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Sequence, Chains, Asymmetric and Biological Units

Title CRYSTAL STRUCTURE OF SPHINGOMYELINASE FROM BACILLUS CEREUS WITH CALCIUM ION
Keywords DNASE I LIKE FOLDING, RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE, RSGI, STRUCTURAL GENOMICS, HYDROLASE
Experiment X-ray diffraction
Number of Models  1

   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  
PDB   2DDR     released     available     available     Quaternary Structure Server  
Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  Protein   SPHINGOMYELIN PHOSPHODIESTERASE  A 288 2289 0
2  Protein   SPHINGOMYELIN PHOSPHODIESTERASE  B 289 2297 0
3  Protein   SPHINGOMYELIN PHOSPHODIESTERASE  C 298 2356 0
4  Protein   SPHINGOMYELIN PHOSPHODIESTERASE  D 298 2356 0
5  Ligand   SPHINGOMYELIN PHOSPHODIESTERASE  A 2 0 2
6  Ligand   SPHINGOMYELIN PHOSPHODIESTERASE  B 2 0 2
7  Ligand   SPHINGOMYELIN PHOSPHODIESTERASE  C 2 0 2
8  Ligand   SPHINGOMYELIN PHOSPHODIESTERASE  D 2 0 2
9 Water     1323 0 1323
total       2504 9298 1331
Proteins
Unit 1 ASN7 ASP8 THR9 LEU10 LYS11 VAL12 MET13 THR14 HIS15 ASN16 VAL17 TYR18 MET19 LEU20 SER21 THR22 ASN23 LEU24 TYR25 PRO26 ASN27 TRP28 GLY29 GLN30 THR31 GLU32 ARG33 ALA34 ASP35 LEU36 ILE37 GLY38 ALA39 ALA40 ASP41 TYR42 ILE43 LYS44 ASN45 GLN46 ASP47 VAL48 VAL49 ILE50 LEU51 ASN52 GLU53 VAL54 PHE55 ASP56 ASN57 SER58 ALA59 SER60 ASP61 ARG62 LEU63 LEU64 GLY65 ASN66 LEU67 LYS68 LYS69 GLU70 TYR71 PRO72 ASN73 GLN74 THR75 ALA76 VAL77 LEU78 GLY79 ARG80 SER81 SER82 GLY83 SER84 GLU85 TRP86 ASP87 LYS88 THR89 LEU90 GLY91 ASN92 TYR93 SER94 SER95 SER96 THR97 PRO98 GLU99 ASP100 GLY101 GLY102 VAL103 ALA104 ILE105 VAL106 SER107 LYS108 TRP109 PRO110 ILE111 ALA112 GLU113 LYS114 ILE115 GLN116 TYR117 VAL118 PHE119 ALA120 LYS121 GLY122 CYS123 LEU128 SER129 ASN130 LYS131 GLY132 PHE133 VAL134 TYR135 THR136 LYS137 ILE138 LYS139 LYS140 ASN141 ASP142 ARG143 PHE144 VAL145 HIS146 VAL147 ILE148 GLY149 THR150 HIS151 LEU152 GLN153 ALA154 GLU155 SER163 PRO164 ALA165 SER166 VAL167 ARG168 THR169 ASN170 GLN171 LEU172 LYS173 GLU174 ILE175 GLN176 ASP177 PHE178 ILE179 LYS180 ASN181 LYS182 ASN183 ILE184 PRO185 ASN186 ASN187 GLU188 TYR189 VAL190 LEU191 ILE192 GLY193 GLY194 ASP195 MET196 ASN197 VAL198 ASN199 LYS200 ILE201 ASN202 ALA203 GLU204 ASN205 ASN206 ASN207 ASP208 SER209 GLU210 TYR211 ALA212 SER213 MET214 PHE215 LYS216 THR217 LEU218 ASN219 ALA220 SER221 VAL222 PRO223 SER224 TYR225 THR226 GLY227 HIS228 THR229 ALA230 THR231 TRP232 ASP233 ALA234 THR235 THR236 ASN237 SER238 ILE239 ALA240 LYS241 TYR242 ASN243 PHE244 PRO245 ASP246 SER247 PRO248 ALA249 GLU250 TYR251 LEU252 ASP253 TYR254 ILE255 ILE256 ALA257 SER258 LYS259 ASP260 HIS261 ALA262 ASN263 PRO264 SER265 TYR266 ILE267 GLU268 ASN269 LYS270 VAL271 LEU272 GLN273 PRO274 LYS275 SER276 PRO277 GLN278 TRP279 THR280 VAL281 THR282 SER283 TRP284 PHE285 GLN286 LYS287 TYR288 THR289 TYR290 ASN291 ASP292 TYR293 SER294 ASP295 HIS296 TYR297 PRO298 VAL299 GLU300 ALA301 THR302 ILE303 SER304 MET305
Unit 2 ASN7 ASP8 THR9 LEU10 LYS11 VAL12 MET13 THR14 HIS15 ASN16 VAL17 TYR18 MET19 LEU20 SER21 THR22 ASN23 LEU24 TYR25 PRO26 ASN27 TRP28 GLY29 GLN30 THR31 GLU32 ARG33 ALA34 ASP35 LEU36 ILE37 GLY38 ALA39 ALA40 ASP41 TYR42 ILE43 LYS44 ASN45 GLN46 ASP47 VAL48 VAL49 ILE50 LEU51 ASN52 GLU53 VAL54 PHE55 ASP56 ASN57 SER58 ALA59 SER60 ASP61 ARG62 LEU63 LEU64 GLY65 ASN66 LEU67 LYS68 LYS69 GLU70 TYR71 PRO72 ASN73 GLN74 THR75 ALA76 VAL77 LEU78 GLY79 ARG80 SER81 SER82 GLY83 SER84 GLU85 TRP86 ASP87 LYS88 THR89 LEU90 GLY91 ASN92 TYR93 SER94 SER95 SER96 THR97 PRO98 GLU99 ASP100 GLY101 GLY102 VAL103 ALA104 ILE105 VAL106 SER107 LYS108 TRP109 PRO110 ILE111 ALA112 GLU113 LYS114 ILE115 GLN116 TYR117 VAL118 PHE119 ALA120 LYS121 GLY122 CYS123 ASN127 LEU128 SER129 ASN130 LYS131 GLY132 PHE133 VAL134 TYR135 THR136 LYS137 ILE138 LYS139 LYS140 ASN141 ASP142 ARG143 PHE144 VAL145 HIS146 VAL147 ILE148 GLY149 THR150 HIS151 LEU152 GLN153 ALA154 GLU155 SER163 PRO164 ALA165 SER166 VAL167 ARG168 THR169 ASN170 GLN171 LEU172 LYS173 GLU174 ILE175 GLN176 ASP177 PHE178 ILE179 LYS180 ASN181 LYS182 ASN183 ILE184 PRO185 ASN186 ASN187 GLU188 TYR189 VAL190 LEU191 ILE192 GLY193 GLY194 ASP195 MET196 ASN197 VAL198 ASN199 LYS200 ILE201 ASN202 ALA203 GLU204 ASN205 ASN206 ASN207 ASP208 SER209 GLU210 TYR211 ALA212 SER213 MET214 PHE215 LYS216 THR217 LEU218 ASN219 ALA220 SER221 VAL222 PRO223 SER224 TYR225 THR226 GLY227 HIS228 THR229 ALA230 THR231 TRP232 ASP233 ALA234 THR235 THR236 ASN237 SER238 ILE239 ALA240 LYS241 TYR242 ASN243 PHE244 PRO245 ASP246 SER247 PRO248 ALA249 GLU250 TYR251 LEU252 ASP253 TYR254 ILE255 ILE256 ALA257 SER258 LYS259 ASP260 HIS261 ALA262 ASN263 PRO264 SER265 TYR266 ILE267 GLU268 ASN269 LYS270 VAL271 LEU272 GLN273 PRO274 LYS275 SER276 PRO277 GLN278 TRP279 THR280 VAL281 THR282 SER283 TRP284 PHE285 GLN286 LYS287 TYR288 THR289 TYR290 ASN291 ASP292 TYR293 SER294 ASP295 HIS296 TYR297 PRO298 VAL299 GLU300 ALA301 THR302 ILE303 SER304 MET305
Unit 3 ASP8 THR9 LEU10 LYS11 VAL12 MET13 THR14 HIS15 ASN16 VAL17 TYR18 MET19 LEU20 SER21 THR22 ASN23 LEU24 TYR25 PRO26 ASN27 TRP28 GLY29 GLN30 THR31 GLU32 ARG33 ALA34 ASP35 LEU36 ILE37 GLY38 ALA39 ALA40 ASP41 TYR42 ILE43 LYS44 ASN45 GLN46 ASP47 VAL48 VAL49 ILE50 LEU51 ASN52 GLU53 VAL54 PHE55 ASP56 ASN57 SER58 ALA59 SER60 ASP61 ARG62 LEU63 LEU64 GLY65 ASN66 LEU67 LYS68 LYS69 GLU70 TYR71 PRO72 ASN73 GLN74 THR75 ALA76 VAL77 LEU78 GLY79 ARG80 SER81 SER82 GLY83 SER84 GLU85 TRP86 ASP87 LYS88 THR89 LEU90 GLY91 ASN92 TYR93 SER94 SER95 SER96 THR97 PRO98 GLU99 ASP100 GLY101 GLY102 VAL103 ALA104 ILE105 VAL106 SER107 LYS108 TRP109 PRO110 ILE111 ALA112 GLU113 LYS114 ILE115 GLN116 TYR117 VAL118 PHE119 ALA120 LYS121 GLY122 CYS123 GLY124 PRO125 ASP126 ASN127 LEU128 SER129 ASN130 LYS131 GLY132 PHE133 VAL134 TYR135 THR136 LYS137 ILE138 LYS139 LYS140 ASN141 ASP142 ARG143 PHE144 VAL145 HIS146 VAL147 ILE148 GLY149 THR150 HIS151 LEU152 GLN153 ALA154 GLU155 ASP156 SER157 MET158 CYS159 GLY160 LYS161 THR162 SER163 PRO164 ALA165 SER166 VAL167 ARG168 THR169 ASN170 GLN171 LEU172 LYS173 GLU174 ILE175 GLN176 ASP177 PHE178 ILE179 LYS180 ASN181 LYS182 ASN183 ILE184 PRO185 ASN186 ASN187 GLU188 TYR189 VAL190 LEU191 ILE192 GLY193 GLY194 ASP195 MET196 ASN197 VAL198 ASN199 LYS200 ILE201 ASN202 ALA203 GLU204 ASN205 ASN206 ASN207 ASP208 SER209 GLU210 TYR211 ALA212 SER213 MET214 PHE215 LYS216 THR217 LEU218 ASN219 ALA220 SER221 VAL222 PRO223 SER224 TYR225 THR226 GLY227 HIS228 THR229 ALA230 THR231 TRP232 ASP233 ALA234 THR235 THR236 ASN237 SER238 ILE239 ALA240 LYS241 TYR242 ASN243 PHE244 PRO245 ASP246 SER247 PRO248 ALA249 GLU250 TYR251 LEU252 ASP253 TYR254 ILE255 ILE256 ALA257 SER258 LYS259 ASP260 HIS261 ALA262 ASN263 PRO264 SER265 TYR266 ILE267 GLU268 ASN269 LYS270 VAL271 LEU272 GLN273 PRO274 LYS275 SER276 PRO277 GLN278 TRP279 THR280 VAL281 THR282 SER283 TRP284 PHE285 GLN286 LYS287 TYR288 THR289 TYR290 ASN291 ASP292 TYR293 SER294 ASP295 HIS296 TYR297 PRO298 VAL299 GLU300 ALA301 THR302 ILE303 SER304 MET305
Unit 4 ASP8 THR9 LEU10 LYS11 VAL12 MET13 THR14 HIS15 ASN16 VAL17 TYR18 MET19 LEU20 SER21 THR22 ASN23 LEU24 TYR25 PRO26 ASN27 TRP28 GLY29 GLN30 THR31 GLU32 ARG33 ALA34 ASP35 LEU36 ILE37 GLY38 ALA39 ALA40 ASP41 TYR42 ILE43 LYS44 ASN45 GLN46 ASP47 VAL48 VAL49 ILE50 LEU51 ASN52 GLU53 VAL54 PHE55 ASP56 ASN57 SER58 ALA59 SER60 ASP61 ARG62 LEU63 LEU64 GLY65 ASN66 LEU67 LYS68 LYS69 GLU70 TYR71 PRO72 ASN73 GLN74 THR75 ALA76 VAL77 LEU78 GLY79 ARG80 SER81 SER82 GLY83 SER84 GLU85 TRP86 ASP87 LYS88 THR89 LEU90 GLY91 ASN92 TYR93 SER94 SER95 SER96 THR97 PRO98 GLU99 ASP100 GLY101 GLY102 VAL103 ALA104 ILE105 VAL106 SER107 LYS108 TRP109 PRO110 ILE111 ALA112 GLU113 LYS114 ILE115 GLN116 TYR117 VAL118 PHE119 ALA120 LYS121 GLY122 CYS123 GLY124 PRO125 ASP126 ASN127 LEU128 SER129 ASN130 LYS131 GLY132 PHE133 VAL134 TYR135 THR136 LYS137 ILE138 LYS139 LYS140 ASN141 ASP142 ARG143 PHE144 VAL145 HIS146 VAL147 ILE148 GLY149 THR150 HIS151 LEU152 GLN153 ALA154 GLU155 ASP156 SER157 MET158 CYS159 GLY160 LYS161 THR162 SER163 PRO164 ALA165 SER166 VAL167 ARG168 THR169 ASN170 GLN171 LEU172 LYS173 GLU174 ILE175 GLN176 ASP177 PHE178 ILE179 LYS180 ASN181 LYS182 ASN183 ILE184 PRO185 ASN186 ASN187 GLU188 TYR189 VAL190 LEU191 ILE192 GLY193 GLY194 ASP195 MET196 ASN197 VAL198 ASN199 LYS200 ILE201 ASN202 ALA203 GLU204 ASN205 ASN206 ASN207 ASP208 SER209 GLU210 TYR211 ALA212 SER213 MET214 PHE215 LYS216 THR217 LEU218 ASN219 ALA220 SER221 VAL222 PRO223 SER224 TYR225 THR226 GLY227 HIS228 THR229 ALA230 THR231 TRP232 ASP233 ALA234 THR235 THR236 ASN237 SER238 ILE239 ALA240 LYS241 TYR242 ASN243 PHE244 PRO245 ASP246 SER247 PRO248 ALA249 GLU250 TYR251 LEU252 ASP253 TYR254 ILE255 ILE256 ALA257 SER258 LYS259 ASP260 HIS261 ALA262 ASN263 PRO264 SER265 TYR266 ILE267 GLU268 ASN269 LYS270 VAL271 LEU272 GLN273 PRO274 LYS275 SER276 PRO277 GLN278 TRP279 THR280 VAL281 THR282 SER283 TRP284 PHE285 GLN286 LYS287 TYR288 THR289 TYR290 ASN291 ASP292 TYR293 SER294 ASP295 HIS296 TYR297 PRO298 VAL299 GLU300 ALA301 THR302 ILE303 SER304 MET305
Ligands
Unit 5 CA1324 CA1325
Unit 6 CA1326 CA1327
Unit 7 CA1328 CA1329
Unit 8 CA1330 CA1331
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Perl script:    PDBscan.pl  (15 Sep 2016)
Author:    Peter Slickers  (slickers@leibniz-fli.de),  IMB Jena,  Germany