SMTL ID : 8j0y.1

Crystal structure of horse spleen L-ferritin at 20deg Celsius.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-24-mer

Ligands

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

SO4.1: 2 residues within 4Å: Chain A: Q.6, N.7 Ligand excluded by PLIP SO4.2: 6 residues within 4Å: Chain A: L.24, S.27, Y.28, L.31, R.59 Ligands: SO4.104 Ligand excluded by PLIP SO4.7: 2 residues within 4Å: Chain B: Q.6, N.7 Ligand excluded by PLIP SO4.8: 6 residues within 4Å: Chain B: L.24, S.27, Y.28, L.31, R.59 Ligands: SO4.116 Ligand excluded by PLIP SO4.13: 2 residues within 4Å: Chain C: Q.6, N.7 Ligand excluded by PLIP SO4.14: 6 residues within 4Å: Chain C: L.24, S.27, Y.28, L.31, R.59 Ligands: SO4.98 Ligand excluded by PLIP SO4.19: 2 residues within 4Å: Chain D: Q.6, N.7 Ligand excluded by PLIP SO4.20: 6 residues within 4Å: Chain D: L.24, S.27, Y.28, L.31, R.59 Ligands: SO4.110 Ligand excluded by PLIP SO4.25: 2 residues within 4Å: Chain E: Q.6, N.7 Ligand excluded by PLIP SO4.26: 6 residues within 4Å: Chain E: L.24, S.27, Y.28, L.31, R.59 Ligands: SO4.86 Ligand excluded by PLIP SO4.31: 2 residues within 4Å: Chain F: Q.6, N.7 Ligand excluded by PLIP SO4.32: 6 residues within 4Å: Chain F: L.24, S.27, Y.28, L.31, R.59 Ligands: SO4.74 Ligand excluded by PLIP SO4.37: 2 residues within 4Å: Chain G: Q.6, N.7 Ligand excluded by PLIP SO4.38: 6 residues within 4Å: Chain G: L.24, S.27, Y.28, L.31, R.59 Ligands: SO4.92 Ligand excluded by PLIP SO4.43: 2 residues within 4Å: Chain H: Q.6, N.7 Ligand excluded by PLIP SO4.44: 6 residues within 4Å: Chain H: L.24, S.27, Y.28, L.31, R.59 Ligands: SO4.80 Ligand excluded by PLIP SO4.49: 2 residues within 4Å: Chain I: Q.6, N.7 Ligand excluded by PLIP SO4.50: 6 residues within 4Å: Chain I: L.24, S.27, Y.28, L.31, R.59 Ligands: SO4.122 Ligand excluded by PLIP SO4.55: 2 residues within 4Å: Chain J: Q.6, N.7 Ligand excluded by PLIP SO4.56: 6 residues within 4Å: Chain J: L.24, S.27, Y.28, L.31, R.59 Ligands: SO4.134 Ligand excluded by PLIP SO4.61: 2 residues within 4Å: Chain K: Q.6, N.7 Ligand excluded by PLIP SO4.62: 6 residues within 4Å: Chain K: L.24, S.27, Y.28, L.31, R.59 Ligands: SO4.128 Ligand excluded by PLIP SO4.67: 2 residues within 4Å: Chain L: Q.6, N.7 Ligand excluded by PLIP SO4.68: 6 residues within 4Å: Chain L: L.24, S.27, Y.28, L.31, R.59 Ligands: SO4.140 Ligand excluded by PLIP SO4.73: 2 residues within 4Å: Chain M: Q.6, N.7 Ligand excluded by PLIP SO4.74: 6 residues within 4Å: Chain M: L.24, S.27, Y.28, L.31, R.59 Ligands: SO4.32 Ligand excluded by PLIP SO4.79: 2 residues within 4Å: Chain N: Q.6, N.7 Ligand excluded by PLIP SO4.80: 6 residues within 4Å: Chain N: L.24, S.27, Y.28, L.31, R.59 Ligands: SO4.44 Ligand excluded by PLIP SO4.85: 2 residues within 4Å: Chain O: Q.6, N.7 Ligand excluded by PLIP SO4.86: 6 residues within 4Å: Chain O: L.24, S.27, Y.28, L.31, R.59 Ligands: SO4.26 Ligand excluded by PLIP SO4.91: 2 residues within 4Å: Chain P: Q.6, N.7 Ligand excluded by PLIP SO4.92: 6 residues within 4Å: Chain P: L.24, S.27, Y.28, L.31, R.59 Ligands: SO4.38 Ligand excluded by PLIP SO4.97: 2 residues within 4Å: Chain Q: Q.6, N.7 Ligand excluded by PLIP SO4.98: 6 residues within 4Å: Chain Q: L.24, S.27, Y.28, L.31, R.59 Ligands: SO4.14 Ligand excluded by PLIP SO4.103: 2 residues within 4Å: Chain R: Q.6, N.7 Ligand excluded by PLIP SO4.104: 6 residues within 4Å: Chain R: L.24, S.27, Y.28, L.31, R.59 Ligands: SO4.2 Ligand excluded by PLIP SO4.109: 2 residues within 4Å: Chain S: Q.6, N.7 Ligand excluded by PLIP SO4.110: 6 residues within 4Å: Chain S: L.24, S.27, Y.28, L.31, R.59 Ligands: SO4.20 Ligand excluded by PLIP SO4.115: 2 residues within 4Å: Chain T: Q.6, N.7 Ligand excluded by PLIP SO4.116: 6 residues within 4Å: Chain T: L.24, S.27, Y.28, L.31, R.59 Ligands: SO4.8 Ligand excluded by PLIP SO4.121: 2 residues within 4Å: Chain U: Q.6, N.7 Ligand excluded by PLIP SO4.122: 6 residues within 4Å: Chain U: L.24, S.27, Y.28, L.31, R.59 Ligands: SO4.50 Ligand excluded by PLIP SO4.127: 2 residues within 4Å: Chain V: Q.6, N.7 Ligand excluded by PLIP SO4.128: 6 residues within 4Å: Chain V: L.24, S.27, Y.28, L.31, R.59 Ligands: SO4.62 Ligand excluded by PLIP SO4.133: 2 residues within 4Å: Chain W: Q.6, N.7 Ligand excluded by PLIP SO4.134: 6 residues within 4Å: Chain W: L.24, S.27, Y.28, L.31, R.59 Ligands: SO4.56 Ligand excluded by PLIP SO4.139: 2 residues within 4Å: Chain X: Q.6, N.7 Ligand excluded by PLIP SO4.140: 6 residues within 4Å: Chain X: L.24, S.27, Y.28, L.31, R.59 Ligands: SO4.68 Ligand excluded by PLIP

72 x CD: CADMIUM ION(Non-covalent)

CD.3: 3 residues within 4Å: Chain A: D.80 Chain R: Q.82 Ligands: CL.6 Ligand excluded by PLIP CD.4: 11 residues within 4Å: Chain A: D.127, E.130 Chain E: D.127, E.130 Chain I: D.127, E.130 Ligands: CD.5, CD.28, CD.29, CD.52, CD.53 Ligand excluded by PLIP CD.5: 8 residues within 4Å: Chain A: E.130 Chain E: E.130 Chain I: E.130 Ligands: CD.4, CD.28, CD.29, CD.52, CD.53 Ligand excluded by PLIP CD.9: 3 residues within 4Å: Chain B: D.80 Chain T: Q.82 Ligands: CL.12 Ligand excluded by PLIP CD.10: 11 residues within 4Å: Chain B: D.127, E.130 Chain G: D.127, E.130 Chain L: D.127, E.130 Ligands: CD.11, CD.40, CD.41, CD.70, CD.71 Ligand excluded by PLIP CD.11: 8 residues within 4Å: Chain B: E.130 Chain G: E.130 Chain L: E.130 Ligands: CD.10, CD.40, CD.41, CD.70, CD.71 Ligand excluded by PLIP CD.15: 3 residues within 4Å: Chain C: D.80 Chain Q: Q.82 Ligands: CL.18 Ligand excluded by PLIP CD.16: 11 residues within 4Å: Chain C: D.127, E.130 Chain H: D.127, E.130 Chain J: D.127, E.130 Ligands: CD.17, CD.46, CD.47, CD.58, CD.59 Ligand excluded by PLIP CD.17: 8 residues within 4Å: Chain C: E.130 Chain H: E.130 Chain J: E.130 Ligands: CD.16, CD.46, CD.47, CD.58, CD.59 Ligand excluded by PLIP CD.21: 3 residues within 4Å: Chain D: D.80 Chain S: Q.82 Ligands: CL.24 Ligand excluded by PLIP CD.22: 11 residues within 4Å: Chain D: D.127, E.130 Chain F: D.127, E.130 Chain K: D.127, E.130 Ligands: CD.23, CD.34, CD.35, CD.64, CD.65 Ligand excluded by PLIP CD.23: 8 residues within 4Å: Chain D: E.130 Chain F: E.130 Chain K: E.130 Ligands: CD.22, CD.34, CD.35, CD.64, CD.65 Ligand excluded by PLIP CD.27: 3 residues within 4Å: Chain E: D.80 Chain O: Q.82 Ligands: CL.30 Ligand excluded by PLIP CD.28: 11 residues within 4Å: Chain A: D.127, E.130 Chain E: D.127, E.130 Chain I: D.127, E.130 Ligands: CD.4, CD.5, CD.29, CD.52, CD.53 Ligand excluded by PLIP CD.29: 8 residues within 4Å: Chain A: E.130 Chain E: E.130 Chain I: E.130 Ligands: CD.4, CD.5, CD.28, CD.52, CD.53 Ligand excluded by PLIP CD.33: 3 residues within 4Å: Chain F: D.80 Chain M: Q.82 Ligands: CL.36 Ligand excluded by PLIP CD.34: 11 residues within 4Å: Chain D: D.127, E.130 Chain F: D.127, E.130 Chain K: D.127, E.130 Ligands: CD.22, CD.23, CD.35, CD.64, CD.65 Ligand excluded by PLIP CD.35: 8 residues within 4Å: Chain D: E.130 Chain F: E.130 Chain K: E.130 Ligands: CD.22, CD.23, CD.34, CD.64, CD.65 Ligand excluded by PLIP CD.39: 3 residues within 4Å: Chain G: D.80 Chain P: Q.82 Ligands: CL.42 Ligand excluded by PLIP CD.40: 11 residues within 4Å: Chain B: D.127, E.130 Chain G: D.127, E.130 Chain L: D.127, E.130 Ligands: CD.10, CD.11, CD.41, CD.70, CD.71 Ligand excluded by PLIP CD.41: 8 residues within 4Å: Chain B: E.130 Chain G: E.130 Chain L: E.130 Ligands: CD.10, CD.11, CD.40, CD.70, CD.71 Ligand excluded by PLIP CD.45: 3 residues within 4Å: Chain H: D.80 Chain N: Q.82 Ligands: CL.48 Ligand excluded by PLIP CD.46: 11 residues within 4Å: Chain C: D.127, E.130 Chain H: D.127, E.130 Chain J: D.127, E.130 Ligands: CD.16, CD.17, CD.47, CD.58, CD.59 Ligand excluded by PLIP CD.47: 8 residues within 4Å: Chain C: E.130 Chain H: E.130 Chain J: E.130 Ligands: CD.16, CD.17, CD.46, CD.58, CD.59 Ligand excluded by PLIP CD.51: 3 residues within 4Å: Chain I: D.80 Chain U: Q.82 Ligands: CL.54 Ligand excluded by PLIP CD.52: 11 residues within 4Å: Chain A: D.127, E.130 Chain E: D.127, E.130 Chain I: D.127, E.130 Ligands: CD.4, CD.5, CD.28, CD.29, CD.53 Ligand excluded by PLIP CD.53: 8 residues within 4Å: Chain A: E.130 Chain E: E.130 Chain I: E.130 Ligands: CD.4, CD.5, CD.28, CD.29, CD.52 Ligand excluded by PLIP CD.57: 3 residues within 4Å: Chain J: D.80 Chain W: Q.82 Ligands: CL.60 Ligand excluded by PLIP CD.58: 11 residues within 4Å: Chain C: D.127, E.130 Chain H: D.127, E.130 Chain J: D.127, E.130 Ligands: CD.16, CD.17, CD.46, CD.47, CD.59 Ligand excluded by PLIP CD.59: 8 residues within 4Å: Chain C: E.130 Chain H: E.130 Chain J: E.130 Ligands: CD.16, CD.17, CD.46, CD.47, CD.58 Ligand excluded by PLIP CD.63: 3 residues within 4Å: Chain K: D.80 Chain V: Q.82 Ligands: CL.66 Ligand excluded by PLIP CD.64: 11 residues within 4Å: Chain D: D.127, E.130 Chain F: D.127, E.130 Chain K: D.127, E.130 Ligands: CD.22, CD.23, CD.34, CD.35, CD.65 Ligand excluded by PLIP CD.65: 8 residues within 4Å: Chain D: E.130 Chain F: E.130 Chain K: E.130 Ligands: CD.22, CD.23, CD.34, CD.35, CD.64 Ligand excluded by PLIP CD.69: 3 residues within 4Å: Chain L: D.80 Chain X: Q.82 Ligands: CL.72 Ligand excluded by PLIP CD.70: 11 residues within 4Å: Chain B: D.127, E.130 Chain G: D.127, E.130 Chain L: D.127, E.130 Ligands: CD.10, CD.11, CD.40, CD.41, CD.71 Ligand excluded by PLIP CD.71: 8 residues within 4Å: Chain B: E.130 Chain G: E.130 Chain L: E.130 Ligands: CD.10, CD.11, CD.40, CD.41, CD.70 Ligand excluded by PLIP CD.75: 3 residues within 4Å: Chain F: Q.82 Chain M: D.80 Ligands: CL.78 Ligand excluded by PLIP CD.76: 11 residues within 4Å: Chain M: D.127, E.130 Chain Q: D.127, E.130 Chain U: D.127, E.130 Ligands: CD.77, CD.100, CD.101, CD.124, CD.125 Ligand excluded by PLIP CD.77: 8 residues within 4Å: Chain M: E.130 Chain Q: E.130 Chain U: E.130 Ligands: CD.76, CD.100, CD.101, CD.124, CD.125 Ligand excluded by PLIP CD.81: 3 residues within 4Å: Chain H: Q.82 Chain N: D.80 Ligands: CL.84 Ligand excluded by PLIP CD.82: 11 residues within 4Å: Chain N: D.127, E.130 Chain S: D.127, E.130 Chain X: D.127, E.130 Ligands: CD.83, CD.112, CD.113, CD.142, CD.143 Ligand excluded by PLIP CD.83: 8 residues within 4Å: Chain N: E.130 Chain S: E.130 Chain X: E.130 Ligands: CD.82, CD.112, CD.113, CD.142, CD.143 Ligand excluded by PLIP CD.87: 3 residues within 4Å: Chain E: Q.82 Chain O: D.80 Ligands: CL.90 Ligand excluded by PLIP CD.88: 11 residues within 4Å: Chain O: D.127, E.130 Chain T: D.127, E.130 Chain V: D.127, E.130 Ligands: CD.89, CD.118, CD.119, CD.130, CD.131 Ligand excluded by PLIP CD.89: 8 residues within 4Å: Chain O: E.130 Chain T: E.130 Chain V: E.130 Ligands: CD.88, CD.118, CD.119, CD.130, CD.131 Ligand excluded by PLIP CD.93: 3 residues within 4Å: Chain G: Q.82 Chain P: D.80 Ligands: CL.96 Ligand excluded by PLIP CD.94: 11 residues within 4Å: Chain P: D.127, E.130 Chain R: D.127, E.130 Chain W: D.127, E.130 Ligands: CD.95, CD.106, CD.107, CD.136, CD.137 Ligand excluded by PLIP CD.95: 8 residues within 4Å: Chain P: E.130 Chain R: E.130 Chain W: E.130 Ligands: CD.94, CD.106, CD.107, CD.136, CD.137 Ligand excluded by PLIP CD.99: 3 residues within 4Å: Chain C: Q.82 Chain Q: D.80 Ligands: CL.102 Ligand excluded by PLIP CD.100: 11 residues within 4Å: Chain M: D.127, E.130 Chain Q: D.127, E.130 Chain U: D.127, E.130 Ligands: CD.76, CD.77, CD.101, CD.124, CD.125 Ligand excluded by PLIP CD.101: 8 residues within 4Å: Chain M: E.130 Chain Q: E.130 Chain U: E.130 Ligands: CD.76, CD.77, CD.100, CD.124, CD.125 Ligand excluded by PLIP CD.105: 3 residues within 4Å: Chain A: Q.82 Chain R: D.80 Ligands: CL.108 Ligand excluded by PLIP CD.106: 11 residues within 4Å: Chain P: D.127, E.130 Chain R: D.127, E.130 Chain W: D.127, E.130 Ligands: CD.94, CD.95, CD.107, CD.136, CD.137 Ligand excluded by PLIP CD.107: 8 residues within 4Å: Chain P: E.130 Chain R: E.130 Chain W: E.130 Ligands: CD.94, CD.95, CD.106, CD.136, CD.137 Ligand excluded by PLIP CD.111: 3 residues within 4Å: Chain D: Q.82 Chain S: D.80 Ligands: CL.114 Ligand excluded by PLIP CD.112: 11 residues within 4Å: Chain N: D.127, E.130 Chain S: D.127, E.130 Chain X: D.127, E.130 Ligands: CD.82, CD.83, CD.113, CD.142, CD.143 Ligand excluded by PLIP CD.113: 8 residues within 4Å: Chain N: E.130 Chain S: E.130 Chain X: E.130 Ligands: CD.82, CD.83, CD.112, CD.142, CD.143 Ligand excluded by PLIP CD.117: 3 residues within 4Å: Chain B: Q.82 Chain T: D.80 Ligands: CL.120 Ligand excluded by PLIP CD.118: 11 residues within 4Å: Chain O: D.127, E.130 Chain T: D.127, E.130 Chain V: D.127, E.130 Ligands: CD.88, CD.89, CD.119, CD.130, CD.131 Ligand excluded by PLIP CD.119: 8 residues within 4Å: Chain O: E.130 Chain T: E.130 Chain V: E.130 Ligands: CD.88, CD.89, CD.118, CD.130, CD.131 Ligand excluded by PLIP CD.123: 3 residues within 4Å: Chain I: Q.82 Chain U: D.80 Ligands: CL.126 Ligand excluded by PLIP CD.124: 11 residues within 4Å: Chain M: D.127, E.130 Chain Q: D.127, E.130 Chain U: D.127, E.130 Ligands: CD.76, CD.77, CD.100, CD.101, CD.125 Ligand excluded by PLIP CD.125: 8 residues within 4Å: Chain M: E.130 Chain Q: E.130 Chain U: E.130 Ligands: CD.76, CD.77, CD.100, CD.101, CD.124 Ligand excluded by PLIP CD.129: 3 residues within 4Å: Chain K: Q.82 Chain V: D.80 Ligands: CL.132 Ligand excluded by PLIP CD.130: 11 residues within 4Å: Chain O: D.127, E.130 Chain T: D.127, E.130 Chain V: D.127, E.130 Ligands: CD.88, CD.89, CD.118, CD.119, CD.131 Ligand excluded by PLIP CD.131: 8 residues within 4Å: Chain O: E.130 Chain T: E.130 Chain V: E.130 Ligands: CD.88, CD.89, CD.118, CD.119, CD.130 Ligand excluded by PLIP CD.135: 3 residues within 4Å: Chain J: Q.82 Chain W: D.80 Ligands: CL.138 Ligand excluded by PLIP CD.136: 11 residues within 4Å: Chain P: D.127, E.130 Chain R: D.127, E.130 Chain W: D.127, E.130 Ligands: CD.94, CD.95, CD.106, CD.107, CD.137 Ligand excluded by PLIP CD.137: 8 residues within 4Å: Chain P: E.130 Chain R: E.130 Chain W: E.130 Ligands: CD.94, CD.95, CD.106, CD.107, CD.136 Ligand excluded by PLIP CD.141: 3 residues within 4Å: Chain L: Q.82 Chain X: D.80 Ligands: CL.144 Ligand excluded by PLIP CD.142: 11 residues within 4Å: Chain N: D.127, E.130 Chain S: D.127, E.130 Chain X: D.127, E.130 Ligands: CD.82, CD.83, CD.112, CD.113, CD.143 Ligand excluded by PLIP CD.143: 8 residues within 4Å: Chain N: E.130 Chain S: E.130 Chain X: E.130 Ligands: CD.82, CD.83, CD.112, CD.113, CD.142 Ligand excluded by PLIP

24 x CL: CHLORIDE ION(Non-functional Binders)

CL.6: 3 residues within 4Å: Chain A: D.80 Chain R: Q.82 Ligands: CD.3 Ligand excluded by PLIP CL.12: 3 residues within 4Å: Chain B: D.80 Chain T: Q.82 Ligands: CD.9 Ligand excluded by PLIP CL.18: 3 residues within 4Å: Chain C: D.80 Chain Q: Q.82 Ligands: CD.15 Ligand excluded by PLIP CL.24: 3 residues within 4Å: Chain D: D.80 Chain S: Q.82 Ligands: CD.21 Ligand excluded by PLIP CL.30: 3 residues within 4Å: Chain E: D.80 Chain O: Q.82 Ligands: CD.27 Ligand excluded by PLIP CL.36: 3 residues within 4Å: Chain F: D.80 Chain M: Q.82 Ligands: CD.33 Ligand excluded by PLIP CL.42: 3 residues within 4Å: Chain G: D.80 Chain P: Q.82 Ligands: CD.39 Ligand excluded by PLIP CL.48: 3 residues within 4Å: Chain H: D.80 Chain N: Q.82 Ligands: CD.45 Ligand excluded by PLIP CL.54: 3 residues within 4Å: Chain I: D.80 Chain U: Q.82 Ligands: CD.51 Ligand excluded by PLIP CL.60: 3 residues within 4Å: Chain J: D.80 Chain W: Q.82 Ligands: CD.57 Ligand excluded by PLIP CL.66: 3 residues within 4Å: Chain K: D.80 Chain V: Q.82 Ligands: CD.63 Ligand excluded by PLIP CL.72: 3 residues within 4Å: Chain L: D.80 Chain X: Q.82 Ligands: CD.69 Ligand excluded by PLIP CL.78: 3 residues within 4Å: Chain F: Q.82 Chain M: D.80 Ligands: CD.75 Ligand excluded by PLIP CL.84: 3 residues within 4Å: Chain H: Q.82 Chain N: D.80 Ligands: CD.81 Ligand excluded by PLIP CL.90: 3 residues within 4Å: Chain E: Q.82 Chain O: D.80 Ligands: CD.87 Ligand excluded by PLIP CL.96: 3 residues within 4Å: Chain G: Q.82 Chain P: D.80 Ligands: CD.93 Ligand excluded by PLIP CL.102: 3 residues within 4Å: Chain C: Q.82 Chain Q: D.80 Ligands: CD.99 Ligand excluded by PLIP CL.108: 3 residues within 4Å: Chain A: Q.82 Chain R: D.80 Ligands: CD.105 Ligand excluded by PLIP CL.114: 3 residues within 4Å: Chain D: Q.82 Chain S: D.80 Ligands: CD.111 Ligand excluded by PLIP CL.120: 3 residues within 4Å: Chain B: Q.82 Chain T: D.80 Ligands: CD.117 Ligand excluded by PLIP CL.126: 3 residues within 4Å: Chain I: Q.82 Chain U: D.80 Ligands: CD.123 Ligand excluded by PLIP CL.132: 3 residues within 4Å: Chain K: Q.82 Chain V: D.80 Ligands: CD.129 Ligand excluded by PLIP CL.138: 3 residues within 4Å: Chain J: Q.82 Chain W: D.80 Ligands: CD.135 Ligand excluded by PLIP CL.144: 3 residues within 4Å: Chain L: Q.82 Chain X: D.80 Ligands: CD.141 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Maity, B. et al., Atomic-Level Insights into a Unique Semi-Clathrate Hydrate Formed in a Confined Environment of Porous Protein Crystal. Cryst.Growth Des. (2023)

Release Date

2023-05-03

Peptides

Ferritin light chain: ABCDEFGHIJKLMNOPQRSTUVWX

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
X

B
X

C
X

D
X

E
X

F
X

G
X

H
X

I
X

J
X

K
X

L
X

M
X

N
X

O
X

P
X

Q
X

R
X

S
X

T
X

U
X

V
X

W
X

X
X

Ferritin light chain

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