data_3ABW # _model_server_result.job_id 1xoWhvZJNIW1InVEts0DNw _model_server_result.datetime_utc '2024-11-02 19:43:55' _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 3abw # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":300}' # _entry.id 3ABW # _exptl.entry_id 3ABW _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 741.136 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description BACTERIORUBERIN _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 127.85 _cell.angle_gamma 90 _cell.entry_id 3ABW _cell.length_a 152.09 _cell.length_b 98.79 _cell.length_c 100.14 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3ABW _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 E N N ? 3 N N 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 A NZ LYS 256 A LYS 256 1_555 D C15 RET . A RET 292 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.349 ? covale ? covale2 B NZ LYS 256 B LYS 256 1_555 J C15 RET . B RET 292 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.347 ? covale ? covale3 C NZ LYS 256 D LYS 256 1_555 P C15 RET . D RET 292 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.348 ? # _chem_comp.formula 'C50 H76 O4' _chem_comp.formula_weight 741.136 _chem_comp.id 22B _chem_comp.mon_nstd_flag . _chem_comp.name BACTERIORUBERIN _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 C1 C2 22B sing 1 n n C1 C16 22B sing 2 n n C1 C17 22B sing 3 n n C1 O26 22B sing 4 n n C2 C3 22B sing 5 n n C2 C21 22B sing 6 n n C2 H2 22B sing 7 n n C3 C4 22B doub 8 n n C3 H3 22B sing 9 n n C4 C5 22B sing 10 n n C4 H4 22B sing 11 n n C5 C6 22B doub 12 n n C5 C18 22B sing 13 n n C6 C7 22B sing 14 n n C6 H6 22B sing 15 n n C7 C8 22B doub 16 n n C7 H7 22B sing 17 n n C8 C9 22B sing 18 n n C8 H8 22B sing 19 n n C9 C10 22B doub 20 n n C9 C19 22B sing 21 n n C10 C11 22B sing 22 n n C10 H10 22B sing 23 n n C11 C12 22B doub 24 n n C11 H11 22B sing 25 n n C12 C13 22B sing 26 n n C12 H12 22B sing 27 n n C13 C14 22B doub 28 n n C13 C20 22B sing 29 n n C14 C15 22B sing 30 n n C14 H14 22B sing 31 n n C15 C45 22B doub 32 n n C15 H15 22B sing 33 n n C16 H161 22B sing 34 n n C16 H162 22B sing 35 n n C16 H163 22B sing 36 n n C17 H171 22B sing 37 n n C17 H172 22B sing 38 n n C17 H173 22B sing 39 n n C18 H181 22B sing 40 n n C18 H182 22B sing 41 n n C18 H183 22B sing 42 n n C19 H191 22B sing 43 n n C19 H192 22B sing 44 n n C19 H193 22B sing 45 n n C20 H201 22B sing 46 n n C20 H202 22B sing 47 n n C20 H203 22B sing 48 n n C21 C22 22B sing 49 n n C21 H211 22B sing 50 n n C21 H212 22B sing 51 n n C22 C23 22B sing 52 n n C22 H221 22B sing 53 n n C22 H222 22B sing 54 n n C23 C24 22B sing 55 n n C23 C25 22B sing 56 n n C23 O27 22B sing 57 n n C24 H241 22B sing 58 n n C24 H242 22B sing 59 n n C24 H243 22B sing 60 n n C25 H251 22B sing 61 n n C25 H252 22B sing 62 n n C25 H253 22B sing 63 n n O26 H26 22B sing 64 n n O27 H27 22B sing 65 n n C38 C39 22B sing 66 n n C38 C27 22B doub 67 n n C38 H38 22B sing 68 n n C39 C40 22B doub 69 n n C39 C26 22B sing 70 n n C40 C41 22B sing 71 n n C40 H40 22B sing 72 n n C41 C42 22B doub 73 n n C41 H41 22B sing 74 n n C42 C43 22B sing 75 n n C42 H42 22B sing 76 n n C43 C50 22B sing 77 n n C43 C44 22B doub 78 n n C44 C45 22B sing 79 n n C44 H44 22B sing 80 n n C45 H45 22B sing 81 n n C50 H501 22B sing 82 n n C50 H502 22B sing 83 n n C50 H503 22B sing 84 n n C26 H261 22B sing 85 n n C26 H262 22B sing 86 n n C26 H263 22B sing 87 n n C27 C28 22B sing 88 n n C27 H1 22B sing 89 n n C28 C29 22B doub 90 n n C28 H28 22B sing 91 n n C29 C30 22B sing 92 n n C29 C31 22B sing 93 n n C30 H301 22B sing 94 n n C30 H302 22B sing 95 n n C30 H303 22B sing 96 n n C31 C32 22B doub 97 n n C31 H31 22B sing 98 n n C32 C33 22B sing 99 n n C32 H32 22B sing 100 n n C33 C34 22B sing 101 n n C33 C47 22B sing 102 n n C33 H33 22B sing 103 n n C34 C35 22B sing 104 n n C34 H341 22B sing 105 n n C34 H342 22B sing 106 n n C35 C36 22B sing 107 n n C35 H351 22B sing 108 n n C35 H352 22B sing 109 n n C36 C37 22B sing 110 n n C36 C46 22B sing 111 n n C36 O1 22B sing 112 n n C37 H371 22B sing 113 n n C37 H372 22B sing 114 n n C37 H373 22B sing 115 n n C46 H461 22B sing 116 n n C46 H462 22B sing 117 n n C46 H463 22B sing 118 n n O1 HO1 22B sing 119 n n C47 C48 22B sing 120 n n C47 C49 22B sing 121 n n C47 O2 22B sing 122 n n C48 H481 22B sing 123 n n C48 H482 22B sing 124 n n C48 H483 22B sing 125 n n C49 H491 22B sing 126 n n C49 H492 22B sing 127 n n C49 H493 22B sing 128 n n O2 HO2 22B sing 129 n n # _atom_sites.entry_id 3ABW _atom_sites.fract_transf_matrix[1][1] 0.006575 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.005109 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010122 _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] 0.012647 _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 D 2 RET A 1 292 290 RET RET . E 3 22B A 1 300 300 22B 22B . F 4 L3P A 1 310 310 L3P L3P . G 4 L3P A 1 313 313 L3P L3P . H 4 L3P A 1 317 317 L3P L3P . I 5 AZI A 1 401 401 AZI AZI . J 2 RET B 1 292 290 RET RET . K 4 L3P B 1 311 311 L3P L3P . L 4 L3P B 1 315 315 L3P L3P . M 4 L3P B 1 318 318 L3P L3P . N 3 22B B 1 300 300 22B 22B . O 5 AZI B 1 401 401 AZI AZI . P 2 RET D 1 292 290 RET RET . Q 4 L3P D 1 312 312 L3P L3P . R 4 L3P D 1 314 314 L3P L3P . S 4 L3P D 1 316 316 L3P L3P . T 5 AZI D 1 401 401 AZI AZI . U 6 HOH A 1 501 501 HOH HOH . U 6 HOH A 2 502 502 HOH HOH . U 6 HOH A 3 503 503 HOH HOH . U 6 HOH A 4 504 504 HOH HOH . U 6 HOH A 5 505 505 HOH HOH . U 6 HOH A 6 506 506 HOH HOH . U 6 HOH A 7 507 507 HOH HOH . U 6 HOH A 8 508 508 HOH HOH . U 6 HOH A 9 509 509 HOH HOH . U 6 HOH A 10 510 510 HOH HOH . U 6 HOH A 11 511 511 HOH HOH . U 6 HOH A 12 512 512 HOH HOH . U 6 HOH A 13 513 513 HOH HOH . U 6 HOH A 14 514 514 HOH HOH . U 6 HOH A 15 515 515 HOH HOH . U 6 HOH A 16 516 516 HOH HOH . U 6 HOH A 17 517 517 HOH HOH . U 6 HOH A 18 518 518 HOH HOH . U 6 HOH A 19 519 519 HOH HOH . U 6 HOH A 20 520 520 HOH HOH . U 6 HOH A 21 521 521 HOH HOH . U 6 HOH A 22 522 546 HOH HOH . U 6 HOH A 23 524 524 HOH HOH . U 6 HOH A 24 525 525 HOH HOH . U 6 HOH A 25 526 526 HOH HOH . U 6 HOH A 26 527 527 HOH HOH . U 6 HOH A 27 528 528 HOH HOH . U 6 HOH A 28 529 529 HOH HOH . U 6 HOH A 29 531 531 HOH HOH . U 6 HOH A 30 532 532 HOH HOH . U 6 HOH A 31 533 533 HOH HOH . U 6 HOH A 32 535 535 HOH HOH . U 6 HOH A 33 536 536 HOH HOH . U 6 HOH A 34 537 537 HOH HOH . U 6 HOH A 35 538 538 HOH HOH . U 6 HOH A 36 539 539 HOH HOH . U 6 HOH A 37 540 540 HOH HOH . U 6 HOH A 38 541 541 HOH HOH . U 6 HOH A 39 542 542 HOH HOH . U 6 HOH A 40 543 543 HOH HOH . U 6 HOH A 41 544 544 HOH HOH . U 6 HOH A 42 545 545 HOH HOH . U 6 HOH A 43 546 546 HOH HOH . U 6 HOH A 44 547 547 HOH HOH . U 6 HOH A 45 548 548 HOH HOH . U 6 HOH A 46 549 549 HOH HOH . U 6 HOH A 47 552 552 HOH HOH . U 6 HOH A 48 565 565 HOH HOH . U 6 HOH A 49 600 600 HOH HOH . V 6 HOH B 1 501 501 HOH HOH . V 6 HOH B 2 503 503 HOH HOH . V 6 HOH B 3 504 504 HOH HOH . V 6 HOH B 4 505 505 HOH HOH . V 6 HOH B 5 506 506 HOH HOH . V 6 HOH B 6 507 507 HOH HOH . V 6 HOH B 7 508 508 HOH HOH . V 6 HOH B 8 509 509 HOH HOH . V 6 HOH B 9 510 510 HOH HOH . V 6 HOH B 10 511 511 HOH HOH . V 6 HOH B 11 512 512 HOH HOH . V 6 HOH B 12 513 513 HOH HOH . V 6 HOH B 13 515 515 HOH HOH . V 6 HOH B 14 516 516 HOH HOH . V 6 HOH B 15 517 517 HOH HOH . V 6 HOH B 16 518 518 HOH HOH . V 6 HOH B 17 519 519 HOH HOH . V 6 HOH B 18 520 520 HOH HOH . V 6 HOH B 19 521 521 HOH HOH . V 6 HOH B 20 522 522 HOH HOH . V 6 HOH B 21 523 523 HOH HOH . V 6 HOH B 22 524 524 HOH HOH . V 6 HOH B 23 526 526 HOH HOH . V 6 HOH B 24 528 528 HOH HOH . V 6 HOH B 25 530 530 HOH HOH . V 6 HOH B 26 531 531 HOH HOH . V 6 HOH B 27 532 532 HOH HOH . V 6 HOH B 28 535 535 HOH HOH . V 6 HOH B 29 537 537 HOH HOH . V 6 HOH B 30 538 538 HOH HOH . V 6 HOH B 31 539 539 HOH HOH . V 6 HOH B 32 540 540 HOH HOH . V 6 HOH B 33 541 541 HOH HOH . V 6 HOH B 34 542 542 HOH HOH . V 6 HOH B 35 543 543 HOH HOH . V 6 HOH B 36 545 545 HOH HOH . V 6 HOH B 37 547 547 HOH HOH . V 6 HOH B 38 549 549 HOH HOH . V 6 HOH B 39 550 550 HOH HOH . V 6 HOH B 40 552 552 HOH HOH . V 6 HOH B 41 553 553 HOH HOH . V 6 HOH B 42 556 556 HOH HOH . V 6 HOH B 43 557 557 HOH HOH . V 6 HOH B 44 559 559 HOH HOH . V 6 HOH B 45 560 560 HOH HOH . V 6 HOH B 46 561 561 HOH HOH . V 6 HOH B 47 563 563 HOH HOH . V 6 HOH B 48 564 564 HOH HOH . W 6 HOH D 1 501 501 HOH HOH . W 6 HOH D 2 503 503 HOH HOH . W 6 HOH D 3 504 504 HOH HOH . W 6 HOH D 4 505 505 HOH HOH . W 6 HOH D 5 506 506 HOH HOH . W 6 HOH D 6 507 507 HOH HOH . W 6 HOH D 7 508 508 HOH HOH . W 6 HOH D 8 509 509 HOH HOH . W 6 HOH D 9 510 510 HOH HOH . W 6 HOH D 10 511 511 HOH HOH . W 6 HOH D 11 512 512 HOH HOH . W 6 HOH D 12 515 515 HOH HOH . W 6 HOH D 13 516 516 HOH HOH . W 6 HOH D 14 517 517 HOH HOH . W 6 HOH D 15 518 518 HOH HOH . W 6 HOH D 16 520 520 HOH HOH . W 6 HOH D 17 521 521 HOH HOH . W 6 HOH D 18 523 523 HOH HOH . W 6 HOH D 19 525 525 HOH HOH . W 6 HOH D 20 530 530 HOH HOH . W 6 HOH D 21 531 531 HOH HOH . W 6 HOH D 22 539 539 HOH HOH . W 6 HOH D 23 540 540 HOH HOH . W 6 HOH D 24 543 543 HOH HOH . W 6 HOH D 25 544 544 HOH HOH . W 6 HOH D 26 545 545 HOH HOH . W 6 HOH D 27 546 546 HOH HOH . W 6 HOH D 28 547 547 HOH HOH . W 6 HOH D 29 548 548 HOH HOH . W 6 HOH D 30 553 553 HOH HOH . W 6 HOH D 31 554 554 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 C1 22B . . . N 3 41.094 13.36 9.672 1 46.65 ? C1 22B 300 B 1 HETATM 2 C C2 22B . . . N 3 41.623 13.28 11.192 1 46.7 ? C2 22B 300 B 1 HETATM 3 C C3 22B . . . N 3 41.522 11.786 11.835 1 46.56 ? C3 22B 300 B 1 HETATM 4 C C4 22B . . . N 3 42.03 10.559 11.51 1 45.16 ? C4 22B 300 B 1 HETATM 5 C C5 22B . . . N 3 41.388 9.239 11.632 1 43.78 ? C5 22B 300 B 1 HETATM 6 C C6 22B . . . N 3 42.168 8.209 11.231 1 43.3 ? C6 22B 300 B 1 HETATM 7 C C7 22B . . . N 3 41.831 6.801 11.23 1 44.36 ? C7 22B 300 B 1 HETATM 8 C C8 22B . . . N 3 42.626 5.786 10.832 1 44.5 ? C8 22B 300 B 1 HETATM 9 C C9 22B . . . N 3 42.163 4.373 10.88 1 44.9 ? C9 22B 300 B 1 HETATM 10 C C10 22B . . . N 3 42.667 3.545 9.917 1 46.29 ? C10 22B 300 B 1 HETATM 11 C C11 22B . . . N 3 42.336 2.119 9.78 1 46.95 ? C11 22B 300 B 1 HETATM 12 C C12 22B . . . N 3 42.725 1.432 8.709 1 47.57 ? C12 22B 300 B 1 HETATM 13 C C13 22B . . . N 3 42.431 0.001 8.451 1 47.87 ? C13 22B 300 B 1 HETATM 14 C C14 22B . . . N 3 42.948 -0.417 7.286 1 49.37 ? C14 22B 300 B 1 HETATM 15 C C15 22B . . . N 3 42.925 -1.71 6.579 1 52.78 ? C15 22B 300 B 1 HETATM 16 C C16 22B . . . N 3 39.585 12.942 9.42 1 46.13 ? C16 22B 300 B 1 HETATM 17 C C17 22B . . . N 3 41.234 14.822 9.11 1 45.79 ? C17 22B 300 B 1 HETATM 18 C C18 22B . . . N 3 39.941 9.047 12.181 1 43.02 ? C18 22B 300 B 1 HETATM 19 C C19 22B . . . N 3 41.149 3.884 11.99 1 44.88 ? C19 22B 300 B 1 HETATM 20 C C20 22B . . . N 3 41.604 -0.913 9.416 1 46.04 ? C20 22B 300 B 1 HETATM 21 C C21 22B . . . N 3 40.759 14.187 12.178 1 47.52 ? C21 22B 300 B 1 HETATM 22 C C22 22B . . . N 3 41.298 14.15 13.693 1 49.55 ? C22 22B 300 B 1 HETATM 23 C C23 22B . . . N 3 40.491 14.713 14.938 1 50.73 ? C23 22B 300 B 1 HETATM 24 C C24 22B . . . N 3 39.092 15.326 14.688 1 49.81 ? C24 22B 300 B 1 HETATM 25 C C25 22B . . . N 3 40.357 13.602 16.009 1 50.26 ? C25 22B 300 B 1 HETATM 26 O O26 22B . . . N 3 41.897 12.556 8.816 1 45.7 ? O26 22B 300 B 1 HETATM 27 O O27 22B . . . N 3 41.373 15.834 15.525 1 51.94 ? O27 22B 300 B 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 25 _model_server_stats.query_time_ms 282 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 27 #