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Sequence, Chains, Asymmetric and Biological Units

Title CRYSTAL STRUCTURE OF GDP-D-MANNOSE 4,6-DEHYDRATASE IN COMPLE GDP AND NADPH
Keywords SHORT-CHAIN DEHYDROGENASE/REDUCTASE, ROSSMANN FOLD, LYASE
Experiment X-ray diffraction
Number of Models  1

   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  
PDB   1RPN     released     available     available     Quaternary Structure Server  
Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  Protein   GDP-MANNOSE 4,6-DEHYDRATASE  A 321 2503 0
2  Protein   GDP-MANNOSE 4,6-DEHYDRATASE  B 321 2489 0
3  Protein   GDP-MANNOSE 4,6-DEHYDRATASE  C 322 2508 0
4  Protein   GDP-MANNOSE 4,6-DEHYDRATASE  D 322 2508 0
5  Ligand   GDP-MANNOSE 4,6-DEHYDRATASE  A 2 0 76
6  Ligand   GDP-MANNOSE 4,6-DEHYDRATASE  B 2 0 76
7  Ligand   GDP-MANNOSE 4,6-DEHYDRATASE  C 2 0 76
8  Ligand   GDP-MANNOSE 4,6-DEHYDRATASE  D 2 0 76
9 Water     693 0 693
total       1987 10008 997
Proteins
Unit 1 ARG3 SER4 ALA5 LEU6 VAL7 THR8 GLY9 ILE10 THR11 GLY12 GLN13 ASP14 GLY15 ALA16 TYR17 LEU18 ALA19 LYS20 LEU21 LEU22 LEU23 GLU24 LYS25 GLY26 TYR27 ARG28 VAL29 HIS30 GLY31 LEU32 VAL33 ALA34 ARG35 ARG36 SER37 SER38 ASP39 THR40 ARG41 TRP42 ARG43 LEU44 ARG45 GLU46 LEU47 GLY48 ILE49 GLU50 GLY51 ASP52 ILE53 GLN54 TYR55 GLU56 ASP57 GLY58 ASP59 MET60 ALA61 ASP62 ALA63 CYS64 SER65 VAL66 GLN67 ARG68 ALA69 VAL70 ILE71 LYS72 ALA73 GLN74 PRO75 GLN76 GLU77 VAL78 TYR79 ASN80 LEU81 ALA82 ALA83 GLN84 SER85 PHE86 VAL87 GLY88 ALA89 SER90 TRP91 ASN92 GLN93 PRO94 VAL95 THR96 THR97 GLY98 VAL99 VAL100 ASP101 GLY102 LEU103 GLY104 VAL105 THR106 HIS107 LEU108 LEU109 GLU110 ALA111 ILE112 ARG113 GLN114 PHE115 SER116 PRO117 GLU118 THR119 ARG120 PHE121 TYR122 GLN123 ALA124 SER125 THR126 SER127 GLU128 MET129 PHE130 GLY131 LEU132 ILE133 GLN134 ALA135 GLU136 ARG137 GLN138 ASP139 GLU140 ASN141 THR142 PRO143 PHE144 TYR145 PRO146 ARG147 SER148 PRO149 TYR150 GLY151 VAL152 ALA153 LYS154 LEU155 TYR156 GLY157 HIS158 TRP159 ILE160 THR161 VAL162 ASN163 TYR164 ARG165 GLU166 SER167 PHE168 GLY169 LEU170 HIS171 ALA172 SER173 SER174 GLY175 ILE176 LEU177 PHE178 ASN179 HIS180 GLU181 SER182 PRO183 LEU184 ARG185 GLY186 ILE187 GLU188 PHE189 VAL190 THR191 ARG192 LYS193 VAL194 THR195 ASP196 ALA197 VAL198 ALA199 ARG200 ILE201 LYS202 LEU203 GLY204 LYS205 GLN206 GLN207 GLU208 LEU209 ARG210 LEU211 GLY212 ASN213 VAL214 ASP215 ALA216 LYS217 ARG218 ASP219 TRP220 GLY221 PHE222 ALA223 GLY224 ASP225 TYR226 VAL227 GLU228 ALA229 MET230 TRP231 LEU232 MET233 LEU234 GLN235 GLN236 ASP237 LYS238 ALA239 ASP240 ASP241 TYR242 VAL243 VAL244 ALA245 THR246 GLY247 VAL248 THR249 THR250 THR251 VAL252 ARG253 ASP254 MET255 CYS256 GLN257 ILE258 ALA259 PHE260 GLU261 HIS262 VAL263 GLY264 LEU265 ASP266 TYR267 ARG268 ASP269 PHE270 LEU271 LYS272 ILE273 ASP274 PRO275 ALA276 PHE277 PHE278 ARG279 PRO280 ALA281 GLU282 VAL283 ASP284 VAL285 LEU286 LEU287 GLY288 ASN289 PRO290 ALA291 LYS292 ALA293 GLN294 ARG295 VAL296 LEU297 GLY298 TRP299 LYS300 PRO301 ARG302 THR303 SER304 LEU305 ASP306 GLU307 LEU308 ILE309 ARG310 MET311 MET312 VAL313 GLU314 ALA315 ASP316 LEU317 ARG318 ARG319 VAL320 SER321 ARG322 GLU323
Unit 2 ARG3 SER4 ALA5 LEU6 VAL7 THR8 GLY9 ILE10 THR11 GLY12 GLN13 ASP14 GLY15 ALA16 TYR17 LEU18 ALA19 LYS20 LEU21 LEU22 LEU23 GLU24 LYS25 GLY26 TYR27 ARG28 VAL29 HIS30 GLY31 LEU32 VAL33 ALA34 ARG35 ARG36 SER37 SER38 ASP39 THR40 ARG41 TRP42 ARG43 LEU44 ARG45 GLU46 LEU47 GLY48 ILE49 GLU50 GLY51 ASP52 ILE53 GLN54 TYR55 GLU56 ASP57 GLY58 ASP59 MET60 ALA61 ASP62 ALA63 CYS64 SER65 VAL66 GLN67 ARG68 ALA69 VAL70 ILE71 LYS72 ALA73 GLN74 PRO75 GLN76 GLU77 VAL78 TYR79 ASN80 LEU81 ALA82 ALA83 GLN84 SER85 PHE86 VAL87 GLY88 ALA89 SER90 TRP91 ASN92 GLN93 PRO94 VAL95 THR96 THR97 GLY98 VAL99 VAL100 ASP101 GLY102 LEU103 GLY104 VAL105 THR106 HIS107 LEU108 LEU109 GLU110 ALA111 ILE112 ARG113 GLN114 PHE115 SER116 PRO117 GLU118 THR119 ARG120 PHE121 TYR122 GLN123 ALA124 SER125 THR126 SER127 GLU128 MET129 PHE130 GLY131 LEU132 ILE133 GLN134 ALA135 GLU136 ARG137 GLN138 ASP139 GLU140 ASN141 THR142 PRO143 PHE144 TYR145 PRO146 ARG147 SER148 PRO149 TYR150 GLY151 VAL152 ALA153 LYS154 LEU155 TYR156 GLY157 HIS158 TRP159 ILE160 THR161 VAL162 ASN163 TYR164 ARG165 GLU166 SER167 PHE168 GLY169 LEU170 HIS171 ALA172 SER173 SER174 GLY175 ILE176 LEU177 PHE178 ASN179 HIS180 GLU181 SER182 PRO183 LEU184 ARG185 GLY186 ILE187 GLU188 PHE189 VAL190 THR191 ARG192 LYS193 VAL194 THR195 ASP196 ALA197 VAL198 ALA199 ARG200 ILE201 LYS202 LEU203 GLY204 LYS205 GLN206 GLN207 GLU208 LEU209 ARG210 LEU211 GLY212 ASN213 VAL214 ASP215 ALA216 LYS217 ARG218 ASP219 TRP220 GLY221 PHE222 ALA223 GLY224 ASP225 TYR226 VAL227 GLU228 ALA229 MET230 TRP231 LEU232 MET233 LEU234 GLN235 GLN236 ASP237 LYS238 ALA239 ASP240 ASP241 TYR242 VAL243 VAL244 ALA245 THR246 GLY247 VAL248 THR249 THR250 THR251 VAL252 ARG253 ASP254 MET255 CYS256 GLN257 ILE258 ALA259 PHE260 GLU261 HIS262 VAL263 GLY264 LEU265 ASP266 TYR267 ARG268 ASP269 PHE270 LEU271 LYS272 ILE273 ASP274 PRO275 ALA276 PHE277 PHE278 ARG279 PRO280 ALA281 GLU282 VAL283 ASP284 VAL285 LEU286 LEU287 GLY288 ASN289 PRO290 ALA291 LYS292 ALA293 GLN294 ARG295 VAL296 LEU297 GLY298 TRP299 LYS300 PRO301 ARG302 THR303 SER304 LEU305 ASP306 GLU307 LEU308 ILE309 ARG310 MET311 MET312 VAL313 GLU314 ALA315 ASP316 LEU317 ARG318 ARG319 VAL320 SER321 ARG322 GLU323
Unit 3 THR2 ARG3 SER4 ALA5 LEU6 VAL7 THR8 GLY9 ILE10 THR11 GLY12 GLN13 ASP14 GLY15 ALA16 TYR17 LEU18 ALA19 LYS20 LEU21 LEU22 LEU23 GLU24 LYS25 GLY26 TYR27 ARG28 VAL29 HIS30 GLY31 LEU32 VAL33 ALA34 ARG35 ARG36 SER37 SER38 ASP39 THR40 ARG41 TRP42 ARG43 LEU44 ARG45 GLU46 LEU47 GLY48 ILE49 GLU50 GLY51 ASP52 ILE53 GLN54 TYR55 GLU56 ASP57 GLY58 ASP59 MET60 ALA61 ASP62 ALA63 CYS64 SER65 VAL66 GLN67 ARG68 ALA69 VAL70 ILE71 LYS72 ALA73 GLN74 PRO75 GLN76 GLU77 VAL78 TYR79 ASN80 LEU81 ALA82 ALA83 GLN84 SER85 PHE86 VAL87 GLY88 ALA89 SER90 TRP91 ASN92 GLN93 PRO94 VAL95 THR96 THR97 GLY98 VAL99 VAL100 ASP101 GLY102 LEU103 GLY104 VAL105 THR106 HIS107 LEU108 LEU109 GLU110 ALA111 ILE112 ARG113 GLN114 PHE115 SER116 PRO117 GLU118 THR119 ARG120 PHE121 TYR122 GLN123 ALA124 SER125 THR126 SER127 GLU128 MET129 PHE130 GLY131 LEU132 ILE133 GLN134 ALA135 GLU136 ARG137 GLN138 ASP139 GLU140 ASN141 THR142 PRO143 PHE144 TYR145 PRO146 ARG147 SER148 PRO149 TYR150 GLY151 VAL152 ALA153 LYS154 LEU155 TYR156 GLY157 HIS158 TRP159 ILE160 THR161 VAL162 ASN163 TYR164 ARG165 GLU166 SER167 PHE168 GLY169 LEU170 HIS171 ALA172 SER173 SER174 GLY175 ILE176 LEU177 PHE178 ASN179 HIS180 GLU181 SER182 PRO183 LEU184 ARG185 GLY186 ILE187 GLU188 PHE189 VAL190 THR191 ARG192 LYS193 VAL194 THR195 ASP196 ALA197 VAL198 ALA199 ARG200 ILE201 LYS202 LEU203 GLY204 LYS205 GLN206 GLN207 GLU208 LEU209 ARG210 LEU211 GLY212 ASN213 VAL214 ASP215 ALA216 LYS217 ARG218 ASP219 TRP220 GLY221 PHE222 ALA223 GLY224 ASP225 TYR226 VAL227 GLU228 ALA229 MET230 TRP231 LEU232 MET233 LEU234 GLN235 GLN236 ASP237 LYS238 ALA239 ASP240 ASP241 TYR242 VAL243 VAL244 ALA245 THR246 GLY247 VAL248 THR249 THR250 THR251 VAL252 ARG253 ASP254 MET255 CYS256 GLN257 ILE258 ALA259 PHE260 GLU261 HIS262 VAL263 GLY264 LEU265 ASP266 TYR267 ARG268 ASP269 PHE270 LEU271 LYS272 ILE273 ASP274 PRO275 ALA276 PHE277 PHE278 ARG279 PRO280 ALA281 GLU282 VAL283 ASP284 VAL285 LEU286 LEU287 GLY288 ASN289 PRO290 ALA291 LYS292 ALA293 GLN294 ARG295 VAL296 LEU297 GLY298 TRP299 LYS300 PRO301 ARG302 THR303 SER304 LEU305 ASP306 GLU307 LEU308 ILE309 ARG310 MET311 MET312 VAL313 GLU314 ALA315 ASP316 LEU317 ARG318 ARG319 VAL320 SER321 ARG322 GLU323
Unit 4 THR2 ARG3 SER4 ALA5 LEU6 VAL7 THR8 GLY9 ILE10 THR11 GLY12 GLN13 ASP14 GLY15 ALA16 TYR17 LEU18 ALA19 LYS20 LEU21 LEU22 LEU23 GLU24 LYS25 GLY26 TYR27 ARG28 VAL29 HIS30 GLY31 LEU32 VAL33 ALA34 ARG35 ARG36 SER37 SER38 ASP39 THR40 ARG41 TRP42 ARG43 LEU44 ARG45 GLU46 LEU47 GLY48 ILE49 GLU50 GLY51 ASP52 ILE53 GLN54 TYR55 GLU56 ASP57 GLY58 ASP59 MET60 ALA61 ASP62 ALA63 CYS64 SER65 VAL66 GLN67 ARG68 ALA69 VAL70 ILE71 LYS72 ALA73 GLN74 PRO75 GLN76 GLU77 VAL78 TYR79 ASN80 LEU81 ALA82 ALA83 GLN84 SER85 PHE86 VAL87 GLY88 ALA89 SER90 TRP91 ASN92 GLN93 PRO94 VAL95 THR96 THR97 GLY98 VAL99 VAL100 ASP101 GLY102 LEU103 GLY104 VAL105 THR106 HIS107 LEU108 LEU109 GLU110 ALA111 ILE112 ARG113 GLN114 PHE115 SER116 PRO117 GLU118 THR119 ARG120 PHE121 TYR122 GLN123 ALA124 SER125 THR126 SER127 GLU128 MET129 PHE130 GLY131 LEU132 ILE133 GLN134 ALA135 GLU136 ARG137 GLN138 ASP139 GLU140 ASN141 THR142 PRO143 PHE144 TYR145 PRO146 ARG147 SER148 PRO149 TYR150 GLY151 VAL152 ALA153 LYS154 LEU155 TYR156 GLY157 HIS158 TRP159 ILE160 THR161 VAL162 ASN163 TYR164 ARG165 GLU166 SER167 PHE168 GLY169 LEU170 HIS171 ALA172 SER173 SER174 GLY175 ILE176 LEU177 PHE178 ASN179 HIS180 GLU181 SER182 PRO183 LEU184 ARG185 GLY186 ILE187 GLU188 PHE189 VAL190 THR191 ARG192 LYS193 VAL194 THR195 ASP196 ALA197 VAL198 ALA199 ARG200 ILE201 LYS202 LEU203 GLY204 LYS205 GLN206 GLN207 GLU208 LEU209 ARG210 LEU211 GLY212 ASN213 VAL214 ASP215 ALA216 LYS217 ARG218 ASP219 TRP220 GLY221 PHE222 ALA223 GLY224 ASP225 TYR226 VAL227 GLU228 ALA229 MET230 TRP231 LEU232 MET233 LEU234 GLN235 GLN236 ASP237 LYS238 ALA239 ASP240 ASP241 TYR242 VAL243 VAL244 ALA245 THR246 GLY247 VAL248 THR249 THR250 THR251 VAL252 ARG253 ASP254 MET255 CYS256 GLN257 ILE258 ALA259 PHE260 GLU261 HIS262 VAL263 GLY264 LEU265 ASP266 TYR267 ARG268 ASP269 PHE270 LEU271 LYS272 ILE273 ASP274 PRO275 ALA276 PHE277 PHE278 ARG279 PRO280 ALA281 GLU282 VAL283 ASP284 VAL285 LEU286 LEU287 GLY288 ASN289 PRO290 ALA291 LYS292 ALA293 GLN294 ARG295 VAL296 LEU297 GLY298 TRP299 LYS300 PRO301 ARG302 THR303 SER304 LEU305 ASP306 GLU307 LEU308 ILE309 ARG310 MET311 MET312 VAL313 GLU314 ALA315 ASP316 LEU317 ARG318 ARG319 VAL320 SER321 ARG322 GLU323
Ligands
Unit 5 NDP1501 GDP1601
Unit 6 NDP1502 GDP1602
Unit 7 NDP1503 GDP1603
Unit 8 NDP1504 GDP1604
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Perl script:    PDBscan.pl  (15 Sep 2016)
Author:    Peter Slickers  (slickers@leibniz-fli.de),  IMB Jena,  Germany