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Sequence, Chains, Asymmetric and Biological Units

Title CRYSTAL STRUCTURE OF A BACTERIAL DEHYDROGENASE AT 2.19 ANGST RESOLUTION
Keywords ATOPOBIUM VAGINAE, GAPDH, NAD, DEHYDROGENASE, OXIDOREDUCTASE
Experiment X-ray diffraction
Number of Models  1

   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  
PDB   5LD5     released     available     available     Quaternary Structure Server  
Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  Protein   GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE  A 341 2574 0
2  Protein   GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE  B 340 2568 0
3  Protein   GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE  C 342 2580 0
4  Protein   GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE  D 340 2568 0
5  Ligand   GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE  A 5 0 68
6  Ligand   GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE  B 6 0 74
7  Ligand   GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE  C 3 0 56
8  Ligand   GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE  D 2 0 50
9 Water     325 0 325
total       1704 10290 573
Proteins
Unit 1 SER15 MET16 ALA17 VAL18 LYS19 VAL20 ALA21 ILE22 ASN23 GLY24 PHE25 GLY26 ARG27 ILE28 GLY29 ARG30 LEU31 ALA32 PHE33 ARG34 GLN35 MET36 PHE37 GLY38 HIS39 GLU40 GLY41 SER42 GLU43 ILE44 VAL45 ALA46 ILE47 ASN48 ASP49 LEU50 THR51 ASP52 PRO53 LYS54 MET55 LEU56 ALA57 ASN58 LEU59 LEU60 LYS61 TYR62 ASP63 SER64 SER65 GLN66 GLY67 ASN68 TYR69 ALA70 ARG71 ASN72 HIS73 SER74 VAL75 VAL76 ALA77 GLY78 GLU79 ASP80 SER81 ILE82 THR83 VAL84 ASP85 GLY86 LYS87 THR88 ILE89 LYS90 ILE91 TYR92 LYS93 GLU94 ALA95 ASP96 ALA97 HIS98 ASN99 LEU100 PRO101 TRP102 GLY103 GLU104 LEU105 ASN106 VAL107 ASP108 VAL109 VAL110 LEU111 GLU112 CYS113 THR114 GLY115 PHE116 TYR117 THR118 SER119 LYS120 ALA121 LYS122 ALA123 GLN124 ALA125 HIS126 ILE127 ASP128 ALA129 GLY130 ALA131 LYS132 LYS133 VAL134 VAL135 ILE136 SER137 ALA138 PRO139 ALA140 GLY141 LYS142 ASP143 LEU144 PRO145 THR146 ILE147 VAL148 TYR149 ASN150 VAL151 ASN152 HIS153 GLU154 ILE155 LEU156 THR157 LYS158 ASP159 ASP160 ASN161 ILE162 ILE163 SER164 ALA165 ALA166 SER167 CYS168 THR169 THR170 ASN171 CYS172 LEU173 ALA174 PRO175 MET176 ALA177 LYS178 ALA179 LEU180 ASN181 ASP182 PHE183 ALA184 PRO185 ILE186 GLN187 SER188 GLY189 ILE190 MET191 SER192 THR193 ILE194 HIS195 ALA196 PHE197 THR198 GLY199 ASP200 GLN201 MET202 VAL203 LEU204 ASP205 GLY206 PRO207 HIS208 ARG209 LYS210 GLY211 ASP212 LEU213 ARG214 ARG215 ALA216 ARG217 ALA218 ALA219 ALA220 ILE221 ASN222 ILE223 VAL224 PRO225 ASN226 SER227 THR228 GLY229 ALA230 ALA231 LYS232 ALA233 ILE234 GLY235 LEU236 VAL237 ILE238 PRO239 GLU240 LEU241 ASN242 GLY243 LYS244 LEU245 ILE246 GLY247 SER248 ALA249 GLN250 ARG251 VAL252 PRO253 VAL254 PRO255 THR256 GLY257 SER258 THR259 THR260 LEU261 LEU262 PHE263 ALA264 VAL265 VAL266 LYS267 SER268 ASP269 LYS270 GLU271 ILE272 THR273 VAL274 ASP275 SER276 ILE277 ASN278 ALA279 ALA280 MET281 LYS282 ALA283 ALA284 SER285 ASP286 PRO287 GLU288 THR289 PHE290 GLY291 TYR292 ASN293 GLU294 ASP295 PRO296 ILE297 VAL298 SER299 SER300 ASP301 ILE302 ILE303 GLY304 MET305 THR306 TYR307 GLY308 SER309 LEU310 PHE311 ASP312 ALA313 THR314 GLN315 THR316 MET317 VAL318 GLN319 ASP320 LEU321 GLY322 ASN323 GLY324 LEU325 TYR326 GLN327 VAL328 GLU329 VAL330 VAL331 SER332 TRP333 TYR334 ASP335 ASN336 GLU337 ASN338 SER339 TYR340 THR341 SER342 GLN343 MET344 VAL345 ARG346 THR347 ILE348 LYS349 TYR350 PHE351 GLU352 LYS353 PHE354 VAL355
Unit 2 MET16 ALA17 VAL18 LYS19 VAL20 ALA21 ILE22 ASN23 GLY24 PHE25 GLY26 ARG27 ILE28 GLY29 ARG30 LEU31 ALA32 PHE33 ARG34 GLN35 MET36 PHE37 GLY38 HIS39 GLU40 GLY41 SER42 GLU43 ILE44 VAL45 ALA46 ILE47 ASN48 ASP49 LEU50 THR51 ASP52 PRO53 LYS54 MET55 LEU56 ALA57 ASN58 LEU59 LEU60 LYS61 TYR62 ASP63 SER64 SER65 GLN66 GLY67 ASN68 TYR69 ALA70 ARG71 ASN72 HIS73 SER74 VAL75 VAL76 ALA77 GLY78 GLU79 ASP80 SER81 ILE82 THR83 VAL84 ASP85 GLY86 LYS87 THR88 ILE89 LYS90 ILE91 TYR92 LYS93 GLU94 ALA95 ASP96 ALA97 HIS98 ASN99 LEU100 PRO101 TRP102 GLY103 GLU104 LEU105 ASN106 VAL107 ASP108 VAL109 VAL110 LEU111 GLU112 CYS113 THR114 GLY115 PHE116 TYR117 THR118 SER119 LYS120 ALA121 LYS122 ALA123 GLN124 ALA125 HIS126 ILE127 ASP128 ALA129 GLY130 ALA131 LYS132 LYS133 VAL134 VAL135 ILE136 SER137 ALA138 PRO139 ALA140 GLY141 LYS142 ASP143 LEU144 PRO145 THR146 ILE147 VAL148 TYR149 ASN150 VAL151 ASN152 HIS153 GLU154 ILE155 LEU156 THR157 LYS158 ASP159 ASP160 ASN161 ILE162 ILE163 SER164 ALA165 ALA166 SER167 CYS168 THR169 THR170 ASN171 CYS172 LEU173 ALA174 PRO175 MET176 ALA177 LYS178 ALA179 LEU180 ASN181 ASP182 PHE183 ALA184 PRO185 ILE186 GLN187 SER188 GLY189 ILE190 MET191 SER192 THR193 ILE194 HIS195 ALA196 PHE197 THR198 GLY199 ASP200 GLN201 MET202 VAL203 LEU204 ASP205 GLY206 PRO207 HIS208 ARG209 LYS210 GLY211 ASP212 LEU213 ARG214 ARG215 ALA216 ARG217 ALA218 ALA219 ALA220 ILE221 ASN222 ILE223 VAL224 PRO225 ASN226 SER227 THR228 GLY229 ALA230 ALA231 LYS232 ALA233 ILE234 GLY235 LEU236 VAL237 ILE238 PRO239 GLU240 LEU241 ASN242 GLY243 LYS244 LEU245 ILE246 GLY247 SER248 ALA249 GLN250 ARG251 VAL252 PRO253 VAL254 PRO255 THR256 GLY257 SER258 THR259 THR260 LEU261 LEU262 PHE263 ALA264 VAL265 VAL266 LYS267 SER268 ASP269 LYS270 GLU271 ILE272 THR273 VAL274 ASP275 SER276 ILE277 ASN278 ALA279 ALA280 MET281 LYS282 ALA283 ALA284 SER285 ASP286 PRO287 GLU288 THR289 PHE290 GLY291 TYR292 ASN293 GLU294 ASP295 PRO296 ILE297 VAL298 SER299 SER300 ASP301 ILE302 ILE303 GLY304 MET305 THR306 TYR307 GLY308 SER309 LEU310 PHE311 ASP312 ALA313 THR314 GLN315 THR316 MET317 VAL318 GLN319 ASP320 LEU321 GLY322 ASN323 GLY324 LEU325 TYR326 GLN327 VAL328 GLU329 VAL330 VAL331 SER332 TRP333 TYR334 ASP335 ASN336 GLU337 ASN338 SER339 TYR340 THR341 SER342 GLN343 MET344 VAL345 ARG346 THR347 ILE348 LYS349 TYR350 PHE351 GLU352 LYS353 PHE354 VAL355
Unit 3 SER15 MET16 ALA17 VAL18 LYS19 VAL20 ALA21 ILE22 ASN23 GLY24 PHE25 GLY26 ARG27 ILE28 GLY29 ARG30 LEU31 ALA32 PHE33 ARG34 GLN35 MET36 PHE37 GLY38 HIS39 GLU40 GLY41 SER42 GLU43 ILE44 VAL45 ALA46 ILE47 ASN48 ASP49 LEU50 THR51 ASP52 PRO53 LYS54 MET55 LEU56 ALA57 ASN58 LEU59 LEU60 LYS61 TYR62 ASP63 SER64 SER65 GLN66 GLY67 ASN68 TYR69 ALA70 ARG71 ASN72 HIS73 SER74 VAL75 VAL76 ALA77 GLY78 GLU79 ASP80 SER81 ILE82 THR83 VAL84 ASP85 GLY86 LYS87 THR88 ILE89 LYS90 ILE91 TYR92 LYS93 GLU94 ALA95 ASP96 ALA97 HIS98 ASN99 LEU100 PRO101 TRP102 GLY103 GLU104 LEU105 ASN106 VAL107 ASP108 VAL109 VAL110 LEU111 GLU112 CYS113 THR114 GLY115 PHE116 TYR117 THR118 SER119 LYS120 ALA121 LYS122 ALA123 GLN124 ALA125 HIS126 ILE127 ASP128 ALA129 GLY130 ALA131 LYS132 LYS133 VAL134 VAL135 ILE136 SER137 ALA138 PRO139 ALA140 GLY141 LYS142 ASP143 LEU144 PRO145 THR146 ILE147 VAL148 TYR149 ASN150 VAL151 ASN152 HIS153 GLU154 ILE155 LEU156 THR157 LYS158 ASP159 ASP160 ASN161 ILE162 ILE163 SER164 ALA165 ALA166 SER167 CYS168 THR169 THR170 ASN171 CYS172 LEU173 ALA174 PRO175 MET176 ALA177 LYS178 ALA179 LEU180 ASN181 ASP182 PHE183 ALA184 PRO185 ILE186 GLN187 SER188 GLY189 ILE190 MET191 SER192 THR193 ILE194 HIS195 ALA196 PHE197 THR198 GLY199 ASP200 GLN201 MET202 VAL203 LEU204 ASP205 GLY206 PRO207 HIS208 ARG209 LYS210 GLY211 ASP212 LEU213 ARG214 ARG215 ALA216 ARG217 ALA218 ALA219 ALA220 ILE221 ASN222 ILE223 VAL224 PRO225 ASN226 SER227 THR228 GLY229 ALA230 ALA231 LYS232 ALA233 ILE234 GLY235 LEU236 VAL237 ILE238 PRO239 GLU240 LEU241 ASN242 GLY243 LYS244 LEU245 ILE246 GLY247 SER248 ALA249 GLN250 ARG251 VAL252 PRO253 VAL254 PRO255 THR256 GLY257 SER258 THR259 THR260 LEU261 LEU262 PHE263 ALA264 VAL265 VAL266 LYS267 SER268 ASP269 LYS270 GLU271 ILE272 THR273 VAL274 ASP275 SER276 ILE277 ASN278 ALA279 ALA280 MET281 LYS282 ALA283 ALA284 SER285 ASP286 PRO287 GLU288 THR289 PHE290 GLY291 TYR292 ASN293 GLU294 ASP295 PRO296 ILE297 VAL298 SER299 SER300 ASP301 ILE302 ILE303 GLY304 MET305 THR306 TYR307 GLY308 SER309 LEU310 PHE311 ASP312 ALA313 THR314 GLN315 THR316 MET317 VAL318 GLN319 ASP320 LEU321 GLY322 ASN323 GLY324 LEU325 TYR326 GLN327 VAL328 GLU329 VAL330 VAL331 SER332 TRP333 TYR334 ASP335 ASN336 GLU337 ASN338 SER339 TYR340 THR341 SER342 GLN343 MET344 VAL345 ARG346 THR347 ILE348 LYS349 TYR350 PHE351 GLU352 LYS353 PHE354 VAL355 ALA356
Unit 4 MET16 ALA17 VAL18 LYS19 VAL20 ALA21 ILE22 ASN23 GLY24 PHE25 GLY26 ARG27 ILE28 GLY29 ARG30 LEU31 ALA32 PHE33 ARG34 GLN35 MET36 PHE37 GLY38 HIS39 GLU40 GLY41 SER42 GLU43 ILE44 VAL45 ALA46 ILE47 ASN48 ASP49 LEU50 THR51 ASP52 PRO53 LYS54 MET55 LEU56 ALA57 ASN58 LEU59 LEU60 LYS61 TYR62 ASP63 SER64 SER65 GLN66 GLY67 ASN68 TYR69 ALA70 ARG71 ASN72 HIS73 SER74 VAL75 VAL76 ALA77 GLY78 GLU79 ASP80 SER81 ILE82 THR83 VAL84 ASP85 GLY86 LYS87 THR88 ILE89 LYS90 ILE91 TYR92 LYS93 GLU94 ALA95 ASP96 ALA97 HIS98 ASN99 LEU100 PRO101 TRP102 GLY103 GLU104 LEU105 ASN106 VAL107 ASP108 VAL109 VAL110 LEU111 GLU112 CYS113 THR114 GLY115 PHE116 TYR117 THR118 SER119 LYS120 ALA121 LYS122 ALA123 GLN124 ALA125 HIS126 ILE127 ASP128 ALA129 GLY130 ALA131 LYS132 LYS133 VAL134 VAL135 ILE136 SER137 ALA138 PRO139 ALA140 GLY141 LYS142 ASP143 LEU144 PRO145 THR146 ILE147 VAL148 TYR149 ASN150 VAL151 ASN152 HIS153 GLU154 ILE155 LEU156 THR157 LYS158 ASP159 ASP160 ASN161 ILE162 ILE163 SER164 ALA165 ALA166 SER167 CYS168 THR169 THR170 ASN171 CYS172 LEU173 ALA174 PRO175 MET176 ALA177 LYS178 ALA179 LEU180 ASN181 ASP182 PHE183 ALA184 PRO185 ILE186 GLN187 SER188 GLY189 ILE190 MET191 SER192 THR193 ILE194 HIS195 ALA196 PHE197 THR198 GLY199 ASP200 GLN201 MET202 VAL203 LEU204 ASP205 GLY206 PRO207 HIS208 ARG209 LYS210 GLY211 ASP212 LEU213 ARG214 ARG215 ALA216 ARG217 ALA218 ALA219 ALA220 ILE221 ASN222 ILE223 VAL224 PRO225 ASN226 SER227 THR228 GLY229 ALA230 ALA231 LYS232 ALA233 ILE234 GLY235 LEU236 VAL237 ILE238 PRO239 GLU240 LEU241 ASN242 GLY243 LYS244 LEU245 ILE246 GLY247 SER248 ALA249 GLN250 ARG251 VAL252 PRO253 VAL254 PRO255 THR256 GLY257 SER258 THR259 THR260 LEU261 LEU262 PHE263 ALA264 VAL265 VAL266 LYS267 SER268 ASP269 LYS270 GLU271 ILE272 THR273 VAL274 ASP275 SER276 ILE277 ASN278 ALA279 ALA280 MET281 LYS282 ALA283 ALA284 SER285 ASP286 PRO287 GLU288 THR289 PHE290 GLY291 TYR292 ASN293 GLU294 ASP295 PRO296 ILE297 VAL298 SER299 SER300 ASP301 ILE302 ILE303 GLY304 MET305 THR306 TYR307 GLY308 SER309 LEU310 PHE311 ASP312 ALA313 THR314 GLN315 THR316 MET317 VAL318 GLN319 ASP320 LEU321 GLY322 ASN323 GLY324 LEU325 TYR326 GLN327 VAL328 GLU329 VAL330 VAL331 SER332 TRP333 TYR334 ASP335 ASN336 GLU337 ASN338 SER339 TYR340 THR341 SER342 GLN343 MET344 VAL345 ARG346 THR347 ILE348 LYS349 TYR350 PHE351 GLU352 LYS353 PHE354 VAL355
Ligands
Unit 5 NAD401 GOL402 GOL403 GOL404 GOL405
Unit 6 NAD401 GOL402 GOL403 GOL404 GOL405 GOL406
Unit 7 NAD401 GOL402 GOL403
Unit 8 NAD401 GOL402
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Perl script:    PDBscan.pl  (15 Sep 2016)
Author:    Peter Slickers  (slickers@leibniz-fli.de),  IMB Jena,  Germany