data_2RIP # _model_server_result.job_id 4G9ObkOEZuHMprHaPxzE8Q _model_server_result.datetime_utc '2024-11-21 17:18:24' _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 2rip # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":800}' # _entry.id 2RIP # _exptl.entry_id 2RIP _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 339.392 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (3R,4R)-4-(pyrrolidin-1-ylcarbonyl)-1-(quinoxalin-2-ylcarbonyl)pyrrolidin-3-amine _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 90 _cell.angle_gamma 90 _cell.entry_id 2RIP _cell.length_a 69.22 _cell.length_b 69.22 _cell.length_c 409.22 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2RIP _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 8_775 -y+2,-x+2,-z+1/2 0 -1 0 -1 0 0 0 0 -1 138.44 138.44 204.61 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id H _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 2 oligosaccharide 3 oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 2 3 2 MAN NAG C1 O1 . O4 HO4 . sing 3 ? 2 4 3 MAN MAN C1 O1 . O6 HO6 . sing 4 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n B NAG 1 B 1 NAG C 1085 NAG 2 n B NAG 2 B 2 NAG C 2085 NAG 2 n B MAN 3 B 3 MAN C 3085 MAN 2 n B MAN 4 B 4 MAN C 4085 MAN 3 n C NAG 1 C 1 NAG D 150 NAG 3 n C NAG 2 C 2 NAG D 2150 NAG # 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 291 A CYS 328 1_555 A SG CYS 302 A CYS 339 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf2 A SG CYS 348 A CYS 385 1_555 A SG CYS 357 A CYS 394 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? disulf ? disulf3 A SG CYS 407 A CYS 444 1_555 A SG CYS 410 A CYS 447 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? covale ? covale1 A ND2 ASN 48 A ASN 85 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale2 A ND2 ASN 113 A ASN 150 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale3 A ND2 ASN 182 A ASN 219 1_555 D C1 NAG . A NAG 1219 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale4 A ND2 ASN 192 A ASN 229 1_555 E C1 NAG . A NAG 1229 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale5 A ND2 ASN 244 A ASN 281 1_555 F C1 NAG . A NAG 1281 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale6 A ND2 ASN 284 A ASN 321 1_555 G C1 NAG . A NAG 1321 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale7 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale8 B O4 NAG . B NAG 2 1_555 B C1 MAN . B MAN 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale9 B O6 MAN . B MAN 3 1_555 B C1 MAN . B MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale10 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? # _chem_comp.formula 'C18 H21 N5 O2' _chem_comp.formula_weight 339.392 _chem_comp.id 34Q _chem_comp.mon_nstd_flag . _chem_comp.name (3R,4R)-4-(pyrrolidin-1-ylcarbonyl)-1-(quinoxalin-2-ylcarbonyl)pyrrolidin-3-amine _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 C10 34Q sing 1 n n N1 C1 34Q sing 2 n n N1 C9 34Q sing 3 n n N3 C3 34Q sing 4 n n C4 C2 34Q sing 5 n n C4 O1 34Q doub 6 n n C4 N2 34Q sing 7 n n C5 C6 34Q sing 8 n n C5 N2 34Q sing 9 n n C6 C8 34Q sing 10 n n C7 C8 34Q sing 11 n n C7 N2 34Q sing 12 n n C10 C17 34Q sing 13 n n C10 O2 34Q doub 14 n n C13 N5 34Q doub 15 n y C13 C14 34Q sing 16 n y C13 C12 34Q sing 17 n y C15 C14 34Q sing 18 n y C15 C16 34Q doub 19 n y C17 C18 34Q doub 20 n y C17 N4 34Q sing 21 n y C18 N5 34Q sing 22 n y C14 N4 34Q doub 23 n y C16 C11 34Q sing 24 n y C12 C11 34Q doub 25 n y C1 C2 34Q sing 26 n n C2 C3 34Q sing 27 n n C3 C9 34Q sing 28 n n N3 HN3 34Q sing 29 n n N3 HN3A 34Q sing 30 n n C5 H5 34Q sing 31 n n C5 H5A 34Q sing 32 n n C6 H6 34Q sing 33 n n C6 H6A 34Q sing 34 n n C7 H7 34Q sing 35 n n C7 H7A 34Q sing 36 n n C8 H8 34Q sing 37 n n C8 H8A 34Q sing 38 n n C15 H15 34Q sing 39 n n C18 H18 34Q sing 40 n n C16 H16 34Q sing 41 n n C12 H12 34Q sing 42 n n C11 H11 34Q sing 43 n n C1 H1 34Q sing 44 n n C1 H1A 34Q sing 45 n n C2 H2 34Q sing 46 n n C3 H3 34Q sing 47 n n C9 H9 34Q sing 48 n n C9 H9A 34Q sing 49 n n # _atom_sites.entry_id 2RIP _atom_sites.fract_transf_matrix[1][1] 0.014447 _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] 0.014447 _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] 0.002444 _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 4 NAG A 1 1219 1219 NAG NAG . E 4 NAG A 1 1229 1229 NAG NAG . F 4 NAG A 1 1281 1281 NAG NAG . G 4 NAG A 1 1321 1321 NAG NAG . H 5 34Q A 1 800 800 34Q 34Q . I 6 HOH A 1 1 1 HOH HOH . I 6 HOH A 2 2 2 HOH HOH . I 6 HOH A 3 3 3 HOH HOH . I 6 HOH A 4 4 4 HOH HOH . I 6 HOH A 5 5 5 HOH HOH . I 6 HOH A 6 6 6 HOH HOH . I 6 HOH A 7 7 7 HOH HOH . I 6 HOH A 8 8 8 HOH HOH . I 6 HOH A 9 9 9 HOH HOH . I 6 HOH A 10 10 10 HOH HOH . I 6 HOH A 11 11 11 HOH HOH . I 6 HOH A 12 12 12 HOH HOH . I 6 HOH A 13 13 13 HOH HOH . I 6 HOH A 14 14 14 HOH HOH . I 6 HOH A 15 15 15 HOH HOH . I 6 HOH A 16 16 16 HOH HOH . I 6 HOH A 17 17 17 HOH HOH . I 6 HOH A 18 18 18 HOH HOH . I 6 HOH A 19 19 19 HOH HOH . I 6 HOH A 20 20 20 HOH HOH . I 6 HOH A 21 21 21 HOH HOH . I 6 HOH A 22 22 22 HOH HOH . I 6 HOH A 23 23 23 HOH HOH . I 6 HOH A 24 24 24 HOH HOH . I 6 HOH A 25 25 25 HOH HOH . I 6 HOH A 26 26 26 HOH HOH . I 6 HOH A 27 27 27 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 34Q . . . H 5 63.361 52.932 84.306 1 34.78 ? N1 34Q 800 A 1 HETATM 2 N N3 34Q . . . H 5 62.243 54.55 86.782 1 30.15 ? N3 34Q 800 A 1 HETATM 3 C C4 34Q . . . H 5 64.808 53.29 87.71 1 30.48 ? C4 34Q 800 A 1 HETATM 4 C C5 34Q . . . H 5 65.298 53.167 90.09 1 27.16 ? C5 34Q 800 A 1 HETATM 5 C C6 34Q . . . H 5 64.982 52.184 91.245 1 27.02 ? C6 34Q 800 A 1 HETATM 6 C C7 34Q . . . H 5 63.968 51.428 89.137 1 27.91 ? C7 34Q 800 A 1 HETATM 7 C C8 34Q . . . H 5 63.952 51.212 90.652 1 27.82 ? C8 34Q 800 A 1 HETATM 8 C C10 34Q . . . H 5 63.537 52.754 82.975 1 37.68 ? C10 34Q 800 A 1 HETATM 9 C C13 34Q . . . H 5 60.105 52.026 80.399 1 39.42 ? C13 34Q 800 A 1 HETATM 10 C C15 34Q . . . H 5 59.121 54.134 81.273 1 38.21 ? C15 34Q 800 A 1 HETATM 11 C C17 34Q . . . H 5 62.285 52.42 82.003 1 38.28 ? C17 34Q 800 A 1 HETATM 12 O O2 34Q . . . H 5 64.687 52.916 82.489 1 39.97 ? O2 34Q 800 A 1 HETATM 13 C C18 34Q . . . H 5 62.187 51.199 81.108 1 37.91 ? C18 34Q 800 A 1 HETATM 14 N N5 34Q . . . H 5 61.139 51.043 80.351 1 39.49 ? N5 34Q 800 A 1 HETATM 15 C C14 34Q . . . H 5 60.19 53.107 81.208 1 39.5 ? C14 34Q 800 A 1 HETATM 16 N N4 34Q . . . H 5 61.314 53.299 82.018 1 39.23 ? N4 34Q 800 A 1 HETATM 17 C C16 34Q . . . H 5 57.977 54.012 80.489 1 38.06 ? C16 34Q 800 A 1 HETATM 18 C C12 34Q . . . H 5 58.895 51.883 79.558 1 39.55 ? C12 34Q 800 A 1 HETATM 19 C C11 34Q . . . H 5 57.857 52.833 79.613 1 39.2 ? C11 34Q 800 A 1 HETATM 20 C C1 34Q . . . H 5 64.409 53.438 85.166 1 33.42 ? C1 34Q 800 A 1 HETATM 21 C C2 34Q . . . H 5 64.005 52.81 86.499 1 32.22 ? C2 34Q 800 A 1 HETATM 22 C C3 34Q . . . H 5 62.506 53.124 86.52 1 31.74 ? C3 34Q 800 A 1 HETATM 23 C C9 34Q . . . H 5 62.157 52.687 85.093 1 33.02 ? C9 34Q 800 A 1 HETATM 24 O O1 34Q . . . H 5 65.545 54.269 87.554 1 33.46 ? O1 34Q 800 A 1 HETATM 25 N N2 34Q . . . H 5 64.693 52.659 88.879 1 27.44 ? N2 34Q 800 A 1 # _model_server_stats.io_time_ms 70 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 307 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 25 #