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Sequence, Chains, Asymmetric and Biological Units

Title CRYSTAL STRUCTURE OF MPY-RNASE J (MUTANT H84A), AN ARCHAEAL FROM METHANOLOBUS PSYCHROPHILUS R15, COMPLEX WITH RNA
Keywords EXORIBONUCLEASE, BETA-CASP, MBL, RNASE J, HYDROLASE
Experiment X-ray diffraction
Number of Models  1

   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  
PDB   5HAB     released     available     available     Quaternary Structure Server  
Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  Protein   RIBONUCLEASE J  A 456 3544 0
2  Protein   RIBONUCLEASE J  B 463 3598 0
3  RNA    C 5 111 0
4  RNA    D 5 111 0
5  Ligand   RIBONUCLEASE J  A 4 0 20
6  Ligand   RIBONUCLEASE J  B 5 0 25
7 Water     282 0 282
total       1220 7364 327
Proteins
Unit 1 SER-19 SER-18 HIS-17 HIS-16 HIS-15 HIS-14 HIS-13 HIS-12 SER-11 SER-10 GLY-9 LEU-8 VAL-7 PRO-6 ALA0 SER1 THR2 GLU3 ILE4 GLY5 ILE6 ILE7 ALA8 VAL9 GLY10 GLY11 TYR12 ASN13 GLU14 MET15 GLY16 ARG17 ASN18 MET19 THR20 ALA21 ILE22 ARG23 VAL24 ASN25 GLU26 ASP27 ILE28 ILE29 ILE30 ILE31 ASP32 MET33 GLY34 ILE35 ARG36 LEU37 ASP38 ARG39 VAL40 GLN41 ILE42 HIS43 GLU44 ASP45 VAL46 ASP47 THR48 ASP49 ARG50 MET51 HIS52 SER53 LEU54 GLU55 LEU56 ILE57 GLU58 MET59 GLY60 ALA61 ILE62 PRO63 ASP64 ASP65 THR66 ILE67 MET68 ASN69 GLU70 VAL71 ASN72 GLY73 ASN74 VAL75 ARG76 ALA77 ILE78 VAL79 CYS80 THR81 HIS82 GLY83 ALA84 LEU85 ASP86 HIS87 ILE88 GLY89 ALA90 ILE91 PRO92 LYS93 LEU94 ALA95 HIS96 ARG97 TYR98 ALA99 ALA100 PRO101 ILE102 ILE103 ALA104 THR105 PRO106 TYR107 THR108 THR109 ALA110 LEU111 ILE112 LYS113 HIS114 GLN115 ILE116 ASP117 LYS125 ASN126 ASN127 ILE128 VAL129 ALA130 LEU131 LYS132 ALA133 GLY134 GLU135 THR136 LEU137 GLU138 ILE139 THR140 LYS141 ASP142 ILE143 THR144 ILE145 GLU146 PHE147 ILE148 ASN149 THR150 GLN151 HIS152 SER153 ILE154 ILE155 ASP156 THR157 VAL158 PHE159 VAL160 ALA161 ILE162 HIS163 THR164 PRO165 SER166 GLY167 ALA168 VAL169 VAL170 TYR171 ALA172 CYS173 ASP174 PHE175 LYS176 PHE177 ASP178 ARG179 THR180 PRO181 THR182 LEU183 GLY184 GLU185 VAL186 PRO187 ASP188 PHE189 ASP190 ARG191 LEU192 LYS193 GLU194 LEU195 GLY196 LYS197 GLU198 GLY199 VAL200 ILE201 ALA202 LEU203 ILE204 THR205 GLU206 SER207 THR208 ASN209 ALA210 GLY211 ARG212 ASN213 GLY214 LYS215 THR216 PRO217 SER218 GLU219 LEU220 ILE221 ALA222 HIS223 MET224 MET225 LEU226 LYS227 ASP228 VAL229 LEU230 LEU231 GLY232 THR233 GLU234 GLU235 SER236 ALA237 VAL238 GLY239 MET240 ILE241 VAL242 THR243 THR244 PHE245 ALA246 SER247 HIS248 ILE249 ALA250 ARG251 VAL252 ASN253 SER254 ILE255 VAL256 GLN257 PHE258 ALA259 GLN260 GLU261 MET262 GLY263 ARG264 ILE265 PRO266 VAL267 LEU268 LEU269 GLY270 ARG271 SER272 MET273 GLU274 ARG275 TYR276 VAL277 GLY278 THR279 ALA280 TYR281 GLN282 LEU283 GLY284 TYR285 ILE286 ASP287 LEU288 PRO289 GLU290 ASN291 VAL292 GLU293 ILE294 TYR295 GLY296 SER297 ARG298 ARG299 ASP300 ILE301 ASP302 ASN303 ALA304 LEU305 LYS306 LYS307 ILE308 MET309 GLU310 ALA311 GLY312 LYS313 ASP314 LYS315 TYR316 LEU317 PRO318 VAL319 MET320 THR321 GLY322 HIS323 GLN324 GLY325 GLU326 PRO327 GLY328 ALA329 VAL330 LEU331 GLY332 ARG333 ILE334 ALA335 ASN336 GLY337 GLU338 THR339 PRO340 PHE341 LYS342 VAL343 GLU344 THR345 GLY346 ASP347 ARG348 ILE349 ILE350 PHE351 SER352 ALA353 ASN354 VAL355 ILE356 PRO357 ASN358 PRO359 MET360 THR361 GLN362 ALA363 ASN364 ARG365 TYR366 ALA367 LEU368 GLU369 THR370 LYS371 LEU372 LYS373 MET374 LYS375 GLY376 ALA377 ARG378 ILE379 TYR380 ASP381 ASN382 VAL383 HIS384 VAL385 SER386 GLY387 HIS388 ALA389 TYR390 ARG391 GLU392 ASP393 HIS394 TRP395 GLU396 LEU397 LEU398 ARG399 MET400 LEU401 LYS402 PRO403 GLU404 HIS405 VAL406 ILE407 PRO408 ALA409 HIS410 GLY411 THR412 ILE413 GLN414 MET415 HIS416 SER417 GLU418 TYR419 ILE420 GLN421 MET422 ALA423 GLU424 ASP425 ALA426 GLY427 TYR428 SER429 LEU430 GLY431 ASP432 THR433 LEU434 HIS435 LEU436 LEU437 ARG438 ASN439 GLY440 GLU441 GLU442 LEU443 TYR444 ILE445 GLU446 GLU447 ASP448
Unit 2 HIS-14 HIS-13 HIS-12 SER-11 SER-10 GLY-9 LEU-8 VAL-7 PRO-6 ARG-5 GLY-4 SER-3 HIS-2 MET-1 ALA0 SER1 THR2 GLU3 ILE4 GLY5 ILE6 ILE7 ALA8 VAL9 GLY10 GLY11 TYR12 ASN13 GLU14 MET15 GLY16 ARG17 ASN18 MET19 THR20 ALA21 ILE22 ARG23 VAL24 ASN25 GLU26 ASP27 ILE28 ILE29 ILE30 ILE31 ASP32 MET33 GLY34 ILE35 ARG36 LEU37 ASP38 ARG39 VAL40 GLN41 ILE42 HIS43 GLU44 ASP45 VAL46 ASP47 THR48 ASP49 ARG50 MET51 HIS52 SER53 LEU54 GLU55 LEU56 ILE57 GLU58 MET59 GLY60 ALA61 ILE62 PRO63 ASP64 ASP65 THR66 ILE67 MET68 ASN69 GLU70 VAL71 ASN72 GLY73 ASN74 VAL75 ARG76 ALA77 ILE78 VAL79 CYS80 THR81 HIS82 GLY83 ALA84 LEU85 ASP86 HIS87 ILE88 GLY89 ALA90 ILE91 PRO92 LYS93 LEU94 ALA95 HIS96 ARG97 TYR98 ALA99 ALA100 PRO101 ILE102 ILE103 ALA104 THR105 PRO106 TYR107 THR108 THR109 ALA110 LEU111 ILE112 LYS113 HIS114 GLN115 ILE116 ASP117 SER118 GLU119 ARG120 LYS121 PHE122 GLY123 VAL124 LYS125 ASN126 ASN127 ILE128 VAL129 ALA130 LEU131 LYS132 ALA133 GLY134 GLU135 THR136 LEU137 GLU138 ILE139 THR140 LYS141 ASP142 ILE143 THR144 ILE145 GLU146 PHE147 ILE148 ASN149 THR150 GLN151 HIS152 SER153 ILE154 ILE155 ASP156 THR157 VAL158 PHE159 VAL160 ALA161 ILE162 HIS163 THR164 PRO165 SER166 GLY167 ALA168 VAL169 VAL170 TYR171 ALA172 CYS173 ASP174 PHE175 LYS176 PHE177 ASP178 ARG179 THR180 PRO181 THR182 LEU183 GLY184 GLU185 VAL186 PRO187 ASP188 PHE189 ASP190 ARG191 LEU192 LYS193 GLU194 LEU195 GLY196 LYS197 GLU198 GLY199 VAL200 ILE201 ALA202 LEU203 ILE204 THR205 GLU206 SER207 THR208 ASN209 ALA210 GLY211 ARG212 ASN213 GLY214 LYS215 THR216 PRO217 SER218 GLU219 LEU220 ILE221 ALA222 HIS223 MET224 MET225 LEU226 LYS227 ASP228 VAL229 LEU230 LEU231 GLY232 THR233 GLU234 GLU235 SER236 ALA237 VAL238 GLY239 MET240 ILE241 VAL242 THR243 THR244 PHE245 ALA246 SER247 HIS248 ILE249 ALA250 ARG251 VAL252 ASN253 SER254 ILE255 VAL256 GLN257 PHE258 ALA259 GLN260 GLU261 MET262 GLY263 ARG264 ILE265 PRO266 VAL267 LEU268 LEU269 GLY270 ARG271 SER272 MET273 GLU274 ARG275 TYR276 VAL277 GLY278 THR279 ALA280 TYR281 GLN282 LEU283 GLY284 TYR285 ILE286 ASP287 LEU288 PRO289 GLU290 ASN291 VAL292 GLU293 ILE294 TYR295 GLY296 SER297 ARG298 ARG299 ASP300 ILE301 ASP302 ASN303 ALA304 LEU305 LYS306 LYS307 ILE308 MET309 GLU310 ALA311 GLY312 LYS313 ASP314 LYS315 TYR316 LEU317 PRO318 VAL319 MET320 THR321 GLY322 HIS323 GLN324 GLY325 GLU326 PRO327 GLY328 ALA329 VAL330 LEU331 GLY332 ARG333 ILE334 ALA335 ASN336 GLY337 GLU338 THR339 PRO340 PHE341 LYS342 VAL343 GLU344 THR345 GLY346 ASP347 ARG348 ILE349 ILE350 PHE351 SER352 ALA353 ASN354 VAL355 ILE356 PRO357 ASN358 PRO359 MET360 THR361 GLN362 ALA363 ASN364 ARG365 TYR366 ALA367 LEU368 GLU369 THR370 LYS371 LEU372 LYS373 MET374 LYS375 GLY376 ALA377 ARG378 ILE379 TYR380 ASP381 ASN382 VAL383 HIS384 VAL385 SER386 GLY387 HIS388 ALA389 TYR390 ARG391 GLU392 ASP393 HIS394 TRP395 GLU396 LEU397 LEU398 ARG399 MET400 LEU401 LYS402 PRO403 GLU404 HIS405 VAL406 ILE407 PRO408 ALA409 HIS410 GLY411 THR412 ILE413 GLN414 MET415 HIS416 SER417 GLU418 TYR419 ILE420 GLN421 MET422 ALA423 GLU424 ASP425 ALA426 GLY427 TYR428 SER429 LEU430 GLY431 ASP432 THR433 LEU434 HIS435 LEU436 LEU437 ARG438 ASN439 GLY440 GLU441 GLU442 LEU443 TYR444 ILE445 GLU446 GLU447 ASP448
Nucleic acids
Unit 3 A1 A2 A3 A4 A5
Unit 4 A1 A2 A3 A4 A5
Ligands
Unit 5 SO4501 SO4502 SO4503 SO4504
Unit 6 SO4501 SO4502 SO4503 SO4504 SO4505
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