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Sequence, Chains, Asymmetric and Biological Units

Title CRYSTAL STRUCTURE OF THE CPTIN TYPE III TOXIN-ANTITOXIN SYST EUBACTERIUM RECTALE
Keywords PROTEIN-RNA COMPLEX, PSEUDOKNOT, RNA TWIST, TOXIN-ANTITOXIN, III, BACTERIOPHAGE RESISTANCE, TOXIN-RNA COMPLEX
Experiment X-ray diffraction
Number of Models  1

   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  
PDB   4RMO     released     available     available     Quaternary Structure Server  
Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  Protein   CPTN TOXIN  A 155 1257 40
2  RNA    B 45 937 25
3  Protein   CPTN TOXIN  C 155 1257 40
4  RNA    D 45 937 25
5  Protein   CPTN TOXIN  E 155 1257 40
6  RNA    F 45 937 25
7  Protein   CPTN TOXIN  G 155 1257 40
8  RNA    H 45 937 25
9  Protein   CPTN TOXIN  I 155 1248 39
10  RNA    J 45 937 25
11  Protein   CPTN TOXIN  K 155 1257 40
12  RNA    L 45 937 25
13  Protein   CPTN TOXIN  M 155 1254 40
14  RNA    N 45 937 25
15  Protein   CPTN TOXIN  O 155 1257 40
16  RNA    P 45 937 25
17  Ligand   CPTN TOXIN  A 1 0 1
18  Ligand   RNA (45-MER)  B 5 0 5
19  Ligand   RNA (45-MER)  D 1 0 1
20  Ligand   CPTN TOXIN  C 1 0 1
21  Ligand   RNA (45-MER)  D 5 0 5
22  Ligand   CPTN TOXIN  E 1 0 1
23  Ligand   RNA (45-MER)  F 4 0 4
24  Ligand   CPTN TOXIN  G 1 0 1
25  Ligand   RNA (45-MER)  H 6 0 6
26  Ligand   CPTN TOXIN  I 1 0 1
27  Ligand   RNA (45-MER)  J 6 0 6
28  Ligand   CPTN TOXIN  K 1 0 1
29  Ligand   RNA (45-MER)  L 5 0 5
30  Ligand   CPTN TOXIN  M 1 0 1
31  Ligand   RNA (45-MER)  N 4 0 4
32  Ligand   CPTN TOXIN  O 1 0 1
33  Ligand   RNA (45-MER)  N 1 0 1
34  Ligand   RNA (45-MER)  P 3 0 3
35 Water     1322 0 1322
total       2970 17540 1889
Proteins
Unit 1 MSE1 ILE2 ARG3 ASN4 GLY5 PHE6 TYR7 ILE8 ILE9 LYS10 ASP11 ARG12 PHE13 PHE14 SER15 ASP16 MSE17 SER18 ASP19 PRO20 TYR21 LEU22 LYS23 GLY24 ASN25 LYS26 LYS27 GLN28 ASN29 ARG30 PRO31 HIS32 TYR33 TYR34 CYS35 PHE36 GLU37 ASP38 SER39 ASN40 TYR41 ASN42 GLY43 ILE44 TYR45 TRP46 MSE47 ILE48 PRO49 LEU50 SER51 SER52 ARG53 ILE54 ASP55 LYS56 TYR57 LYS58 LYS59 ILE60 VAL61 SER62 LYS63 ARG64 THR65 GLY66 LYS67 GLY68 ARG69 ASN70 CYS71 ASP72 ILE73 ILE74 HIS75 ILE76 VAL77 LYS78 LEU79 ASP80 ASP81 SER82 HIS83 GLU84 SER85 ALA86 PHE87 LEU88 ILE89 GLN90 ASP91 MSE92 PHE93 PRO94 ILE95 SER96 ASP97 LYS98 TYR99 ILE100 GLU101 ARG102 GLU103 TYR104 THR105 ILE106 ALA107 GLY108 ASN109 HIS110 LEU111 ARG112 LEU113 THR114 SER115 GLU116 HIS117 ALA118 ALA119 LYS120 GLU121 ILE122 GLU123 GLN124 LYS125 ALA126 ARG127 LYS128 VAL129 LEU130 GLY131 MSE132 LEU133 LYS134 ARG135 GLY136 ILE137 LYS138 PHE139 THR140 PRO141 THR142 GLN143 PRO144 ASP145 ILE146 GLN147 LYS148 ILE149 TYR150 GLU151 ARG152 LEU153 GLN154 GLN155
Unit 3 MSE1 ILE2 ARG3 ASN4 GLY5 PHE6 TYR7 ILE8 ILE9 LYS10 ASP11 ARG12 PHE13 PHE14 SER15 ASP16 MSE17 SER18 ASP19 PRO20 TYR21 LEU22 LYS23 GLY24 ASN25 LYS26 LYS27 GLN28 ASN29 ARG30 PRO31 HIS32 TYR33 TYR34 CYS35 PHE36 GLU37 ASP38 SER39 ASN40 TYR41 ASN42 GLY43 ILE44 TYR45 TRP46 MSE47 ILE48 PRO49 LEU50 SER51 SER52 ARG53 ILE54 ASP55 LYS56 TYR57 LYS58 LYS59 ILE60 VAL61 SER62 LYS63 ARG64 THR65 GLY66 LYS67 GLY68 ARG69 ASN70 CYS71 ASP72 ILE73 ILE74 HIS75 ILE76 VAL77 LYS78 LEU79 ASP80 ASP81 SER82 HIS83 GLU84 SER85 ALA86 PHE87 LEU88 ILE89 GLN90 ASP91 MSE92 PHE93 PRO94 ILE95 SER96 ASP97 LYS98 TYR99 ILE100 GLU101 ARG102 GLU103 TYR104 THR105 ILE106 ALA107 GLY108 ASN109 HIS110 LEU111 ARG112 LEU113 THR114 SER115 GLU116 HIS117 ALA118 ALA119 LYS120 GLU121 ILE122 GLU123 GLN124 LYS125 ALA126 ARG127 LYS128 VAL129 LEU130 GLY131 MSE132 LEU133 LYS134 ARG135 GLY136 ILE137 LYS138 PHE139 THR140 PRO141 THR142 GLN143 PRO144 ASP145 ILE146 GLN147 LYS148 ILE149 TYR150 GLU151 ARG152 LEU153 GLN154 GLN155
Unit 5 MSE1 ILE2 ARG3 ASN4 GLY5 PHE6 TYR7 ILE8 ILE9 LYS10 ASP11 ARG12 PHE13 PHE14 SER15 ASP16 MSE17 SER18 ASP19 PRO20 TYR21 LEU22 LYS23 GLY24 ASN25 LYS26 LYS27 GLN28 ASN29 ARG30 PRO31 HIS32 TYR33 TYR34 CYS35 PHE36 GLU37 ASP38 SER39 ASN40 TYR41 ASN42 GLY43 ILE44 TYR45 TRP46 MSE47 ILE48 PRO49 LEU50 SER51 SER52 ARG53 ILE54 ASP55 LYS56 TYR57 LYS58 LYS59 ILE60 VAL61 SER62 LYS63 ARG64 THR65 GLY66 LYS67 GLY68 ARG69 ASN70 CYS71 ASP72 ILE73 ILE74 HIS75 ILE76 VAL77 LYS78 LEU79 ASP80 ASP81 SER82 HIS83 GLU84 SER85 ALA86 PHE87 LEU88 ILE89 GLN90 ASP91 MSE92 PHE93 PRO94 ILE95 SER96 ASP97 LYS98 TYR99 ILE100 GLU101 ARG102 GLU103 TYR104 THR105 ILE106 ALA107 GLY108 ASN109 HIS110 LEU111 ARG112 LEU113 THR114 SER115 GLU116 HIS117 ALA118 ALA119 LYS120 GLU121 ILE122 GLU123 GLN124 LYS125 ALA126 ARG127 LYS128 VAL129 LEU130 GLY131 MSE132 LEU133 LYS134 ARG135 GLY136 ILE137 LYS138 PHE139 THR140 PRO141 THR142 GLN143 PRO144 ASP145 ILE146 GLN147 LYS148 ILE149 TYR150 GLU151 ARG152 LEU153 GLN154 GLN155
Unit 7 MSE1 ILE2 ARG3 ASN4 GLY5 PHE6 TYR7 ILE8 ILE9 LYS10 ASP11 ARG12 PHE13 PHE14 SER15 ASP16 MSE17 SER18 ASP19 PRO20 TYR21 LEU22 LYS23 GLY24 ASN25 LYS26 LYS27 GLN28 ASN29 ARG30 PRO31 HIS32 TYR33 TYR34 CYS35 PHE36 GLU37 ASP38 SER39 ASN40 TYR41 ASN42 GLY43 ILE44 TYR45 TRP46 MSE47 ILE48 PRO49 LEU50 SER51 SER52 ARG53 ILE54 ASP55 LYS56 TYR57 LYS58 LYS59 ILE60 VAL61 SER62 LYS63 ARG64 THR65 GLY66 LYS67 GLY68 ARG69 ASN70 CYS71 ASP72 ILE73 ILE74 HIS75 ILE76 VAL77 LYS78 LEU79 ASP80 ASP81 SER82 HIS83 GLU84 SER85 ALA86 PHE87 LEU88 ILE89 GLN90 ASP91 MSE92 PHE93 PRO94 ILE95 SER96 ASP97 LYS98 TYR99 ILE100 GLU101 ARG102 GLU103 TYR104 THR105 ILE106 ALA107 GLY108 ASN109 HIS110 LEU111 ARG112 LEU113 THR114 SER115 GLU116 HIS117 ALA118 ALA119 LYS120 GLU121 ILE122 GLU123 GLN124 LYS125 ALA126 ARG127 LYS128 VAL129 LEU130 GLY131 MSE132 LEU133 LYS134 ARG135 GLY136 ILE137 LYS138 PHE139 THR140 PRO141 THR142 GLN143 PRO144 ASP145 ILE146 GLN147 LYS148 ILE149 TYR150 GLU151 ARG152 LEU153 GLN154 GLN155
Unit 9 MSE1 ILE2 ARG3 ASN4 GLY5 PHE6 TYR7 ILE8 ILE9 LYS10 ASP11 ARG12 PHE13 PHE14 SER15 ASP16 MSE17 SER18 ASP19 PRO20 TYR21 LEU22 LYS23 GLY24 ASN25 LYS26 LYS27 GLN28 ASN29 ARG30 PRO31 HIS32 TYR33 TYR34 CYS35 PHE36 GLU37 ASP38 SER39 ASN40 TYR41 ASN42 GLY43 ILE44 TYR45 TRP46 MSE47 ILE48 PRO49 LEU50 SER51 SER52 ARG53 ILE54 ASP55 LYS56 TYR57 LYS58 LYS59 ILE60 VAL61 SER62 LYS63 ARG64 THR65 GLY66 LYS67 GLY68 ARG69 ASN70 CYS71 ASP72 ILE73 ILE74 HIS75 ILE76 VAL77 LYS78 LEU79 ASP80 ASP81 SER82 HIS83 GLU84 SER85 ALA86 PHE87 LEU88 ILE89 GLN90 ASP91 MSE92 PHE93 PRO94 ILE95 SER96 ASP97 LYS98 TYR99 ILE100 GLU101 ARG102 GLU103 TYR104 THR105 ILE106 ALA107 GLY108 ASN109 HIS110 LEU111 ARG112 LEU113 THR114 SER115 GLU116 HIS117 ALA118 ALA119 LYS120 GLU121 ILE122 GLU123 GLN124 LYS125 ALA126 ARG127 LYS128 VAL129 LEU130 GLY131 MSE132 LEU133 LYS134 ARG135 GLY136 ILE137 LYS138 PHE139 THR140 PRO141 THR142 GLN143 PRO144 ASP145 ILE146 GLN147 LYS148 ILE149 TYR150 GLU151 ARG152 LEU153 GLN154 GLN155
Unit 11 MSE1 ILE2 ARG3 ASN4 GLY5 PHE6 TYR7 ILE8 ILE9 LYS10 ASP11 ARG12 PHE13 PHE14 SER15 ASP16 MSE17 SER18 ASP19 PRO20 TYR21 LEU22 LYS23 GLY24 ASN25 LYS26 LYS27 GLN28 ASN29 ARG30 PRO31 HIS32 TYR33 TYR34 CYS35 PHE36 GLU37 ASP38 SER39 ASN40 TYR41 ASN42 GLY43 ILE44 TYR45 TRP46 MSE47 ILE48 PRO49 LEU50 SER51 SER52 ARG53 ILE54 ASP55 LYS56 TYR57 LYS58 LYS59 ILE60 VAL61 SER62 LYS63 ARG64 THR65 GLY66 LYS67 GLY68 ARG69 ASN70 CYS71 ASP72 ILE73 ILE74 HIS75 ILE76 VAL77 LYS78 LEU79 ASP80 ASP81 SER82 HIS83 GLU84 SER85 ALA86 PHE87 LEU88 ILE89 GLN90 ASP91 MSE92 PHE93 PRO94 ILE95 SER96 ASP97 LYS98 TYR99 ILE100 GLU101 ARG102 GLU103 TYR104 THR105 ILE106 ALA107 GLY108 ASN109 HIS110 LEU111 ARG112 LEU113 THR114 SER115 GLU116 HIS117 ALA118 ALA119 LYS120 GLU121 ILE122 GLU123 GLN124 LYS125 ALA126 ARG127 LYS128 VAL129 LEU130 GLY131 MSE132 LEU133 LYS134 ARG135 GLY136 ILE137 LYS138 PHE139 THR140 PRO141 THR142 GLN143 PRO144 ASP145 ILE146 GLN147 LYS148 ILE149 TYR150 GLU151 ARG152 LEU153 GLN154 GLN155
Unit 13 MSE1 ILE2 ARG3 ASN4 GLY5 PHE6 TYR7 ILE8 ILE9 LYS10 ASP11 ARG12 PHE13 PHE14 SER15 ASP16 MSE17 SER18 ASP19 PRO20 TYR21 LEU22 LYS23 GLY24 ASN25 LYS26 LYS27 GLN28 ASN29 ARG30 PRO31 HIS32 TYR33 TYR34 CYS35 PHE36 GLU37 ASP38 SER39 ASN40 TYR41 ASN42 GLY43 ILE44 TYR45 TRP46 MSE47 ILE48 PRO49 LEU50 SER51 SER52 ARG53 ILE54 ASP55 LYS56 TYR57 LYS58 LYS59 ILE60 VAL61 SER62 LYS63 ARG64 THR65 GLY66 LYS67 GLY68 ARG69 ASN70 CYS71 ASP72 ILE73 ILE74 HIS75 ILE76 VAL77 LYS78 LEU79 ASP80 ASP81 SER82 HIS83 GLU84 SER85 ALA86 PHE87 LEU88 ILE89 GLN90 ASP91 MSE92 PHE93 PRO94 ILE95 SER96 ASP97 LYS98 TYR99 ILE100 GLU101 ARG102 GLU103 TYR104 THR105 ILE106 ALA107 GLY108 ASN109 HIS110 LEU111 ARG112 LEU113 THR114 SER115 GLU116 HIS117 ALA118 ALA119 LYS120 GLU121 ILE122 GLU123 GLN124 LYS125 ALA126 ARG127 LYS128 VAL129 LEU130 GLY131 MSE132 LEU133 LYS134 ARG135 GLY136 ILE137 LYS138 PHE139 THR140 PRO141 THR142 GLN143 PRO144 ASP145 ILE146 GLN147 LYS148 ILE149 TYR150 GLU151 ARG152 LEU153 GLN154 GLN155
Unit 15 MSE1 ILE2 ARG3 ASN4 GLY5 PHE6 TYR7 ILE8 ILE9 LYS10 ASP11 ARG12 PHE13 PHE14 SER15 ASP16 MSE17 SER18 ASP19 PRO20 TYR21 LEU22 LYS23 GLY24 ASN25 LYS26 LYS27 GLN28 ASN29 ARG30 PRO31 HIS32 TYR33 TYR34 CYS35 PHE36 GLU37 ASP38 SER39 ASN40 TYR41 ASN42 GLY43 ILE44 TYR45 TRP46 MSE47 ILE48 PRO49 LEU50 SER51 SER52 ARG53 ILE54 ASP55 LYS56 TYR57 LYS58 LYS59 ILE60 VAL61 SER62 LYS63 ARG64 THR65 GLY66 LYS67 GLY68 ARG69 ASN70 CYS71 ASP72 ILE73 ILE74 HIS75 ILE76 VAL77 LYS78 LEU79 ASP80 ASP81 SER82 HIS83 GLU84 SER85 ALA86 PHE87 LEU88 ILE89 GLN90 ASP91 MSE92 PHE93 PRO94 ILE95 SER96 ASP97 LYS98 TYR99 ILE100 GLU101 ARG102 GLU103 TYR104 THR105 ILE106 ALA107 GLY108 ASN109 HIS110 LEU111 ARG112 LEU113 THR114 SER115 GLU116 HIS117 ALA118 ALA119 LYS120 GLU121 ILE122 GLU123 GLN124 LYS125 ALA126 ARG127 LYS128 VAL129 LEU130 GLY131 MSE132 LEU133 LYS134 ARG135 GLY136 ILE137 LYS138 PHE139 THR140 PRO141 THR142 GLN143 PRO144 ASP145 ILE146 GLN147 LYS148 ILE149 TYR150 GLU151 ARG152 LEU153 GLN154 GLN155
Nucleic acids
Unit 2 A1 A2 G3 U4 U5 U6 A7 C8 C9 A10 C11 U12 G13 A14 C15 C16 G17 A18 U19 A20 U21 G22 U23 G24 G25 U26 A27 U28 A29 U30 A31 A32 A33 U34 G35 G36 U37 C38 G39 G40 G41 U42 U43 G44 A2345
Unit 4 A1 A2 G3 U4 U5 U6 A7 C8 C9 A10 C11 U12 G13 A14 C15 C16 G17 A18 U19 A20 U21 G22 U23 G24 G25 U26 A27 U28 A29 U30 A31 A32 A33 U34 G35 G36 U37 C38 G39 G40 G41 U42 U43 G44 A2345
Unit 6 A1 A2 G3 U4 U5 U6 A7 C8 C9 A10 C11 U12 G13 A14 C15 C16 G17 A18 U19 A20 U21 G22 U23 G24 G25 U26 A27 U28 A29 U30 A31 A32 A33 U34 G35 G36 U37 C38 G39 G40 G41 U42 U43 G44 A2345
Unit 8 A1 A2 G3 U4 U5 U6 A7 C8 C9 A10 C11 U12 G13 A14 C15 C16 G17 A18 U19 A20 U21 G22 U23 G24 G25 U26 A27 U28 A29 U30 A31 A32 A33 U34 G35 G36 U37 C38 G39 G40 G41 U42 U43 G44 A2345
Unit 10 A1 A2 G3 U4 U5 U6 A7 C8 C9 A10 C11 U12 G13 A14 C15 C16 G17 A18 U19 A20 U21 G22 U23 G24 G25 U26 A27 U28 A29 U30 A31 A32 A33 U34 G35 G36 U37 C38 G39 G40 G41 U42 U43 G44 A2345
Unit 12 A1 A2 G3 U4 U5 U6 A7 C8 C9 A10 C11 U12 G13 A14 C15 C16 G17 A18 U19 A20 U21 G22 U23 G24 G25 U26 A27 U28 A29 U30 A31 A32 A33 U34 G35 G36 U37 C38 G39 G40 G41 U42 U43 G44 A2345
Unit 14 A1 A2 G3 U4 U5 U6 A7 C8 C9 A10 C11 U12 G13 A14 C15 C16 G17 A18 U19 A20 U21 G22 U23 G24 G25 U26 A27 U28 A29 U30 A31 A32 A33 U34 G35 G36 U37 C38 G39 G40 G41 U42 U43 G44 A2345
Unit 16 A1 A2 G3 U4 U5 U6 A7 C8 C9 A10 C11 U12 G13 A14 C15 C16 G17 A18 U19 A20 U21 G22 U23 G24 G25 U26 A27 U28 A29 U30 A31 A32 A33 U34 G35 G36 U37 C38 G39 G40 G41 U42 U43 G44 A2345
Ligands
Unit 17 CA201
Unit 18 CA101 CA102 CA103 CA104 CA105
Unit 19 CA101
Unit 20 CA201
Unit 21 CA102 CA103 CA104 CA105 CA106
Unit 22 CA201
Unit 23 CA101 CA102 CA103 CA104
Unit 24 CA201
Unit 25 CA101 CA102 CA103 CA104 CA105 CA106
Unit 26 CA201
Unit 27 CA101 CA102 CA103 CA104 CA105 CA106
Unit 28 CA201
Unit 29 CA101 CA102 CA103 CA104 CA105
Unit 30 CA201
Unit 31 CA101 CA102 CA103 CA104
Unit 32 CA201
Unit 33 CA105
Unit 34 CA101 CA102 CA103
Chirality of ribose and phosphate atoms

Check the naming of phosphate and ribose substituents. Recommended for phosphate oxygens and for ribose hydrogens in NMR structures.

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