data_4DVX # _model_server_result.job_id pY8ChUbLenGLmjjmVRZREw _model_server_result.datetime_utc '2024-11-23 16:48:39' _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 4dvx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"O","auth_seq_id":513}' # _entry.id 4DVX # _exptl.entry_id 4DVX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 238.305 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC 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 91.47 _cell.angle_gamma 90 _cell.entry_id 4DVX _cell.length_a 64.61 _cell.length_b 68.295 _cell.length_c 93.956 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4DVX _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 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,F,G,H,I,J,K,L,M,N,O,CA 1 1 B,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,DA 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 ? 4 O N N ? 4 BA 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 disulf ? disulf1 A SG CYS 11 A CYS 54 1_555 A SG CYS 31 A CYS 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 76 A CYS 119 1_555 A SG CYS 89 A CYS 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf3 A SG CYS 102 A CYS 218 1_555 A SG CYS 131 A CYS 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf4 A SG CYS 112 A CYS 228 1_555 A SG CYS 123 A CYS 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf5 A SG CYS 180 A CYS 296 1_555 A SG CYS 199 A CYS 331 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf6 A SG CYS 245 A CYS 378 1_555 A SG CYS 306 A CYS 445 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf7 A SG CYS 252 A CYS 385 1_555 A SG CYS 279 A CYS 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf8 B SG CYS 11 B CYS 54 1_555 B SG CYS 31 B CYS 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf9 B SG CYS 76 B CYS 119 1_555 B SG CYS 89 B CYS 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf10 B SG CYS 102 B CYS 218 1_555 B SG CYS 131 B CYS 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf11 B SG CYS 112 B CYS 228 1_555 B SG CYS 123 B CYS 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf12 B SG CYS 180 B CYS 296 1_555 B SG CYS 199 B CYS 331 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf13 B SG CYS 245 B CYS 378 1_555 B SG CYS 306 B CYS 445 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf14 B SG CYS 252 B CYS 385 1_555 B SG CYS 279 B CYS 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? covale ? covale1 A ND2 ASN 118 A ASN 234 1_555 C C1 NAG . A NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale2 A ND2 ASN 125 A ASN 241 1_555 D C1 NAG . A NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.492 ? covale ? covale3 A ND2 ASN 146 A ASN 262 1_555 E C1 NAG . A NAG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale4 A ND2 ASN 160 A ASN 276 1_555 F C1 NAG . A NAG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale5 A ND2 ASN 173 A ASN 289 1_555 G C1 NAG . A NAG 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale6 A ND2 ASN 179 A ASN 295 1_555 H C1 NAG . A NAG 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.297 ? covale ? covale7 A ND2 ASN 202 A ASN 334 1_555 I C1 NAG . A NAG 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale8 A ND2 ASN 223 A ASN 355 1_555 J C1 NAG . A NAG 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale9 A ND2 ASN 253 A ASN 386 1_555 K C1 NAG . A NAG 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale10 A ND2 ASN 259 A ASN 392 1_555 L C1 NAG . A NAG 510 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale11 A ND2 ASN 309 A ASN 448 1_555 M C1 NAG . A NAG 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale12 B ND2 ASN 118 B ASN 234 1_555 P C1 NAG . B NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale13 B ND2 ASN 125 B ASN 241 1_555 Q C1 NAG . B NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale14 B ND2 ASN 146 B ASN 262 1_555 R C1 NAG . B NAG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale15 B ND2 ASN 160 B ASN 276 1_555 S C1 NAG . B NAG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.364 ? covale ? covale16 B ND2 ASN 173 B ASN 289 1_555 T C1 NAG . B NAG 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale17 B ND2 ASN 179 B ASN 295 1_555 U C1 NAG . B NAG 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale18 B ND2 ASN 202 B ASN 334 1_555 V C1 NAG . B NAG 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale19 B ND2 ASN 223 B ASN 355 1_555 W C1 NAG . B NAG 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale20 B ND2 ASN 253 B ASN 386 1_555 X C1 NAG . B NAG 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale21 B ND2 ASN 259 B ASN 392 1_555 Y C1 NAG . B NAG 510 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale22 B ND2 ASN 309 B ASN 448 1_555 Z C1 NAG . B NAG 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? # _chem_comp.formula 'C8 H18 N2 O4 S' _chem_comp.formula_weight 238.305 _chem_comp.id EPE _chem_comp.mon_nstd_flag . _chem_comp.name '4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms HEPES # 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 EPE sing 127 n n N1 C6 EPE sing 128 n n N1 C9 EPE sing 129 n n C2 C3 EPE sing 130 n n C2 H21 EPE sing 131 n n C2 H22 EPE sing 132 n n C3 N4 EPE sing 133 n n C3 H31 EPE sing 134 n n C3 H32 EPE sing 135 n n N4 C5 EPE sing 136 n n N4 C7 EPE sing 137 n n C5 C6 EPE sing 138 n n C5 H51 EPE sing 139 n n C5 H52 EPE sing 140 n n C6 H61 EPE sing 141 n n C6 H62 EPE sing 142 n n C7 C8 EPE sing 143 n n C7 H71 EPE sing 144 n n C7 H72 EPE sing 145 n n C8 O8 EPE sing 146 n n C8 H81 EPE sing 147 n n C8 H82 EPE sing 148 n n O8 HO8 EPE sing 149 n n C9 C10 EPE sing 150 n n C9 H91 EPE sing 151 n n C9 H92 EPE sing 152 n n C10 S EPE sing 153 n n C10 H101 EPE sing 154 n n C10 H102 EPE sing 155 n n S O1S EPE doub 156 n n S O2S EPE doub 157 n n S O3S EPE sing 158 n n O3S HOS3 EPE sing 159 n n # _atom_sites.entry_id 4DVX _atom_sites.fract_transf_matrix[1][1] 0.015477 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000397 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014642 _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] 0.010647 _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 NAG A 1 501 734 NAG NAG . D 2 NAG A 1 502 741 NAG NAG . E 2 NAG A 1 503 762 NAG NAG . F 2 NAG A 1 504 776 NAG NAG . G 2 NAG A 1 505 789 NAG NAG . H 2 NAG A 1 506 795 NAG NAG . I 2 NAG A 1 507 834 NAG NAG . J 2 NAG A 1 508 855 NAG NAG . K 2 NAG A 1 509 886 NAG NAG . L 2 NAG A 1 510 892 NAG NAG . M 2 NAG A 1 511 948 NAG NAG . N 3 0M5 A 1 512 1 0M5 0M5 . O 4 EPE A 1 513 1 EPE EPE . P 2 NAG B 1 501 734 NAG NAG . Q 2 NAG B 1 502 741 NAG NAG . R 2 NAG B 1 503 762 NAG NAG . S 2 NAG B 1 504 776 NAG NAG . T 2 NAG B 1 505 789 NAG NAG . U 2 NAG B 1 506 795 NAG NAG . V 2 NAG B 1 507 834 NAG NAG . W 2 NAG B 1 508 855 NAG NAG . X 2 NAG B 1 509 886 NAG NAG . Y 2 NAG B 1 510 892 NAG NAG . Z 2 NAG B 1 511 948 NAG NAG . AA 3 0M5 B 1 512 1 0M5 0M5 . BA 4 EPE B 1 513 1 EPE EPE . CA 5 HOH A 1 601 1 HOH HOH . CA 5 HOH A 2 602 2 HOH HOH . CA 5 HOH A 3 603 3 HOH HOH . CA 5 HOH A 4 604 4 HOH HOH . CA 5 HOH A 5 605 5 HOH HOH . CA 5 HOH A 6 606 6 HOH HOH . CA 5 HOH A 7 607 7 HOH HOH . CA 5 HOH A 8 608 9 HOH HOH . CA 5 HOH A 9 609 10 HOH HOH . CA 5 HOH A 10 610 11 HOH HOH . CA 5 HOH A 11 611 14 HOH HOH . CA 5 HOH A 12 612 17 HOH HOH . CA 5 HOH A 13 613 18 HOH HOH . CA 5 HOH A 14 614 20 HOH HOH . CA 5 HOH A 15 615 21 HOH HOH . CA 5 HOH A 16 616 22 HOH HOH . CA 5 HOH A 17 617 23 HOH HOH . CA 5 HOH A 18 618 25 HOH HOH . CA 5 HOH A 19 619 26 HOH HOH . CA 5 HOH A 20 620 27 HOH HOH . CA 5 HOH A 21 621 30 HOH HOH . CA 5 HOH A 22 622 32 HOH HOH . CA 5 HOH A 23 623 34 HOH HOH . CA 5 HOH A 24 624 36 HOH HOH . CA 5 HOH A 25 625 37 HOH HOH . CA 5 HOH A 26 626 39 HOH HOH . CA 5 HOH A 27 627 40 HOH HOH . CA 5 HOH A 28 628 43 HOH HOH . CA 5 HOH A 29 629 45 HOH HOH . CA 5 HOH A 30 630 46 HOH HOH . CA 5 HOH A 31 631 47 HOH HOH . CA 5 HOH A 32 632 48 HOH HOH . CA 5 HOH A 33 633 49 HOH HOH . CA 5 HOH A 34 634 50 HOH HOH . CA 5 HOH A 35 635 52 HOH HOH . CA 5 HOH A 36 636 53 HOH HOH . CA 5 HOH A 37 637 54 HOH HOH . CA 5 HOH A 38 638 56 HOH HOH . CA 5 HOH A 39 639 57 HOH HOH . CA 5 HOH A 40 640 58 HOH HOH . CA 5 HOH A 41 641 61 HOH HOH . CA 5 HOH A 42 642 62 HOH HOH . CA 5 HOH A 43 643 64 HOH HOH . CA 5 HOH A 44 644 65 HOH HOH . CA 5 HOH A 45 645 69 HOH HOH . CA 5 HOH A 46 646 70 HOH HOH . CA 5 HOH A 47 647 71 HOH HOH . CA 5 HOH A 48 648 73 HOH HOH . CA 5 HOH A 49 649 74 HOH HOH . CA 5 HOH A 50 650 75 HOH HOH . CA 5 HOH A 51 651 76 HOH HOH . CA 5 HOH A 52 652 77 HOH HOH . CA 5 HOH A 53 653 78 HOH HOH . CA 5 HOH A 54 654 79 HOH HOH . CA 5 HOH A 55 655 83 HOH HOH . CA 5 HOH A 56 656 84 HOH HOH . CA 5 HOH A 57 657 86 HOH HOH . CA 5 HOH A 58 658 87 HOH HOH . CA 5 HOH A 59 659 89 HOH HOH . CA 5 HOH A 60 660 90 HOH HOH . CA 5 HOH A 61 661 93 HOH HOH . CA 5 HOH A 62 662 95 HOH HOH . CA 5 HOH A 63 663 96 HOH HOH . DA 5 HOH B 1 601 8 HOH HOH . DA 5 HOH B 2 602 12 HOH HOH . DA 5 HOH B 3 603 13 HOH HOH . DA 5 HOH B 4 604 15 HOH HOH . DA 5 HOH B 5 605 16 HOH HOH . DA 5 HOH B 6 606 19 HOH HOH . DA 5 HOH B 7 607 24 HOH HOH . DA 5 HOH B 8 608 28 HOH HOH . DA 5 HOH B 9 609 29 HOH HOH . DA 5 HOH B 10 610 31 HOH HOH . DA 5 HOH B 11 611 33 HOH HOH . DA 5 HOH B 12 612 35 HOH HOH . DA 5 HOH B 13 613 38 HOH HOH . DA 5 HOH B 14 614 41 HOH HOH . DA 5 HOH B 15 615 42 HOH HOH . DA 5 HOH B 16 616 44 HOH HOH . DA 5 HOH B 17 617 51 HOH HOH . DA 5 HOH B 18 618 55 HOH HOH . DA 5 HOH B 19 619 59 HOH HOH . DA 5 HOH B 20 620 60 HOH HOH . DA 5 HOH B 21 621 63 HOH HOH . DA 5 HOH B 22 622 66 HOH HOH . DA 5 HOH B 23 623 67 HOH HOH . DA 5 HOH B 24 624 68 HOH HOH . DA 5 HOH B 25 625 72 HOH HOH . DA 5 HOH B 26 626 80 HOH HOH . DA 5 HOH B 27 627 81 HOH HOH . DA 5 HOH B 28 628 82 HOH HOH . DA 5 HOH B 29 629 85 HOH HOH . DA 5 HOH B 30 630 88 HOH HOH . DA 5 HOH B 31 631 91 HOH HOH . DA 5 HOH B 32 632 92 HOH HOH . DA 5 HOH B 33 633 94 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 EPE . . . O 4 26.946 7.93 41.575 1 77.61 ? N1 EPE 513 A 1 HETATM 2 C C2 EPE . . . O 4 25.998 7.436 42.581 1 68.18 ? C2 EPE 513 A 1 HETATM 3 C C3 EPE . . . O 4 24.72 6.997 41.873 1 62.79 ? C3 EPE 513 A 1 HETATM 4 N N4 EPE . . . O 4 24.953 6.213 40.671 1 59.99 ? N4 EPE 513 A 1 HETATM 5 C C5 EPE . . . O 4 26.122 6.484 39.854 1 62.23 ? C5 EPE 513 A 1 HETATM 6 C C6 EPE . . . O 4 27.344 6.831 40.691 1 72.32 ? C6 EPE 513 A 1 HETATM 7 C C7 EPE . . . O 4 23.792 5.676 39.99 1 68.61 ? C7 EPE 513 A 1 HETATM 8 C C8 EPE . . . O 4 24.143 5.166 38.597 1 60.28 ? C8 EPE 513 A 1 HETATM 9 O O8 EPE . . . O 4 22.968 5.064 37.827 1 74.31 ? O8 EPE 513 A 1 HETATM 10 C C9 EPE . . . O 4 28.109 8.591 42.183 1 75.27 ? C9 EPE 513 A 1 HETATM 11 C C10 EPE . . . O 4 28.252 8.18 43.642 1 73.3 ? C10 EPE 513 A 1 HETATM 12 S S EPE . . . O 4 29.483 9.196 44.494 1 65.91 ? S EPE 513 A 1 HETATM 13 O O1S EPE . . . O 4 29.623 10.474 43.803 1 59.2 ? O1S EPE 513 A 1 HETATM 14 O O2S EPE . . . O 4 30.768 8.501 44.493 1 72.84 ? O2S EPE 513 A 1 HETATM 15 O O3S EPE . . . O 4 29.053 9.433 45.869 1 68.46 ? O3S EPE 513 A 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 298 _model_server_stats.encode_time_ms 16 _model_server_stats.element_count 15 #