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Sequence, Chains, Asymmetric and Biological Units

Title STRUCTURE OF DPS FROM MICROBACTERIUM ARBORESCENS IN THE HIGH IRON FORM
Keywords METAL-BINDING PROTEIN, IRON UPTAKE, FERRITIN FOLD
Experiment X-ray diffraction
Number of Models  1


   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  

PDB   2YJK     released     available     available     Quaternary Structure Server  


Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  Protein   AFP  A 149 1128 0
2  Protein   AFP  B 152 1148 0
3  Protein   AFP  C 157 1173 0
4  Protein   AFP  D 152 1146 0
5  Protein   AFP  E 152 1146 0
6  Protein   AFP  F 152 1146 0
7  Protein   AFP  G 153 1153 0
8  Protein   AFP  H 152 1146 0
9  Protein   AFP  I 148 1123 0
10  Protein   AFP  J 148 1123 0
11  Protein   AFP  K 152 1146 0
12  Protein   AFP  L 152 1148 0
13  Ligand   AFP  A 1 0 2
14  Ligand   AFP  B 2 0 3
15  Ligand   AFP  C 2 0 3
16  Ligand   AFP  D 2 0 3
17  Ligand   AFP  E 1 0 2
18  Ligand   AFP  F 1 0 2
19  Ligand   AFP  G 1 0 2
20  Ligand   AFP  H 1 0 2
21  Ligand   AFP  I 1 0 1
22  Ligand   AFP  J 1 0 2
23  Ligand   AFP  K 1 0 2
24  Ligand   AFP  L 2 0 3
25  Ligand   AFP  J 1 0 1
26 Water     705 0 705
total       2541 13726 733

Proteins
Unit 1 ALA10 ASP11 PRO12 GLU13 VAL14 ALA15 ALA16 ALA17 ALA18 ALA19 GLN20 PHE21 LEU22 THR23 PRO24 VAL25 VAL26 HIS27 LYS28 MET29 GLN30 ALA31 LEU32 VAL33 VAL34 ASN35 GLY36 LYS37 GLN38 ALA39 HIS40 TRP41 ASN42 VAL43 ARG44 GLY45 SER46 ASN47 PHE48 ILE49 ALA50 ILE51 HIS52 GLU53 LEU54 LEU55 ASP56 SER57 VAL58 VAL59 ALA60 HIS61 ALA62 GLN63 ASP64 TYR65 ALA66 ASP67 THR68 ALA69 ALA70 GLU71 ARG72 ILE73 VAL74 ALA75 LEU76 GLY77 LEU78 PRO79 ILE80 ASP81 SER82 ARG83 VAL84 SER85 THR86 MET87 ALA88 GLU89 LYS90 THR91 SER92 THR93 ALA94 VAL95 PRO96 ALA97 GLY98 PHE99 ALA100 GLN101 TRP102 GLN103 ASP104 GLU105 ILE106 LYS107 ALA108 ILE109 VAL110 SER111 ASP112 ILE113 ASP114 ALA115 ALA116 LEU117 VAL118 ASP119 LEU120 GLN121 ALA122 ALA123 ILE124 ASP125 GLY126 LEU127 ASP128 GLU129 VAL130 ASP131 LEU132 THR133 SER134 GLN135 ASP136 VAL137 ALA138 ILE139 GLU140 ILE141 LYS142 ARG143 GLY144 VAL145 ASP146 LYS147 ASP148 ARG149 TRP150 PHE151 LEU152 LEU153 ALA154 HIS155 LEU156 ALA157 GLU158
Unit 2 ALA7 LEU8 THR9 ALA10 ASP11 PRO12 GLU13 VAL14 ALA15 ALA16 ALA17 ALA18 ALA19 GLN20 PHE21 LEU22 THR23 PRO24 VAL25 VAL26 HIS27 LYS28 MET29 GLN30 ALA31 LEU32 VAL33 VAL34 ASN35 GLY36 LYS37 GLN38 ALA39 HIS40 TRP41 ASN42 VAL43 ARG44 GLY45 SER46 ASN47 PHE48 ILE49 ALA50 ILE51 HIS52 GLU53 LEU54 LEU55 ASP56 SER57 VAL58 VAL59 ALA60 HIS61 ALA62 GLN63 ASP64 TYR65 ALA66 ASP67 THR68 ALA69 ALA70 GLU71 ARG72 ILE73 VAL74 ALA75 LEU76 GLY77 LEU78 PRO79 ILE80 ASP81 SER82 ARG83 VAL84 SER85 THR86 MET87 ALA88 GLU89 LYS90 THR91 SER92 THR93 ALA94 VAL95 PRO96 ALA97 GLY98 PHE99 ALA100 GLN101 TRP102 GLN103 ASP104 GLU105 ILE106 LYS107 ALA108 ILE109 VAL110 SER111 ASP112 ILE113 ASP114 ALA115 ALA116 LEU117 VAL118 ASP119 LEU120 GLN121 ALA122 ALA123 ILE124 ASP125 GLY126 LEU127 ASP128 GLU129 VAL130 ASP131 LEU132 THR133 SER134 GLN135 ASP136 VAL137 ALA138 ILE139 GLU140 ILE141 LYS142 ARG143 GLY144 VAL145 ASP146 LYS147 ASP148 ARG149 TRP150 PHE151 LEU152 LEU153 ALA154 HIS155 LEU156 ALA157 GLU158
Unit 3 ASN2 ILE3 THR4 THR5 PRO6 ALA7 LEU8 THR9 ALA10 ASP11 PRO12 GLU13 VAL14 ALA15 ALA16 ALA17 ALA18 ALA19 GLN20 PHE21 LEU22 THR23 PRO24 VAL25 VAL26 HIS27 LYS28 MET29 GLN30 ALA31 LEU32 VAL33 VAL34 ASN35 GLY36 LYS37 GLN38 ALA39 HIS40 TRP41 ASN42 VAL43 ARG44 GLY45 SER46 ASN47 PHE48 ILE49 ALA50 ILE51 HIS52 GLU53 LEU54 LEU55 ASP56 SER57 VAL58 VAL59 ALA60 HIS61 ALA62 GLN63 ASP64 TYR65 ALA66 ASP67 THR68 ALA69 ALA70 GLU71 ARG72 ILE73 VAL74 ALA75 LEU76 GLY77 LEU78 PRO79 ILE80 ASP81 SER82 ARG83 VAL84 SER85 THR86 MET87 ALA88 GLU89 LYS90 THR91 SER92 THR93 ALA94 VAL95 PRO96 ALA97 GLY98 PHE99 ALA100 GLN101 TRP102 GLN103 ASP104 GLU105 ILE106 LYS107 ALA108 ILE109 VAL110 SER111 ASP112 ILE113 ASP114 ALA115 ALA116 LEU117 VAL118 ASP119 LEU120 GLN121 ALA122 ALA123 ILE124 ASP125 GLY126 LEU127 ASP128 GLU129 VAL130 ASP131 LEU132 THR133 SER134 GLN135 ASP136 VAL137 ALA138 ILE139 GLU140 ILE141 LYS142 ARG143 GLY144 VAL145 ASP146 LYS147 ASP148 ARG149 TRP150 PHE151 LEU152 LEU153 ALA154 HIS155 LEU156 ALA157 GLU158
Unit 4 ALA7 LEU8 THR9 ALA10 ASP11 PRO12 GLU13 VAL14 ALA15 ALA16 ALA17 ALA18 ALA19 GLN20 PHE21 LEU22 THR23 PRO24 VAL25 VAL26 HIS27 LYS28 MET29 GLN30 ALA31 LEU32 VAL33 VAL34 ASN35 GLY36 LYS37 GLN38 ALA39 HIS40 TRP41 ASN42 VAL43 ARG44 GLY45 SER46 ASN47 PHE48 ILE49 ALA50 ILE51 HIS52 GLU53 LEU54 LEU55 ASP56 SER57 VAL58 VAL59 ALA60 HIS61 ALA62 GLN63 ASP64 TYR65 ALA66 ASP67 THR68 ALA69 ALA70 GLU71 ARG72 ILE73 VAL74 ALA75 LEU76 GLY77 LEU78 PRO79 ILE80 ASP81 SER82 ARG83 VAL84 SER85 THR86 MET87 ALA88 GLU89 LYS90 THR91 SER92 THR93 ALA94 VAL95 PRO96 ALA97 GLY98 PHE99 ALA100 GLN101 TRP102 GLN103 ASP104 GLU105 ILE106 LYS107 ALA108 ILE109 VAL110 SER111 ASP112 ILE113 ASP114 ALA115 ALA116 LEU117 VAL118 ASP119 LEU120 GLN121 ALA122 ALA123 ILE124 ASP125 GLY126 LEU127 ASP128 GLU129 VAL130 ASP131 LEU132 THR133 SER134 GLN135 ASP136 VAL137 ALA138 ILE139 GLU140 ILE141 LYS142 ARG143 GLY144 VAL145 ASP146 LYS147 ASP148 ARG149 TRP150 PHE151 LEU152 LEU153 ALA154 HIS155 LEU156 ALA157 GLU158
Unit 5 ALA7 LEU8 THR9 ALA10 ASP11 PRO12 GLU13 VAL14 ALA15 ALA16 ALA17 ALA18 ALA19 GLN20 PHE21 LEU22 THR23 PRO24 VAL25 VAL26 HIS27 LYS28 MET29 GLN30 ALA31 LEU32 VAL33 VAL34 ASN35 GLY36 LYS37 GLN38 ALA39 HIS40 TRP41 ASN42 VAL43 ARG44 GLY45 SER46 ASN47 PHE48 ILE49 ALA50 ILE51 HIS52 GLU53 LEU54 LEU55 ASP56 SER57 VAL58 VAL59 ALA60 HIS61 ALA62 GLN63 ASP64 TYR65 ALA66 ASP67 THR68 ALA69 ALA70 GLU71 ARG72 ILE73 VAL74 ALA75 LEU76 GLY77 LEU78 PRO79 ILE80 ASP81 SER82 ARG83 VAL84 SER85 THR86 MET87 ALA88 GLU89 LYS90 THR91 SER92 THR93 ALA94 VAL95 PRO96 ALA97 GLY98 PHE99 ALA100 GLN101 TRP102 GLN103 ASP104 GLU105 ILE106 LYS107 ALA108 ILE109 VAL110 SER111 ASP112 ILE113 ASP114 ALA115 ALA116 LEU117 VAL118 ASP119 LEU120 GLN121 ALA122 ALA123 ILE124 ASP125 GLY126 LEU127 ASP128 GLU129 VAL130 ASP131 LEU132 THR133 SER134 GLN135 ASP136 VAL137 ALA138 ILE139 GLU140 ILE141 LYS142 ARG143 GLY144 VAL145 ASP146 LYS147 ASP148 ARG149 TRP150 PHE151 LEU152 LEU153 ALA154 HIS155 LEU156 ALA157 GLU158
Unit 6 ALA7 LEU8 THR9 ALA10 ASP11 PRO12 GLU13 VAL14 ALA15 ALA16 ALA17 ALA18 ALA19 GLN20 PHE21 LEU22 THR23 PRO24 VAL25 VAL26 HIS27 LYS28 MET29 GLN30 ALA31 LEU32 VAL33 VAL34 ASN35 GLY36 LYS37 GLN38 ALA39 HIS40 TRP41 ASN42 VAL43 ARG44 GLY45 SER46 ASN47 PHE48 ILE49 ALA50 ILE51 HIS52 GLU53 LEU54 LEU55 ASP56 SER57 VAL58 VAL59 ALA60 HIS61 ALA62 GLN63 ASP64 TYR65 ALA66 ASP67 THR68 ALA69 ALA70 GLU71 ARG72 ILE73 VAL74 ALA75 LEU76 GLY77 LEU78 PRO79 ILE80 ASP81 SER82 ARG83 VAL84 SER85 THR86 MET87 ALA88 GLU89 LYS90 THR91 SER92 THR93 ALA94 VAL95 PRO96 ALA97 GLY98 PHE99 ALA100 GLN101 TRP102 GLN103 ASP104 GLU105 ILE106 LYS107 ALA108 ILE109 VAL110 SER111 ASP112 ILE113 ASP114 ALA115 ALA116 LEU117 VAL118 ASP119 LEU120 GLN121 ALA122 ALA123 ILE124 ASP125 GLY126 LEU127 ASP128 GLU129 VAL130 ASP131 LEU132 THR133 SER134 GLN135 ASP136 VAL137 ALA138 ILE139 GLU140 ILE141 LYS142 ARG143 GLY144 VAL145 ASP146 LYS147 ASP148 ARG149 TRP150 PHE151 LEU152 LEU153 ALA154 HIS155 LEU156 ALA157 GLU158
Unit 7 PRO6 ALA7 LEU8 THR9 ALA10 ASP11 PRO12 GLU13 VAL14 ALA15 ALA16 ALA17 ALA18 ALA19 GLN20 PHE21 LEU22 THR23 PRO24 VAL25 VAL26 HIS27 LYS28 MET29 GLN30 ALA31 LEU32 VAL33 VAL34 ASN35 GLY36 LYS37 GLN38 ALA39 HIS40 TRP41 ASN42 VAL43 ARG44 GLY45 SER46 ASN47 PHE48 ILE49 ALA50 ILE51 HIS52 GLU53 LEU54 LEU55 ASP56 SER57 VAL58 VAL59 ALA60 HIS61 ALA62 GLN63 ASP64 TYR65 ALA66 ASP67 THR68 ALA69 ALA70 GLU71 ARG72 ILE73 VAL74 ALA75 LEU76 GLY77 LEU78 PRO79 ILE80 ASP81 SER82 ARG83 VAL84 SER85 THR86 MET87 ALA88 GLU89 LYS90 THR91 SER92 THR93 ALA94 VAL95 PRO96 ALA97 GLY98 PHE99 ALA100 GLN101 TRP102 GLN103 ASP104 GLU105 ILE106 LYS107 ALA108 ILE109 VAL110 SER111 ASP112 ILE113 ASP114 ALA115 ALA116 LEU117 VAL118 ASP119 LEU120 GLN121 ALA122 ALA123 ILE124 ASP125 GLY126 LEU127 ASP128 GLU129 VAL130 ASP131 LEU132 THR133 SER134 GLN135 ASP136 VAL137 ALA138 ILE139 GLU140 ILE141 LYS142 ARG143 GLY144 VAL145 ASP146 LYS147 ASP148 ARG149 TRP150 PHE151 LEU152 LEU153 ALA154 HIS155 LEU156 ALA157 GLU158
Unit 8 ALA7 LEU8 THR9 ALA10 ASP11 PRO12 GLU13 VAL14 ALA15 ALA16 ALA17 ALA18 ALA19 GLN20 PHE21 LEU22 THR23 PRO24 VAL25 VAL26 HIS27 LYS28 MET29 GLN30 ALA31 LEU32 VAL33 VAL34 ASN35 GLY36 LYS37 GLN38 ALA39 HIS40 TRP41 ASN42 VAL43 ARG44 GLY45 SER46 ASN47 PHE48 ILE49 ALA50 ILE51 HIS52 GLU53 LEU54 LEU55 ASP56 SER57 VAL58 VAL59 ALA60 HIS61 ALA62 GLN63 ASP64 TYR65 ALA66 ASP67 THR68 ALA69 ALA70 GLU71 ARG72 ILE73 VAL74 ALA75 LEU76 GLY77 LEU78 PRO79 ILE80 ASP81 SER82 ARG83 VAL84 SER85 THR86 MET87 ALA88 GLU89 LYS90 THR91 SER92 THR93 ALA94 VAL95 PRO96 ALA97 GLY98 PHE99 ALA100 GLN101 TRP102 GLN103 ASP104 GLU105 ILE106 LYS107 ALA108 ILE109 VAL110 SER111 ASP112 ILE113 ASP114 ALA115 ALA116 LEU117 VAL118 ASP119 LEU120 GLN121 ALA122 ALA123 ILE124 ASP125 GLY126 LEU127 ASP128 GLU129 VAL130 ASP131 LEU132 THR133 SER134 GLN135 ASP136 VAL137 ALA138 ILE139 GLU140 ILE141 LYS142 ARG143 GLY144 VAL145 ASP146 LYS147 ASP148 ARG149 TRP150 PHE151 LEU152 LEU153 ALA154 HIS155 LEU156 ALA157 GLU158
Unit 9 ASP11 PRO12 GLU13 VAL14 ALA15 ALA16 ALA17 ALA18 ALA19 GLN20 PHE21 LEU22 THR23 PRO24 VAL25 VAL26 HIS27 LYS28 MET29 GLN30 ALA31 LEU32 VAL33 VAL34 ASN35 GLY36 LYS37 GLN38 ALA39 HIS40 TRP41 ASN42 VAL43 ARG44 GLY45 SER46 ASN47 PHE48 ILE49 ALA50 ILE51 HIS52 GLU53 LEU54 LEU55 ASP56 SER57 VAL58 VAL59 ALA60 HIS61 ALA62 GLN63 ASP64 TYR65 ALA66 ASP67 THR68 ALA69 ALA70 GLU71 ARG72 ILE73 VAL74 ALA75 LEU76 GLY77 LEU78 PRO79 ILE80 ASP81 SER82 ARG83 VAL84 SER85 THR86 MET87 ALA88 GLU89 LYS90 THR91 SER92 THR93 ALA94 VAL95 PRO96 ALA97 GLY98 PHE99 ALA100 GLN101 TRP102 GLN103 ASP104 GLU105 ILE106 LYS107 ALA108 ILE109 VAL110 SER111 ASP112 ILE113 ASP114 ALA115 ALA116 LEU117 VAL118 ASP119 LEU120 GLN121 ALA122 ALA123 ILE124 ASP125 GLY126 LEU127 ASP128 GLU129 VAL130 ASP131 LEU132 THR133 SER134 GLN135 ASP136 VAL137 ALA138 ILE139 GLU140 ILE141 LYS142 ARG143 GLY144 VAL145 ASP146 LYS147 ASP148 ARG149 TRP150 PHE151 LEU152 LEU153 ALA154 HIS155 LEU156 ALA157 GLU158
Unit 10 ASP11 PRO12 GLU13 VAL14 ALA15 ALA16 ALA17 ALA18 ALA19 GLN20 PHE21 LEU22 THR23 PRO24 VAL25 VAL26 HIS27 LYS28 MET29 GLN30 ALA31 LEU32 VAL33 VAL34 ASN35 GLY36 LYS37 GLN38 ALA39 HIS40 TRP41 ASN42 VAL43 ARG44 GLY45 SER46 ASN47 PHE48 ILE49 ALA50 ILE51 HIS52 GLU53 LEU54 LEU55 ASP56 SER57 VAL58 VAL59 ALA60 HIS61 ALA62 GLN63 ASP64 TYR65 ALA66 ASP67 THR68 ALA69 ALA70 GLU71 ARG72 ILE73 VAL74 ALA75 LEU76 GLY77 LEU78 PRO79 ILE80 ASP81 SER82 ARG83 VAL84 SER85 THR86 MET87 ALA88 GLU89 LYS90 THR91 SER92 THR93 ALA94 VAL95 PRO96 ALA97 GLY98 PHE99 ALA100 GLN101 TRP102 GLN103 ASP104 GLU105 ILE106 LYS107 ALA108 ILE109 VAL110 SER111 ASP112 ILE113 ASP114 ALA115 ALA116 LEU117 VAL118 ASP119 LEU120 GLN121 ALA122 ALA123 ILE124 ASP125 GLY126 LEU127 ASP128 GLU129 VAL130 ASP131 LEU132 THR133 SER134 GLN135 ASP136 VAL137 ALA138 ILE139 GLU140 ILE141 LYS142 ARG143 GLY144 VAL145 ASP146 LYS147 ASP148 ARG149 TRP150 PHE151 LEU152 LEU153 ALA154 HIS155 LEU156 ALA157 GLU158
Unit 11 ALA7 LEU8 THR9 ALA10 ASP11 PRO12 GLU13 VAL14 ALA15 ALA16 ALA17 ALA18 ALA19 GLN20 PHE21 LEU22 THR23 PRO24 VAL25 VAL26 HIS27 LYS28 MET29 GLN30 ALA31 LEU32 VAL33 VAL34 ASN35 GLY36 LYS37 GLN38 ALA39 HIS40 TRP41 ASN42 VAL43 ARG44 GLY45 SER46 ASN47 PHE48 ILE49 ALA50 ILE51 HIS52 GLU53 LEU54 LEU55 ASP56 SER57 VAL58 VAL59 ALA60 HIS61 ALA62 GLN63 ASP64 TYR65 ALA66 ASP67 THR68 ALA69 ALA70 GLU71 ARG72 ILE73 VAL74 ALA75 LEU76 GLY77 LEU78 PRO79 ILE80 ASP81 SER82 ARG83 VAL84 SER85 THR86 MET87 ALA88 GLU89 LYS90 THR91 SER92 THR93 ALA94 VAL95 PRO96 ALA97 GLY98 PHE99 ALA100 GLN101 TRP102 GLN103 ASP104 GLU105 ILE106 LYS107 ALA108 ILE109 VAL110 SER111 ASP112 ILE113 ASP114 ALA115 ALA116 LEU117 VAL118 ASP119 LEU120 GLN121 ALA122 ALA123 ILE124 ASP125 GLY126 LEU127 ASP128 GLU129 VAL130 ASP131 LEU132 THR133 SER134 GLN135 ASP136 VAL137 ALA138 ILE139 GLU140 ILE141 LYS142 ARG143 GLY144 VAL145 ASP146 LYS147 ASP148 ARG149 TRP150 PHE151 LEU152 LEU153 ALA154 HIS155 LEU156 ALA157 GLU158
Unit 12 ALA7 LEU8 THR9 ALA10 ASP11 PRO12 GLU13 VAL14 ALA15 ALA16 ALA17 ALA18 ALA19 GLN20 PHE21 LEU22 THR23 PRO24 VAL25 VAL26 HIS27 LYS28 MET29 GLN30 ALA31 LEU32 VAL33 VAL34 ASN35 GLY36 LYS37 GLN38 ALA39 HIS40 TRP41 ASN42 VAL43 ARG44 GLY45 SER46 ASN47 PHE48 ILE49 ALA50 ILE51 HIS52 GLU53 LEU54 LEU55 ASP56 SER57 VAL58 VAL59 ALA60 HIS61 ALA62 GLN63 ASP64 TYR65 ALA66 ASP67 THR68 ALA69 ALA70 GLU71 ARG72 ILE73 VAL74 ALA75 LEU76 GLY77 LEU78 PRO79 ILE80 ASP81 SER82 ARG83 VAL84 SER85 THR86 MET87 ALA88 GLU89 LYS90 THR91 SER92 THR93 ALA94 VAL95 PRO96 ALA97 GLY98 PHE99 ALA100 GLN101 TRP102 GLN103 ASP104 GLU105 ILE106 LYS107 ALA108 ILE109 VAL110 SER111 ASP112 ILE113 ASP114 ALA115 ALA116 LEU117 VAL118 ASP119 LEU120 GLN121 ALA122 ALA123 ILE124 ASP125 GLY126 LEU127 ASP128 GLU129 VAL130 ASP131 LEU132 THR133 SER134 GLN135 ASP136 VAL137 ALA138 ILE139 GLU140 ILE141 LYS142 ARG143 GLY144 VAL145 ASP146 LYS147 ASP148 ARG149 TRP150 PHE151 LEU152 LEU153 ALA154 HIS155 LEU156 ALA157 GLU158

Ligands
Unit 13 OFE1159
Unit 14 OFE1159 FE1160
Unit 15 OFE1159 FE1160
Unit 16 OFE1159 FE1160
Unit 17 OFE1159
Unit 18 OFE1159
Unit 19 OFE1159
Unit 20 OFE1159
Unit 21 FE1159
Unit 22 OFE1159
Unit 23 OFE1159
Unit 24 OFE1159 FE1160
Unit 25 FE1160

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Perl script:    PDBscan.pl  (15 Sep 2016)
Author:    Peter Slickers  (slickers@leibniz-fli.de),  IMB Jena,  Germany