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Sequence, Chains, Asymmetric and Biological Units

Title CRYSTAL STRUCTURE OF PYRROLYSYL-TRNA SYNTHETASE-TRNA(PYL) COMPLEX FROM DESULFITOBACTERIUM HAFNIENSE
Keywords LIGASE/RNA COMPLEX
Experiment X-ray diffraction
Number of Models  1


   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  

PDB   2ZNI     released     available     available     Quaternary Structure Server  


Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  Protein   PYRROLYSYL-TRNA SYNTHETASE  A 279 2263 0
2  Protein   PYRROLYSYL-TRNA SYNTHETASE  B 279 2263 0
3  RNA    C 72 1541 0
4  RNA    D 72 1541 0
5  Ligand   BACTERIAL TRNA  C 6 0 6
6  Ligand   BACTERIAL TRNA  D 7 0 7
total       715 7608 13

Proteins
Unit 1 LEU10 SER11 SER12 PHE13 TRP14 THR15 LYS16 VAL17 GLN18 TYR19 GLN20 ARG21 LEU22 LYS23 GLU24 LEU25 ASN26 ALA27 SER28 GLY29 GLU30 GLN31 LEU32 GLU33 MET34 GLY35 PHE36 SER37 ASP38 ALA39 LEU40 SER41 ARG42 ASP43 ARG44 ALA45 PHE46 GLN47 GLY48 ILE49 GLU50 HIS51 GLN52 LEU53 MET54 SER55 GLN56 GLY57 LYS58 ARG59 HIS60 LEU61 GLU62 GLN63 LEU64 ARG65 THR66 VAL67 LYS68 HIS69 ARG70 PRO71 ALA72 LEU73 LEU74 GLU75 LEU76 GLU77 GLU78 LYS79 LEU80 ALA81 LYS82 ALA83 LEU84 HIS85 GLN86 GLN87 GLY88 PHE89 VAL90 GLN91 VAL92 VAL93 THR94 PRO95 THR96 ILE97 ILE98 THR99 LYS100 SER101 ALA102 LEU103 ALA104 LYS105 MET106 THR107 ILE108 GLY109 GLU110 ASP111 HIS112 PRO113 LEU114 PHE115 SER116 GLN117 VAL118 PHE119 TRP120 LEU121 ASP122 GLY123 LYS124 LYS125 CYS126 LEU127 ARG128 PRO129 MET130 LEU131 ALA132 PRO133 ASN134 LEU135 TYR136 THR137 LEU138 TRP139 ARG140 GLU141 LEU142 GLU143 ARG144 LEU145 TRP146 ASP147 LYS148 PRO149 ILE150 ARG151 ILE152 PHE153 GLU154 ILE155 GLY156 THR157 CYS158 TYR159 ARG160 LYS161 GLU162 SER163 GLN164 GLY165 ALA166 GLN167 HIS168 LEU169 ASN170 GLU171 PHE172 THR173 MET174 LEU175 ASN176 LEU177 THR178 GLU179 LEU180 GLY181 THR182 PRO183 LEU184 GLU185 GLU186 ARG187 HIS188 GLN189 ARG190 LEU191 GLU192 ASP193 MET194 ALA195 ARG196 TRP197 VAL198 LEU199 GLU200 ALA201 ALA202 GLY203 ILE204 ARG205 GLU206 PHE207 GLU208 LEU209 VAL210 THR211 GLU212 SER213 SER214 VAL215 VAL216 TYR217 GLY218 ASP219 THR220 VAL221 ASP222 VAL223 MET224 LYS225 GLY226 ASP227 LEU228 GLU229 LEU230 ALA231 SER232 GLY233 ALA234 MET235 GLY236 PRO237 HIS238 PHE239 LEU240 ASP241 GLU242 LYS243 TRP244 GLU245 ILE246 PHE247 ASP248 PRO249 TRP250 VAL251 GLY252 LEU253 GLY254 PHE255 GLY256 LEU257 GLU258 ARG259 LEU260 LEU261 MET262 ILE263 ARG264 GLU265 GLY266 THR267 GLN268 HIS269 VAL270 GLN271 SER272 MET273 ALA274 ARG275 SER276 LEU277 SER278 TYR279 LEU280 ASP281 GLY282 VAL283 ARG284 LEU285 ASN286 ILE287 ASN288
Unit 2 LEU10 SER11 SER12 PHE13 TRP14 THR15 LYS16 VAL17 GLN18 TYR19 GLN20 ARG21 LEU22 LYS23 GLU24 LEU25 ASN26 ALA27 SER28 GLY29 GLU30 GLN31 LEU32 GLU33 MET34 GLY35 PHE36 SER37 ASP38 ALA39 LEU40 SER41 ARG42 ASP43 ARG44 ALA45 PHE46 GLN47 GLY48 ILE49 GLU50 HIS51 GLN52 LEU53 MET54 SER55 GLN56 GLY57 LYS58 ARG59 HIS60 LEU61 GLU62 GLN63 LEU64 ARG65 THR66 VAL67 LYS68 HIS69 ARG70 PRO71 ALA72 LEU73 LEU74 GLU75 LEU76 GLU77 GLU78 LYS79 LEU80 ALA81 LYS82 ALA83 LEU84 HIS85 GLN86 GLN87 GLY88 PHE89 VAL90 GLN91 VAL92 VAL93 THR94 PRO95 THR96 ILE97 ILE98 THR99 LYS100 SER101 ALA102 LEU103 ALA104 LYS105 MET106 THR107 ILE108 GLY109 GLU110 ASP111 HIS112 PRO113 LEU114 PHE115 SER116 GLN117 VAL118 PHE119 TRP120 LEU121 ASP122 GLY123 LYS124 LYS125 CYS126 LEU127 ARG128 PRO129 MET130 LEU131 ALA132 PRO133 ASN134 LEU135 TYR136 THR137 LEU138 TRP139 ARG140 GLU141 LEU142 GLU143 ARG144 LEU145 TRP146 ASP147 LYS148 PRO149 ILE150 ARG151 ILE152 PHE153 GLU154 ILE155 GLY156 THR157 CYS158 TYR159 ARG160 LYS161 GLU162 SER163 GLN164 GLY165 ALA166 GLN167 HIS168 LEU169 ASN170 GLU171 PHE172 THR173 MET174 LEU175 ASN176 LEU177 THR178 GLU179 LEU180 GLY181 THR182 PRO183 LEU184 GLU185 GLU186 ARG187 HIS188 GLN189 ARG190 LEU191 GLU192 ASP193 MET194 ALA195 ARG196 TRP197 VAL198 LEU199 GLU200 ALA201 ALA202 GLY203 ILE204 ARG205 GLU206 PHE207 GLU208 LEU209 VAL210 THR211 GLU212 SER213 SER214 VAL215 VAL216 TYR217 GLY218 ASP219 THR220 VAL221 ASP222 VAL223 MET224 LYS225 GLY226 ASP227 LEU228 GLU229 LEU230 ALA231 SER232 GLY233 ALA234 MET235 GLY236 PRO237 HIS238 PHE239 LEU240 ASP241 GLU242 LYS243 TRP244 GLU245 ILE246 PHE247 ASP248 PRO249 TRP250 VAL251 GLY252 LEU253 GLY254 PHE255 GLY256 LEU257 GLU258 ARG259 LEU260 LEU261 MET262 ILE263 ARG264 GLU265 GLY266 THR267 GLN268 HIS269 VAL270 GLN271 SER272 MET273 ALA274 ARG275 SER276 LEU277 SER278 TYR279 LEU280 ASP281 GLY282 VAL283 ARG284 LEU285 ASN286 ILE287 ASN288

Nucleic acids
Unit 3 G1 G2 G3 G4 G5 G6 U7 G9 G10 A11 U12 C13 G14 A15 A18 U19 A20 G21 A22 U23 C24 A25 C26 A27 C28 G29 G30 A31 C32 U33 C34 U35 A36 A37 A38 U39 U40 C41 G42 U43 G44 C45 A46 G47 G49 C50 G51 G52 G53 U54 G55 A56 A57 A58 C59 U60 C61 C62 C63 G64 U65 A66 C67 U68 C69 C70 C71 C72 G73 C74 C75 A76
Unit 4 G1 G2 G3 G4 G5 G6 U7 G9 G10 A11 U12 C13 G14 A15 A18 U19 A20 G21 A22 U23 C24 A25 C26 A27 C28 G29 G30 A31 C32 U33 C34 U35 A36 A37 A38 U39 U40 C41 G42 U43 G44 C45 A46 G47 G49 C50 G51 G52 G53 U54 G55 A56 A57 A58 C59 U60 C61 C62 C63 G64 U65 A66 C67 U68 C69 C70 C71 C72 G73 C74 C75 A76

Ligands
Unit 5 CA77 CA78 CA79 CA80 CA81 CA82
Unit 6 CA77 CA78 CA79 CA80 CA81 CA82 CA83

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