data_7CCX # _model_server_result.job_id GDrJjYEZZf7o5R3wwG5gwQ _model_server_result.datetime_utc '2024-12-02 07:06:08' _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 7ccx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":401}' # _entry.id 7CCX # _exptl.entry_id 7CCX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 420.413 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '3-[5-{[3-(2-carboxyethyl)-4-(carboxymethyl)-5-methyl-1H-pyrrol-2-yl]methyl}-4-(carboxymethyl)-1H-pyrrol-3-yl]propanoic acid' _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 90 _cell.angle_gamma 90 _cell.entry_id 7CCX _cell.length_a 70.411 _cell.length_b 80.815 _cell.length_c 109.194 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7CCX _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall 'P 2ac 2ab' _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E 1 1 B,D,F 2 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 C N N ? 2 D 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 SG CYS 261 A CYS 261 1_555 C CHA DPM . A DPM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.621 ? covale ? covale2 B SG CYS 261 C CYS 261 1_555 D CHA DPM . C DPM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.613 ? # _chem_comp.formula 'C20 H24 N2 O8' _chem_comp.formula_weight 420.413 _chem_comp.id DPM _chem_comp.mon_nstd_flag . _chem_comp.name '3-[5-{[3-(2-carboxyethyl)-4-(carboxymethyl)-5-methyl-1H-pyrrol-2-yl]methyl}-4-(carboxymethyl)-1H-pyrrol-3-yl]propanoic acid' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'DIPYRROMETHANE COFACTOR' # 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 C1A C2A DPM doub 83 n y C1A CHA DPM sing 84 n n C1A NA DPM sing 85 n y C2A C3A DPM sing 86 n y C2A C5A DPM sing 87 n n C3A C4A DPM doub 88 n y C3A C7A DPM sing 89 n n C4A NA DPM sing 90 n y C4A CHB DPM sing 91 n n C5A C6A DPM sing 92 n n C6A O1A DPM doub 93 n n C6A O2A DPM sing 94 n n C7A C8A DPM sing 95 n n C8A C9A DPM sing 96 n n C9A O3A DPM doub 97 n n C9A O4A DPM sing 98 n n C1B C2B DPM doub 99 n y C1B CHB DPM sing 100 n n C1B NB DPM sing 101 n y C2B C3B DPM sing 102 n y C2B C5B DPM sing 103 n n C3B C4B DPM doub 104 n y C3B C7B DPM sing 105 n n C4B NB DPM sing 106 n y C5B C6B DPM sing 107 n n C6B O1B DPM doub 108 n n C6B O2B DPM sing 109 n n C7B C8B DPM sing 110 n n C8B C9B DPM sing 111 n n C9B O3B DPM doub 112 n n C9B O4B DPM sing 113 n n C5A H5A1 DPM sing 114 n n C5A H5A2 DPM sing 115 n n C7A H7A1 DPM sing 116 n n C7A H7A2 DPM sing 117 n n C8A H8A1 DPM sing 118 n n C8A H8A2 DPM sing 119 n n CHA HCA1 DPM sing 120 n n CHA HCA2 DPM sing 121 n n CHA HCA3 DPM sing 122 n n NA H10 DPM sing 123 n n O2A HOA2 DPM sing 124 n n O4A HOA4 DPM sing 125 n n C4B H4B1 DPM sing 126 n n C5B H5B1 DPM sing 127 n n C5B H5B2 DPM sing 128 n n C7B H7B1 DPM sing 129 n n C7B H7B2 DPM sing 130 n n C8B H8B1 DPM sing 131 n n C8B H8B2 DPM sing 132 n n CHB HCB1 DPM sing 133 n n CHB HCB2 DPM sing 134 n n NB H22 DPM sing 135 n n O2B HOB2 DPM sing 136 n n O4B HOB4 DPM sing 137 n n # _atom_sites.entry_id 7CCX _atom_sites.fract_transf_matrix[1][1] 0.014202 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012374 _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] 0.009158 _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 2 DPM A 1 401 365 DPM DPM . D 2 DPM C 1 401 365 DPM DPM . E 3 HOH A 1 501 109 HOH HOH . E 3 HOH A 2 502 122 HOH HOH . E 3 HOH A 3 503 110 HOH HOH . E 3 HOH A 4 504 166 HOH HOH . E 3 HOH A 5 505 156 HOH HOH . E 3 HOH A 6 506 43 HOH HOH . E 3 HOH A 7 507 8 HOH HOH . E 3 HOH A 8 508 38 HOH HOH . E 3 HOH A 9 509 113 HOH HOH . E 3 HOH A 10 510 41 HOH HOH . E 3 HOH A 11 511 42 HOH HOH . E 3 HOH A 12 512 93 HOH HOH . E 3 HOH A 13 513 80 HOH HOH . E 3 HOH A 14 514 128 HOH HOH . E 3 HOH A 15 515 17 HOH HOH . E 3 HOH A 16 516 52 HOH HOH . E 3 HOH A 17 517 49 HOH HOH . E 3 HOH A 18 518 92 HOH HOH . E 3 HOH A 19 519 123 HOH HOH . E 3 HOH A 20 520 100 HOH HOH . E 3 HOH A 21 521 163 HOH HOH . E 3 HOH A 22 522 136 HOH HOH . E 3 HOH A 23 523 34 HOH HOH . E 3 HOH A 24 524 29 HOH HOH . E 3 HOH A 25 525 6 HOH HOH . E 3 HOH A 26 526 118 HOH HOH . E 3 HOH A 27 527 61 HOH HOH . E 3 HOH A 28 528 47 HOH HOH . E 3 HOH A 29 529 76 HOH HOH . E 3 HOH A 30 530 48 HOH HOH . E 3 HOH A 31 531 19 HOH HOH . E 3 HOH A 32 532 4 HOH HOH . E 3 HOH A 33 533 13 HOH HOH . E 3 HOH A 34 534 5 HOH HOH . E 3 HOH A 35 535 55 HOH HOH . E 3 HOH A 36 536 56 HOH HOH . E 3 HOH A 37 537 106 HOH HOH . E 3 HOH A 38 538 16 HOH HOH . E 3 HOH A 39 539 72 HOH HOH . E 3 HOH A 40 540 75 HOH HOH . E 3 HOH A 41 541 127 HOH HOH . E 3 HOH A 42 542 73 HOH HOH . E 3 HOH A 43 543 148 HOH HOH . E 3 HOH A 44 544 170 HOH HOH . E 3 HOH A 45 545 159 HOH HOH . E 3 HOH A 46 546 124 HOH HOH . E 3 HOH A 47 547 15 HOH HOH . E 3 HOH A 48 548 89 HOH HOH . E 3 HOH A 49 549 99 HOH HOH . E 3 HOH A 50 550 126 HOH HOH . E 3 HOH A 51 551 114 HOH HOH . E 3 HOH A 52 552 74 HOH HOH . E 3 HOH A 53 553 18 HOH HOH . E 3 HOH A 54 554 117 HOH HOH . E 3 HOH A 55 555 82 HOH HOH . E 3 HOH A 56 556 107 HOH HOH . E 3 HOH A 57 557 62 HOH HOH . E 3 HOH A 58 558 115 HOH HOH . E 3 HOH A 59 559 9 HOH HOH . E 3 HOH A 60 560 46 HOH HOH . E 3 HOH A 61 561 25 HOH HOH . E 3 HOH A 62 562 112 HOH HOH . E 3 HOH A 63 563 172 HOH HOH . E 3 HOH A 64 564 121 HOH HOH . E 3 HOH A 65 565 87 HOH HOH . E 3 HOH A 66 566 145 HOH HOH . E 3 HOH A 67 567 31 HOH HOH . E 3 HOH A 68 568 146 HOH HOH . E 3 HOH A 69 569 105 HOH HOH . E 3 HOH A 70 570 44 HOH HOH . E 3 HOH A 71 571 67 HOH HOH . E 3 HOH A 72 572 129 HOH HOH . E 3 HOH A 73 573 147 HOH HOH . E 3 HOH A 74 574 50 HOH HOH . E 3 HOH A 75 575 69 HOH HOH . E 3 HOH A 76 576 139 HOH HOH . E 3 HOH A 77 577 66 HOH HOH . E 3 HOH A 78 578 84 HOH HOH . E 3 HOH A 79 579 165 HOH HOH . E 3 HOH A 80 580 130 HOH HOH . E 3 HOH A 81 581 149 HOH HOH . E 3 HOH A 82 582 143 HOH HOH . E 3 HOH A 83 583 57 HOH HOH . E 3 HOH A 84 584 30 HOH HOH . E 3 HOH A 85 585 12 HOH HOH . E 3 HOH A 86 586 68 HOH HOH . E 3 HOH A 87 587 88 HOH HOH . E 3 HOH A 88 588 152 HOH HOH . E 3 HOH A 89 589 103 HOH HOH . E 3 HOH A 90 590 102 HOH HOH . F 3 HOH C 1 501 28 HOH HOH . F 3 HOH C 2 502 162 HOH HOH . F 3 HOH C 3 503 167 HOH HOH . F 3 HOH C 4 504 7 HOH HOH . F 3 HOH C 5 505 161 HOH HOH . F 3 HOH C 6 506 104 HOH HOH . F 3 HOH C 7 507 3 HOH HOH . F 3 HOH C 8 508 22 HOH HOH . F 3 HOH C 9 509 37 HOH HOH . F 3 HOH C 10 510 64 HOH HOH . F 3 HOH C 11 511 20 HOH HOH . F 3 HOH C 12 512 96 HOH HOH . F 3 HOH C 13 513 14 HOH HOH . F 3 HOH C 14 514 35 HOH HOH . F 3 HOH C 15 515 26 HOH HOH . F 3 HOH C 16 516 21 HOH HOH . F 3 HOH C 17 517 11 HOH HOH . F 3 HOH C 18 518 79 HOH HOH . F 3 HOH C 19 519 116 HOH HOH . F 3 HOH C 20 520 59 HOH HOH . F 3 HOH C 21 521 86 HOH HOH . F 3 HOH C 22 522 1 HOH HOH . F 3 HOH C 23 523 39 HOH HOH . F 3 HOH C 24 524 40 HOH HOH . F 3 HOH C 25 525 36 HOH HOH . F 3 HOH C 26 526 135 HOH HOH . F 3 HOH C 27 527 10 HOH HOH . F 3 HOH C 28 528 171 HOH HOH . F 3 HOH C 29 529 70 HOH HOH . F 3 HOH C 30 530 132 HOH HOH . F 3 HOH C 31 531 168 HOH HOH . F 3 HOH C 32 532 151 HOH HOH . F 3 HOH C 33 533 101 HOH HOH . F 3 HOH C 34 534 2 HOH HOH . F 3 HOH C 35 535 65 HOH HOH . F 3 HOH C 36 536 150 HOH HOH . F 3 HOH C 37 537 157 HOH HOH . F 3 HOH C 38 538 63 HOH HOH . F 3 HOH C 39 539 24 HOH HOH . F 3 HOH C 40 540 54 HOH HOH . F 3 HOH C 41 541 71 HOH HOH . F 3 HOH C 42 542 45 HOH HOH . F 3 HOH C 43 543 164 HOH HOH . F 3 HOH C 44 544 158 HOH HOH . F 3 HOH C 45 545 90 HOH HOH . F 3 HOH C 46 546 108 HOH HOH . F 3 HOH C 47 547 78 HOH HOH . F 3 HOH C 48 548 58 HOH HOH . F 3 HOH C 49 549 51 HOH HOH . F 3 HOH C 50 550 169 HOH HOH . F 3 HOH C 51 551 94 HOH HOH . F 3 HOH C 52 552 81 HOH HOH . F 3 HOH C 53 553 23 HOH HOH . F 3 HOH C 54 554 91 HOH HOH . F 3 HOH C 55 555 32 HOH HOH . F 3 HOH C 56 556 120 HOH HOH . F 3 HOH C 57 557 98 HOH HOH . F 3 HOH C 58 558 53 HOH HOH . F 3 HOH C 59 559 119 HOH HOH . F 3 HOH C 60 560 97 HOH HOH . F 3 HOH C 61 561 153 HOH HOH . F 3 HOH C 62 562 111 HOH HOH . F 3 HOH C 63 563 133 HOH HOH . F 3 HOH C 64 564 83 HOH HOH . F 3 HOH C 65 565 142 HOH HOH . F 3 HOH C 66 566 137 HOH HOH . F 3 HOH C 67 567 138 HOH HOH . F 3 HOH C 68 568 144 HOH HOH . F 3 HOH C 69 569 173 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 C1A DPM . . . C 2 -8.053 -4.749 -21.638 1 34.6 ? C1A DPM 401 A 1 HETATM 2 C C2A DPM . . . C 2 -8.271 -4.006 -20.489 1 36.96 ? C2A DPM 401 A 1 HETATM 3 C C3A DPM . . . C 2 -8.004 -4.8 -19.415 1 37.36 ? C3A DPM 401 A 1 HETATM 4 C C4A DPM . . . C 2 -7.626 -6.052 -19.903 1 38 ? C4A DPM 401 A 1 HETATM 5 C C5A DPM . . . C 2 -8.711 -2.536 -20.462 1 41.63 ? C5A DPM 401 A 1 HETATM 6 C C6A DPM . . . C 2 -10.148 -2.277 -20 1 40.92 ? C6A DPM 401 A 1 HETATM 7 C C7A DPM . . . C 2 -8.127 -4.355 -17.943 1 35.6 ? C7A DPM 401 A 1 HETATM 8 C C8A DPM . . . C 2 -6.754 -4.041 -17.343 1 41.51 ? C8A DPM 401 A 1 HETATM 9 C C9A DPM . . . C 2 -6.882 -3.795 -15.83 1 51.46 ? C9A DPM 401 A 1 HETATM 10 C CHA DPM . . . C 2 -8.217 -4.286 -23.099 1 34.02 ? CHA DPM 401 A 1 HETATM 11 N NA DPM . . . C 2 -7.664 -5.988 -21.26 1 36.86 ? NA DPM 401 A 1 HETATM 12 O O1A DPM . . . C 2 -10.568 -1.083 -19.922 1 44.56 ? O1A DPM 401 A 1 HETATM 13 O O2A DPM . . . C 2 -10.918 -3.226 -19.711 1 39.41 ? O2A DPM 401 A 1 HETATM 14 O O3A DPM . . . C 2 -5.973 -3.187 -15.196 1 43.77 ? O3A DPM 401 A 1 HETATM 15 O O4A DPM . . . C 2 -7.908 -4.203 -15.215 1 53.41 ? O4A DPM 401 A 1 HETATM 16 C C1B DPM . . . C 2 -8.306 -8.385 -19.339 1 34.59 ? C1B DPM 401 A 1 HETATM 17 C C2B DPM . . . C 2 -9.15 -8.862 -18.364 1 36.75 ? C2B DPM 401 A 1 HETATM 18 C C3B DPM . . . C 2 -9.966 -9.775 -18.961 1 36.46 ? C3B DPM 401 A 1 HETATM 19 C C4B DPM . . . C 2 -9.639 -9.832 -20.301 1 34.77 ? C4B DPM 401 A 1 HETATM 20 C C5B DPM . . . C 2 -9.077 -8.454 -16.878 1 38.1 ? C5B DPM 401 A 1 HETATM 21 C C6B DPM . . . C 2 -10.245 -7.633 -16.344 1 34.44 ? C6B DPM 401 A 1 HETATM 22 C C7B DPM . . . C 2 -11.08 -10.602 -18.318 1 33.19 ? C7B DPM 401 A 1 HETATM 23 C C8B DPM . . . C 2 -12.457 -10.123 -18.809 1 34.9 ? C8B DPM 401 A 1 HETATM 24 C C9B DPM . . . C 2 -12.76 -10.449 -20.279 1 35.86 ? C9B DPM 401 A 1 HETATM 25 C CHB DPM . . . C 2 -7.22 -7.331 -19.143 1 33.46 ? CHB DPM 401 A 1 HETATM 26 N NB DPM . . . C 2 -8.612 -8.988 -20.521 1 31.94 ? NB DPM 401 A 1 HETATM 27 O O1B DPM . . . C 2 -10.838 -6.834 -17.098 1 31.63 ? O1B DPM 401 A 1 HETATM 28 O O2B DPM . . . C 2 -10.621 -7.768 -15.143 1 38.75 ? O2B DPM 401 A 1 HETATM 29 O O3B DPM . . . C 2 -13.371 -9.618 -21.015 1 31.51 ? O3B DPM 401 A 1 HETATM 30 O O4B DPM . . . C 2 -12.406 -11.563 -20.762 1 36.87 ? O4B DPM 401 A 1 # _model_server_stats.io_time_ms 129 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 272 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 30 #