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Sequence, Chains, Asymmetric and Biological Units

Title CRYSTAL STRUCTURE OF E. COLI RNA 3' CYCLASE
Keywords CYCLASE, RNA PROCESSING, 3' MODIFYING ENZYMES, ADENYLATE, PHOSPHORAMIDATE, LIGASE
Experiment X-ray diffraction
Number of Models  1

   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  
PDB   3KGD     released     available     available     Quaternary Structure Server  
Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  Protein   RNA 3'-TERMINAL PHOSPHATE CYCLASE  A 336 2510 0
2  Protein   RNA 3'-TERMINAL PHOSPHATE CYCLASE  B 342 2544 0
3  Protein   RNA 3'-TERMINAL PHOSPHATE CYCLASE  C 338 2517 0
4  Protein   RNA 3'-TERMINAL PHOSPHATE CYCLASE  D 340 2532 0
5  Ligand   RNA 3'-TERMINAL PHOSPHATE CYCLASE  A 7 0 50
6  Ligand   RNA 3'-TERMINAL PHOSPHATE CYCLASE  B 6 0 45
7  Ligand   RNA 3'-TERMINAL PHOSPHATE CYCLASE  C 8 0 52
8  Ligand   RNA 3'-TERMINAL PHOSPHATE CYCLASE  D 6 0 46
9 Water     1508 0 1508
total       2891 10103 1701
Proteins
Unit 1 ARG4 MET5 ILE6 ALA7 LEU8 ASP9 GLY10 ALA11 GLN12 GLY13 GLU14 GLY15 GLY16 GLY17 GLN18 ILE19 LEU20 ARG21 SER22 ALA23 LEU24 SER25 LEU26 SER27 MET28 ILE29 THR30 GLY31 GLN32 PRO33 PHE34 THR35 ILE36 THR37 SER38 ILE39 ARG40 ALA41 GLY42 ARG43 ALA44 LYS45 PRO46 GLY47 LEU48 LEU49 ARG50 GLN51 HIS52 LEU53 THR54 ALA55 VAL56 LYS57 ALA58 ALA59 THR60 GLU61 ILE62 CYS63 GLY64 ALA65 THR66 VAL67 GLU68 GLY69 ALA70 GLU71 LEU72 GLY73 SER74 GLN75 ARG76 LEU77 LEU78 PHE79 ARG80 PRO81 GLY82 THR83 VAL84 ARG85 GLY86 GLY87 ASP88 TYR89 ARG90 PHE91 ALA92 ILE93 GLY94 SER95 ALA96 GLY97 SER98 CYS99 THR100 LEU101 VAL102 LEU103 GLN104 THR105 VAL106 LEU107 PRO108 ALA109 LEU110 TRP111 PHE112 ALA113 ASP114 GLY115 PRO116 SER117 ARG118 VAL119 GLU120 VAL121 SER122 GLY123 GLY124 THR125 ASP126 ASN127 PRO128 SER129 ALA130 PRO131 PRO132 ALA133 ASP134 PHE135 ILE136 ARG137 ARG138 VAL139 LEU140 GLU141 PRO142 LEU143 LEU144 ALA145 LYS146 ILE147 GLY148 ILE149 HIS150 GLN151 GLN152 THR153 THR154 LEU155 LEU156 ARG157 HIS158 GLY159 PHE160 TYR161 PRO162 ALA163 GLY164 GLY165 GLY166 VAL167 VAL168 ALA169 THR170 GLU171 VAL172 SER173 PRO174 VAL175 ALA176 SER177 PHE178 ASN179 THR180 LEU181 GLN182 LEU183 GLY184 GLU185 ARG186 GLY187 ASN188 ILE189 VAL190 GLN191 MET192 ARG193 GLY194 GLU195 VAL196 LEU197 LEU198 ALA199 GLY200 VAL201 PRO202 ARG203 HIS204 VAL205 ALA206 GLU207 ARG208 GLU209 ILE210 ALA211 THR212 LEU213 ALA214 GLY215 SER216 PHE217 SER218 LEU219 HIS220 GLU221 GLN222 ASN223 ILE224 HIS225 ASN226 LEU227 PRO228 ARG229 ASP230 GLN231 GLY232 PRO233 GLY234 ASN235 THR236 VAL237 SER238 LEU239 GLU240 VAL241 GLU242 SER243 GLU244 ASN245 ILE246 THR247 GLU248 ARG249 PHE250 PHE251 VAL252 VAL253 GLY254 GLU255 LYS256 ARG257 VAL258 SER259 ALA260 GLU261 VAL262 VAL263 ALA264 ALA265 GLN266 LEU267 VAL268 LYS269 GLU270 VAL271 LYS272 ARG273 TYR274 LEU275 ALA276 SER277 THR278 ALA279 ALA280 VAL281 GLY282 GLU283 TYR284 LEU285 ALA286 ASP287 GLN288 LEU289 VAL290 LEU291 PRO292 MET293 ALA294 LEU295 ALA296 GLY297 ALA298 GLY299 GLU300 PHE301 THR302 VAL303 ALA304 HIS305 PRO306 SER307 CYS308 HIS309 LEU310 LEU311 THR312 ASN313 ILE314 ALA315 VAL316 VAL317 GLU318 ARG319 PHE320 LEU321 PRO322 VAL323 ARG324 PHE325 SER326 LEU327 ILE328 GLU329 THR330 ASP331 GLY332 VAL333 THR334 ARG335 VAL336 SER337 ILE338 GLU339
Unit 2 HIS-13 HIS-12 HIS-11 HIS-10 HIS-9 LYS3 ARG4 MET5 ILE6 ALA7 LEU8 ASP9 GLY10 ALA11 GLN12 GLY13 GLU14 GLY15 GLY16 GLY17 GLN18 ILE19 LEU20 ARG21 SER22 ALA23 LEU24 SER25 LEU26 SER27 MET28 ILE29 THR30 GLY31 GLN32 PRO33 PHE34 THR35 ILE36 THR37 SER38 ILE39 ARG40 ALA41 GLY42 ARG43 ALA44 LYS45 PRO46 GLY47 LEU48 LEU49 ARG50 GLN51 HIS52 LEU53 THR54 ALA55 VAL56 LYS57 ALA58 ALA59 THR60 GLU61 ILE62 CYS63 GLY64 ALA65 THR66 VAL67 GLU68 GLY69 ALA70 GLU71 LEU72 GLY73 SER74 GLN75 ARG76 LEU77 LEU78 PHE79 ARG80 PRO81 GLY82 THR83 VAL84 ARG85 GLY86 GLY87 ASP88 TYR89 ARG90 PHE91 ALA92 ILE93 GLY94 SER95 ALA96 GLY97 SER98 CYS99 THR100 LEU101 VAL102 LEU103 GLN104 THR105 VAL106 LEU107 PRO108 ALA109 LEU110 TRP111 PHE112 ALA113 ASP114 GLY115 PRO116 SER117 ARG118 VAL119 GLU120 VAL121 SER122 GLY123 GLY124 THR125 ASP126 ASN127 PRO128 SER129 ALA130 PRO131 PRO132 ALA133 ASP134 PHE135 ILE136 ARG137 ARG138 VAL139 LEU140 GLU141 PRO142 LEU143 LEU144 ALA145 LYS146 ILE147 GLY148 ILE149 HIS150 GLN151 GLN152 THR153 THR154 LEU155 LEU156 ARG157 HIS158 GLY159 PHE160 TYR161 PRO162 ALA163 GLY164 GLY165 GLY166 VAL167 VAL168 ALA169 THR170 GLU171 VAL172 SER173 PRO174 VAL175 ALA176 SER177 PHE178 ASN179 THR180 LEU181 GLN182 LEU183 GLY184 GLU185 ARG186 GLY187 ASN188 ILE189 VAL190 GLN191 MET192 ARG193 GLY194 GLU195 VAL196 LEU197 LEU198 ALA199 GLY200 VAL201 PRO202 ARG203 HIS204 VAL205 ALA206 GLU207 ARG208 GLU209 ILE210 ALA211 THR212 LEU213 ALA214 GLY215 SER216 PHE217 SER218 LEU219 HIS220 GLU221 GLN222 ASN223 ILE224 HIS225 ASN226 LEU227 PRO228 ARG229 ASP230 GLN231 GLY232 PRO233 GLY234 ASN235 THR236 VAL237 SER238 LEU239 GLU240 VAL241 GLU242 SER243 GLU244 ASN245 ILE246 THR247 GLU248 ARG249 PHE250 PHE251 VAL252 VAL253 GLY254 GLU255 LYS256 ARG257 VAL258 SER259 ALA260 GLU261 VAL262 VAL263 ALA264 ALA265 GLN266 LEU267 VAL268 LYS269 GLU270 VAL271 LYS272 ARG273 TYR274 LEU275 ALA276 SER277 THR278 ALA279 ALA280 VAL281 GLY282 GLU283 TYR284 LEU285 ALA286 ASP287 GLN288 LEU289 VAL290 LEU291 PRO292 MET293 ALA294 LEU295 ALA296 GLY297 ALA298 GLY299 GLU300 PHE301 THR302 VAL303 ALA304 HIS305 PRO306 SER307 CYS308 HIS309 LEU310 LEU311 THR312 ASN313 ILE314 ALA315 VAL316 VAL317 GLU318 ARG319 PHE320 LEU321 PRO322 VAL323 ARG324 PHE325 SER326 LEU327 ILE328 GLU329 THR330 ASP331 GLY332 VAL333 THR334 ARG335 VAL336 SER337 ILE338 GLU339
Unit 3 MET2 LYS3 ARG4 MET5 ILE6 ALA7 LEU8 ASP9 GLY10 ALA11 GLN12 GLY13 GLU14 GLY15 GLY16 GLY17 GLN18 ILE19 LEU20 ARG21 SER22 ALA23 LEU24 SER25 LEU26 SER27 MET28 ILE29 THR30 GLY31 GLN32 PRO33 PHE34 THR35 ILE36 THR37 SER38 ILE39 ARG40 ALA41 GLY42 ARG43 ALA44 LYS45 PRO46 GLY47 LEU48 LEU49 ARG50 GLN51 HIS52 LEU53 THR54 ALA55 VAL56 LYS57 ALA58 ALA59 THR60 GLU61 ILE62 CYS63 GLY64 ALA65 THR66 VAL67 GLU68 GLY69 ALA70 GLU71 LEU72 GLY73 SER74 GLN75 ARG76 LEU77 LEU78 PHE79 ARG80 PRO81 GLY82 THR83 VAL84 ARG85 GLY86 GLY87 ASP88 TYR89 ARG90 PHE91 ALA92 ILE93 GLY94 SER95 ALA96 GLY97 SER98 CYS99 THR100 LEU101 VAL102 LEU103 GLN104 THR105 VAL106 LEU107 PRO108 ALA109 LEU110 TRP111 PHE112 ALA113 ASP114 GLY115 PRO116 SER117 ARG118 VAL119 GLU120 VAL121 SER122 GLY123 GLY124 THR125 ASP126 ASN127 PRO128 SER129 ALA130 PRO131 PRO132 ALA133 ASP134 PHE135 ILE136 ARG137 ARG138 VAL139 LEU140 GLU141 PRO142 LEU143 LEU144 ALA145 LYS146 ILE147 GLY148 ILE149 HIS150 GLN151 GLN152 THR153 THR154 LEU155 LEU156 ARG157 HIS158 GLY159 PHE160 TYR161 PRO162 ALA163 GLY164 GLY165 GLY166 VAL167 VAL168 ALA169 THR170 GLU171 VAL172 SER173 PRO174 VAL175 ALA176 SER177 PHE178 ASN179 THR180 LEU181 GLN182 LEU183 GLY184 GLU185 ARG186 GLY187 ASN188 ILE189 VAL190 GLN191 MET192 ARG193 GLY194 GLU195 VAL196 LEU197 LEU198 ALA199 GLY200 VAL201 PRO202 ARG203 HIS204 VAL205 ALA206 GLU207 ARG208 GLU209 ILE210 ALA211 THR212 LEU213 ALA214 GLY215 SER216 PHE217 SER218 LEU219 HIS220 GLU221 GLN222 ASN223 ILE224 HIS225 ASN226 LEU227 PRO228 ARG229 ASP230 GLN231 GLY232 PRO233 GLY234 ASN235 THR236 VAL237 SER238 LEU239 GLU240 VAL241 GLU242 SER243 GLU244 ASN245 ILE246 THR247 GLU248 ARG249 PHE250 PHE251 VAL252 VAL253 GLY254 GLU255 LYS256 ARG257 VAL258 SER259 ALA260 GLU261 VAL262 VAL263 ALA264 ALA265 GLN266 LEU267 VAL268 LYS269 GLU270 VAL271 LYS272 ARG273 TYR274 LEU275 ALA276 SER277 THR278 ALA279 ALA280 VAL281 GLY282 GLU283 TYR284 LEU285 ALA286 ASP287 GLN288 LEU289 VAL290 LEU291 PRO292 MET293 ALA294 LEU295 ALA296 GLY297 ALA298 GLY299 GLU300 PHE301 THR302 VAL303 ALA304 HIS305 PRO306 SER307 CYS308 HIS309 LEU310 LEU311 THR312 ASN313 ILE314 ALA315 VAL316 VAL317 GLU318 ARG319 PHE320 LEU321 PRO322 VAL323 ARG324 PHE325 SER326 LEU327 ILE328 GLU329 THR330 ASP331 GLY332 VAL333 THR334 ARG335 VAL336 SER337 ILE338 GLU339
Unit 4 ARG0 HIS1 MET2 LYS3 ARG4 MET5 ILE6 ALA7 LEU8 ASP9 GLY10 ALA11 GLN12 GLY13 GLU14 GLY15 GLY16 GLY17 GLN18 ILE19 LEU20 ARG21 SER22 ALA23 LEU24 SER25 LEU26 SER27 MET28 ILE29 THR30 GLY31 GLN32 PRO33 PHE34 THR35 ILE36 THR37 SER38 ILE39 ARG40 ALA41 GLY42 ARG43 ALA44 LYS45 PRO46 GLY47 LEU48 LEU49 ARG50 GLN51 HIS52 LEU53 THR54 ALA55 VAL56 LYS57 ALA58 ALA59 THR60 GLU61 ILE62 CYS63 GLY64 ALA65 THR66 VAL67 GLU68 GLY69 ALA70 GLU71 LEU72 GLY73 SER74 GLN75 ARG76 LEU77 LEU78 PHE79 ARG80 PRO81 GLY82 THR83 VAL84 ARG85 GLY86 GLY87 ASP88 TYR89 ARG90 PHE91 ALA92 ILE93 GLY94 SER95 ALA96 GLY97 SER98 CYS99 THR100 LEU101 VAL102 LEU103 GLN104 THR105 VAL106 LEU107 PRO108 ALA109 LEU110 TRP111 PHE112 ALA113 ASP114 GLY115 PRO116 SER117 ARG118 VAL119 GLU120 VAL121 SER122 GLY123 GLY124 THR125 ASP126 ASN127 PRO128 SER129 ALA130 PRO131 PRO132 ALA133 ASP134 PHE135 ILE136 ARG137 ARG138 VAL139 LEU140 GLU141 PRO142 LEU143 LEU144 ALA145 LYS146 ILE147 GLY148 ILE149 HIS150 GLN151 GLN152 THR153 THR154 LEU155 LEU156 ARG157 HIS158 GLY159 PHE160 TYR161 PRO162 ALA163 GLY164 GLY165 GLY166 VAL167 VAL168 ALA169 THR170 GLU171 VAL172 SER173 PRO174 VAL175 ALA176 SER177 PHE178 ASN179 THR180 LEU181 GLN182 LEU183 GLY184 GLU185 ARG186 GLY187 ASN188 ILE189 VAL190 GLN191 MET192 ARG193 GLY194 GLU195 VAL196 LEU197 LEU198 ALA199 GLY200 VAL201 PRO202 ARG203 HIS204 VAL205 ALA206 GLU207 ARG208 GLU209 ILE210 ALA211 THR212 LEU213 ALA214 GLY215 SER216 PHE217 SER218 LEU219 HIS220 GLU221 GLN222 ASN223 ILE224 HIS225 ASN226 LEU227 PRO228 ARG229 ASP230 GLN231 GLY232 PRO233 GLY234 ASN235 THR236 VAL237 SER238 LEU239 GLU240 VAL241 GLU242 SER243 GLU244 ASN245 ILE246 THR247 GLU248 ARG249 PHE250 PHE251 VAL252 VAL253 GLY254 GLU255 LYS256 ARG257 VAL258 SER259 ALA260 GLU261 VAL262 VAL263 ALA264 ALA265 GLN266 LEU267 VAL268 LYS269 GLU270 VAL271 LYS272 ARG273 TYR274 LEU275 ALA276 SER277 THR278 ALA279 ALA280 VAL281 GLY282 GLU283 TYR284 LEU285 ALA286 ASP287 GLN288 LEU289 VAL290 LEU291 PRO292 MET293 ALA294 LEU295 ALA296 GLY297 ALA298 GLY299 GLU300 PHE301 THR302 VAL303 ALA304 HIS305 PRO306 SER307 CYS308 HIS309 LEU310 LEU311 THR312 ASN313 ILE314 ALA315 VAL316 VAL317 GLU318 ARG319 PHE320 LEU321 PRO322 VAL323 ARG324 PHE325 SER326 LEU327 ILE328 GLU329 THR330 ASP331 GLY332 VAL333 THR334 ARG335 VAL336 SER337 ILE338 GLU339
Ligands
Unit 5 GOL340 GOL341 NA342 SO4343 SO4344 SO4345 AMP501
Unit 6 GOL340 GOL341 NA342 SO4343 SO4344 AMP501
Unit 7 GOL340 GOL341 GOL342 NA343 NA344 SO4345 SO4346 AMP501
Unit 8 GOL340 GOL341 GOL342 NA343 SO4344 AMP501
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Perl script:    PDBscan.pl  (15 Sep 2016)
Author:    Peter Slickers  (slickers@leibniz-fli.de),  IMB Jena,  Germany