data_6WRE
#
_model_server_result.job_id            EmIP10jxF_r7WjLFoZPAGg 
_model_server_result.datetime_utc      '2024-10-27 04:32:29' 
_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          6wre 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":402}' 
#
_entry.id    6WRE 
#
_exptl.entry_id    6WRE 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              324.181 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "3'-URIDINEMONOPHOSPHATE" 
_entity.pdbx_number_of_molecules    1 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          112.35 
_cell.angle_gamma         90 
_cell.entry_id            6WRE 
_cell.length_a            50.182 
_cell.length_b            87.795 
_cell.length_c            53.88 
_cell.Z_PDB               2 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6WRE 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      4 
_struct_asym.id                             D 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
loop_
_struct_conn.conn_type_id
_struct_conn.details
_struct_conn.id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_symmetry
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_symmetry
_struct_conn.pdbx_ptnr1_PDB_ins_code
_struct_conn.pdbx_ptnr1_label_alt_id
_struct_conn.pdbx_ptnr1_standard_comp_id
_struct_conn.pdbx_ptnr2_PDB_ins_code
_struct_conn.pdbx_ptnr2_label_alt_id
_struct_conn.pdbx_ptnr3_PDB_ins_code
_struct_conn.pdbx_ptnr3_label_alt_id
_struct_conn.pdbx_ptnr3_label_asym_id
_struct_conn.pdbx_ptnr3_label_atom_id
_struct_conn.pdbx_ptnr3_label_comp_id
_struct_conn.pdbx_ptnr3_label_seq_id
_struct_conn.pdbx_PDB_id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_value_order
covale ? covale1 B O3' U 1 D U 1 1_555 B P U37 2 D U37 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.558 ? 
covale ? covale2 B O3' U37 2 D U37 2 1_555 B P U37 3 D U37 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.561 ? 
covale ? covale3 B O3' U37 3 D U37 3 1_555 B P U 4 D U 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.609 ? 
metalc ? metalc1 A OD2 ASP 230 A ASP 236 1_555 C CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.425 ? 
metalc ? metalc2 A OE2 GLU 247 A GLU 253 1_555 C CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.397 ? 
metalc ? metalc3 A O LEU 248 A LEU 254 1_555 C CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.403 ? 
metalc ? metalc4 C CA CA . A CA 401 1_555 E O HOH . A HOH 517 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.401 ? 
metalc ? metalc5 C CA CA . A CA 401 1_555 B O1P U37 3 D U37 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.457 ? 
metalc ? metalc6 C CA CA . A CA 401 1_555 F O HOH . D HOH 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.395 ? 
#
_chem_comp.formula           'C9 H13 N2 O9 P' 
_chem_comp.formula_weight    324.181 
_chem_comp.id                U3P 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "3'-URIDINEMONOPHOSPHATE" 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
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
N1 C2 U3P sing 428 n n 
N1 C6 U3P sing 429 n n 
N1 C1' U3P sing 430 n n 
C2 N3 U3P sing 431 n n 
C2 O2 U3P doub 432 n n 
N3 C4 U3P sing 433 n n 
N3 HN3 U3P sing 434 n n 
C4 C5 U3P sing 435 n n 
C4 O4 U3P doub 436 n n 
C5 C6 U3P doub 437 n n 
C5 H5 U3P sing 438 n n 
C6 H6 U3P sing 439 n n 
P O1P U3P sing 440 n n 
P O2P U3P doub 441 n n 
P O3P U3P sing 442 n n 
P O3' U3P sing 443 n n 
O1P HOP1 U3P sing 444 n n 
O3P HOP3 U3P sing 445 n n 
O5' C5' U3P sing 446 n n 
O5' HO5' U3P sing 447 n n 
C5' C4' U3P sing 448 n n 
C5' "H5'1" U3P sing 449 n n 
C5' "H5'2" U3P sing 450 n n 
C4' O4' U3P sing 451 n n 
C4' C3' U3P sing 452 n n 
C4' H4' U3P sing 453 n n 
O4' C1' U3P sing 454 n n 
C3' O3' U3P sing 455 n n 
C3' C2' U3P sing 456 n n 
C3' H3' U3P sing 457 n n 
C2' O2' U3P sing 458 n n 
C2' C1' U3P sing 459 n n 
C2' H2' U3P sing 460 n n 
O2' HO2' U3P sing 461 n n 
C1' H1' U3P sing 462 n n 
#
_atom_sites.entry_id                     6WRE 
_atom_sites.fract_transf_matrix[1][1]    0.019927 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.008193 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.01139 
_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]    0.020067 
_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
C 3 CA A 1 401 1 CA CA . 
D 4 U3P A 1 402 401 U3P UBD . 
E 5 HOH A 1 501 36 HOH HOH . 
E 5 HOH A 2 502 95 HOH HOH . 
E 5 HOH A 3 503 102 HOH HOH . 
E 5 HOH A 4 504 90 HOH HOH . 
E 5 HOH A 5 505 69 HOH HOH . 
E 5 HOH A 6 506 25 HOH HOH . 
E 5 HOH A 7 507 11 HOH HOH . 
E 5 HOH A 8 508 85 HOH HOH . 
E 5 HOH A 9 509 101 HOH HOH . 
E 5 HOH A 10 510 67 HOH HOH . 
E 5 HOH A 11 511 34 HOH HOH . 
E 5 HOH A 12 512 98 HOH HOH . 
E 5 HOH A 13 513 127 HOH HOH . 
E 5 HOH A 14 514 114 HOH HOH . 
E 5 HOH A 15 515 91 HOH HOH . 
E 5 HOH A 16 516 29 HOH HOH . 
E 5 HOH A 17 517 1 HOH HOH . 
E 5 HOH A 18 518 18 HOH HOH . 
E 5 HOH A 19 519 84 HOH HOH . 
E 5 HOH A 20 520 97 HOH HOH . 
E 5 HOH A 21 521 42 HOH HOH . 
E 5 HOH A 22 522 75 HOH HOH . 
E 5 HOH A 23 523 55 HOH HOH . 
E 5 HOH A 24 524 4 HOH HOH . 
E 5 HOH A 25 525 88 HOH HOH . 
E 5 HOH A 26 526 14 HOH HOH . 
E 5 HOH A 27 527 70 HOH HOH . 
E 5 HOH A 28 528 108 HOH HOH . 
E 5 HOH A 29 529 113 HOH HOH . 
E 5 HOH A 30 530 131 HOH HOH . 
E 5 HOH A 31 531 100 HOH HOH . 
E 5 HOH A 32 532 93 HOH HOH . 
E 5 HOH A 33 533 6 HOH HOH . 
E 5 HOH A 34 534 76 HOH HOH . 
E 5 HOH A 35 535 116 HOH HOH . 
E 5 HOH A 36 536 64 HOH HOH . 
E 5 HOH A 37 537 134 HOH HOH . 
E 5 HOH A 38 538 27 HOH HOH . 
E 5 HOH A 39 539 9 HOH HOH . 
E 5 HOH A 40 540 136 HOH HOH . 
E 5 HOH A 41 541 21 HOH HOH . 
E 5 HOH A 42 542 17 HOH HOH . 
E 5 HOH A 43 543 8 HOH HOH . 
E 5 HOH A 44 544 40 HOH HOH . 
E 5 HOH A 45 545 50 HOH HOH . 
E 5 HOH A 46 546 115 HOH HOH . 
E 5 HOH A 47 547 10 HOH HOH . 
E 5 HOH A 48 548 15 HOH HOH . 
E 5 HOH A 49 549 96 HOH HOH . 
E 5 HOH A 50 550 39 HOH HOH . 
E 5 HOH A 51 551 128 HOH HOH . 
E 5 HOH A 52 552 105 HOH HOH . 
E 5 HOH A 53 553 161 HOH HOH . 
E 5 HOH A 54 554 72 HOH HOH . 
E 5 HOH A 55 555 37 HOH HOH . 
E 5 HOH A 56 556 26 HOH HOH . 
E 5 HOH A 57 557 78 HOH HOH . 
E 5 HOH A 58 558 32 HOH HOH . 
E 5 HOH A 59 559 106 HOH HOH . 
E 5 HOH A 60 560 162 HOH HOH . 
E 5 HOH A 61 561 71 HOH HOH . 
E 5 HOH A 62 562 103 HOH HOH . 
E 5 HOH A 63 563 87 HOH HOH . 
E 5 HOH A 64 564 94 HOH HOH . 
E 5 HOH A 65 565 45 HOH HOH . 
E 5 HOH A 66 566 89 HOH HOH . 
E 5 HOH A 67 567 73 HOH HOH . 
E 5 HOH A 68 568 43 HOH HOH . 
E 5 HOH A 69 569 23 HOH HOH . 
E 5 HOH A 70 570 60 HOH HOH . 
E 5 HOH A 71 571 12 HOH HOH . 
E 5 HOH A 72 572 109 HOH HOH . 
E 5 HOH A 73 573 125 HOH HOH . 
E 5 HOH A 74 574 140 HOH HOH . 
E 5 HOH A 75 575 99 HOH HOH . 
E 5 HOH A 76 576 117 HOH HOH . 
E 5 HOH A 77 577 7 HOH HOH . 
E 5 HOH A 78 578 35 HOH HOH . 
E 5 HOH A 79 579 132 HOH HOH . 
E 5 HOH A 80 580 80 HOH HOH . 
E 5 HOH A 81 581 41 HOH HOH . 
E 5 HOH A 82 582 16 HOH HOH . 
E 5 HOH A 83 583 24 HOH HOH . 
E 5 HOH A 84 584 28 HOH HOH . 
E 5 HOH A 85 585 119 HOH HOH . 
E 5 HOH A 86 586 160 HOH HOH . 
E 5 HOH A 87 587 129 HOH HOH . 
E 5 HOH A 88 588 146 HOH HOH . 
E 5 HOH A 89 589 153 HOH HOH . 
E 5 HOH A 90 590 68 HOH HOH . 
E 5 HOH A 91 591 56 HOH HOH . 
E 5 HOH A 92 592 30 HOH HOH . 
E 5 HOH A 93 593 65 HOH HOH . 
E 5 HOH A 94 594 31 HOH HOH . 
E 5 HOH A 95 595 74 HOH HOH . 
E 5 HOH A 96 596 79 HOH HOH . 
E 5 HOH A 97 597 33 HOH HOH . 
E 5 HOH A 98 598 86 HOH HOH . 
E 5 HOH A 99 599 157 HOH HOH . 
E 5 HOH A 100 600 152 HOH HOH . 
E 5 HOH A 101 601 120 HOH HOH . 
E 5 HOH A 102 602 52 HOH HOH . 
E 5 HOH A 103 603 130 HOH HOH . 
E 5 HOH A 104 604 3 HOH HOH . 
E 5 HOH A 105 605 22 HOH HOH . 
E 5 HOH A 106 606 47 HOH HOH . 
E 5 HOH A 107 607 133 HOH HOH . 
E 5 HOH A 108 608 59 HOH HOH . 
E 5 HOH A 109 609 122 HOH HOH . 
E 5 HOH A 110 610 54 HOH HOH . 
E 5 HOH A 111 611 53 HOH HOH . 
E 5 HOH A 112 612 121 HOH HOH . 
E 5 HOH A 113 613 118 HOH HOH . 
E 5 HOH A 114 614 77 HOH HOH . 
E 5 HOH A 115 615 63 HOH HOH . 
E 5 HOH A 116 616 48 HOH HOH . 
E 5 HOH A 117 617 58 HOH HOH . 
E 5 HOH A 118 618 81 HOH HOH . 
E 5 HOH A 119 619 51 HOH HOH . 
E 5 HOH A 120 620 112 HOH HOH . 
E 5 HOH A 121 621 83 HOH HOH . 
E 5 HOH A 122 622 92 HOH HOH . 
E 5 HOH A 123 623 49 HOH HOH . 
E 5 HOH A 124 624 61 HOH HOH . 
F 5 HOH D 1 101 2 HOH HOH . 
F 5 HOH D 2 102 19 HOH HOH . 
F 5 HOH D 3 103 5 HOH HOH . 
F 5 HOH D 4 104 20 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 N N1 U3P . . . D 4 -18.07 1.657 -8.178 1 70.26 ? N1 U3P 402 A 1 
HETATM 2 C C2 U3P . . . D 4 -17.546 1.211 -6.858 1 62.43 ? C2 U3P 402 A 1 
HETATM 3 N N3 U3P . . . D 4 -17.94 1.957 -5.616 1 56.85 ? N3 U3P 402 A 1 
HETATM 4 C C4 U3P . . . D 4 -18.824 3.103 -5.71 1 62.56 ? C4 U3P 402 A 1 
HETATM 5 C C5 U3P . . . D 4 -19.337 3.54 -7.032 1 63.13 ? C5 U3P 402 A 1 
HETATM 6 C C6 U3P . . . D 4 -18.951 2.807 -8.26 1 64.05 ? C6 U3P 402 A 1 
HETATM 7 O O2 U3P . . . D 4 -16.831 0.284 -6.767 1 55.29 ? O2 U3P 402 A 1 
HETATM 8 O O4 U3P . . . D 4 -19.129 3.685 -4.724 1 71.65 ? O4 U3P 402 A 1 
HETATM 9 P P U3P . . . D 4 -16.813 -2.085 -12.57 1 106.87 ? P U3P 402 A 1 
HETATM 10 O O1P U3P . . . D 4 -16.286 -3.383 -12.021 1 89.2 ? O1P U3P 402 A 1 
HETATM 11 O O2P U3P . . . D 4 -15.797 -1.52 -13.534 1 98.82 ? O2P U3P 402 A 1 
HETATM 12 O O3P U3P . . . D 4 -18.128 -2.329 -13.273 1 106.5 -1 O3P U3P 402 A 1 
HETATM 13 O O5' U3P . . . D 4 -19.245 2.719 -12.118 1 80.49 ? O5' U3P 402 A 1 
HETATM 14 C C5' U3P . . . D 4 -18.189 2.083 -12.799 1 84.58 ? C5' U3P 402 A 1 
HETATM 15 C C4' U3P . . . D 4 -17.346 1.155 -11.83 1 82.61 ? C4' U3P 402 A 1 
HETATM 16 O O4' U3P . . . D 4 -17.058 1.879 -10.485 1 76.35 ? O4' U3P 402 A 1 
HETATM 17 C C3' U3P . . . D 4 -17.983 0.083 -11.503 1 82.21 ? C3' U3P 402 A 1 
HETATM 18 O O3' U3P . . . D 4 -17.041 -1.011 -11.321 1 86.19 ? O3' U3P 402 A 1 
HETATM 19 C C2' U3P . . . D 4 -18.669 0.443 -10.027 1 77.68 ? C2' U3P 402 A 1 
HETATM 20 O O2' U3P . . . D 4 -19.18 -0.766 -9.345 1 73.68 ? O2' U3P 402 A 1 
HETATM 21 C C1' U3P . . . D 4 -17.679 0.925 -9.404 1 70.41 ? C1' U3P 402 A 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           22 
_model_server_stats.create_model_time_ms    7 
_model_server_stats.query_time_ms           311 
_model_server_stats.encode_time_ms          10 
_model_server_stats.element_count           21 
#