å: Chain E: E.23, E.56, H.59, E.132 Ligands: FE.34 5 PLIP interactions: 5 interactions with chain E Metal complexes: E:E.23, E:E.23, E:E.56, E:H.59, E:E.132 FE.34: 5 residues within 4Å: Chain E: E.56, E.99, E.132, H.135 Ligands: FE.33 5 PLIP interactions: 5 interactions with chain E Metal complexes: E:E.56, E:E.99, E:E.99, E:E.132, E:H.135 FE.42: 5 residues within 4Å: Chain F: E.23, E.56, H.59, E.132 Ligands: FE.43 5 PLIP interactions: 5 interactions with chain F Metal complexes: F:E.23, F:E.23, F:E.56, F:H.59, F:E.132 FE.43: 5 residues within 4Å: Chain F: E.56, E.99, E.132, H.135 Ligands: FE.42 5 PLIP interactions: 5 interactions with chain F Metal complexes: F:E.56, F:E.99, F:E.99, F:E.132, F:H.135 FE.49: 5 residues within 4Å: Chain G: E.23, E.56, H.59, E.132 Ligands: FE.50 5 PLIP interactions: 5 interactions with chain G Metal complexes: G:E.23, G:E.23, G:E.56, G:H.59, G:E.132 FE.50: 5 residues within 4Å: Chain G: E.56, E.99, E.132, H.135 Ligands: FE.49 5 PLIP interactions: 5 interactions with chain G Metal complexes: G:E.56, G:E.99, G:E.99, G:E.132, G:H.135 FE.56: 5 residues within 4Å: Chain H: E.23, E.56, H.59, E.132 Ligands: FE.57 5 PLIP interactions: 5 interactions with chain H Metal complexes: H:E.23, H:E.23, H:E.56, H:H.59, H:E.132 FE.57: 5 residues within 4Å: Chain H: E.56, E.99, E.132, H.135 Ligands: FE.56 5 PLIP interactions: 5 interactions with chain H Metal complexes: H:E.56, H:E.99, H:E.99, H:E.132, H:H.135 FE.62: 5 residues within 4Å: Chain I: E.23, E.56, H.59, E.132 Ligands: FE.63 5 PLIP interactions: 5 interactions with chain I Metal complexes: I:E.23, I:E.23, I:E.56, I:H.59, I:E.132 FE.63: 5 residues within 4Å: Chain I: E.56, E.99, E.132, H.135 Ligands: FE.62 5 PLIP interactions: 5 interactions with chain I Metal complexes: I:E.56, I:E.99, I:E.99, I:E.132, I:H.135 FE.71: 5 residues within 4Å: Chain J: E.23, E.56, H.59, E.132 Ligands: FE.72 5 PLIP interactions: 5 interactions with chain J Metal complexes: J:E.23, J:E.23, J:E.56, J:H.59, J:E.132 FE.72: 5 residues within 4Å: Chain J: E.56, E.99, E.132, H.135 Ligands: FE.71 5 PLIP interactions: 5 interactions with chain J Metal complexes: J:E.56, J:E.99, J:E.99, J:E.132, J:H.135 FE.79: 5 residues within 4Å: Chain K: E.23, E.56, H.59, E.132 Ligands: FE.80 5 PLIP interactions: 5 interactions with chain K Metal complexes: K:E.23, K:E.23, K:E.56, K:H.59, K:E.132 FE.80: 5 residues within 4Å: Chain K: E.56, E.99, E.132, H.135 Ligands: FE.79 5 PLIP interactions: 5 interactions with chain K Metal complexes: K:E.56, K:E.99, K:E.99, K:E.132, K:H.135 FE.87: 5 residues within 4Å: Chain L: E.23, E.56, H.59, E.132 Ligands: FE.88 5 PLIP interactions: 5 interactions with chain L Metal complexes: L:E.23, L:E.23, L:E.56, L:H.59, L:E.132 FE.88: 5 residues within 4Å: Chain L: E.56, E.99, E.132, H.135 Ligands: FE.87 5 PLIP interactions: 5 interactions with chain L Metal complexes: L:E.56, L:E.99, L:E.99, L:E.132, L:H.135 FE.94: 5 residues within 4Å: Chain M: E.23, E.56, H.59, E.132 Ligands: FE.95 5 PLIP interactions: 5 interactions with chain M Metal complexes: M:E.23, M:E.23, M:E.56, M:H.59, M:E.132 FE.95: 5 residues within 4Å: Chain M: E.56, E.99, E.132, H.135 Ligands: FE.94 5 PLIP interactions: 5 interactions with chain M Metal complexes: M:E.56, M:E.99, M:E.99, M:E.132, M:H.135 FE.103: 5 residues within 4Å: Chain N: E.23, E.56, H.59, E.132 Ligands: FE.104 5 PLIP interactions: 5 interactions with chain N Metal complexes: N:E.23, N:E.23, N:E.56, N:H.59, N:E.132 FE.104: 5 residues within 4Å: Chain N: E.56, E.99, E.132, H.135 Ligands: FE.103 5 PLIP interactions: 5 interactions with chain N Metal complexes: N:E.56, N:E.99, N:E.99, N:E.132, N:H.135 FE.110: 5 residues within 4Å: Chain O: E.23, E.56, H.59, E.132 Ligands: FE.111 5 PLIP interactions: 5 interactions with chain O Metal complexes: O:E.23, O:E.23, O:E.56, O:H.59, O:E.132 FE.111: 5 residues within 4Å: Chain O: E.56, E.99, E.132, H.135 Ligands: FE.110 5 PLIP interactions: 5 interactions with chain O Metal complexes: O:E.56, O:E.99, O:E.99, O:E.132, O:H.135 FE.117: 5 residues within 4Å: Chain P: E.23, E.56, H.59, E.132 Ligands: FE.118 5 PLIP interactions: 5 interactions with chain P Metal complexes: P:E.23, P:E.23, P:E.56, P:H.59, P:E.132 FE.118: 5 residues within 4Å: Chain P: E.56, E.99, E.132, H.135 Ligands: FE.117 5 PLIP interactions: 5 interactions with chain P Metal complexes: P:E.56, P:E.99, P:E.99, P:E.132, P:H.135 FE.123: 5 residues within 4Å: Chain Q: E.23, E.56, H.59, E.132 Ligands: FE.124 5 PLIP interactions: 5 interactions with chain Q Metal complexes: Q:E.23, Q:E.23, Q:E.56, Q:H.59, Q:E.132 FE.124: 5 residues within 4Å: Chain Q: E.56, E.99, E.132, H.135 Ligands: FE.123 5 PLIP interactions: 5 interactions with chain Q Metal complexes: Q:E.56, Q:E.99, Q:E.99, Q:E.132, Q:H.135 FE.132: 5 residues within 4Å: Chain R: E.23, E.56, H.59, E.132 Ligands: FE.133 5 PLIP interactions: 5 interactions with chain R Metal complexes: R:E.23, R:E.23, R:E.56, R:H.59, R:E.132 FE.133: 5 residues within 4Å: Chain R: E.56, E.99, E.132, H.135 Ligands: FE.132 5 PLIP interactions: 5 interactions with chain R Metal complexes: R:E.56, R:E.99, R:E.99, R:E.132, R:H.135 FE.140: 5 residues within 4Å: Chain S: E.23, E.56, H.59, E.132 Ligands: FE.141 5 PLIP interactions: 5 interactions with chain S Metal complexes: S:E.23, S:E.23, S:E.56, S:H.59, S:E.132 FE.141: 5 residues within 4Å: Chain S: E.56, E.99, E.132, H.135 Ligands: FE.140 5 PLIP interactions: 5 interactions with chain S Metal complexes: S:E.56, S:E.99, S:E.99, S:E.132, S:H.135 FE.148: 5 residues within 4Å: Chain T: E.23, E.56, H.59, E.132 Ligands: FE.149 5 PLIP interactions: 5 interactions with chain T Metal complexes: T:E.23, T:E.23, T:E.56, T:H.59, T:E.132 FE.149: 5 residues within 4Å: Chain T: E.56, E.99, E.132, H.135 Ligands: FE.148 5 PLIP interactions: 5 interactions with chain T Metal complexes: T:E.56, T:E.99, T:E.99, T:E.132, T:H.135 FE.155: 5 residues within 4Å: Chain U: E.23, E.56, H.59, E.132 Ligands: FE.156 5 PLIP interactions: 5 interactions with chain U Metal complexes: U:E.23, U:E.23, U:E.56, U:H.59, U:E.132 FE.156: 5 residues within 4Å: Chain U: E.56, E.99, E.132, H.135 Ligands: FE.155 5 PLIP interactions: 5 interactions with chain U Metal complexes: U:E.56, U:E.99, U:E.99, U:E.132, U:H.135 FE.164: 5 residues within 4Å: Chain V: E.23, E.56, H.59, E.132 Ligands: FE.165 5 PLIP interactions: 5 interactions with chain V Metal complexes: V:E.23, V:E.23, V:E.56, V:H.59, V:E.132 FE.165: 5 residues within 4Å: Chain V: E.56, E.99, E.132, H.135 Ligands: FE.164 5 PLIP interactions: 5 interactions with chain V Metal complexes: V:E.56, V:E.99, V:E.99, V:E.132, V:H.135 FE.171: 5 residues within 4Å: Chain W: E.23, E.56, H.59, E.132 Ligands: FE.172 5 PLIP interactions: 5 interactions with chain W Metal complexes: W:E.23, W:E.23, W:E.56, W:H.59, W:E.132 FE.172: 5 residues within 4Å: Chain W: E.56, E.99, E.132, H.135 Ligands: FE.171 5 PLIP interactions: 5 interactions with chain W Metal complexes: W:E.56, W:E.99, W:E.99, W:E.132, W:H.135 FE.178: 5 residues within 4Å: Chain X: E.23, E.56, H.59, E.132 Ligands: FE.179 5 PLIP interactions: 5 interactions with chain X Metal complexes: X:E.23, X:E.23, X:E.56, X:H.59, X:E.132 FE.179: 5 residues within 4Å: Chain X: E.56, E.99, E.132, H.135 Ligands: FE.178 5 PLIP interactions: 5 interactions with chain X Metal complexes: X:E.56, X:E.99, X:E.99, X:E.132, X:H.135

81 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 5 residues within 4Å: Chain A: K.50, S.162, S.163, T.164, G.165 Ligand excluded by PLIP SO4.4: 2 residues within 4Å: Ligands: SO4.65, SO4.126 Ligand excluded by PLIP SO4.5: 3 residues within 4Å: Chain A: P.161, S.162, S.163 Ligand excluded by PLIP SO4.6: 4 residues within 4Å: Chain A: T.75, T.76, Q.77 Ligands: SO4.9 Ligand excluded by PLIP SO4.7: 6 residues within 4Å: Chain A: K.78, G.80, K.81, V.82 Chain B: T.76, Q.77 Ligand excluded by PLIP SO4.9: 7 residues within 4Å: Chain A: T.76, Q.77 Chain B: K.78, K.81, V.82 Ligands: SO4.6, GOL.16 Ligand excluded by PLIP SO4.12: 5 residues within 4Å: Chain B: K.50, S.162, S.163, T.164, G.165 Ligand excluded by PLIP SO4.13: 3 residues within 4Å: Chain B: K.114 Chain C: K.114 Chain H: K.114 Ligand excluded by PLIP SO4.14: 3 residues within 4Å: Chain B: P.161, S.162, S.163 Ligand excluded by PLIP SO4.20: 2 residues within 4Å: Chain C: S.144, N.148 Ligand excluded by PLIP SO4.21: 3 residues within 4Å: Chain C: P.161, S.162, S.163 Ligand excluded by PLIP SO4.22: 5 residues within 4Å: Chain C: L.149, G.150, D.151, T.152 Chain G: D.151 Ligand excluded by PLIP SO4.28: 5 residues within 4Å: Chain D: K.50, S.163, T.164, G.165 Ligands: FEC.23 Ligand excluded by PLIP SO4.29: 2 residues within 4Å: Chain D: S.144, N.148 Ligand excluded by PLIP SO4.30: 3 residues within 4Å: Chain D: P.161, S.162, S.163 Ligand excluded by PLIP SO4.35: 5 residues within 4Å: Chain E: K.50, S.162, S.163, T.164, G.165 Ligand excluded by PLIP SO4.36: 1 residues within 4Å: Chain E: R.5 Ligand excluded by PLIP SO4.37: 3 residues within 4Å: Chain E: S.144, K.147, N.148 Ligand excluded by PLIP SO4.38: 3 residues within 4Å: Chain E: P.161, S.162, S.163 Ligand excluded by PLIP SO4.44: 6 residues within 4Å: Chain F: K.50, S.162, S.163, T.164, G.165 Ligands: FEC.39 Ligand excluded by PLIP SO4.45: 5 residues within 4Å: Chain F: K.114 Chain N: K.114 Chain V: K.114 Ligands: SO4.106, SO4.167 Ligand excluded by PLIP SO4.46: 4 residues within 4Å: Chain F: T.160, P.161, S.162, S.163 Ligand excluded by PLIP SO4.51: 5 residues within 4Å: Chain G: K.50, S.162, S.163, T.164, G.165 Ligand excluded by PLIP SO4.52: 3 residues within 4Å: Chain G: P.161, S.162, S.163 Ligand excluded by PLIP SO4.58: 5 residues within 4Å: Chain H: K.50, S.162, S.163, T.164, G.165 Ligand excluded by PLIP SO4.59: 3 residues within 4Å: Chain H: S.144, K.147, N.148 Ligand excluded by PLIP SO4.60: 3 residues within 4Å: Chain H: P.161, S.162, S.163 Ligand excluded by PLIP SO4.64: 5 residues within 4Å: Chain I: K.50, S.162, S.163, T.164, G.165 Ligand excluded by PLIP SO4.65: 2 residues within 4Å: Ligands: SO4.4, SO4.126 Ligand excluded by PLIP SO4.66: 3 residues within 4Å: Chain I: P.161, S.162, S.163 Ligand excluded by PLIP SO4.67: 4 residues within 4Å: Chain I: T.75, T.76, Q.77 Ligands: SO4.70 Ligand excluded by PLIP SO4.68: 6 residues within 4Å: Chain I: K.78, G.80, K.81, V.82 Chain J: T.76, Q.77 Ligand excluded by PLIP SO4.70: 7 residues within 4Å: Chain I: T.76, Q.77 Chain J: K.78, K.81, V.82 Ligands: SO4.67, GOL.77 Ligand excluded by PLIP SO4.73: 5 residues within 4Å: Chain J: K.50, S.162, S.163, T.164, G.165 Ligand excluded by PLIP SO4.74: 3 residues within 4Å: Chain J: K.114 Chain K: K.114 Chain P: K.114 Ligand excluded by PLIP SO4.75: 3 residues within 4Å: Chain J: P.161, S.162, S.163 Ligand excluded by PLIP SO4.81: 2 residues within 4Å: Chain K: S.144, N.148 Ligand excluded by PLIP SO4.82: 3 residues within 4Å: Chain K: P.161, S.162, S.163 Ligand excluded by PLIP SO4.83: 5 residues within 4Å: Chain K: L.149, G.150, D.151, T.152 Chain O: D.151 Ligand excluded by PLIP SO4.89: 5 residues within 4Å: Chain L: K.50, S.163, T.164, G.165 Ligands: FEC.84 Ligand excluded by PLIP SO4.90: 2 residues within 4Å: Chain L: S.144, N.148 Ligand excluded by PLIP SO4.91: 3 residues within 4Å: Chain L: P.161, S.162, S.163 Ligand excluded by PLIP SO4.96: 5 residues within 4Å: Chain M: K.50, S.162, S.163, T.164, G.165 Ligand excluded by PLIP SO4.97: 1 residues within 4Å: Chain M: R.5 Ligand excluded by PLIP SO4.98: 3 residues within 4Å: Chain M: S.144, K.147, N.148 Ligand excluded by PLIP SO4.99: 3 residues within 4Å: Chain M: P.161, S.162, S.163 Ligand excluded by PLIP SO4.105: 6 residues within 4Å: Chain N: K.50, S.162, S.163, T.164, G.165 Ligands: FEC.100 Ligand excluded by PLIP SO4.106: 5 residues within 4Å: Chain F: K.114 Chain N: K.114 Chain V: K.114 Ligands: SO4.45, SO4.167 Ligand excluded by PLIP SO4.107: 4 residues within 4Å: Chain N: T.160, P.161, S.162, S.163 Ligand excluded by PLIP SO4.112: 5 residues within 4Å: Chain O: K.50, S.162, S.163, T.164, G.165 Ligand excluded by PLIP SO4.113: 3 residues within 4Å: Chain O: P.161, S.162, S.163 Ligand excluded by PLIP SO4.119: 5 residues within 4Å: Chain P: K.50, S.162, S.163, T.164, G.165 Ligand excluded by PLIP SO4.120: 3 residues within 4Å: Chain P: S.144, K.147, N.148 Ligand excluded by PLIP SO4.121: 3 residues within 4Å: Chain P: P.161, S.162, S.163 Ligand excluded by PLIP SO4.125: 5 residues within 4Å: Chain Q: K.50, S.162, S.163, T.164, G.165 Ligand excluded by PLIP SO4.126: 2 residues within 4Å: Ligands: SO4.4, SO4.65 Ligand excluded by PLIP SO4.127: 3 residues within 4Å: Chain Q: P.161, S.162, S.163 Ligand excluded by PLIP SO4.128: 4 residues within 4Å: Chain Q: T.75, T.76, Q.77 Ligands: SO4.131 Ligand excluded by PLIP SO4.129: 6 residues within 4Å: Chain Q: K.78, G.80, K.81, V.82 Chain R: T.76, Q.77 Ligand excluded by PLIP SO4.131: 7 residues within 4Å: Chain Q: T.76, Q.77 Chain R: K.78, K.81, V.82 Ligands: SO4.128, GOL.138 Ligand excluded by PLIP SO4.134: 5 residues within 4Å: Chain R: K.50, S.162, S.163, T.164, G.165 Ligand excluded by PLIP SO4.135: 3 residues within 4Å: Chain R: K.114 Chain S: K.114 Chain X: K.114 Ligand excluded by PLIP SO4.136: 3 residues within 4Å: Chain R: P.161, S.162, S.163 Ligand excluded by PLIP SO4.142: 2 residues within 4Å: Chain S: S.144, N.148 Ligand excluded by PLIP SO4.143: 3 residues within 4Å: Chain S: P.161, S.162, S.163 Ligand excluded by PLIP SO4.144: 5 residues within 4Å: Chain S: L.149, G.150, D.151, T.152 Chain W: D.151 Ligand excluded by PLIP SO4.150: 5 residues within 4Å: Chain T: K.50, S.163, T.164, G.165 Ligands: FEC.145 Ligand excluded by PLIP SO4.151: 2 residues within 4Å: Chain T: S.144, N.148 Ligand excluded by PLIP SO4.152: 3 residues within 4Å: Chain T: P.161, S.162, S.163 Ligand excluded by PLIP SO4.157: 5 residues within 4Å: Chain U: K.50, S.162, S.163, T.164, G.165 Ligand excluded by PLIP SO4.158: 1 residues within 4Å: Chain U: R.5 Ligand excluded by PLIP SO4.159: 3 residues within 4Å: Chain U: S.144, K.147, N.148 Ligand excluded by PLIP SO4.160: 3 residues within 4Å: Chain U: P.161, S.162, S.163 Ligand excluded by PLIP SO4.166: 6 residues within 4Å: Chain V: K.50, S.162, S.163, T.164, G.165 Ligands: FEC.161 Ligand excluded by PLIP SO4.167: 5 residues within 4Å: Chain F: K.114 Chain N: K.114 Chain V: K.114 Ligands: SO4.45, SO4.106 Ligand excluded by PLIP SO4.168: 4 residues within 4Å: Chain V: T.160, P.161, S.162, S.163 Ligand excluded by PLIP SO4.173: 5 residues within 4Å: Chain W: K.50, S.162, S.163, T.164, G.165 Ligand excluded by PLIP SO4.174: 3 residues within 4Å: Chain W: P.161, S.162, S.163 Ligand excluded by PLIP SO4.180: 5 residues within 4Å: Chain X: K.50, S.162, S.163, T.164, G.165 Ligand excluded by PLIP SO4.181: 3 residues within 4Å: Chain X: S.144, K.147, N.148 Ligand excluded by PLIP SO4.182: 3 residues within 4Å: Chain X: P.161, S.162, S.163 Ligand excluded by PLIP

42 x GOL: GLYCEROL(Non-functional Binders)

GOL.8: 6 residues within 4Å: Chain A: R.58, H.59, N.62, L.124, R.127, E.131 Ligand excluded by PLIP GOL.16: 5 residues within 4Å: Chain A: Q.77, K.78 Chain B: Q.77, K.78 Ligands: SO4.9 Ligand excluded by PLIP GOL.17: 7 residues within 4Å: Chain B: R.58, H.59, N.62, L.124, R.127, I.128, E.131 Ligand excluded by PLIP GOL.24: 5 residues within 4Å: Chain C: R.58, H.59, N.62, R.127, E.131 Ligand excluded by PLIP GOL.25: 4 residues within 4Å: Chain C: Q.77, K.78 Chain D: Q.77, K.78 Ligand excluded by PLIP GOL.31: 7 residues within 4Å: Chain D: R.58, H.59, N.62, L.124, R.127, I.128, E.131 Ligand excluded by PLIP GOL.32: 6 residues within 4Å: Chain D: R.5, K.9, G.117 Chain E: D.100, I.103, E.104 Ligand excluded by PLIP GOL.40: 6 residues within 4Å: Chain D: R.123, R.127 Chain E: R.123, R.127 Chain W: R.123 Ligands: GOL.41 Ligand excluded by PLIP GOL.41: 8 residues within 4Å: Chain E: R.58, H.59, N.62, L.124, R.127, I.128, E.131 Ligands: GOL.40 Ligand excluded by PLIP GOL.47: 4 residues within 4Å: Chain E: Q.77, K.78 Chain F: Q.77, K.78 Ligand excluded by PLIP GOL.48: 6 residues within 4Å: Chain F: H.59, N.62, L.124, R.127, I.128, E.131 Ligand excluded by PLIP GOL.54: 5 residues within 4Å: Chain G: R.58, N.62, L.124, R.127, E.131 Ligand excluded by PLIP GOL.55: 4 residues within 4Å: Chain G: Q.77, K.78 Chain H: Q.77, K.78 Ligand excluded by PLIP GOL.61: 5 residues within 4Å: Chain H: H.59, N.62, L.124, R.127, E.131 Ligand excluded by PLIP GOL.69: 6 residues within 4Å: Chain I: R.58, H.59, N.62, L.124, R.127, E.131 Ligand excluded by PLIP GOL.77: 5 residues within 4Å: Chain I: Q.77, K.78 Chain J: Q.77, K.78 Ligands: SO4.70 Ligand excluded by PLIP GOL.78: 7 residues within 4Å: Chain J: R.58, H.59, N.62, L.124, R.127, I.128, E.131 Ligand excluded by PLIP GOL.85: 5 residues within 4Å: Chain K: R.58, H.59, N.62, R.127, E.131 Ligand excluded by PLIP GOL.86: 4 residues within 4Å: Chain K: Q.77, K.78 Chain L: Q.77, K.78 Ligand excluded by PLIP GOL.92: 7 residues within 4Å: Chain L: R.58, H.59, N.62, L.124, R.127, I.128, E.131 Ligand excluded by PLIP GOL.93: 6 residues within 4Å: Chain L: R.5, K.9, G.117 Chain M: D.100, I.103, E.104 Ligand excluded by PLIP GOL.101: 6 residues within 4Å: Chain G: R.123 Chain L: R.123, R.127 Chain M: R.123, R.127 Ligands: GOL.102 Ligand excluded by PLIP GOL.102: 8 residues within 4Å: Chain M: R.58, H.59, N.62, L.124, R.127, I.128, E.131 Ligands: GOL.101 Ligand excluded by PLIP GOL.108: 4 residues within 4Å: Chain M: Q.77, K.78 Chain N: Q.77, K.78 Ligand excluded by PLIP GOL.109: 6 residues within 4Å: Chain N: H.59, N.62, L.124, R.127, I.128, E.131 Ligand excluded by PLIP GOL.115: 5 residues within 4Å: Chain O: R.58, N.62, L.124, R.127, E.131 Ligand excluded by PLIP GOL.116: 4 residues within 4Å: Chain O: Q.77, K.78 Chain P: Q.77, K.78 Ligand excluded by PLIP GOL.122: 5 residues within 4Å: Chain P: H.59, N.62, L.124, R.127, E.131 Ligand excluded by PLIP GOL.130: 6 residues within 4Å: Chain Q: R.58, H.59, N.62, L.124, R.127, E.131 Ligand excluded by PLIP GOL.138: 5 residues within 4Å: Chain Q: Q.77, K.78 Chain R: Q.77, K.78 Ligands: SO4.131 Ligand excluded by PLIP GOL.139: 7 residues within 4Å: Chain R: R.58, H.59, N.62, L.124, R.127, I.128, E.131 Ligand excluded by PLIP GOL.146: 5 residues within 4Å: Chain S: R.58, H.59, N.62, R.127, E.131 Ligand excluded by PLIP GOL.147: 4 residues within 4Å: Chain S: Q.77, K.78 Chain T: Q.77, K.78 Ligand excluded by PLIP GOL.153: 7 residues within 4Å: Chain T: R.58, H.59, N.62, L.124, R.127, I.128, E.131 Ligand excluded by PLIP GOL.154: 6 residues within 4Å: Chain T: R.5, K.9, G.117 Chain U: D.100, I.103, E.104 Ligand excluded by PLIP GOL.162: 6 residues within 4Å: Chain O: R.123 Chain T: R.123, R.127 Chain U: R.123, R.127 Ligands: GOL.163 Ligand excluded by PLIP GOL.163: 8 residues within 4Å: Chain U: R.58, H.59, N.62, L.124, R.127, I.128, E.131 Ligands: GOL.162 Ligand excluded by PLIP GOL.169: 4 residues within 4Å: Chain U: Q.77, K.78 Chain V: Q.77, K.78 Ligand excluded by PLIP GOL.170: 6 residues within 4Å: Chain V: H.59, N.62, L.124, R.127, I.128, E.131 Ligand excluded by PLIP GOL.176: 5 residues within 4Å: Chain W: R.58, N.62, L.124, R.127, E.131 Ligand excluded by PLIP GOL.177: 4 residues within 4Å: Chain W: Q.77, K.78 Chain X: Q.77, K.78 Ligand excluded by PLIP GOL.183: 5 residues within 4Å: Chain X: H.59, N.62, L.124, R.127, E.131 Ligand excluded by PLIP

12 x FEC: 1,3,5,8-TETRAMETHYL-PORPHINE-2,4,6,7-TETRAPROPIONIC ACID FERROUS COMPLEX(Covalent)(Non-covalent)

FEC.15: 23 residues within 4Å: Chain A: R.20, L.24, I.27, H.28, M.31, Y.35, K.50, I.54, M.57, E.61, S.168, K.169 Chain B: R.20, I.27, H.28, M.31, Y.35, K.50, M.57, E.61, A.167, S.168, K.169 22 PLIP interactions: 11 interactions with chain B, 11 interactions with chain A, Hydrophobic interactions: B:I.27, B:M.31, B:M.57, B:E.61, A:L.24, A:I.27, A:M.31, A:I.54, A:E.61 Hydrogen bonds: B:Y.35, B:S.168, B:S.168, B:K.169, A:Y.35, A:Y.35 Water bridges: B:R.20 Salt bridges: B:R.20, B:K.50, A:R.20, A:H.28, A:K.169, A:K.169 FEC.23: 24 residues within 4Å: Chain C: R.20, L.24, I.27, H.28, M.31, Y.35, K.50, M.57, A.60, E.61, S.168, K.169 Chain D: R.20, I.27, H.28, M.31, Y.35, K.50, M.57, R.58, E.61, S.168, K.169 Ligands: SO4.28 21 PLIP interactions: 10 interactions with chain C, 11 interactions with chain D, Hydrophobic interactions: C:L.24, C:I.27, C:M.57, C:E.61, D:I.27, D:M.31, D:E.61 Hydrogen bonds: C:Y.35, C:Y.35, D:Y.35, D:S.168, D:S.168, D:K.169 Salt bridges: C:R.20, C:H.28, C:K.169, C:K.169, D:R.20, D:K.50 Water bridges: D:R.20, D:N.32 FEC.39: 25 residues within 4Å: Chain E: R.20, L.24, I.27, H.28, M.31, Y.35, K.50, I.54, M.57, A.60, E.61, S.168, K.169 Chain F: R.20, I.27, H.28, M.31, Y.35, K.50, M.57, E.61, A.167, S.168, K.169 Ligands: SO4.44 21 PLIP interactions: 11 interactions with chain E, 10 interactions with chain F, Hydrophobic interactions: E:L.24, E:I.27, E:M.31, E:I.54, E:E.61, F:I.27, F:M.31, F:E.61 Hydrogen bonds: E:Y.35, E:Y.35, F:S.168, F:S.168, F:K.169 Salt bridges: E:R.20, E:H.28, E:K.169, E:K.169, F:R.20, F:K.50 Water bridges: F:R.20, F:N.32 FEC.53: 23 residues within 4Å: Chain G: R.20, L.24, I.27, H.28, M.31, Y.35, K.50, I.54, M.57, E.61, S.168, K.169 Chain H: R.20, I.27, H.28, M.31, Y.35, K.50, M.57, E.61, A.167, S.168, K.169 21 PLIP interactions: 11 interactions with chain G, 10 interactions with chain H, Hydrophobic interactions: G:L.24, G:I.27, G:I.27, G:M.31, G:I.54, G:E.61, H:I.27, H:M.31, H:E.61 Hydrogen bonds: G:Y.35, H:Y.35, H:S.168, H:S.168, H:K.169 Water bridges: G:N.32, H:N.32 Salt bridges: G:R.20, G:K.169, G:K.169, H:R.20, H:K.50 FEC.76: 23 residues within 4Å: Chain I: R.20, L.24, I.27, H.28, M.31, Y.35, K.50, I.54, M.57, E.61, S.168, K.169 Chain J: R.20, I.27, H.28, M.31, Y.35, K.50, M.57, E.61, A.167, S.168, K.169 21 PLIP interactions: 10 interactions with chain J, 11 interactions with chain I, Hydrophobic interactions: J:I.27, J:M.31, J:M.57, J:E.61, I:L.24, I:I.27, I:M.31, I:I.54, I:E.61 Hydrogen bonds: J:S.168, J:S.168, J:K.169, I:Y.35, I:Y.35 Water bridges: J:R.20 Salt bridges: J:R.20, J:K.50, I:R.20, I:H.28, I:K.169, I:K.169 FEC.84: 24 residues within 4Å: Chain K: R.20, L.24, I.27, H.28, M.31, Y.35, K.50, M.57, A.60, E.61, S.168, K.169 Chain L: R.20, I.27, H.28, M.31, Y.35, K.50, M.57, R.58, E.61, S.168, K.169 Ligands: SO4.89 20 PLIP interactions: 10 interactions with chain K, 10 interactions with chain L, Hydrophobic interactions: K:L.24, K:I.27, K:M.57, K:E.61, L:I.27, L:M.31, L:E.61 Hydrogen bonds: K:Y.35, K:S.168, L:S.168, L:S.168, L:K.169 Salt bridges: K:R.20, K:H.28, K:K.169, K:K.169, L:R.20, L:K.50 Water bridges: L:R.20, L:N.32 FEC.100: 25 residues within 4Å: Chain M: R.20, L.24, I.27, H.28, M.31, Y.35, K.50, I.54, M.57, A.60, E.61, S.168, K.169 Chain N: R.20, I.27, H.28, M.31, Y.35, K.50, M.57, E.61, A.167, S.168, K.169 Ligands: SO4.105 20 PLIP interactions: 10 interactions with chain M, 10 interactions with chain N, Hydrophobic interactions: M:L.24, M:I.27, M:M.31, M:I.54, M:E.61, N:I.27, N:M.31, N:E.61 Hydrogen bonds: M:Y.35, N:S.168, N:S.168, N:K.169 Salt bridges: M:R.20, M:H.28, M:K.169, M:K.169, N:R.20, N:K.50 Water bridges: N:R.20, N:N.32 FEC.114: 23 residues within 4Å: Chain O: R.20, L.24, I.27, H.28, M.31, Y.35, K.50, I.54, M.57, E.61, S.168, K.169 Chain P: R.20, I.27, H.28, M.31, Y.35, K.50, M.57, E.61, A.167, S.168, K.169 20 PLIP interactions: 9 interactions with chain P, 11 interactions with chain O, Hydrophobic interactions: P:I.27, P:M.31, P:E.61, O:L.24, O:I.27, O:I.27, O:M.31, O:I.54, O:E.61 Hydrogen bonds: P:S.168, P:S.168, P:K.169, O:Y.35 Water bridges: P:N.32, O:N.32 Salt bridges: P:R.20, P:K.50, O:R.20, O:K.169, O:K.169 FEC.137: 23 residues within 4Å: Chain Q: R.20, L.24, I.27, H.28, M.31, Y.35, K.50, I.54, M.57, E.61, S.168, K.169 Chain R: R.20, I.27, H.28, M.31, Y.35, K.50, M.57, E.61, A.167, S.168, K.169 22 PLIP interactions: 11 interactions with chain Q, 11 interactions with chain R, Hydrophobic interactions: Q:L.24, Q:I.27, Q:M.31, Q:I.54, Q:E.61, R:I.27, R:M.31, R:M.57, R:E.61 Hydrogen bonds: Q:Y.35, Q:Y.35, R:Y.35, R:S.168, R:S.168, R:K.169 Salt bridges: Q:R.20, Q:H.28, Q:K.169, Q:K.169, R:R.20, R:K.50 Water bridges: R:R.20 FEC.145: 24 residues within 4Å: Chain S: R.20, L.24, I.27, H.28, M.31, Y.35, K.50, M.57, A.60, E.61, S.168, K.169 Chain T: R.20, I.27, H.28, M.31, Y.35, K.50, M.57, R.58, E.61, S.168, K.169 Ligands: SO4.150 21 PLIP interactions: 10 interactions with chain T, 11 interactions with chain S, Hydrophobic interactions: T:I.27, T:M.31, T:E.61, S:L.24, S:I.27, S:M.57, S:E.61 Hydrogen bonds: T:S.168, T:S.168, T:K.169, S:Y.35, S:Y.35, S:S.168 Water bridges: T:R.20, T:N.32 Salt bridges: T:R.20, T:K.50, S:R.20, S:H.28, S:K.169, S:K.169 FEC.161: 25 residues within 4Å: Chain U: R.20, L.24, I.27, H.28, M.31, Y.35, K.50, I.54, M.57, A.60, E.61, S.168, K.169 Chain V: R.20, I.27, H.28, M.31, Y.35, K.50, M.57, E.61, A.167, S.168, K.169 Ligands: SO4.166 20 PLIP interactions: 10 interactions with chain U, 10 interactions with chain V, Hydrophobic interactions: U:L.24, U:I.27, U:M.31, U:I.54, U:E.61, V:I.27, V:M.31, V:E.61 Hydrogen bonds: U:Y.35, V:S.168, V:S.168, V:K.169 Salt bridges: U:R.20, U:H.28, U:K.169, U:K.169, V:R.20, V:K.50 Water bridges: V:R.20, V:N.32 FEC.175: 23 residues within 4Å: Chain W: R.20, L.24, I.27, H.28, M.31, Y.35, K.50, I.54, M.57, E.61, S.168, K.169 Chain X: R.20, I.27, H.28, M.31, Y.35, K.50, M.57, E.61, A.167, S.168, K.169 22 PLIP interactions: 12 interactions with chain W, 10 interactions with chain X, Hydrophobic interactions: W:L.24, W:I.27, W:I.27, W:M.31, W:I.54, W:E.61, X:I.27, X:M.31, X:E.61 Hydrogen bonds: W:Y.35, W:Y.35, X:Y.35, X:S.168, X:S.168, X:K.169 Water bridges: W:N.32, X:N.32 Salt bridges: W:R.20, W:K.169, W:K.169, X:R.20, X:K.50

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Macedo, S. et al., The nature of the di-iron site in the bacterioferritin fromDesulfovibrio desulfuricans. NAT.STRUCT.BIOL. (2003)

Release Date

2003-04-01

Peptides

bacterioferritin: ABCDEFGHIJKLMNOPQRSTUVWX

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
G

D
H

E
I

F
J

G
M

H
N

I
A

J
B

K
G

L
H

M
I

N
J

O
M

P
N

Q
A

R
B

S
G

T
H

U
I

V
J

W
M

X
N

bacterioferritin

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