0.007469 0.004312 0.000000 -0.000000 0.008625 0.000000 0.000000 -0.000000 0.007843 0.000000 0.000000 0.000000 2.3100 1.0200 1.5886 0.8650 20.8439 10.2075 0.5687 51.6512 0.2156 11.4604 7.1964 6.2556 1.6455 0.0104 1.1662 18.5194 47.7784 -9.3641 0.2636 0.1933 0.4930 0.3229 0.1402 0.0408 10.5109 26.1257 3.1424 57.7997 0.0030 12.2126 3.1322 2.0125 1.1663 0.0057 9.8933 28.9975 0.5826 -11.5290 3.0485 2.2868 1.5463 0.8670 13.2771 5.7011 0.3239 32.9089 0.2508 6.9053 5.2034 1.4379 1.5863 1.4679 22.2151 0.2536 56.1720 1.0317 0.2063 0.1648 17.0006 5.8196 3.9731 4.3543 2.4098 0.2726 15.2372 43.8163 0.9006 3.3908 -1.9403 8.6266 7.3873 1.5899 1.0211 10.4421 0.6599 85.7484 178.4370 1.6491 0.5008 0.2740 Joint Center for Structural Genomics (JCSG) http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 18 90.000 90.000 120.000 133.880 133.880 127.498 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 Cl -1 35.453 CHLORIDE ION non-polymer C3 H7 N O2 S 121.158 y CYSTEINE L-peptide linking 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 C3 H8 O3 92.094 GLYCEROL GLYCERIN; PROPANE-1,2,3-TRIOL non-polymer 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 O4 S -2 96.063 SULFATE ION non-polymer 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 UNKNOWN ATOM OR ION non-polymer C5 H11 N O2 117.146 y VALINE L-peptide linking To be published 0353 Crystal structure of a putative glycoside hydrolase (BACOVA_00087) from Bacteroides ovatus ATCC 8483 at 2.10 A resolution 10.2210/pdb4jrl/pdb pdb_00004jrl 100 1 Flat mirror (vertical focusing); single crystal Si(111) bent monochromator (horizontal focusing) PIXEL 2013-01-24 DECTRIS PILATUS 6M single crystal Si(111) bent MAD M x-ray 1 0.91837 1.0 0.97932 1.0 BL11-1 SSRL 0.91837,0.97932 SYNCHROTRON SSRL BEAMLINE BL11-1 39842.527 putative glycoside hydrolase 1 man polymer UNKNOWN ATOM OR ION 1 syn non-polymer 35.453 CHLORIDE ION 1 syn non-polymer 96.063 SULFATE ION 1 syn non-polymer 92.094 GLYCEROL 4 syn non-polymer 18.015 water 166 nat water no yes GQDEALNSEAAIDVCSGDDVQLANIDADSKVINVYVNKGADLSKQKLEFTLPQGATIKVNTPITGDTESTYDFSEEPHSR KFTVTSEDGQWQPVYTVNVILAELPTLFKFEELLTTSSEYDTFYEFTPATSQEISKVLQWSSGNPGFKLTG(MSE)ANSR IDYPTVQVANGFKGKAVKLETRNTGDFGA(MSE)VK(MSE)YIAAGNLFIGTFEVENALTNPRKATNFGFQFYKHPIALK GYYKFKAGEVYSVEGQPQTGKRDKCDIYAV(MSE)YEAENNSI(MSE)LNGDNVFNSDKLVLLARIEPEDIVESDEWNEF TIHFESVKGREIDDTKLQNGKYKLGIVLSSSVDGAYFRGAVGSTLYVDELELICKE GQDEALNSEAAIDVCSGDDVQLANIDADSKVINVYVNKGADLSKQKLEFTLPQGATIKVNTPITGDTESTYDFSEEPHSR KFTVTSEDGQWQPVYTVNVILAELPTLFKFEELLTTSSEYDTFYEFTPATSQEISKVLQWSSGNPGFKLTGMANSRIDYP TVQVANGFKGKAVKLETRNTGDFGAMVKMYIAAGNLFIGTFEVENALTNPRKATNFGFQFYKHPIALKGYYKFKAGEVYS VEGQPQTGKRDKCDIYAVMYEAENNSIMLNGDNVFNSDKLVLLARIEPEDIVESDEWNEFTIHFESVKGREIDDTKLQNG KYKLGIVLSSSVDGAYFRGAVGSTLYVDELELICKE A JCSG-416928 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 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 ATCC 8483 sample ZP_02063147.1 411476 Bacteroides ovatus 562 Escherichia Coli PB1 Plasmid SpeedET 1 2.76 55.43 VAPOR DIFFUSION, SITTING DROP 9 0.1M bicine pH 9, 2.4M ammonium sulfate, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K 277 Joint Center for Structural Genomics JCSG PSI:Biology software citation_author database_2 struct_conn struct_ref_seq_dif struct_site repository Initial release Refinement description Database references Database references Derived calculations 1 0 2013-04-24 1 1 2017-11-15 1 2 2018-01-24 1 3 2023-02-01 _software.classification _software.name _citation_author.name _database_2.pdbx_DOI _database_2.pdbx_database_accession _struct_conn.pdbx_leaving_atom_flag _struct_ref_seq_dif.details _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id Y RCSB Y RCSB 2013-03-21 REL REL UNX UNKNOWN ATOM OR ION CL CHLORIDE ION SO4 SULFATE ION GOL GLYCEROL HOH water THIS CONSTRUCT (RESIDUES 21-375) WAS EXPRESSED WITH A PURIFICATION TAG MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE LEAVING ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. UNX 376 2 UNX UNX 401 A CL 377 3 CL CL 402 A SO4 378 4 SO4 SO4 403 A GOL 379 5 GOL GOL 404 A GOL 380 5 GOL GOL 405 A GOL 381 5 GOL GOL 406 A GOL 382 5 GOL GOL 407 A HOH 383 6 HOH HOH 501 A HOH 384 6 HOH HOH 502 A HOH 385 6 HOH HOH 503 A HOH 386 6 HOH HOH 504 A HOH 387 6 HOH HOH 505 A HOH 388 6 HOH HOH 506 A HOH 389 6 HOH HOH 507 A HOH 390 6 HOH HOH 508 A HOH 391 6 HOH HOH 509 A HOH 392 6 HOH HOH 510 A HOH 393 6 HOH HOH 511 A HOH 394 6 HOH HOH 512 A HOH 395 6 HOH HOH 513 A HOH 396 6 HOH HOH 514 A HOH 397 6 HOH HOH 515 A HOH 398 6 HOH HOH 516 A HOH 399 6 HOH HOH 517 A HOH 400 6 HOH HOH 518 A HOH 401 6 HOH HOH 519 A HOH 402 6 HOH HOH 520 A HOH 403 6 HOH HOH 521 A HOH 404 6 HOH HOH 522 A HOH 405 6 HOH HOH 523 A HOH 406 6 HOH HOH 524 A HOH 407 6 HOH HOH 525 A HOH 408 6 HOH HOH 526 A HOH 409 6 HOH HOH 527 A HOH 410 6 HOH HOH 528 A HOH 411 6 HOH HOH 529 A HOH 412 6 HOH HOH 530 A HOH 413 6 HOH HOH 531 A HOH 414 6 HOH HOH 532 A HOH 415 6 HOH HOH 533 A HOH 416 6 HOH HOH 534 A HOH 417 6 HOH HOH 535 A HOH 418 6 HOH HOH 536 A HOH 419 6 HOH HOH 537 A HOH 420 6 HOH HOH 538 A HOH 421 6 HOH HOH 539 A HOH 422 6 HOH HOH 540 A HOH 423 6 HOH HOH 541 A HOH 424 6 HOH HOH 542 A HOH 425 6 HOH HOH 543 A HOH 426 6 HOH HOH 544 A HOH 427 6 HOH HOH 545 A HOH 428 6 HOH HOH 546 A HOH 429 6 HOH HOH 547 A HOH 430 6 HOH HOH 548 A HOH 431 6 HOH HOH 549 A HOH 432 6 HOH HOH 550 A HOH 433 6 HOH HOH 551 A HOH 434 6 HOH HOH 552 A HOH 435 6 HOH HOH 553 A HOH 436 6 HOH HOH 554 A HOH 437 6 HOH HOH 555 A HOH 438 6 HOH HOH 556 A HOH 439 6 HOH HOH 557 A HOH 440 6 HOH HOH 558 A HOH 441 6 HOH HOH 559 A HOH 442 6 HOH HOH 560 A HOH 443 6 HOH HOH 561 A HOH 444 6 HOH HOH 562 A HOH 445 6 HOH HOH 563 A HOH 446 6 HOH HOH 564 A HOH 447 6 HOH HOH 565 A HOH 448 6 HOH HOH 566 A HOH 449 6 HOH HOH 567 A HOH 450 6 HOH HOH 568 A HOH 451 6 HOH HOH 569 A HOH 452 6 HOH HOH 570 A HOH 453 6 HOH HOH 571 A HOH 454 6 HOH HOH 572 A HOH 455 6 HOH HOH 573 A HOH 456 6 HOH HOH 574 A HOH 457 6 HOH HOH 575 A HOH 458 6 HOH HOH 576 A HOH 459 6 HOH HOH 577 A HOH 460 6 HOH HOH 578 A HOH 461 6 HOH HOH 579 A HOH 462 6 HOH HOH 580 A HOH 463 6 HOH HOH 581 A HOH 464 6 HOH HOH 582 A HOH 465 6 HOH HOH 583 A HOH 466 6 HOH HOH 584 A HOH 467 6 HOH HOH 585 A HOH 468 6 HOH HOH 586 A HOH 469 6 HOH HOH 587 A HOH 470 6 HOH HOH 588 A HOH 471 6 HOH HOH 589 A HOH 472 6 HOH HOH 590 A HOH 473 6 HOH HOH 591 A HOH 474 6 HOH HOH 592 A HOH 475 6 HOH HOH 593 A HOH 476 6 HOH HOH 594 A HOH 477 6 HOH HOH 595 A HOH 478 6 HOH HOH 596 A HOH 479 6 HOH HOH 597 A HOH 480 6 HOH HOH 598 A HOH 481 6 HOH HOH 599 A HOH 482 6 HOH HOH 600 A HOH 483 6 HOH HOH 601 A HOH 484 6 HOH HOH 602 A HOH 485 6 HOH HOH 603 A HOH 486 6 HOH HOH 604 A HOH 487 6 HOH HOH 605 A HOH 488 6 HOH HOH 606 A HOH 489 6 HOH HOH 607 A HOH 490 6 HOH HOH 608 A HOH 491 6 HOH HOH 609 A HOH 492 6 HOH HOH 610 A HOH 493 6 HOH HOH 611 A HOH 494 6 HOH HOH 612 A HOH 495 6 HOH HOH 613 A HOH 496 6 HOH HOH 614 A HOH 497 6 HOH HOH 615 A HOH 498 6 HOH HOH 616 A HOH 499 6 HOH HOH 617 A HOH 500 6 HOH HOH 618 A HOH 501 6 HOH HOH 619 A HOH 502 6 HOH HOH 620 A HOH 503 6 HOH HOH 621 A HOH 504 6 HOH HOH 622 A HOH 505 6 HOH HOH 623 A HOH 506 6 HOH HOH 624 A HOH 507 6 HOH HOH 625 A HOH 508 6 HOH HOH 626 A HOH 509 6 HOH HOH 627 A HOH 510 6 HOH HOH 628 A HOH 511 6 HOH HOH 629 A HOH 512 6 HOH HOH 630 A HOH 513 6 HOH HOH 631 A HOH 514 6 HOH HOH 632 A HOH 515 6 HOH HOH 633 A HOH 516 6 HOH HOH 634 A HOH 517 6 HOH HOH 635 A HOH 518 6 HOH HOH 636 A HOH 519 6 HOH HOH 637 A HOH 520 6 HOH HOH 638 A HOH 521 6 HOH HOH 639 A HOH 522 6 HOH HOH 640 A HOH 523 6 HOH HOH 641 A HOH 524 6 HOH HOH 642 A HOH 525 6 HOH HOH 643 A HOH 526 6 HOH HOH 644 A HOH 527 6 HOH HOH 645 A HOH 528 6 HOH HOH 646 A HOH 529 6 HOH HOH 647 A HOH 530 6 HOH HOH 648 A HOH 531 6 HOH HOH 649 A HOH 532 6 HOH HOH 650 A HOH 533 6 HOH HOH 651 A HOH 534 6 HOH HOH 652 A HOH 535 6 HOH HOH 653 A HOH 536 6 HOH HOH 654 A HOH 537 6 HOH HOH 655 A HOH 538 6 HOH HOH 656 A HOH 539 6 HOH HOH 657 A HOH 540 6 HOH HOH 658 A HOH 541 6 HOH HOH 659 A HOH 542 6 HOH HOH 660 A HOH 543 6 HOH HOH 661 A HOH 544 6 HOH HOH 662 A HOH 545 6 HOH HOH 663 A HOH 546 6 HOH HOH 664 A HOH 547 6 HOH HOH 665 A HOH 548 6 HOH HOH 666 A n 1 0 A n 2 21 A n 3 22 A n 4 23 A n 5 24 A n 6 25 A n 7 26 A n 8 27 A GLU 28 n 9 GLU 28 A ALA 29 n 10 ALA 29 A ALA 30 n 11 ALA 30 A ILE 31 n 12 ILE 31 A ASP 32 n 13 ASP 32 A VAL 33 n 14 VAL 33 A CYS 34 n 15 CYS 34 A SER 35 n 16 SER 35 A GLY 36 n 17 GLY 36 A ASP 37 n 18 ASP 37 A ASP 38 n 19 ASP 38 A VAL 39 n 20 VAL 39 A GLN 40 n 21 GLN 40 A LEU 41 n 22 LEU 41 A ALA 42 n 23 ALA 42 A ASN 43 n 24 ASN 43 A ILE 44 n 25 ILE 44 A ASP 45 n 26 ASP 45 A ALA 46 n 27 ALA 46 A ASP 47 n 28 ASP 47 A SER 48 n 29 SER 48 A LYS 49 n 30 LYS 49 A VAL 50 n 31 VAL 50 A ILE 51 n 32 ILE 51 A ASN 52 n 33 ASN 52 A VAL 53 n 34 VAL 53 A TYR 54 n 35 TYR 54 A VAL 55 n 36 VAL 55 A ASN 56 n 37 ASN 56 A LYS 57 n 38 LYS 57 A GLY 58 n 39 GLY 58 A ALA 59 n 40 ALA 59 A ASP 60 n 41 ASP 60 A LEU 61 n 42 LEU 61 A SER 62 n 43 SER 62 A LYS 63 n 44 LYS 63 A GLN 64 n 45 GLN 64 A LYS 65 n 46 LYS 65 A LEU 66 n 47 LEU 66 A GLU 67 n 48 GLU 67 A PHE 68 n 49 PHE 68 A THR 69 n 50 THR 69 A LEU 70 n 51 LEU 70 A PRO 71 n 52 PRO 71 A GLN 72 n 53 GLN 72 A GLY 73 n 54 GLY 73 A ALA 74 n 55 ALA 74 A THR 75 n 56 THR 75 A ILE 76 n 57 ILE 76 A LYS 77 n 58 LYS 77 A VAL 78 n 59 VAL 78 A ASN 79 n 60 ASN 79 A THR 80 n 61 THR 80 A PRO 81 n 62 PRO 81 A ILE 82 n 63 ILE 82 A THR 83 n 64 THR 83 A GLY 84 n 65 GLY 84 A ASP 85 n 66 ASP 85 A THR 86 n 67 THR 86 A GLU 87 n 68 GLU 87 A SER 88 n 69 SER 88 A THR 89 n 70 THR 89 A TYR 90 n 71 TYR 90 A ASP 91 n 72 ASP 91 A PHE 92 n 73 PHE 92 A SER 93 n 74 SER 93 A GLU 94 n 75 GLU 94 A GLU 95 n 76 GLU 95 A PRO 96 n 77 PRO 96 A HIS 97 n 78 HIS 97 A SER 98 n 79 SER 98 A ARG 99 n 80 ARG 99 A LYS 100 n 81 LYS 100 A PHE 101 n 82 PHE 101 A THR 102 n 83 THR 102 A VAL 103 n 84 VAL 103 A THR 104 n 85 THR 104 A SER 105 n 86 SER 105 A GLU 106 n 87 GLU 106 A ASP 107 n 88 ASP 107 A GLY 108 n 89 GLY 108 A GLN 109 n 90 GLN 109 A TRP 110 n 91 TRP 110 A GLN 111 n 92 GLN 111 A PRO 112 n 93 PRO 112 A VAL 113 n 94 VAL 113 A TYR 114 n 95 TYR 114 A THR 115 n 96 THR 115 A VAL 116 n 97 VAL 116 A ASN 117 n 98 ASN 117 A VAL 118 n 99 VAL 118 A ILE 119 n 100 ILE 119 A LEU 120 n 101 LEU 120 A ALA 121 n 102 ALA 121 A GLU 122 n 103 GLU 122 A LEU 123 n 104 LEU 123 A PRO 124 n 105 PRO 124 A THR 125 n 106 THR 125 A LEU 126 n 107 LEU 126 A PHE 127 n 108 PHE 127 A LYS 128 n 109 LYS 128 A PHE 129 n 110 PHE 129 A GLU 130 n 111 GLU 130 A GLU 131 n 112 GLU 131 A LEU 132 n 113 LEU 132 A LEU 133 n 114 LEU 133 A THR 134 n 115 THR 134 A THR 135 n 116 THR 135 A SER 136 n 117 SER 136 A SER 137 n 118 SER 137 A GLU 138 n 119 GLU 138 A TYR 139 n 120 TYR 139 A ASP 140 n 121 ASP 140 A THR 141 n 122 THR 141 A PHE 142 n 123 PHE 142 A TYR 143 n 124 TYR 143 A GLU 144 n 125 GLU 144 A PHE 145 n 126 PHE 145 A THR 146 n 127 THR 146 A PRO 147 n 128 PRO 147 A ALA 148 n 129 ALA 148 A THR 149 n 130 THR 149 A SER 150 n 131 SER 150 A GLN 151 n 132 GLN 151 A GLU 152 n 133 GLU 152 A ILE 153 n 134 ILE 153 A SER 154 n 135 SER 154 A LYS 155 n 136 LYS 155 A VAL 156 n 137 VAL 156 A LEU 157 n 138 LEU 157 A GLN 158 n 139 GLN 158 A TRP 159 n 140 TRP 159 A SER 160 n 141 SER 160 A SER 161 n 142 SER 161 A GLY 162 n 143 GLY 162 A ASN 163 n 144 ASN 163 A PRO 164 n 145 PRO 164 A GLY 165 n 146 GLY 165 A PHE 166 n 147 PHE 166 A LYS 167 n 148 LYS 167 A LEU 168 n 149 LEU 168 A THR 169 n 150 THR 169 A GLY 170 n 151 GLY 170 A MSE 171 n 152 MSE 171 A ALA 172 n 153 ALA 172 A ASN 173 n 154 ASN 173 A SER 174 n 155 SER 174 A ARG 175 n 156 ARG 175 A ILE 176 n 157 ILE 176 A ASP 177 n 158 ASP 177 A TYR 178 n 159 TYR 178 A PRO 179 n 160 PRO 179 A THR 180 n 161 THR 180 A VAL 181 n 162 VAL 181 A GLN 182 n 163 GLN 182 A VAL 183 n 164 VAL 183 A ALA 184 n 165 ALA 184 A ASN 185 n 166 ASN 185 A GLY 186 n 167 GLY 186 A PHE 187 n 168 PHE 187 A LYS 188 n 169 LYS 188 A GLY 189 n 170 GLY 189 A LYS 190 n 171 LYS 190 A ALA 191 n 172 ALA 191 A VAL 192 n 173 VAL 192 A LYS 193 n 174 LYS 193 A LEU 194 n 175 LEU 194 A GLU 195 n 176 GLU 195 A THR 196 n 177 THR 196 A ARG 197 n 178 ARG 197 A ASN 198 n 179 ASN 198 A THR 199 n 180 THR 199 A GLY 200 n 181 GLY 200 A ASP 201 n 182 ASP 201 A PHE 202 n 183 PHE 202 A GLY 203 n 184 GLY 203 A ALA 204 n 185 ALA 204 A MSE 205 n 186 MSE 205 A VAL 206 n 187 VAL 206 A LYS 207 n 188 LYS 207 A MSE 208 n 189 MSE 208 A TYR 209 n 190 TYR 209 A ILE 210 n 191 ILE 210 A ALA 211 n 192 ALA 211 A ALA 212 n 193 ALA 212 A GLY 213 n 194 GLY 213 A ASN 214 n 195 ASN 214 A LEU 215 n 196 LEU 215 A PHE 216 n 197 PHE 216 A ILE 217 n 198 ILE 217 A GLY 218 n 199 GLY 218 A THR 219 n 200 THR 219 A PHE 220 n 201 PHE 220 A GLU 221 n 202 GLU 221 A VAL 222 n 203 VAL 222 A GLU 223 n 204 GLU 223 A ASN 224 n 205 ASN 224 A ALA 225 n 206 ALA 225 A LEU 226 n 207 LEU 226 A THR 227 n 208 THR 227 A ASN 228 n 209 ASN 228 A PRO 229 n 210 PRO 229 A ARG 230 n 211 ARG 230 A LYS 231 n 212 LYS 231 A ALA 232 n 213 ALA 232 A THR 233 n 214 THR 233 A ASN 234 n 215 ASN 234 A PHE 235 n 216 PHE 235 A GLY 236 n 217 GLY 236 A PHE 237 n 218 PHE 237 A GLN 238 n 219 GLN 238 A PHE 239 n 220 PHE 239 A TYR 240 n 221 TYR 240 A LYS 241 n 222 LYS 241 A HIS 242 n 223 HIS 242 A PRO 243 n 224 PRO 243 A ILE 244 n 225 ILE 244 A ALA 245 n 226 ALA 245 A LEU 246 n 227 LEU 246 A LYS 247 n 228 LYS 247 A GLY 248 n 229 GLY 248 A TYR 249 n 230 TYR 249 A TYR 250 n 231 TYR 250 A LYS 251 n 232 LYS 251 A PHE 252 n 233 PHE 252 A LYS 253 n 234 LYS 253 A ALA 254 n 235 ALA 254 A GLY 255 n 236 GLY 255 A GLU 256 n 237 GLU 256 A VAL 257 n 238 VAL 257 A TYR 258 n 239 TYR 258 A SER 259 n 240 SER 259 A VAL 260 n 241 VAL 260 A GLU 261 n 242 GLU 261 A GLY 262 n 243 GLY 262 A GLN 263 n 244 GLN 263 A PRO 264 n 245 PRO 264 A GLN 265 n 246 GLN 265 A THR 266 n 247 THR 266 A GLY 267 n 248 GLY 267 A LYS 268 n 249 LYS 268 A ARG 269 n 250 ARG 269 A ASP 270 n 251 ASP 270 A LYS 271 n 252 LYS 271 A CYS 272 n 253 CYS 272 A ASP 273 n 254 ASP 273 A ILE 274 n 255 ILE 274 A TYR 275 n 256 TYR 275 A ALA 276 n 257 ALA 276 A VAL 277 n 258 VAL 277 A MSE 278 n 259 MSE 278 A TYR 279 n 260 TYR 279 A GLU 280 n 261 GLU 280 A ALA 281 n 262 ALA 281 A GLU 282 n 263 GLU 282 A ASN 283 n 264 ASN 283 A ASN 284 n 265 ASN 284 A SER 285 n 266 SER 285 A ILE 286 n 267 ILE 286 A MSE 287 n 268 MSE 287 A LEU 288 n 269 LEU 288 A ASN 289 n 270 ASN 289 A GLY 290 n 271 GLY 290 A ASP 291 n 272 ASP 291 A ASN 292 n 273 ASN 292 A VAL 293 n 274 VAL 293 A PHE 294 n 275 PHE 294 A ASN 295 n 276 ASN 295 A SER 296 n 277 SER 296 A ASP 297 n 278 ASP 297 A LYS 298 n 279 LYS 298 A LEU 299 n 280 LEU 299 A VAL 300 n 281 VAL 300 A LEU 301 n 282 LEU 301 A LEU 302 n 283 LEU 302 A ALA 303 n 284 ALA 303 A ARG 304 n 285 ARG 304 A ILE 305 n 286 ILE 305 A GLU 306 n 287 GLU 306 A PRO 307 n 288 PRO 307 A GLU 308 n 289 GLU 308 A ASP 309 n 290 ASP 309 A ILE 310 n 291 ILE 310 A VAL 311 n 292 VAL 311 A GLU 312 n 293 GLU 312 A SER 313 n 294 SER 313 A ASP 314 n 295 ASP 314 A GLU 315 n 296 GLU 315 A TRP 316 n 297 TRP 316 A ASN 317 n 298 ASN 317 A GLU 318 n 299 GLU 318 A PHE 319 n 300 PHE 319 A THR 320 n 301 THR 320 A ILE 321 n 302 ILE 321 A HIS 322 n 303 HIS 322 A PHE 323 n 304 PHE 323 A GLU 324 n 305 GLU 324 A SER 325 n 306 SER 325 A VAL 326 n 307 VAL 326 A LYS 327 n 308 LYS 327 A GLY 328 n 309 GLY 328 A ARG 329 n 310 ARG 329 A GLU 330 n 311 GLU 330 A ILE 331 n 312 ILE 331 A ASP 332 n 313 ASP 332 A ASP 333 n 314 ASP 333 A THR 334 n 315 THR 334 A LYS 335 n 316 LYS 335 A LEU 336 n 317 LEU 336 A GLN 337 n 318 GLN 337 A ASN 338 n 319 ASN 338 A GLY 339 n 320 GLY 339 A LYS 340 n 321 LYS 340 A TYR 341 n 322 TYR 341 A LYS 342 n 323 LYS 342 A LEU 343 n 324 LEU 343 A GLY 344 n 325 GLY 344 A ILE 345 n 326 ILE 345 A VAL 346 n 327 VAL 346 A LEU 347 n 328 LEU 347 A SER 348 n 329 SER 348 A SER 349 n 330 SER 349 A SER 350 n 331 SER 350 A VAL 351 n 332 VAL 351 A ASP 352 n 333 ASP 352 A GLY 353 n 334 GLY 353 A ALA 354 n 335 ALA 354 A TYR 355 n 336 TYR 355 A PHE 356 n 337 PHE 356 A ARG 357 n 338 ARG 357 A GLY 358 n 339 GLY 358 A ALA 359 n 340 ALA 359 A VAL 360 n 341 VAL 360 A GLY 361 n 342 GLY 361 A SER 362 n 343 SER 362 A THR 363 n 344 THR 363 A LEU 364 n 345 LEU 364 A TYR 365 n 346 TYR 365 A VAL 366 n 347 VAL 366 A ASP 367 n 348 ASP 367 A GLU 368 n 349 GLU 368 A LEU 369 n 350 LEU 369 A GLU 370 n 351 GLU 370 A LEU 371 n 352 LEU 371 A ILE 372 n 353 ILE 372 A CYS 373 n 354 CYS 373 A LYS 374 n 355 LYS 374 A GLU 375 n 356 GLU 375 A 0.5632 0.2146 0.3081 0.4978 0.0519 0.8964 0.0012 -0.0269 -0.0874 0.0450 0.0429 -0.1227 0.0078 0.1192 -0.0441 0.0186 0.0138 0.0104 0.0622 -0.0077 0.0652 refined 0.3570 32.2330 19.2720 X-RAY DIFFRACTION A 28 A 375 X-RAY DIFFRACTION 1 author_and_software_defined_assembly PISA 2 dimeric 4020 -65 32440 A MSE 171 SELENOMETHIONINE A MSE 152 MET A MSE 205 SELENOMETHIONINE A MSE 186 MET A MSE 208 SELENOMETHIONINE A MSE 189 MET A MSE 278 SELENOMETHIONINE A MSE 259 MET A MSE 287 SELENOMETHIONINE A MSE 268 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_455 y-1/3,x+1/3,-z+1/3 crystal symmetry operation -66.9400000000 38.6478270196 42.4993333333 A N SER 35 A N SER 16 A O GLU 67 A O GLU 48 A N LEU 41 A N LEU 22 A O TYR 54 A O TYR 35 A N VAL 53 A N VAL 34 A O ASN 117 A O ASN 98 A O TYR 114 A O TYR 95 A N PHE 101 A N PHE 82 A O THR 104 A O THR 85 A N THR 75 A N THR 56 A N LEU 41 A N LEU 22 A O TYR 54 A O TYR 35 A N VAL 53 A N VAL 34 A O ASN 117 A O ASN 98 A N GLU 122 A N GLU 103 A O SER 154 A O SER 135 A O LEU 157 A O LEU 138 A N GLU 144 A N GLU 125 A O TYR 143 A O TYR 124 A N GLU 131 A N GLU 112 A N PHE 127 A N PHE 108 A O LEU 369 A O LEU 350 A O LEU 364 A O LEU 345 A N LEU 194 A N LEU 175 A O LYS 193 A O LYS 174 A N VAL 181 A N VAL 162 A N PHE 127 A N PHE 108 A O LEU 369 A O LEU 350 A O ILE 372 A O ILE 353 A N ALA 245 A N ALA 226 A N LEU 246 A N LEU 227 A O ILE 321 A O ILE 302 A N ARG 197 A N ARG 178 A O ALA 211 A O ALA 192 A N LEU 215 A N LEU 196 A O LEU 347 A O LEU 328 A O LEU 343 A O LEU 324 A N PHE 237 A N PHE 218 A N LEU 215 A N LEU 196 A O LEU 347 A O LEU 328 A O VAL 346 A O VAL 327 A N TYR 275 A N TYR 256 A N MSE 278 A N MSE 259 A O VAL 300 A O VAL 281 A N LEU 302 A N LEU 283 A O GLU 324 A O GLU 305 A N THR 219 A N THR 200 A O ASN 234 A O ASN 215 A N PHE 235 A N PHE 216 A O LEU 288 A O LEU 269 A O GLN 265 A O GLN 246 A N TYR 258 A N TYR 239 A N SER 259 A N SER 240 A O GLY 358 A O GLY 339 1 A SO4 403 D SO4 1 A CG GLU 28 A CG GLU 9 1 Y 1 A CD GLU 28 A CD GLU 9 1 Y 1 A OE1 GLU 28 A OE1 GLU 9 1 Y 1 A OE2 GLU 28 A OE2 GLU 9 1 Y 1 A CG GLN 72 A CG GLN 53 1 Y 1 A CD GLN 72 A CD GLN 53 1 Y 1 A OE1 GLN 72 A OE1 GLN 53 1 Y 1 A NE2 GLN 72 A NE2 GLN 53 1 Y 1 A CE LYS 207 A CE LYS 188 1 Y 1 A NZ LYS 207 A NZ LYS 188 1 Y 1 A CD LYS 253 A CD LYS 234 1 Y 1 A CE LYS 253 A CE LYS 234 1 Y 1 A NZ LYS 253 A NZ LYS 234 1 Y 1 A CG GLU 315 A CG GLU 296 1 Y 1 A CD GLU 315 A CD GLU 296 1 Y 1 A OE1 GLU 315 A OE1 GLU 296 1 Y 1 A OE2 GLU 315 A OE2 GLU 296 1 Y 1 A GLY 0 A GLY 1 1 Y 1 A GLN 21 A GLN 2 1 Y 1 A ASP 22 A ASP 3 1 Y 1 A GLU 23 A GLU 4 1 Y 1 A ALA 24 A ALA 5 1 Y 1 A LEU 25 A LEU 6 1 Y 1 A ASN 26 A ASN 7 1 Y 1 A SER 27 A SER 8 1 Y 1 A ASP 107 -37.82 -36.52 1 A MSE 208 -117.27 68.95 110.190 41.5498 20.510 0.6500 0.6500 -0.0000 0.6500 -0.0000 -2.1000 0.9630 0.9400 1. HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. 2 .A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET INCORPORATION. 3. SODIUM (NA), CHLORIDE (CL), AND GLYCEROL (GOL) FROM THE CRYSTALLIZATION/CRYO CONDITIONS HAVE BEEN MODELED INTO THE STRUCTURE.4.ATOM RECORDS CONTAIN SUM OF TLS AND RESIDUAL B FACTORS. ANISOU RECORD CONTAINS SUM OF TLS AND RESIDUAL U FACTORS. 5.WATERS WERE EXCLUDED FROM AUTOMATIC TLS ASSIGNMENT. 6. AN UNKNOWN ION (UNX) HAS BEEN MODELED BASED ON A PEAK IN THE ANOMALOUS DIFFERENCE FOURIER MAP. THE ION LIKELY CO-PURIFIED WITH THE PROTEIN. X-RAY FLUORESCENCE EXCITATION SPECTRA WERE INCONCLUSIVE IN DETERMINING THE METAL IDENTITY WITH MINOR PEAKS FOR ZN, CU, FE AND CA. FOR THE PURPOSE OF REFINEMENT THE UNX ATOM TYPE X WAS ASSIGNED SCATTERING FACTORS EQUIVALENT TO CA WHICH GAVE A REASONABLE FIT TO THE OBSERVED DENSITY. 7. THE SCATTERING FACTORS FOR SULFUR, CHLORINE, SELENIUM AND THE UNKNOWN X ATOMS WERE ADJUSTED BY REFMAC 5.7.0032 TO ACCOUNT FOR ANOMALOUS DISPERSION BASED ON THE WAVELENGTH 0.91837 A (S F'= 0.16, CL F'= 0.19, SE F'= -1.94, X F'= 0.27). THE CROMER MANN VALUES LISTED IN THE CIF VERSION OF THE FILE INCLUDE THIS CORRECTION. 0.2202 0.1707 0.1731 2.1000 28.711 1307 25691 5.1000 99.7300 1.000 0.350 8.2470 0.1100 RANDOM 1 THROUGHOUT 0.000 MAD 0.1760 0.1630 0.8000 0.8000 1.2000 MAXIMUM LIKELIHOOD WITH PHASES BABINET MODEL WITH MASK 2.1000 28.711 166 2914 31 0 2717 0.011 0.020 2818 0.001 0.020 2614 1.782 1.969 3818 0.803 3.000 6042 3.099 5.000 353 31.971 25.606 132 10.337 15.000 458 10.660 15.000 8 0.106 0.200 427 0.006 0.020 3212 0.001 0.020 626 3.930 5.992 1397 3.924 5.991 1396 5.070 11.198 1746 0.2890 0.2330 2.1550 86 1789 1875 20 99.2600 33.623 2.10 28.711 4JRL 25691 -3.000 0.106 1 10.210 99.500 0.862 2.100 2.170 1.6 16286 4605 1 99.000 0.700 2.170 2.260 2.0 18322 5171 1 99.700 0.614 2.260 2.360 2.3 16849 4826 1 99.500 0.496 2.360 2.490 2.8 17367 5175 1 99.400 0.323 2.490 2.640 4.0 16228 4766 1 99.600 0.241 2.640 2.850 5.6 18434 5161 1 99.600 0.141 2.850 3.130 9.2 17070 4843 1 99.600 0.073 3.130 3.590 16.1 17182 5032 1 99.400 0.042 3.590 4.510 26.8 17508 4913 1 99.700 0.033 4.510 31.4 17326 5011 1 99.100 model building D.C. & J.S. Richardson lab molprobity@kinemage.biochem.duke.edu http://kinemage.biochem.duke.edu/molprobity/ MolProbity package 3beta29 data extraction PDB deposit@deposit.rcsb.org June 10, 2010 C++ http://sw-tools.pdb.org/apps/PDB_EXTRACT/ PDB_EXTRACT package 3.10 phasing George M. Sheldrick gsheldr@shelx.uni-ac.gwdg.de Fortran_77 http://shelx.uni-ac.gwdg.de/SHELX/ SHELX package phasing Eric de La Fortelle sharp-develop@globalphasing.com http://www.globalphasing.com/sharp/ SHARP package data scaling Wolfgang Kabsch http://www.mpimf-heidelberg.mpg.de/~kabsch/xds/html_doc/xscale_program.html XSCALE package July 4, 2012 refinement Garib N. Murshudov garib@ysbl.york.ac.uk Fortran_77 http://www.ccp4.ac.uk/dist/html/refmac5.html REFMAC program 5.7.0032 data reduction XDS phasing SHELXD phasing autoSHARP Crystal structure of a putative glycoside hydrolase (BACOVA_00087) from Bacteroides ovatus ATCC 8483 at 2.10 A resolution 1 N N 2 N N 3 N N 4 N N 5 N N 5 N N 5 N N 5 N N 6 N N A ASP 60 A ASP 41 HELX_P A GLN 64 A GLN 45 5 1 5 A GLY 162 A GLY 143 HELX_P A LEU 168 A LEU 149 1 2 7 A SER 174 A SER 155 HELX_P A TYR 178 A TYR 159 5 3 5 A THR 199 A THR 180 HELX_P A VAL 206 A VAL 187 1 4 8 A VAL 222 A VAL 203 HELX_P A ALA 225 A ALA 206 5 5 4 A ASN 228 A ASN 209 HELX_P A ALA 232 A ALA 213 1 6 5 A GLU 306 A GLU 287 HELX_P A ILE 310 A ILE 291 5 7 5 A ASP 332 A ASP 313 HELX_P A ASN 338 A ASN 319 1 8 7 A ASP 352 A ASP 333 HELX_P A TYR 355 A TYR 336 5 9 4 covale 1.333 both A GLY 170 A C GLY 151 1_555 A MSE 171 A N MSE 152 1_555 covale 1.328 both A MSE 171 A C MSE 152 1_555 A ALA 172 A N ALA 153 1_555 covale 1.334 both A ALA 204 A C ALA 185 1_555 A MSE 205 A N MSE 186 1_555 covale 1.328 both A MSE 205 A C MSE 186 1_555 A VAL 206 A N VAL 187 1_555 covale 1.329 both A LYS 207 A C LYS 188 1_555 A MSE 208 A N MSE 189 1_555 covale 1.318 both A MSE 208 A C MSE 189 1_555 A TYR 209 A N TYR 190 1_555 covale 1.337 both A VAL 277 A C VAL 258 1_555 A MSE 278 A N MSE 259 1_555 covale 1.328 both A MSE 278 A C MSE 259 1_555 A TYR 279 A N TYR 260 1_555 covale 1.322 both A ILE 286 A C ILE 267 1_555 A MSE 287 A N MSE 268 1_555 covale 1.323 both A MSE 287 A C MSE 268 1_555 A LEU 288 A N LEU 269 1_555 HYDROLASE Galactose-binding domain-like, PF13201 family, Structural Genomics, Joint Center for Structural Genomics, JCSG, Protein Structure Initiative, PSI-BIOLOGY, HYDROLASE A GLU 95 A GLU 76 1 A PRO 96 A PRO 77 3.24 A7LQL7_BACOV UNP 1 21 A7LQL7 QDEALNSEAAIDVCSGDDVQLANIDADSKVINVYVNKGADLSKQKLEFTLPQGATIKVNTPITGDTESTYDFSEEPHSRK FTVTSEDGQWQPVYTVNVILAELPTLFKFEELLTTSSEYDTFYEFTPATSQEISKVLQWSSGNPGFKLTGMANSRIDYPT VQVANGFKGKAVKLETRNTGDFGAMVKMYIAAGNLFIGTFEVENALTNPRKATNFGFQFYKHPIALKGYYKFKAGEVYSV EGQPQTGKRDKCDIYAVMYEAENNSIMLNGDNVFNSDKLVLLARIEPEDIVESDEWNEFTIHFESVKGREIDDTKLQNGK YKLGIVLSSSVDGAYFRGAVGSTLYVDELELICKE 21 375 4JRL 21 375 A7LQL7 A 1 2 356 1 expression tag GLY 0 4JRL A A7LQL7 UNP 1 2 5 6 4 4 2 3 5 3 3 anti-parallel anti-parallel parallel anti-parallel anti-parallel anti-parallel parallel parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel A VAL 33 A VAL 14 A GLY 36 A GLY 17 A LEU 66 A LEU 47 A THR 69 A THR 50 A VAL 39 A VAL 20 A ASP 45 A ASP 26 A VAL 50 A VAL 31 A ASN 56 A ASN 37 A VAL 113 A VAL 94 A GLU 122 A GLU 103 A SER 98 A SER 79 A THR 104 A THR 85 A THR 75 A THR 56 A VAL 78 A VAL 59 A VAL 39 A VAL 20 A ASP 45 A ASP 26 A VAL 50 A VAL 31 A ASN 56 A ASN 37 A VAL 113 A VAL 94 A GLU 122 A GLU 103 A SER 154 A SER 135 A GLN 158 A GLN 139 A PHE 142 A PHE 123 A THR 146 A THR 127 A GLU 131 A GLU 112 A LEU 132 A LEU 113 A LEU 126 A LEU 107 A PHE 127 A PHE 108 A THR 363 A THR 344 A CYS 373 A CYS 354 A ALA 191 A ALA 172 A GLU 195 A GLU 176 A THR 180 A THR 161 A VAL 183 A VAL 164 A LEU 126 A LEU 107 A PHE 127 A PHE 108 A THR 363 A THR 344 A CYS 373 A CYS 354 A PRO 243 A PRO 224 A LYS 253 A LYS 234 A ASN 317 A ASN 298 A HIS 322 A HIS 303 A ARG 197 A ARG 178 A ASN 198 A ASN 179 A ILE 210 A ILE 191 A ALA 211 A ALA 192 A ASN 214 A ASN 195 A PHE 216 A PHE 197 A TYR 341 A TYR 322 A SER 348 A SER 329 A PHE 237 A PHE 218 A GLN 238 A GLN 219 A ASN 214 A ASN 195 A PHE 216 A PHE 197 A TYR 341 A TYR 322 A SER 348 A SER 329 A ASP 273 A ASP 254 A GLU 280 A GLU 261 A LEU 299 A LEU 280 A ARG 304 A ARG 285 A GLU 324 A GLU 305 A SER 325 A SER 306 A GLY 218 A GLY 199 A PHE 220 A PHE 201 A THR 233 A THR 214 A PHE 235 A PHE 216 A LEU 288 A LEU 269 A ASN 289 A ASN 270 A GLN 263 A GLN 244 A GLN 265 A GLN 246 A TYR 258 A TYR 239 A VAL 260 A VAL 241 A ARG 357 A ARG 338 A ALA 359 A ALA 340 BINDING SITE FOR RESIDUE CL A 402 A CL 402 Software 1 BINDING SITE FOR RESIDUE SO4 A 403 A SO4 403 Software 6 BINDING SITE FOR RESIDUE GOL A 404 A GOL 404 Software 2 BINDING SITE FOR RESIDUE GOL A 405 A GOL 405 Software 6 BINDING SITE FOR RESIDUE GOL A 406 A GOL 406 Software 4 BINDING SITE FOR RESIDUE GOL A 407 A GOL 407 Software 10 A THR 134 A THR 115 1 1_555 A HIS 322 A HIS 303 6 1_555 A HIS 322 A HIS 303 6 10_455 A PHE 323 A PHE 304 6 1_555 A PHE 323 A PHE 304 6 10_455 A SER 325 A SER 306 6 10_455 A SER 325 A SER 306 6 1_555 A THR 266 A THR 247 2 6_555 A LYS 327 A LYS 308 2 1_555 A ASN 214 A ASN 195 6 1_555 A TYR 275 A TYR 256 6 1_555 A ALA 354 A ALA 335 6 1_555 A HOH 533 I HOH 6 1_555 A HOH 561 I HOH 6 1_555 A HOH 611 I HOH 6 1_555 A ASN 292 A ASN 273 4 1_555 A SER 296 A SER 277 4 1_555 A ASP 297 A ASP 278 4 1_555 A LYS 298 A LYS 279 4 1_555 A ASP 38 A ASP 19 10 1_555 A ASN 56 A ASN 37 10 1_555 A LYS 57 A LYS 38 10 1_555 A ALA 59 A ALA 40 10 1_555 A PHE 237 A PHE 218 10 1_555 A GLN 238 A GLN 219 10 1_555 A ASN 284 A ASN 265 10 1_555 A LYS 342 A LYS 323 10 1_555 A HOH 505 I HOH 10 1_555 A HOH 525 I HOH 10 1_555 155 H 3 2