data_4XJR # _model_server_result.job_id LQLDWW4v7vtvfTlBazfqJw _model_server_result.datetime_utc '2024-11-18 06:34:19' _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 4xjr # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":606}' # _entry.id 4XJR # _exptl.entry_id 4XJR _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 363.319 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(6R)-2,6-anhydro-3,4,5-trideoxy-6-[(2S)-2,3-dihydroxypropanoyl]-3-fluoro-5-[(2-methylpropanoyl)amino]-4-triaza-1,2-dien -2-ium-1-yl-L-gulonic 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 4XJR _cell.length_a 81.85 _cell.length_b 98.303 _cell.length_c 103.261 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4XJR _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _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,J,K,L,M,N _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 ? 7 H N N ? 7 K N 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 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 3 3 2 BMA NAG C1 O1 . O3 HO3 . 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 C NAG 1 C 1 NAG D 1 NAG 2 n C NAG 2 C 2 NAG D 2 NAG 3 n D NAG 1 D 1 NAG D 4 NAG 3 n D NAG 2 D 2 NAG D 5 NAG 3 n D BMA 3 D 3 BMA D 6 BMA # 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 35 A CYS 159 1_555 A SG CYS 447 A CYS 571 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 66 A CYS 190 1_555 A SG CYS 90 A CYS 214 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? disulf ? disulf3 A SG CYS 132 A CYS 256 1_555 A SG CYS 145 A CYS 269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf4 A SG CYS 226 A CYS 350 1_555 A SG CYS 239 A CYS 363 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf5 A SG CYS 231 A CYS 355 1_555 A SG CYS 345 A CYS 469 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf6 A SG CYS 339 A CYS 463 1_555 A SG CYS 349 A CYS 473 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? disulf ? disulf7 A SG CYS 411 A CYS 535 1_555 A SG CYS 420 A CYS 544 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? disulf ? disulf8 B SG CYS 35 B CYS 159 1_555 B SG CYS 447 B CYS 571 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf9 B SG CYS 66 B CYS 190 1_555 B SG CYS 90 B CYS 214 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf10 B SG CYS 132 B CYS 256 1_555 B SG CYS 145 B CYS 269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf11 B SG CYS 226 B CYS 350 1_555 B SG CYS 239 B CYS 363 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf12 B SG CYS 231 B CYS 355 1_555 B SG CYS 345 B CYS 469 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.009 ? disulf ? disulf13 B SG CYS 339 B CYS 463 1_555 B SG CYS 349 B CYS 473 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf14 B SG CYS 411 B CYS 535 1_555 B SG CYS 420 B CYS 544 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? covale ? covale1 A ND2 ASN 227 A ASN 351 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale2 A ND2 ASN 399 A ASN 523 1_555 G C1 NAG . A NAG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.458 ? covale ? covale3 A OH TYR 406 A TYR 530 1_555 H C2 OEL . A OEL 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.387 ? covale ? covale4 B ND2 ASN 227 B ASN 351 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale5 B ND2 ASN 399 B ASN 523 1_555 J C1 NAG . B NAG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale6 B OH TYR 406 B TYR 530 1_555 K C2 OEL . B OEL 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.385 ? covale ? covale7 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale8 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale9 D O3 NAG . D NAG 2 1_555 D C1 BMA . D BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.465 ? metalc ? metalc1 A O ASP 155 A ASP 279 1_555 E CA CA . A CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.405 ? metalc ? metalc2 A OD1 ASP 155 A ASP 279 1_555 E CA CA . A CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.473 ? metalc ? metalc3 A O SER 158 A SER 282 1_555 E CA CA . A CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? metalc ? metalc4 A OG SER 158 A SER 282 1_555 E CA CA . A CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.496 ? metalc ? metalc5 A O GLY 160 A GLY 284 1_555 E CA CA . A CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.336 ? metalc ? metalc6 A O ALA 192 A ALA 316 1_555 E CA CA . A CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.362 ? metalc ? metalc7 B O ASP 155 B ASP 279 1_555 I CA CA . B CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.412 ? metalc ? metalc8 B OD1 ASP 155 B ASP 279 1_555 I CA CA . B CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.204 ? metalc ? metalc9 B O SER 158 B SER 282 1_555 I CA CA . B CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.254 ? metalc ? metalc10 B OG SER 158 B SER 282 1_555 I CA CA . B CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.774 ? metalc ? metalc11 B O GLY 160 B GLY 284 1_555 I CA CA . B CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.426 ? metalc ? metalc12 B O ALA 192 B ALA 316 1_555 I CA CA . B CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.413 ? # _chem_comp.formula 'C13 H20 F N4 O7 1' _chem_comp.formula_weight 363.319 _chem_comp.id OEL _chem_comp.mon_nstd_flag . _chem_comp.name '(6R)-2,6-anhydro-3,4,5-trideoxy-6-[(2S)-2,3-dihydroxypropanoyl]-3-fluoro-5-[(2-methylpropanoyl)amino]-4-triaza-1,2-dien -2-ium-1-yl-L-gulonic acid' _chem_comp.type l-saccharide _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 O1A C1 OEL doub 300 n n C1 O1B OEL sing 301 n n C1 C2 OEL sing 302 n n C3 C2 OEL sing 303 n n C2 O6 OEL sing 304 n n C2 H2 OEL sing 305 n n F3 C3 OEL sing 306 n n C3 C4 OEL sing 307 n n C3 H3 OEL sing 308 n n N4 C4 OEL sing 309 n n C4 C5 OEL sing 310 n n C4 H4 OEL sing 311 n n C5 C6 OEL sing 312 n n C5 N5 OEL sing 313 n n C5 H5 OEL sing 314 n n N5 C51 OEL sing 315 n n N5 HN5 OEL sing 316 n n O6 C6 OEL sing 317 n n C6 C7 OEL sing 318 n n C6 H6 OEL sing 319 n n C7 C8 OEL sing 320 n n C7 O7 OEL doub 321 n n C9 C8 OEL sing 322 n n C8 O8 OEL sing 323 n n C8 H8 OEL sing 324 n n O8 HO8 OEL sing 325 n n C9 O9 OEL sing 326 n n C9 H9 OEL sing 327 n n C9 H9A OEL sing 328 n n O9 HO9 OEL sing 329 n n O1B HO1B OEL sing 330 n n N42 N41 OEL doub 331 n n N42 HN42 OEL sing 332 n n C51 O52 OEL doub 333 n n C51 C52 OEL sing 334 n n C54 C52 OEL sing 335 n n C52 C53 OEL sing 336 n n C52 H52 OEL sing 337 n n C53 H53 OEL sing 338 n n C53 H53A OEL sing 339 n n C53 H53B OEL sing 340 n n C54 H54 OEL sing 341 n n C54 H54A OEL sing 342 n n C54 H54B OEL sing 343 n n N4 N41 OEL doub 344 n n # _atom_sites.entry_id 4XJR _atom_sites.fract_transf_matrix[1][1] 0.012217 _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] 0.010173 _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] 0.009684 _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 E 4 CA A 1 601 1 CA CA . F 5 SO4 A 1 602 3 SO4 SO4 . G 6 NAG A 1 605 3 NAG NAG . H 7 OEL A 1 606 9 OEL OEL . I 4 CA B 1 601 2 CA CA . J 6 NAG B 1 605 8 NAG NAG . K 7 OEL B 1 606 10 OEL OEL . L 8 EDO B 1 607 1 EDO EDO . M 9 HOH A 1 701 2 HOH HOH . M 9 HOH A 2 702 6 HOH HOH . M 9 HOH A 3 703 8 HOH HOH . N 9 HOH B 1 701 9 HOH HOH . N 9 HOH B 2 702 3 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 OEL . . . H 7 27.399 -17.806 -42.712 1 49.36 ? C1 OEL 606 A 1 HETATM 2 C C2 OEL . . . H 7 26.101 -18.185 -43.405 1 49.13 ? C2 OEL 606 A 1 HETATM 3 C C3 OEL . . . H 7 25.701 -19.626 -43.109 1 48.64 ? C3 OEL 606 A 1 HETATM 4 F F3 OEL . . . H 7 25.336 -19.742 -41.801 1 48.87 ? F3 OEL 606 A 1 HETATM 5 C C4 OEL . . . H 7 24.502 -20.047 -43.953 1 49.08 ? C4 OEL 606 A 1 HETATM 6 N N4 OEL . . . H 7 24.138 -21.41 -43.615 1 51.01 ? N4 OEL 606 A 1 HETATM 7 C C5 OEL . . . H 7 24.804 -19.875 -45.438 1 47 ? C5 OEL 606 A 1 HETATM 8 N N5 OEL . . . H 7 23.652 -20.287 -46.256 1 43.68 ? N5 OEL 606 A 1 HETATM 9 C C6 OEL . . . H 7 25.223 -18.415 -45.642 1 48.64 ? C6 OEL 606 A 1 HETATM 10 O O6 OEL . . . H 7 26.335 -18.072 -44.818 1 49.43 ? O6 OEL 606 A 1 HETATM 11 C C7 OEL . . . H 7 25.648 -18.062 -47.062 1 49.08 ? C7 OEL 606 A 1 HETATM 12 O O7 OEL . . . H 7 24.571 -18.369 -47.932 1 57.28 ? O7 OEL 606 A 1 HETATM 13 C C8 OEL . . . H 7 25.947 -16.586 -47.311 1 48.21 ? C8 OEL 606 A 1 HETATM 14 O O8 OEL . . . H 7 25.782 -16.303 -48.709 1 43.04 ? O8 OEL 606 A 1 HETATM 15 C C9 OEL . . . H 7 25.032 -15.625 -46.564 1 47.69 ? C9 OEL 606 A 1 HETATM 16 O O9 OEL . . . H 7 23.685 -15.903 -46.917 1 48.32 ? O9 OEL 606 A 1 HETATM 17 O O1A OEL . . . H 7 27.789 -18.461 -41.719 1 47.97 ? O1A OEL 606 A 1 HETATM 18 O O1B OEL . . . H 7 28.054 -16.815 -43.142 1 46.37 ? O1B OEL 606 A 1 HETATM 19 N N41 OEL . . . H 7 22.834 -21.83 -43.735 1 52.39 ? N41 OEL 606 A 1 HETATM 20 N N42 OEL . . . H 7 21.747 -22.231 -43.827 1 54.58 ? N42 OEL 606 A 1 HETATM 21 C C51 OEL . . . H 7 23.6 -21.467 -46.92 1 43.91 ? C51 OEL 606 A 1 HETATM 22 C C52 OEL . . . H 7 22.433 -21.834 -47.805 1 43.3 ? C52 OEL 606 A 1 HETATM 23 O O52 OEL . . . H 7 24.475 -22.314 -46.866 1 46.59 ? O52 OEL 606 A 1 HETATM 24 C C53 OEL . . . H 7 21.194 -22.035 -46.941 1 44.31 ? C53 OEL 606 A 1 HETATM 25 C C54 OEL . . . H 7 22.21 -20.844 -48.949 1 42.86 ? C54 OEL 606 A 1 # _model_server_stats.io_time_ms 57 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 319 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 25 #