data_3V8C # _model_server_result.job_id cNWOPRAH9oOauzAiRaiVSQ _model_server_result.datetime_utc '2024-11-09 01:54:59' _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 3v8c # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":508}' # _entry.id 3V8C # _exptl.entry_id 3V8C _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 3 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 7 _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 3V8C _cell.length_a 49.54 _cell.length_b 79.4 _cell.length_c 139.65 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3V8C _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,O,P,Q,R,S,T,U,V _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 D N N ? 3 E N N ? 3 J N N ? 3 M N N ? 3 N N N ? 3 P N N ? 3 S N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 MAN _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O2 _pdbx_entity_branch_link.leaving_atom_id_2 HO2 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order 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 MAN 1 C 1 MAN B 808 MAN 2 n C NAG 2 C 2 NAG B 809 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 26 A CYS 261 1_555 A SG CYS 86 A CYS 321 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 A SG CYS 132 A CYS 367 1_555 A SG CYS 190 A CYS 425 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 B SG CYS 26 B CYS 261 1_555 B SG CYS 86 B CYS 321 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf4 B SG CYS 132 B CYS 367 1_555 B SG CYS 190 B CYS 425 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.994 ? covale ? covale1 C O2 MAN . C MAN 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.532 ? # _chem_comp.formula 'C8 H15 N O6' _chem_comp.formula_weight 221.208 _chem_comp.id NAG _chem_comp.mon_nstd_flag . _chem_comp.name 2-acetamido-2-deoxy-beta-D-glucopyranose _chem_comp.type 'd-saccharide, beta linking' _chem_comp.pdbx_synonyms N-acetyl-beta-D-glucosamine;2-acetamido-2-deoxy-beta-D-glucose;2-acetamido-2-deoxy-D-glucose;2-acetamido-2-deoxy-glucose;N-ACETYL-D-GLUCOSAMINE # 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 NAG sing 298 n n C1 O1 NAG sing 299 n n C1 O5 NAG sing 300 n n C1 H1 NAG sing 301 n n C2 C3 NAG sing 302 n n C2 N2 NAG sing 303 n n C2 H2 NAG sing 304 n n C3 C4 NAG sing 305 n n C3 O3 NAG sing 306 n n C3 H3 NAG sing 307 n n C4 C5 NAG sing 308 n n C4 O4 NAG sing 309 n n C4 H4 NAG sing 310 n n C5 C6 NAG sing 311 n n C5 O5 NAG sing 312 n n C5 H5 NAG sing 313 n n C6 O6 NAG sing 314 n n C6 H61 NAG sing 315 n n C6 H62 NAG sing 316 n n C7 C8 NAG sing 317 n n C7 N2 NAG sing 318 n n C7 O7 NAG doub 319 n n C8 H81 NAG sing 320 n n C8 H82 NAG sing 321 n n C8 H83 NAG sing 322 n n N2 HN2 NAG sing 323 n n O1 HO1 NAG sing 324 n n O3 HO3 NAG sing 325 n n O4 HO4 NAG sing 326 n n O6 HO6 NAG sing 327 n n # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.identifier _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version NAG DGlcpNAcb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 NAG N-acetyl-b-D-glucopyranosamine 'COMMON NAME' GMML 1 NAG b-D-GlcpNAc 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 NAG GlcNAc 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 3V8C _atom_sites.fract_transf_matrix[1][1] 0.020186 _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] 0.012594 _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] 0.007161 _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 3 NAG A 1 501 802 NAG NAG . E 3 NAG A 1 502 803 NAG NAG . F 4 GOL A 1 509 2 GOL GOL . G 5 MAN A 1 503 804 MAN MAN . H 4 GOL A 1 510 3 GOL GOL . I 5 MAN A 1 504 805 MAN MAN . J 3 NAG A 1 505 806 NAG NAG . K 6 GAL A 1 506 807 GAL GAL . L 5 MAN A 1 507 808 MAN MAN . M 3 NAG A 1 508 809 NAG NAG . N 3 NAG B 1 501 802 NAG NAG . O 4 GOL B 1 509 1 GOL GOL . P 3 NAG B 1 502 803 NAG NAG . Q 5 MAN B 1 503 804 MAN MAN . R 5 MAN B 1 504 805 MAN MAN . S 3 NAG B 1 505 806 NAG NAG . T 6 GAL B 1 506 807 GAL GAL . U 7 HOH A 1 601 1 HOH HOH . U 7 HOH A 2 602 4 HOH HOH . U 7 HOH A 3 603 5 HOH HOH . U 7 HOH A 4 604 6 HOH HOH . U 7 HOH A 5 605 11 HOH HOH . U 7 HOH A 6 606 13 HOH HOH . U 7 HOH A 7 607 14 HOH HOH . U 7 HOH A 8 608 16 HOH HOH . U 7 HOH A 9 609 17 HOH HOH . U 7 HOH A 10 610 18 HOH HOH . U 7 HOH A 11 611 19 HOH HOH . U 7 HOH A 12 612 20 HOH HOH . U 7 HOH A 13 613 22 HOH HOH . U 7 HOH A 14 614 30 HOH HOH . U 7 HOH A 15 615 31 HOH HOH . U 7 HOH A 16 616 32 HOH HOH . U 7 HOH A 17 617 33 HOH HOH . U 7 HOH A 18 618 35 HOH HOH . U 7 HOH A 19 619 36 HOH HOH . U 7 HOH A 20 620 38 HOH HOH . U 7 HOH A 21 621 39 HOH HOH . U 7 HOH A 22 622 40 HOH HOH . U 7 HOH A 23 623 46 HOH HOH . U 7 HOH A 24 624 48 HOH HOH . U 7 HOH A 25 625 51 HOH HOH . U 7 HOH A 26 626 52 HOH HOH . U 7 HOH A 27 627 53 HOH HOH . U 7 HOH A 28 628 54 HOH HOH . U 7 HOH A 29 629 60 HOH HOH . U 7 HOH A 30 630 61 HOH HOH . U 7 HOH A 31 631 63 HOH HOH . U 7 HOH A 32 632 64 HOH HOH . U 7 HOH A 33 633 65 HOH HOH . U 7 HOH A 34 634 67 HOH HOH . U 7 HOH A 35 635 75 HOH HOH . U 7 HOH A 36 636 83 HOH HOH . U 7 HOH A 37 637 84 HOH HOH . U 7 HOH A 38 638 85 HOH HOH . U 7 HOH A 39 639 86 HOH HOH . U 7 HOH A 40 640 87 HOH HOH . U 7 HOH A 41 641 88 HOH HOH . U 7 HOH A 42 642 89 HOH HOH . U 7 HOH A 43 643 92 HOH HOH . U 7 HOH A 44 644 93 HOH HOH . U 7 HOH A 45 645 95 HOH HOH . U 7 HOH A 46 646 96 HOH HOH . U 7 HOH A 47 647 97 HOH HOH . U 7 HOH A 48 648 98 HOH HOH . U 7 HOH A 49 649 448 HOH HOH . U 7 HOH A 50 650 449 HOH HOH . V 7 HOH B 1 601 7 HOH HOH . V 7 HOH B 2 602 8 HOH HOH . V 7 HOH B 3 603 9 HOH HOH . V 7 HOH B 4 604 10 HOH HOH . V 7 HOH B 5 605 12 HOH HOH . V 7 HOH B 6 606 15 HOH HOH . V 7 HOH B 7 607 21 HOH HOH . V 7 HOH B 8 608 23 HOH HOH . V 7 HOH B 9 609 24 HOH HOH . V 7 HOH B 10 610 25 HOH HOH . V 7 HOH B 11 611 26 HOH HOH . V 7 HOH B 12 612 27 HOH HOH . V 7 HOH B 13 613 28 HOH HOH . V 7 HOH B 14 614 29 HOH HOH . V 7 HOH B 15 615 34 HOH HOH . V 7 HOH B 16 616 37 HOH HOH . V 7 HOH B 17 617 41 HOH HOH . V 7 HOH B 18 618 42 HOH HOH . V 7 HOH B 19 619 43 HOH HOH . V 7 HOH B 20 620 44 HOH HOH . V 7 HOH B 21 621 45 HOH HOH . V 7 HOH B 22 622 47 HOH HOH . V 7 HOH B 23 623 49 HOH HOH . V 7 HOH B 24 624 50 HOH HOH . V 7 HOH B 25 625 55 HOH HOH . V 7 HOH B 26 626 56 HOH HOH . V 7 HOH B 27 627 57 HOH HOH . V 7 HOH B 28 628 58 HOH HOH . V 7 HOH B 29 629 59 HOH HOH . V 7 HOH B 30 630 62 HOH HOH . V 7 HOH B 31 631 66 HOH HOH . V 7 HOH B 32 632 68 HOH HOH . V 7 HOH B 33 633 69 HOH HOH . V 7 HOH B 34 634 70 HOH HOH . V 7 HOH B 35 635 71 HOH HOH . V 7 HOH B 36 636 72 HOH HOH . V 7 HOH B 37 637 73 HOH HOH . V 7 HOH B 38 638 74 HOH HOH . V 7 HOH B 39 639 76 HOH HOH . V 7 HOH B 40 640 77 HOH HOH . V 7 HOH B 41 641 78 HOH HOH . V 7 HOH B 42 642 79 HOH HOH . V 7 HOH B 43 643 80 HOH HOH . V 7 HOH B 44 644 81 HOH HOH . V 7 HOH B 45 645 82 HOH HOH . V 7 HOH B 46 646 90 HOH HOH . V 7 HOH B 47 647 91 HOH HOH . V 7 HOH B 48 648 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 C C1 NAG . . . M 3 16.554 -0.397 13.743 1 87.92 ? C1 NAG 508 A 1 HETATM 2 C C2 NAG . . . M 3 16.079 0.647 14.767 1 87.09 ? C2 NAG 508 A 1 HETATM 3 C C3 NAG . . . M 3 14.616 0.343 15.018 1 86.84 ? C3 NAG 508 A 1 HETATM 4 C C4 NAG . . . M 3 13.91 0.67 13.697 1 87.08 ? C4 NAG 508 A 1 HETATM 5 C C5 NAG . . . M 3 14.559 0.034 12.449 1 86.78 ? C5 NAG 508 A 1 HETATM 6 C C6 NAG . . . M 3 14.139 0.788 11.184 1 86.09 ? C6 NAG 508 A 1 HETATM 7 C C7 NAG . . . M 3 17.873 0.294 16.624 1 86.18 ? C7 NAG 508 A 1 HETATM 8 C C8 NAG . . . M 3 18.333 -1.088 16.21 1 86.26 ? C8 NAG 508 A 1 HETATM 9 N N2 NAG . . . M 3 16.902 0.952 15.959 1 86.66 ? N2 NAG 508 A 1 HETATM 10 O O3 NAG . . . M 3 14.121 1.122 16.081 1 86.1 ? O3 NAG 508 A 1 HETATM 11 O O4 NAG . . . M 3 12.568 0.25 13.775 1 88.12 ? O4 NAG 508 A 1 HETATM 12 O O5 NAG . . . M 3 15.981 -0.052 12.486 1 87.44 ? O5 NAG 508 A 1 HETATM 13 O O6 NAG . . . M 3 15.192 1.602 10.707 1 84.42 ? O6 NAG 508 A 1 HETATM 14 O O7 NAG . . . M 3 18.408 0.816 17.604 1 85.52 ? O7 NAG 508 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 313 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 14 #