data_4URM
#
_model_server_result.job_id            l_4udAT3kgEBx-WTCMBrkQ 
_model_server_result.datetime_utc      '2024-11-16 19:25:23' 
_model_server_result.server_version    0.9.12 
_model_server_result.query_name        ligand 
_model_server_result.source_id         pdb-bcif 
_model_server_result.entry_id          4urm 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":2000}' 
#
_entry.id    4URM 
#
_exptl.entry_id    4URM 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              939.872 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(1R,4aS,5S,6S,8aR)-5-{[(5S)-1-(3-O-acetyl-4-O-carbamoyl-6-deoxy-2-O-methyl-alpha-L-talopyranosyl)-4-hydroxy-2-oxo-5-(propan-2-yl)-2,5-dihydro-1H-pyrrol-3-yl]carbonyl}-6-methyl-4-methylidene-1,2,3,4,4a,5,6,8a-octahydronaphthalen-1-yl 2,6-dideoxy-3-C-[(1S)-1-{[(3,4-dichloro-5-methyl-1H-pyrrol-2-yl)carbonyl]amino}ethyl]-beta-D-ribo-hexopyranoside' 
_entity.pdbx_number_of_molecules    4 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          90.04 
_cell.angle_gamma         90 
_cell.entry_id            4URM 
_cell.length_a            69.28 
_cell.length_b            75.55 
_cell.length_c            90.45 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4URM 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 author_and_software_defined_assembly 2 
PISA monomeric 1 author_and_software_defined_assembly 3 
PISA monomeric 1 author_and_software_defined_assembly 4 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,E,I 1 1 
B,F,J 2 1 
C,G,K 3 1 
D,H,L 4 1 
#
_pdbx_struct_oper_list.id                    1 
_pdbx_struct_oper_list.type                  'identity operation' 
_pdbx_struct_oper_list.name                  1_555 
_pdbx_struct_oper_list.symmetry_operation    x,y,z 
_pdbx_struct_oper_list.matrix[1][1]          1 
_pdbx_struct_oper_list.matrix[1][2]          0 
_pdbx_struct_oper_list.matrix[1][3]          0 
_pdbx_struct_oper_list.matrix[2][1]          0 
_pdbx_struct_oper_list.matrix[2][2]          1 
_pdbx_struct_oper_list.matrix[2][3]          0 
_pdbx_struct_oper_list.matrix[3][1]          0 
_pdbx_struct_oper_list.matrix[3][2]          0 
_pdbx_struct_oper_list.matrix[3][3]          1 
_pdbx_struct_oper_list.vector[1]             0 
_pdbx_struct_oper_list.vector[2]             0 
_pdbx_struct_oper_list.vector[3]             0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 E N N 
? 2 F N N 
? 2 G N N 
? 2 H N N 
#
_chem_comp.formula           'C44 H60 Cl2 N4 O14' 
_chem_comp.formula_weight    939.872 
_chem_comp.id                XAM 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(1R,4aS,5S,6S,8aR)-5-{[(5S)-1-(3-O-acetyl-4-O-carbamoyl-6-deoxy-2-O-methyl-alpha-L-talopyranosyl)-4-hydroxy-2-oxo-5-(propan-2-yl)-2,5-dihydro-1H-pyrrol-3-yl]carbonyl}-6-methyl-4-methylidene-1,2,3,4,4a,5,6,8a-octahydronaphthalen-1-yl 2,6-dideoxy-3-C-[(1S)-1-{[(3,4-dichloro-5-methyl-1H-pyrrol-2-yl)carbonyl]amino}ethyl]-beta-D-ribo-hexopyranoside' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     Amycolamicin 
#
loop_
_chem_comp_bond.atom_id_1
_chem_comp_bond.atom_id_2
_chem_comp_bond.comp_id
_chem_comp_bond.value_order
_chem_comp_bond.pdbx_ordinal
_chem_comp_bond.pdbx_stereo_config
_chem_comp_bond.pdbx_aromatic_flag
OCB CBZ XAM doub 363 n n 
CBZ O4 XAM sing 364 n n 
CBZ NCA XAM sing 365 n n 
O4 C4 XAM sing 366 n n 
C6 C5 XAM sing 367 n n 
OBY CBW XAM doub 368 n n 
C4 C5 XAM sing 369 n n 
C4 C3 XAM sing 370 n n 
C5 O5 XAM sing 371 n n 
CBX CBW XAM sing 372 n n 
CBW O3 XAM sing 373 n n 
C3 O3 XAM sing 374 n n 
C3 C2 XAM sing 375 n n 
CLX CAT XAM sing 376 n n 
O5 C1 XAM sing 377 n n 
CAY CAU XAM sing 378 n n 
C2 C1 XAM sing 379 n n 
C2 O2 XAM sing 380 n n 
C1 NBE XAM sing 381 n n 
CAT CAU XAM doub 382 n y 
CAT CAS XAM sing 383 n y 
CAU NAV XAM sing 384 n y 
CLW CAS XAM sing 385 n n 
O2 CCL XAM sing 386 n n 
CAS CAR XAM doub 387 n y 
OBH CBD XAM doub 388 n n 
NBE CBD XAM sing 389 n n 
NBE CBF XAM sing 390 n n 
CBL CBJ XAM sing 391 n n 
NAV CAR XAM sing 392 n y 
CBJ CBF XAM sing 393 n n 
CBJ CBK XAM sing 394 n n 
CBD CBA XAM sing 395 n n 
CAR CAP XAM sing 396 n n 
CBF CBG XAM sing 397 n n 
CAP NAO XAM sing 398 n n 
CAP OAQ XAM doub 399 n n 
NAO CAM XAM sing 400 n n 
CBA CBG XAM doub 401 n n 
CBA CAZ XAM sing 402 n n 
CAK CAF XAM doub 403 n n 
CAN CAM XAM sing 404 n n 
CBG OBI XAM sing 405 n n 
CAJ CAI XAM sing 406 n n 
CAJ CAZ XAM sing 407 n n 
CAJ CAE XAM sing 408 n n 
CAD CAG XAM sing 409 n n 
CAD CAE XAM sing 410 n n 
CAD CAC XAM sing 411 n n 
CAG CAH XAM doub 412 n n 
CCF CCE XAM sing 413 n n 
CCF CCG XAM sing 414 n n 
CAH CAI XAM sing 415 n n 
CAI CBC XAM sing 416 n n 
CAZ OBB XAM doub 417 n n 
CAM CCE XAM sing 418 n n 
OAL CAC XAM sing 419 n n 
OAL CCG XAM sing 420 n n 
CAF CAE XAM sing 421 n n 
CAF CAA XAM sing 422 n n 
CAC CAB XAM sing 423 n n 
CAB CAA XAM sing 424 n n 
CCE OCK XAM sing 425 n n 
CCE CCD XAM sing 426 n n 
CCG OCH XAM sing 427 n n 
OCH CCC XAM sing 428 n n 
CCD CCC XAM sing 429 n n 
CCD OCJ XAM sing 430 n n 
CCC CCI XAM sing 431 n n 
C4 H1 XAM sing 432 n n 
C5 H2 XAM sing 433 n n 
C6 H3 XAM sing 434 n n 
C6 H4 XAM sing 435 n n 
C6 H5 XAM sing 436 n n 
C3 H6 XAM sing 437 n n 
CAY H7 XAM sing 438 n n 
CAY H8 XAM sing 439 n n 
CAY H9 XAM sing 440 n n 
NAV H10 XAM sing 441 n n 
NAO H11 XAM sing 442 n n 
CAM H12 XAM sing 443 n n 
CAN H13 XAM sing 444 n n 
CAN H14 XAM sing 445 n n 
CAN H15 XAM sing 446 n n 
CCF H16 XAM sing 447 n n 
CCF H17 XAM sing 448 n n 
OCK H18 XAM sing 449 n n 
CCD H19 XAM sing 450 n n 
OCJ H20 XAM sing 451 n n 
CCC H21 XAM sing 452 n n 
CCI H22 XAM sing 453 n n 
CCI H23 XAM sing 454 n n 
CCI H24 XAM sing 455 n n 
CCG H25 XAM sing 456 n n 
CAC H26 XAM sing 457 n n 
CAB H27 XAM sing 458 n n 
CAB H28 XAM sing 459 n n 
CAA H29 XAM sing 460 n n 
CAA H30 XAM sing 461 n n 
CAK H32 XAM sing 462 n n 
CAE H35 XAM sing 463 n n 
CAD H36 XAM sing 464 n n 
CAG H37 XAM sing 465 n n 
CAH H38 XAM sing 466 n n 
CAI H39 XAM sing 467 n n 
CBC H40 XAM sing 468 n n 
CBC H41 XAM sing 469 n n 
CBC H42 XAM sing 470 n n 
CAJ H43 XAM sing 471 n n 
OBI H44 XAM sing 472 n n 
CBF H45 XAM sing 473 n n 
CBJ H46 XAM sing 474 n n 
CBL H47 XAM sing 475 n n 
CBL H48 XAM sing 476 n n 
CBL H49 XAM sing 477 n n 
CBK H50 XAM sing 478 n n 
CBK H51 XAM sing 479 n n 
CBK H52 XAM sing 480 n n 
C1 H53 XAM sing 481 n n 
C2 H54 XAM sing 482 n n 
CCL H55 XAM sing 483 n n 
CCL H56 XAM sing 484 n n 
CCL H57 XAM sing 485 n n 
NCA H58 XAM sing 486 n n 
NCA H59 XAM sing 487 n n 
CBX H60 XAM sing 488 n n 
CBX H61 XAM sing 489 n n 
CBX H62 XAM sing 490 n n 
CAK H31 XAM sing 491 n n 
#
_atom_sites.entry_id                     4URM 
_atom_sites.fract_transf_matrix[1][1]    0.014434 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.00001 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.013236 
_atom_sites.fract_transf_matrix[2][3]    0 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.011056 
_atom_sites.fract_transf_vector[1]       0 
_atom_sites.fract_transf_vector[2]       0 
_atom_sites.fract_transf_vector[3]       0 
#
loop_
_pdbx_nonpoly_scheme.asym_id
_pdbx_nonpoly_scheme.entity_id
_pdbx_nonpoly_scheme.mon_id
_pdbx_nonpoly_scheme.pdb_strand_id
_pdbx_nonpoly_scheme.ndb_seq_num
_pdbx_nonpoly_scheme.pdb_seq_num
_pdbx_nonpoly_scheme.auth_seq_num
_pdbx_nonpoly_scheme.pdb_mon_id
_pdbx_nonpoly_scheme.auth_mon_id
_pdbx_nonpoly_scheme.pdb_ins_code
E 2 XAM A 1 2000 2000 XAM XAM . 
F 2 XAM B 1 2000 2000 XAM XAM . 
G 2 XAM C 1 2000 2000 XAM XAM . 
H 2 XAM D 1 2000 2000 XAM XAM . 
I 3 HOH A 1 2001 2001 HOH HOH . 
I 3 HOH A 2 2002 2002 HOH HOH . 
I 3 HOH A 3 2003 2003 HOH HOH . 
I 3 HOH A 4 2004 2004 HOH HOH . 
I 3 HOH A 5 2005 2005 HOH HOH . 
J 3 HOH B 1 2001 2001 HOH HOH . 
J 3 HOH B 2 2002 2002 HOH HOH . 
J 3 HOH B 3 2003 2003 HOH HOH . 
J 3 HOH B 4 2004 2004 HOH HOH . 
J 3 HOH B 5 2005 2005 HOH HOH . 
K 3 HOH C 1 2001 2001 HOH HOH . 
K 3 HOH C 2 2002 2002 HOH HOH . 
K 3 HOH C 3 2003 2003 HOH HOH . 
L 3 HOH D 1 2001 2001 HOH HOH . 
L 3 HOH D 2 2002 2002 HOH HOH . 
L 3 HOH D 3 2003 2003 HOH HOH . 
L 3 HOH D 4 2004 2004 HOH HOH . 
L 3 HOH D 5 2005 2005 HOH HOH . 
#
loop_
_atom_site.group_PDB
_atom_site.id
_atom_site.type_symbol
_atom_site.label_atom_id
_atom_site.label_comp_id
_atom_site.label_seq_id
_atom_site.label_alt_id
_atom_site.pdbx_PDB_ins_code
_atom_site.label_asym_id
_atom_site.label_entity_id
_atom_site.Cartn_x
_atom_site.Cartn_y
_atom_site.Cartn_z
_atom_site.occupancy
_atom_site.B_iso_or_equiv
_atom_site.pdbx_formal_charge
_atom_site.auth_atom_id
_atom_site.auth_comp_id
_atom_site.auth_seq_id
_atom_site.auth_asym_id
_atom_site.pdbx_PDB_model_num
HETATM 1 C C4 XAM . . . F 2 3.281 2.969 69.068 1 54.43 ? C4 XAM 2000 B 1 
HETATM 2 C C5 XAM . . . F 2 2.957 1.52 69.427 1 54.51 ? C5 XAM 2000 B 1 
HETATM 3 C C6 XAM . . . F 2 2.622 1.3 70.887 1 56.02 ? C6 XAM 2000 B 1 
HETATM 4 C C3 XAM . . . F 2 4.702 3.352 69.474 1 55.4 ? C3 XAM 2000 B 1 
HETATM 5 CL CLW XAM . . . F 2 3.438 -1.378 56.485 1 43.34 ? CLW XAM 2000 B 1 
HETATM 6 C CAS XAM . . . F 2 3.233 -1.634 54.785 1 36.02 ? CAS XAM 2000 B 1 
HETATM 7 C CAT XAM . . . F 2 1.967 -1.956 54.164 1 31.31 ? CAT XAM 2000 B 1 
HETATM 8 CL CLX XAM . . . F 2 0.498 -2.128 55.041 1 32.87 ? CLX XAM 2000 B 1 
HETATM 9 C CAU XAM . . . F 2 2.226 -2.085 52.814 1 26.1 ? CAU XAM 2000 B 1 
HETATM 10 C CAY XAM . . . F 2 1.305 -2.333 51.663 1 19.01 ? CAY XAM 2000 B 1 
HETATM 11 N NAV XAM . . . F 2 3.559 -1.884 52.598 1 31.58 ? NAV XAM 2000 B 1 
HETATM 12 C CAR XAM . . . F 2 4.194 -1.586 53.778 1 32.82 ? CAR XAM 2000 B 1 
HETATM 13 C CAP XAM . . . F 2 5.642 -1.291 53.737 1 33.13 ? CAP XAM 2000 B 1 
HETATM 14 O OAQ XAM . . . F 2 6.253 -1.4 52.682 1 30.4 ? OAQ XAM 2000 B 1 
HETATM 15 N NAO XAM . . . F 2 6.225 -0.952 54.897 1 37.41 ? NAO XAM 2000 B 1 
HETATM 16 C CAM XAM . . . F 2 7.633 -0.441 55.108 1 34.4 ? CAM XAM 2000 B 1 
HETATM 17 C CAN XAM . . . F 2 7.587 1.092 55.251 1 32.1 ? CAN XAM 2000 B 1 
HETATM 18 C CCE XAM . . . F 2 8.337 -1.251 56.324 1 33.48 ? CCE XAM 2000 B 1 
HETATM 19 C CCF XAM . . . F 2 7.614 -1.086 57.684 1 30.85 ? CCF XAM 2000 B 1 
HETATM 20 O OCK XAM . . . F 2 8.205 -2.629 55.955 1 35.8 ? OCK XAM 2000 B 1 
HETATM 21 C CCD XAM . . . F 2 9.894 -0.929 56.486 1 33.26 ? CCD XAM 2000 B 1 
HETATM 22 O OCJ XAM . . . F 2 10.455 -1.651 55.405 1 38 ? OCJ XAM 2000 B 1 
HETATM 23 C CCC XAM . . . F 2 10.548 -1.398 57.779 1 30.95 ? CCC XAM 2000 B 1 
HETATM 24 C CCI XAM . . . F 2 11.892 -0.751 58.01 1 30.52 ? CCI XAM 2000 B 1 
HETATM 25 O OCH XAM . . . F 2 9.728 -1.05 58.911 1 30.33 ? OCH XAM 2000 B 1 
HETATM 26 C CCG XAM . . . F 2 8.393 -1.548 58.898 1 31.64 ? CCG XAM 2000 B 1 
HETATM 27 O OAL XAM . . . F 2 7.694 -1.177 60.075 1 35.2 ? OAL XAM 2000 B 1 
HETATM 28 C CAC XAM . . . F 2 8.181 -1.808 61.29 1 41.54 ? CAC XAM 2000 B 1 
HETATM 29 C CAB XAM . . . F 2 7.576 -3.21 61.335 1 44.82 ? CAB XAM 2000 B 1 
HETATM 30 C CAA XAM . . . F 2 7.597 -3.815 62.745 1 45.71 ? CAA XAM 2000 B 1 
HETATM 31 C CAF XAM . . . F 2 7.226 -2.784 63.775 1 47.11 ? CAF XAM 2000 B 1 
HETATM 32 C CAK XAM . . . F 2 6.114 -2.851 64.492 1 46.71 ? CAK XAM 2000 B 1 
HETATM 33 C CAE XAM . . . F 2 8.238 -1.649 63.794 1 47.08 ? CAE XAM 2000 B 1 
HETATM 34 C CAD XAM . . . F 2 7.915 -0.844 62.503 1 43.57 ? CAD XAM 2000 B 1 
HETATM 35 C CAG XAM . . . F 2 8.731 0.418 62.441 1 44.78 ? CAG XAM 2000 B 1 
HETATM 36 C CAH XAM . . . F 2 9.257 1.042 63.49 1 47.71 ? CAH XAM 2000 B 1 
HETATM 37 C CAI XAM . . . F 2 9.157 0.584 64.921 1 49.4 ? CAI XAM 2000 B 1 
HETATM 38 C CBC XAM . . . F 2 10.543 0.483 65.562 1 48.63 ? CBC XAM 2000 B 1 
HETATM 39 C CAJ XAM . . . F 2 8.269 -0.683 65.007 1 49.84 ? CAJ XAM 2000 B 1 
HETATM 40 C CAZ XAM . . . F 2 8.502 -1.469 66.341 1 52.18 ? CAZ XAM 2000 B 1 
HETATM 41 O OBB XAM . . . F 2 9.457 -2.431 66.428 1 53.29 ? OBB XAM 2000 B 1 
HETATM 42 C CBA XAM . . . F 2 7.75 -1.221 67.461 1 52.7 ? CBA XAM 2000 B 1 
HETATM 43 C CBD XAM . . . F 2 6.747 -0.184 67.539 1 53.54 ? CBD XAM 2000 B 1 
HETATM 44 O OBH XAM . . . F 2 6.337 0.559 66.653 1 54.01 ? OBH XAM 2000 B 1 
HETATM 45 C CBG XAM . . . F 2 7.818 -1.881 68.757 1 52.91 ? CBG XAM 2000 B 1 
HETATM 46 O OBI XAM . . . F 2 8.626 -2.705 69.149 1 51.74 ? OBI XAM 2000 B 1 
HETATM 47 C CBF XAM . . . F 2 6.683 -1.298 69.67 1 54.77 ? CBF XAM 2000 B 1 
HETATM 48 C CBJ XAM . . . F 2 5.523 -2.294 69.954 1 57.08 ? CBJ XAM 2000 B 1 
HETATM 49 C CBL XAM . . . F 2 5.999 -3.736 70.136 1 60.1 ? CBL XAM 2000 B 1 
HETATM 50 C CBK XAM . . . F 2 4.689 -1.87 71.161 1 55.46 ? CBK XAM 2000 B 1 
HETATM 51 N NBE XAM . . . F 2 6.224 -0.173 68.852 1 53.98 ? NBE XAM 2000 B 1 
HETATM 52 C C1 XAM . . . F 2 5.398 0.97 69.399 1 53.99 ? C1 XAM 2000 B 1 
HETATM 53 C C2 XAM . . . F 2 5.733 2.377 68.919 1 54.48 ? C2 XAM 2000 B 1 
HETATM 54 O O2 XAM . . . F 2 7.039 2.678 69.415 1 52.22 ? O2 XAM 2000 B 1 
HETATM 55 C CCL XAM . . . F 2 7.956 3.161 68.44 1 49.3 ? CCL XAM 2000 B 1 
HETATM 56 O O5 XAM . . . F 2 4.051 0.646 69.078 1 53.2 ? O5 XAM 2000 B 1 
HETATM 57 O O4 XAM . . . F 2 2.308 3.84 69.685 1 56.17 ? O4 XAM 2000 B 1 
HETATM 58 C CBZ XAM . . . F 2 2.355 5.218 69.534 1 59.88 ? CBZ XAM 2000 B 1 
HETATM 59 O OCB XAM . . . F 2 2.701 5.929 70.453 1 63.16 ? OCB XAM 2000 B 1 
HETATM 60 N NCA XAM . . . F 2 1.979 5.633 68.324 1 58.02 ? NCA XAM 2000 B 1 
HETATM 61 O O3 XAM . . . F 2 4.814 3.412 70.915 1 57.35 ? O3 XAM 2000 B 1 
HETATM 62 C CBW XAM . . . F 2 5.448 4.473 71.465 1 58.39 ? CBW XAM 2000 B 1 
HETATM 63 O OBY XAM . . . F 2 5.805 5.431 70.836 1 59.65 ? OBY XAM 2000 B 1 
HETATM 64 C CBX XAM . . . F 2 5.64 4.272 72.928 1 57.25 ? CBX XAM 2000 B 1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           22 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           314 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           64 
#