0.012887 0.007440 0.000000 0.000000 0.014881 0.000000 0.000000 0.000000 0.004378 0.00000 0.00000 0.00000 Sampathkumar, P. Almo, S.C. New York Structural Genomics Research Consortium (NYSGRC) http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 12 90.00 90.00 120.00 77.598 77.598 228.425 C5 H5 N5 135.127 ADENINE non-polymer C3 H7 N O2 89.093 y ALANINE L-peptide linking C6 H15 N4 O2 1 175.209 y ARGININE L-peptide linking C4 H8 N2 O3 132.118 y ASPARAGINE L-peptide linking C4 H7 N O4 133.103 y ASPARTIC ACID L-peptide linking C3 H7 N O2 S 121.158 y CYSTEINE L-peptide linking C2 H6 O2 62.068 1,2-ETHANEDIOL ETHYLENE GLYCOL non-polymer C5 H10 N2 O3 146.144 y GLUTAMINE L-peptide linking C5 H9 N O4 147.129 y GLUTAMIC ACID L-peptide linking C2 H5 N O2 75.067 y GLYCINE peptide linking C6 H10 N3 O2 1 156.162 y HISTIDINE L-peptide linking H2 O 18.015 WATER non-polymer C6 H13 N O2 131.173 y ISOLEUCINE L-peptide linking C6 H13 N O2 131.173 y LEUCINE L-peptide linking C6 H15 N2 O2 1 147.195 y LYSINE L-peptide linking C5 H11 N O2 Se 196.106 n SELENOMETHIONINE L-peptide linking C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking C5 H9 N O2 115.130 y PROLINE L-peptide linking C3 H7 N O3 105.093 y SERINE L-peptide linking C4 H9 N O3 119.119 y THREONINE L-peptide linking C11 H12 N2 O2 204.225 y TRYPTOPHAN L-peptide linking C9 H11 N O3 181.189 y TYROSINE L-peptide linking C5 H11 N O2 117.146 y VALINE L-peptide linking To be Published 0353 Crystal structure of a putative 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase from Sulfurimonas denitrificans DSM 1251 100 1 MIRRORS CCD 2013-02-15 ADSC QUANTUM 315r Si(111) SINGLE WAVELENGTH M x-ray 1 0.97910 1.0 X29A NSLS 0.97910 SYNCHROTRON NSLS BEAMLINE X29A 28637.805 Methylthioadenosine nucleosidase 3.2.2.16 1 man polymer 62.068 1,2-ETHANEDIOL 4 syn non-polymer 135.127 ADENINE 1 syn non-polymer 18.015 water 139 nat water no yes (MSE)HHHHHHSSGVDLGTENLYFQS(MSE)KIAI(MSE)GA(MSE)PEEISPILEKIGSYKSTSYAGNKYYEATYQGVE LVIAYSKIGKVFSALSAAT(MSE)IEHFGATKLLFSGVAGAISTNLKVGDLIVATKLSQHDLDITAFGHPYGYVPEGSVF VEADKD(MSE)IELSKKVALE(MSE)GKSVQEGIIATGDQFVANEERKNWIGTTFGADALE(MSE)EGGSVGVVCNALNI PFFILRSISDAAD(MSE)DASFSFDEFLESSAKESAEFI(MSE)K(MSE)VDELVALPLQDIK MHHHHHHSSGVDLGTENLYFQSMKIAIMGAMPEEISPILEKIGSYKSTSYAGNKYYEATYQGVELVIAYSKIGKVFSALS AATMIEHFGATKLLFSGVAGAISTNLKVGDLIVATKLSQHDLDITAFGHPYGYVPEGSVFVEADKDMIELSKKVALEMGK SVQEGIIATGDQFVANEERKNWIGTTFGADALEMEGGSVGVVCNALNIPFFILRSISDAADMDASFSFDEFLESSAKESA EFIMKMVDELVALPLQDIK A NYSGRC-029304 polypeptide(L) n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n DSM 1251 sample Suden_1392 326298 Sulfurimonas denitrificans 469008 Escherichia coli BL21(DE3) CodonPlus RIL Plasmid pSGC-His 1 3.54 65.26 VAPOR DIFFUSION, SITTING DROP 4.6 Protein (20mM HEPES pH7.5, 150mM NaCl, 5% glycerol, and 5mM DTT); Reservoir (MCSG3 #84; 0.1 M Sodium Acetate:HCl pH 4.6, 2.0 M Sodium Formate ); Cryoprotection (33% Ethylene glycol), VAPOR DIFFUSION, SITTING DROP, temperature 298K 298 New York Structural Genomics Research Consortium NYSGRC PSI:Biology software repository Initial release Structure summary Refinement description 1 0 2013-05-08 1 1 2013-11-27 1 2 2017-11-15 _software.classification _software.name Y RCSB Y RCSB 2013-03-27 REL REL EDO 1,2-ETHANEDIOL ADE ADENINE HOH water EDO 1 2 EDO EDO 301 A EDO 2 2 EDO EDO 302 A EDO 3 2 EDO EDO 303 A EDO 4 2 EDO EDO 304 A ADE 1 3 ADE ADE 305 A HOH 1 4 HOH HOH 401 A HOH 2 4 HOH HOH 402 A HOH 3 4 HOH HOH 403 A HOH 4 4 HOH HOH 404 A HOH 5 4 HOH HOH 405 A HOH 6 4 HOH HOH 406 A HOH 7 4 HOH HOH 407 A HOH 8 4 HOH HOH 408 A HOH 9 4 HOH HOH 409 A HOH 10 4 HOH HOH 410 A HOH 11 4 HOH HOH 411 A HOH 12 4 HOH HOH 412 A HOH 13 4 HOH HOH 413 A HOH 14 4 HOH HOH 414 A HOH 15 4 HOH HOH 415 A HOH 16 4 HOH HOH 416 A HOH 17 4 HOH HOH 417 A HOH 18 4 HOH HOH 418 A HOH 19 4 HOH HOH 419 A HOH 20 4 HOH HOH 420 A HOH 21 4 HOH HOH 421 A HOH 22 4 HOH HOH 422 A HOH 23 4 HOH HOH 423 A HOH 24 4 HOH HOH 424 A HOH 25 4 HOH HOH 425 A HOH 26 4 HOH HOH 426 A HOH 27 4 HOH HOH 427 A HOH 28 4 HOH HOH 428 A HOH 29 4 HOH HOH 429 A HOH 30 4 HOH HOH 430 A HOH 31 4 HOH HOH 431 A HOH 32 4 HOH HOH 432 A HOH 33 4 HOH HOH 433 A HOH 34 4 HOH HOH 434 A HOH 35 4 HOH HOH 435 A HOH 36 4 HOH HOH 436 A HOH 37 4 HOH HOH 437 A HOH 38 4 HOH HOH 438 A HOH 39 4 HOH HOH 439 A HOH 40 4 HOH HOH 440 A HOH 41 4 HOH HOH 441 A HOH 42 4 HOH HOH 442 A HOH 43 4 HOH HOH 443 A HOH 44 4 HOH HOH 444 A HOH 45 4 HOH HOH 445 A HOH 46 4 HOH HOH 446 A HOH 47 4 HOH HOH 447 A HOH 48 4 HOH HOH 448 A HOH 49 4 HOH HOH 449 A HOH 50 4 HOH HOH 450 A HOH 51 4 HOH HOH 451 A HOH 52 4 HOH HOH 452 A HOH 53 4 HOH HOH 453 A HOH 54 4 HOH HOH 454 A HOH 55 4 HOH HOH 455 A HOH 56 4 HOH HOH 456 A HOH 57 4 HOH HOH 457 A HOH 58 4 HOH HOH 458 A HOH 59 4 HOH HOH 459 A HOH 60 4 HOH HOH 460 A HOH 61 4 HOH HOH 461 A HOH 62 4 HOH HOH 462 A HOH 63 4 HOH HOH 463 A HOH 64 4 HOH HOH 464 A HOH 65 4 HOH HOH 465 A HOH 66 4 HOH HOH 466 A HOH 67 4 HOH HOH 467 A HOH 68 4 HOH HOH 468 A HOH 69 4 HOH HOH 469 A HOH 70 4 HOH HOH 470 A HOH 71 4 HOH HOH 471 A HOH 72 4 HOH HOH 472 A HOH 73 4 HOH HOH 473 A HOH 74 4 HOH HOH 474 A HOH 75 4 HOH HOH 475 A HOH 76 4 HOH HOH 476 A HOH 77 4 HOH HOH 477 A HOH 78 4 HOH HOH 478 A HOH 79 4 HOH HOH 479 A HOH 80 4 HOH HOH 480 A HOH 81 4 HOH HOH 481 A HOH 82 4 HOH HOH 482 A HOH 83 4 HOH HOH 483 A HOH 84 4 HOH HOH 484 A HOH 85 4 HOH HOH 485 A HOH 86 4 HOH HOH 486 A HOH 87 4 HOH HOH 487 A HOH 88 4 HOH HOH 488 A HOH 89 4 HOH HOH 489 A HOH 90 4 HOH HOH 490 A HOH 91 4 HOH HOH 491 A HOH 92 4 HOH HOH 492 A HOH 93 4 HOH HOH 493 A HOH 94 4 HOH HOH 494 A HOH 95 4 HOH HOH 495 A HOH 96 4 HOH HOH 496 A HOH 97 4 HOH HOH 497 A HOH 98 4 HOH HOH 498 A HOH 99 4 HOH HOH 499 A HOH 100 4 HOH HOH 500 A HOH 101 4 HOH HOH 501 A HOH 102 4 HOH HOH 502 A HOH 103 4 HOH HOH 503 A HOH 104 4 HOH HOH 504 A HOH 105 4 HOH HOH 505 A HOH 106 4 HOH HOH 506 A HOH 107 4 HOH HOH 507 A HOH 108 4 HOH HOH 508 A HOH 109 4 HOH HOH 509 A HOH 110 4 HOH HOH 510 A HOH 111 4 HOH HOH 511 A HOH 112 4 HOH HOH 512 A HOH 113 4 HOH HOH 513 A HOH 114 4 HOH HOH 514 A HOH 115 4 HOH HOH 515 A HOH 116 4 HOH HOH 516 A HOH 117 4 HOH HOH 517 A HOH 118 4 HOH HOH 518 A HOH 119 4 HOH HOH 519 A HOH 120 4 HOH HOH 520 A HOH 121 4 HOH HOH 521 A HOH 122 4 HOH HOH 522 A HOH 123 4 HOH HOH 523 A HOH 124 4 HOH HOH 524 A HOH 125 4 HOH HOH 525 A HOH 126 4 HOH HOH 526 A HOH 127 4 HOH HOH 527 A HOH 128 4 HOH HOH 528 A HOH 129 4 HOH HOH 529 A HOH 130 4 HOH HOH 530 A HOH 131 4 HOH HOH 531 A HOH 132 4 HOH HOH 532 A HOH 133 4 HOH HOH 533 A HOH 134 4 HOH HOH 534 A HOH 135 4 HOH HOH 535 A HOH 136 4 HOH HOH 536 A HOH 137 4 HOH HOH 537 A HOH 138 4 HOH HOH 538 A HOH 139 4 HOH HOH 539 A n 1 -21 A n 2 -20 A n 3 -19 A n 4 -18 A n 5 -17 A n 6 -16 A n 7 -15 A n 8 -14 A n 9 -13 A GLY -12 n 10 GLY -12 A VAL -11 n 11 VAL -11 A ASP -10 n 12 ASP -10 A LEU -9 n 13 LEU -9 A GLY -8 n 14 GLY -8 A THR -7 n 15 THR -7 A GLU -6 n 16 GLU -6 A ASN -5 n 17 ASN -5 A LEU -4 n 18 LEU -4 A TYR -3 n 19 TYR -3 A PHE -2 n 20 PHE -2 A GLN -1 n 21 GLN -1 A SER 0 n 22 SER 0 A MSE 1 n 23 MSE 1 A LYS 2 n 24 LYS 2 A ILE 3 n 25 ILE 3 A ALA 4 n 26 ALA 4 A ILE 5 n 27 ILE 5 A MSE 6 n 28 MSE 6 A GLY 7 n 29 GLY 7 A ALA 8 n 30 ALA 8 A MSE 9 n 31 MSE 9 A PRO 10 n 32 PRO 10 A GLU 11 n 33 GLU 11 A GLU 12 n 34 GLU 12 A ILE 13 n 35 ILE 13 A SER 14 n 36 SER 14 A PRO 15 n 37 PRO 15 A ILE 16 n 38 ILE 16 A LEU 17 n 39 LEU 17 A GLU 18 n 40 GLU 18 A LYS 19 n 41 LYS 19 A ILE 20 n 42 ILE 20 A GLY 21 n 43 GLY 21 A SER 22 n 44 SER 22 A TYR 23 n 45 TYR 23 A LYS 24 n 46 LYS 24 A SER 25 n 47 SER 25 A THR 26 n 48 THR 26 A SER 27 n 49 SER 27 A TYR 28 n 50 TYR 28 A ALA 29 n 51 ALA 29 A GLY 30 n 52 GLY 30 A ASN 31 n 53 ASN 31 A LYS 32 n 54 LYS 32 A TYR 33 n 55 TYR 33 A TYR 34 n 56 TYR 34 A GLU 35 n 57 GLU 35 A ALA 36 n 58 ALA 36 A THR 37 n 59 THR 37 A TYR 38 n 60 TYR 38 A GLN 39 n 61 GLN 39 A GLY 40 n 62 GLY 40 A VAL 41 n 63 VAL 41 A GLU 42 n 64 GLU 42 A LEU 43 n 65 LEU 43 A VAL 44 n 66 VAL 44 A ILE 45 n 67 ILE 45 A ALA 46 n 68 ALA 46 A TYR 47 n 69 TYR 47 A SER 48 n 70 SER 48 A LYS 49 n 71 LYS 49 A ILE 50 n 72 ILE 50 A GLY 51 n 73 GLY 51 A LYS 52 n 74 LYS 52 A VAL 53 n 75 VAL 53 A PHE 54 n 76 PHE 54 A SER 55 n 77 SER 55 A ALA 56 n 78 ALA 56 A LEU 57 n 79 LEU 57 A SER 58 n 80 SER 58 A ALA 59 n 81 ALA 59 A ALA 60 n 82 ALA 60 A THR 61 n 83 THR 61 A MSE 62 n 84 MSE 62 A ILE 63 n 85 ILE 63 A GLU 64 n 86 GLU 64 A HIS 65 n 87 HIS 65 A PHE 66 n 88 PHE 66 A GLY 67 n 89 GLY 67 A ALA 68 n 90 ALA 68 A THR 69 n 91 THR 69 A LYS 70 n 92 LYS 70 A LEU 71 n 93 LEU 71 A LEU 72 n 94 LEU 72 A PHE 73 n 95 PHE 73 A SER 74 n 96 SER 74 A GLY 75 n 97 GLY 75 A VAL 76 n 98 VAL 76 A ALA 77 n 99 ALA 77 A GLY 78 n 100 GLY 78 A ALA 79 n 101 ALA 79 A ILE 80 n 102 ILE 80 A SER 81 n 103 SER 81 A THR 82 n 104 THR 82 A ASN 83 n 105 ASN 83 A LEU 84 n 106 LEU 84 A LYS 85 n 107 LYS 85 A VAL 86 n 108 VAL 86 A GLY 87 n 109 GLY 87 A ASP 88 n 110 ASP 88 A LEU 89 n 111 LEU 89 A ILE 90 n 112 ILE 90 A VAL 91 n 113 VAL 91 A ALA 92 n 114 ALA 92 A THR 93 n 115 THR 93 A LYS 94 n 116 LYS 94 A LEU 95 n 117 LEU 95 A SER 96 n 118 SER 96 A GLN 97 n 119 GLN 97 A HIS 98 n 120 HIS 98 A ASP 99 n 121 ASP 99 A LEU 100 n 122 LEU 100 A ASP 101 n 123 ASP 101 A ILE 102 n 124 ILE 102 A THR 103 n 125 THR 103 A ALA 104 n 126 ALA 104 A PHE 105 n 127 PHE 105 A GLY 106 n 128 GLY 106 A HIS 107 n 129 HIS 107 A PRO 108 n 130 PRO 108 A TYR 109 n 131 TYR 109 A GLY 110 n 132 GLY 110 A TYR 111 n 133 TYR 111 A VAL 112 n 134 VAL 112 A PRO 113 n 135 PRO 113 A GLU 114 n 136 GLU 114 A GLY 115 n 137 GLY 115 A SER 116 n 138 SER 116 A VAL 117 n 139 VAL 117 A PHE 118 n 140 PHE 118 A VAL 119 n 141 VAL 119 A GLU 120 n 142 GLU 120 A ALA 121 n 143 ALA 121 A ASP 122 n 144 ASP 122 A LYS 123 n 145 LYS 123 A ASP 124 n 146 ASP 124 A MSE 125 n 147 MSE 125 A ILE 126 n 148 ILE 126 A GLU 127 n 149 GLU 127 A LEU 128 n 150 LEU 128 A SER 129 n 151 SER 129 A LYS 130 n 152 LYS 130 A LYS 131 n 153 LYS 131 A VAL 132 n 154 VAL 132 A ALA 133 n 155 ALA 133 A LEU 134 n 156 LEU 134 A GLU 135 n 157 GLU 135 A MSE 136 n 158 MSE 136 A GLY 137 n 159 GLY 137 A LYS 138 n 160 LYS 138 A SER 139 n 161 SER 139 A VAL 140 n 162 VAL 140 A GLN 141 n 163 GLN 141 A GLU 142 n 164 GLU 142 A GLY 143 n 165 GLY 143 A ILE 144 n 166 ILE 144 A ILE 145 n 167 ILE 145 A ALA 146 n 168 ALA 146 A THR 147 n 169 THR 147 A GLY 148 n 170 GLY 148 A ASP 149 n 171 ASP 149 A GLN 150 n 172 GLN 150 A PHE 151 n 173 PHE 151 A VAL 152 n 174 VAL 152 A ALA 153 n 175 ALA 153 A ASN 154 n 176 ASN 154 A GLU 155 n 177 GLU 155 A GLU 156 n 178 GLU 156 A ARG 157 n 179 ARG 157 A LYS 158 n 180 LYS 158 A ASN 159 n 181 ASN 159 A TRP 160 n 182 TRP 160 A ILE 161 n 183 ILE 161 A GLY 162 n 184 GLY 162 A THR 163 n 185 THR 163 A THR 164 n 186 THR 164 A PHE 165 n 187 PHE 165 A GLY 166 n 188 GLY 166 A ALA 167 n 189 ALA 167 A ASP 168 n 190 ASP 168 A ALA 169 n 191 ALA 169 A LEU 170 n 192 LEU 170 A GLU 171 n 193 GLU 171 A MSE 172 n 194 MSE 172 A GLU 173 n 195 GLU 173 A GLY 174 n 196 GLY 174 A GLY 175 n 197 GLY 175 A SER 176 n 198 SER 176 A VAL 177 n 199 VAL 177 A GLY 178 n 200 GLY 178 A VAL 179 n 201 VAL 179 A VAL 180 n 202 VAL 180 A CYS 181 n 203 CYS 181 A ASN 182 n 204 ASN 182 A ALA 183 n 205 ALA 183 A LEU 184 n 206 LEU 184 A ASN 185 n 207 ASN 185 A ILE 186 n 208 ILE 186 A PRO 187 n 209 PRO 187 A PHE 188 n 210 PHE 188 A PHE 189 n 211 PHE 189 A ILE 190 n 212 ILE 190 A LEU 191 n 213 LEU 191 A ARG 192 n 214 ARG 192 A SER 193 n 215 SER 193 A ILE 194 n 216 ILE 194 A SER 195 n 217 SER 195 A ASP 196 n 218 ASP 196 A ALA 197 n 219 ALA 197 A ALA 198 n 220 ALA 198 A ASP 199 n 221 ASP 199 A MSE 200 n 222 MSE 200 A ASP 201 n 223 ASP 201 A ALA 202 n 224 ALA 202 A SER 203 n 225 SER 203 A PHE 204 n 226 PHE 204 A SER 205 n 227 SER 205 A PHE 206 n 228 PHE 206 A ASP 207 n 229 ASP 207 A GLU 208 n 230 GLU 208 A PHE 209 n 231 PHE 209 A LEU 210 n 232 LEU 210 A GLU 211 n 233 GLU 211 A SER 212 n 234 SER 212 A SER 213 n 235 SER 213 A ALA 214 n 236 ALA 214 A LYS 215 n 237 LYS 215 A GLU 216 n 238 GLU 216 A SER 217 n 239 SER 217 A ALA 218 n 240 ALA 218 A GLU 219 n 241 GLU 219 A PHE 220 n 242 PHE 220 A ILE 221 n 243 ILE 221 A MSE 222 n 244 MSE 222 A LYS 223 n 245 LYS 223 A MSE 224 n 246 MSE 224 A VAL 225 n 247 VAL 225 A ASP 226 n 248 ASP 226 A GLU 227 n 249 GLU 227 A LEU 228 n 250 LEU 228 A VAL 229 n 251 VAL 229 A ALA 230 n 252 ALA 230 A LEU 231 n 253 LEU 231 A PRO 232 n 254 PRO 232 A n 255 233 A n 256 234 A n 257 235 A n 258 236 A n 259 237 A author_and_software_defined_assembly PISA 2 dimeric 5210 0 19920 A MSE 1 SELENOMETHIONINE A MSE 23 MET A MSE 6 SELENOMETHIONINE A MSE 28 MET A MSE 9 SELENOMETHIONINE A MSE 31 MET A MSE 62 SELENOMETHIONINE A MSE 84 MET A MSE 125 SELENOMETHIONINE A MSE 147 MET A MSE 136 SELENOMETHIONINE A MSE 158 MET A MSE 172 SELENOMETHIONINE A MSE 194 MET A MSE 200 SELENOMETHIONINE A MSE 222 MET A MSE 222 SELENOMETHIONINE A MSE 244 MET A MSE 224 SELENOMETHIONINE A MSE 246 MET 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 0.5000000000 -0.8660254038 0.0000000000 -0.8660254038 -0.5000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 10_665 -y+1,-x+1,-z+1/6 crystal symmetry operation 38.7990000000 67.2018392829 38.0708333333 A N THR 26 A N THR 48 A O TYR 33 A O TYR 55 A N TYR 34 A N TYR 56 A O ILE 45 A O ILE 67 A O VAL 44 A O VAL 66 A N ILE 5 A N ILE 27 A N ALA 4 A N ALA 26 A O LEU 72 A O LEU 94 A N GLY 78 A N GLY 100 A O LEU 170 A O LEU 192 A O ALA 169 A O ALA 191 A N ALA 146 A N ALA 168 A O THR 147 A O THR 169 A N SER 96 A N SER 118 A N LEU 95 A N LEU 117 A O VAL 119 A O VAL 141 A N THR 26 A N THR 48 A O TYR 33 A O TYR 55 A N TYR 34 A N TYR 56 A O ILE 45 A O ILE 67 A O VAL 44 A O VAL 66 A N ILE 5 A N ILE 27 A N ALA 4 A N ALA 26 A O LEU 72 A O LEU 94 A N ALA 77 A N ALA 99 A O SER 195 A O SER 217 A O ARG 192 A O ARG 214 A N ILE 90 A N ILE 112 A N LEU 95 A N LEU 117 A O VAL 119 A O VAL 141 1 A HOH 457 G HOH 1 A MSE -21 A MSE 1 1 Y 1 A HIS -20 A HIS 2 1 Y 1 A HIS -19 A HIS 3 1 Y 1 A HIS -18 A HIS 4 1 Y 1 A HIS -17 A HIS 5 1 Y 1 A HIS -16 A HIS 6 1 Y 1 A HIS -15 A HIS 7 1 Y 1 A SER -14 A SER 8 1 Y 1 A SER -13 A SER 9 1 Y 1 A LEU 233 A LEU 255 1 Y 1 A GLN 234 A GLN 256 1 Y 1 A ASP 235 A ASP 257 1 Y 1 A ILE 236 A ILE 258 1 Y 1 A LYS 237 A LYS 259 1 Y 1 A LYS 49 87.62 163.04 1 A ASP 149 -87.28 33.58 1 A ASN 154 -162.96 114.66 1 A GLU 173 -138.35 -30.75 1 A ASP 199 -122.90 -161.65 113.730 38.1574 20.880 0.2600 0.2600 0.0000 0.2600 0.0000 -0.8300 0.9600 0.9570 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS U VALUES : REFINED INDIVIDUALLY. AUTHORS NOTE AN ELECTRON DENSITY FEATURE JUST BELOW ADENINE, WHICH COULD NOT BE SATISFACTORILY EXPLAINED WITH BUFFER OR CRYSTALLIZATION COMPONENTS. 0.1929 0.1775 0.1783 2.0500 43.5500 1314 26403 5.0000 99.8600 1.000 0.500 2.9870 0.0810 RANDOM 1 THROUGHOUT 0.000 SAD 0.1290 0.1150 0.8000 0.8000 1.4000 MAXIMUM LIKELIHOOD BABINET MODEL WITH MASK 2.0500 43.5500 139 2016 26 0 1851 0.009 0.019 1941 0.001 0.020 1860 1.285 1.998 2620 0.718 3.000 4311 5.912 5.000 256 32.045 25.921 76 12.816 15.000 307 12.282 15.000 2 0.074 0.200 297 0.005 0.020 2188 0.001 0.020 407 0.2570 0.2250 2.1050 85 1797 1882 1797 20 98.9000 33.0 2.05 50.00 4JWT 26487 0 0 0.109 1 26.75 22.8 99.9 0.738 2.05 2.09 5.42 1283 1 23.1 100.0 refinement Garib N. Murshudov garib@ysbl.york.ac.uk Fortran_77 http://www.ccp4.ac.uk/dist/html/refmac5.html REFMAC program 5.7.0029 data extraction PDB deposit@deposit.rcsb.org April 22, 2011 C++ http://sw-tools.pdb.org/apps/PDB_EXTRACT/ PDB_EXTRACT package 3.11 data collection CBASS data reduction HKL-3000 data scaling SCALEPACK phasing SHELX C phasing SHELXD model building SHELXE Methylthioadenosine nucleosidase (E.C.3.2.2.16) Crystal structure of a putative 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase from Sulfurimonas denitrificans DSM 1251 (Target NYSGRC-029304 ) 1 N N 2 N N 2 N N 2 N N 2 N N 3 N N 4 N N A THR -7 A THR 15 HELX_P A TYR -3 A TYR 19 5 1 5 A MSE 9 A MSE 31 HELX_P A GLY 21 A GLY 43 1 2 13 A GLY 51 A GLY 73 HELX_P A HIS 65 A HIS 87 1 3 15 A ILE 102 A ILE 124 HELX_P A GLY 106 A GLY 128 5 4 5 A ASP 122 A ASP 144 HELX_P A GLY 137 A GLY 159 1 5 16 A ASN 154 A ASN 176 HELX_P A GLY 166 A GLY 188 1 6 13 A GLU 173 A GLU 195 HELX_P A LEU 184 A LEU 206 1 7 12 A ASP 201 A ASP 223 HELX_P A LEU 231 A LEU 253 1 8 31 covale 1.334 A SER 0 A C SER 22 1_555 A MSE 1 A N MSE 23 1_555 covale 1.328 A MSE 1 A C MSE 23 1_555 A LYS 2 A N LYS 24 1_555 covale 1.322 A ILE 5 A C ILE 27 1_555 A MSE 6 A N MSE 28 1_555 covale 1.326 A MSE 6 A C MSE 28 1_555 A GLY 7 A N GLY 29 1_555 covale 1.337 A ALA 8 A C ALA 30 1_555 A MSE 9 A N MSE 31 1_555 covale 1.347 A MSE 9 A C MSE 31 1_555 A PRO 10 A N PRO 32 1_555 covale 1.324 A THR 61 A C THR 83 1_555 A MSE 62 A N MSE 84 1_555 covale 1.337 A MSE 62 A C MSE 84 1_555 A ILE 63 A N ILE 85 1_555 covale 1.333 A ASP 124 A C ASP 146 1_555 A MSE 125 A N MSE 147 1_555 covale 1.322 A MSE 125 A C MSE 147 1_555 A ILE 126 A N ILE 148 1_555 covale 1.328 A GLU 135 A C GLU 157 1_555 A MSE 136 A N MSE 158 1_555 covale 1.329 A MSE 136 A C MSE 158 1_555 A GLY 137 A N GLY 159 1_555 covale 1.321 A GLU 171 A C GLU 193 1_555 A MSE 172 A N MSE 194 1_555 covale 1.342 A MSE 172 A C MSE 194 1_555 A GLU 173 A N GLU 195 1_555 covale 1.333 A ASP 199 A C ASP 221 1_555 A MSE 200 A N MSE 222 1_555 covale 1.328 A MSE 200 A C MSE 222 1_555 A ASP 201 A N ASP 223 1_555 covale 1.328 A ILE 221 A C ILE 243 1_555 A MSE 222 A N MSE 244 1_555 covale 1.331 A MSE 222 A C MSE 244 1_555 A LYS 223 A N LYS 245 1_555 covale 1.333 A LYS 223 A C LYS 245 1_555 A MSE 224 A N MSE 246 1_555 covale 1.328 A MSE 224 A C MSE 246 1_555 A VAL 225 A N VAL 247 1_555 HYDROLASE Sulfurimonas denitrificans, 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase, adenine, Structural genomics, NYSGRC, New York Structural Genomics Research Consortium, PSI-Biology, HYDROLASE Q30QR2_SULDN UNP 1 2 Q30QR2 KIAIMGAMPEEISPILEKIGSYKSTSYAGNKYYEATYQGVELVIAYSKIGKVFSALSAATMIEHFGATKLLFSGVAGAIS TNLKVGDLIVATKLSQHDLDITAFGHPYGYVPEGSVFVEADKDMIELSKKVALEMGKSVQEGIIATGDQFVANEERKNWI GTTFGADALEMEGGSVGVVCNALNIPFFILRSISDAADMDASFSFDEFLESSAKESAEFIMKMVDELVALPLQDIK 2 237 4JWT 2 237 Q30QR2 A 1 24 259 1 EXPRESSION TAG MSE -21 4JWT A Q30QR2 UNP 1 1 EXPRESSION TAG HIS -20 4JWT A Q30QR2 UNP 2 1 EXPRESSION TAG HIS -19 4JWT A Q30QR2 UNP 3 1 EXPRESSION TAG HIS -18 4JWT A Q30QR2 UNP 4 1 EXPRESSION TAG HIS -17 4JWT A Q30QR2 UNP 5 1 EXPRESSION TAG HIS -16 4JWT A Q30QR2 UNP 6 1 EXPRESSION TAG HIS -15 4JWT A Q30QR2 UNP 7 1 EXPRESSION TAG SER -14 4JWT A Q30QR2 UNP 8 1 EXPRESSION TAG SER -13 4JWT A Q30QR2 UNP 9 1 EXPRESSION TAG GLY -12 4JWT A Q30QR2 UNP 10 1 EXPRESSION TAG VAL -11 4JWT A Q30QR2 UNP 11 1 EXPRESSION TAG ASP -10 4JWT A Q30QR2 UNP 12 1 EXPRESSION TAG LEU -9 4JWT A Q30QR2 UNP 13 1 EXPRESSION TAG GLY -8 4JWT A Q30QR2 UNP 14 1 EXPRESSION TAG THR -7 4JWT A Q30QR2 UNP 15 1 EXPRESSION TAG GLU -6 4JWT A Q30QR2 UNP 16 1 EXPRESSION TAG ASN -5 4JWT A Q30QR2 UNP 17 1 EXPRESSION TAG LEU -4 4JWT A Q30QR2 UNP 18 1 EXPRESSION TAG TYR -3 4JWT A Q30QR2 UNP 19 1 EXPRESSION TAG PHE -2 4JWT A Q30QR2 UNP 20 1 EXPRESSION TAG GLN -1 4JWT A Q30QR2 UNP 21 1 EXPRESSION TAG SER 0 4JWT A Q30QR2 UNP 22 1 EXPRESSION TAG MSE 1 4JWT A Q30QR2 UNP 23 9 8 anti-parallel anti-parallel parallel parallel anti-parallel parallel parallel anti-parallel anti-parallel anti-parallel parallel parallel parallel anti-parallel anti-parallel A LYS 24 A LYS 46 A TYR 28 A TYR 50 A ASN 31 A ASN 53 A TYR 38 A TYR 60 A VAL 41 A VAL 63 A TYR 47 A TYR 69 A LYS 2 A LYS 24 A GLY 7 A GLY 29 A LYS 70 A LYS 92 A ALA 79 A ALA 101 A ALA 169 A ALA 191 A GLU 171 A GLU 193 A VAL 140 A VAL 162 A THR 147 A THR 169 A LEU 89 A LEU 111 A GLN 97 A GLN 119 A VAL 119 A VAL 141 A GLU 120 A GLU 142 A LYS 24 A LYS 46 A TYR 28 A TYR 50 A ASN 31 A ASN 53 A TYR 38 A TYR 60 A VAL 41 A VAL 63 A TYR 47 A TYR 69 A LYS 2 A LYS 24 A GLY 7 A GLY 29 A LYS 70 A LYS 92 A ALA 79 A ALA 101 A PHE 188 A PHE 210 A ASP 196 A ASP 218 A LEU 89 A LEU 111 A GLN 97 A GLN 119 A VAL 119 A VAL 141 A GLU 120 A GLU 142 BINDING SITE FOR RESIDUE EDO A 301 Software 4 BINDING SITE FOR RESIDUE EDO A 302 Software 5 BINDING SITE FOR RESIDUE EDO A 303 Software 4 BINDING SITE FOR RESIDUE EDO A 304 Software 5 BINDING SITE FOR RESIDUE ADE A 305 Software 12 A TYR 28 A TYR 50 4 1_555 A ALA 29 A ALA 51 4 1_555 A GLY 30 A GLY 52 4 1_555 A ASN 185 A ASN 207 4 10_665 A GLU 120 A GLU 142 5 1_555 A ALA 121 A ALA 143 5 1_555 A ASP 122 A ASP 144 5 1_555 A LYS 123 A LYS 145 5 1_555 A HOH 443 G HOH 5 1_555 A TYR -3 A TYR 19 4 1_555 A PHE 105 A PHE 127 4 5_555 A HOH 407 G HOH 4 9_655 A HOH 511 G HOH 4 1_555 A ASN 182 A ASN 204 5 1_555 A ASN 185 A ASN 207 5 1_555 A HOH 487 G HOH 5 1_555 A HOH 514 G HOH 5 1_555 A HOH 515 G HOH 5 1_555 A VAL 76 A VAL 98 12 1_555 A ALA 77 A ALA 99 12 1_555 A GLY 78 A GLY 100 12 1_555 A GLN 150 A GLN 172 12 1_555 A PHE 151 A PHE 173 12 1_555 A VAL 152 A VAL 174 12 1_555 A LEU 170 A LEU 192 12 1_555 A GLU 171 A GLU 193 12 1_555 A MSE 172 A MSE 194 12 1_555 A SER 195 A SER 217 12 1_555 A ASP 196 A ASP 218 12 1_555 A ALA 198 A ALA 220 12 1_555 179 P 65 2 2