data_4KRV # _model_server_result.job_id lVlXJHkLhBVHMGoKEO8SEQ _model_server_result.datetime_utc '2024-11-15 01:21:10' _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 4krv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":503}' # _entry.id 4KRV # _exptl.entry_id 4KRV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 301.271 _entity.id 4 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-6-O-sulfo-beta-D-glucopyranose _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 4KRV _cell.length_a 49.282 _cell.length_b 88.903 _cell.length_c 139.734 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4KRV _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _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 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,S 1 1 B,L,M,N,O,P,Q,R,T 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 E N N ? 4 N 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 18 A CYS 134 1_555 A SG CYS 60 A CYS 176 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf2 A SG CYS 131 A CYS 247 1_555 A SG CYS 150 A CYS 266 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 B SG CYS 18 B CYS 134 1_555 B SG CYS 60 B CYS 176 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf4 B SG CYS 131 B CYS 247 1_555 B SG CYS 150 B CYS 266 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? metalc ? metalc1 A OD2 ASP 138 A ASP 254 1_555 C MN MN . A MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.16 ? metalc ? metalc2 A NE2 HIS 228 A HIS 344 1_555 C MN MN . A MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.271 ? metalc ? metalc3 A NE2 HIS 231 A HIS 347 1_555 C MN MN . A MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.262 ? metalc ? metalc4 C MN MN . A MN 501 1_555 D O1A UDH . A UDH 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.132 ? metalc ? metalc5 C MN MN . A MN 501 1_555 D O1B UDH . A UDH 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.235 ? metalc ? metalc6 C MN MN . A MN 501 1_555 S O HOH . A HOH 664 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.197 ? metalc ? metalc7 B OD2 ASP 138 B ASP 254 1_555 L MN MN . B MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.138 ? metalc ? metalc8 B NE2 HIS 228 B HIS 344 1_555 L MN MN . B MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.25 ? metalc ? metalc9 B NE2 HIS 231 B HIS 347 1_555 L MN MN . B MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.24 ? metalc ? metalc10 L MN MN . B MN 501 1_555 M O1B UDH . B UDH 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? metalc ? metalc11 L MN MN . B MN 501 1_555 M O1A UDH . B UDH 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? metalc ? metalc12 L MN MN . B MN 501 1_555 T O HOH . B HOH 671 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.731 ? # _chem_comp.formula 'C8 H15 N O9 S' _chem_comp.formula_weight 301.271 _chem_comp.id NGS _chem_comp.mon_nstd_flag n _chem_comp.name 2-acetamido-2-deoxy-6-O-sulfo-beta-D-glucopyranose _chem_comp.type 'd-saccharide, beta linking' _chem_comp.pdbx_synonyms 2-(acetylamino)-2-deoxy-6-O-sulfo-beta-D-glucopyranose;N-ACETYL-D-GLUCOSAMINE-6-SULFATE;N-acetyl-6-O-sulfo-beta-D-glucosamine;2-acetamido-2-deoxy-6-O-sulfo-beta-D-glucose;2-acetamido-2-deoxy-6-O-sulfo-D-glucose;2-acetamido-2-deoxy-6-O-sulfo-glucose # 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 NGS sing 237 n n C1 O1 NGS sing 238 n n C1 O5 NGS sing 239 n n C1 H1 NGS sing 240 n n C2 C3 NGS sing 241 n n C2 N2 NGS sing 242 n n C2 H2 NGS sing 243 n n C3 C4 NGS sing 244 n n C3 O3 NGS sing 245 n n C3 H3 NGS sing 246 n n C4 C5 NGS sing 247 n n C4 O4 NGS sing 248 n n C4 H4 NGS sing 249 n n C5 C6 NGS sing 250 n n C5 O5 NGS sing 251 n n C5 H5 NGS sing 252 n n C6 O6 NGS sing 253 n n C6 H61 NGS sing 254 n n C6 H62 NGS sing 255 n n O3 HO3 NGS sing 256 n n O6 S NGS sing 257 n n N2 C7 NGS sing 258 n n N2 HN2 NGS sing 259 n n C7 O7 NGS doub 260 n n C7 C8 NGS sing 261 n n C8 H81 NGS sing 262 n n C8 H82 NGS sing 263 n n C8 H83 NGS sing 264 n n S O7A NGS doub 265 n n S O8 NGS sing 266 n n S O9 NGS doub 267 n n O4 HO4 NGS sing 268 n n O1 HO1 NGS sing 269 n n O8 H15 NGS sing 270 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 NGS DGlcpNAc[6S]b 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 NGS N-acetyl-6-sulfo-b-D-glucopyranose 'COMMON NAME' GMML 1 NGS b-D-GlcpNAc6SO3 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 # _atom_sites.entry_id 4KRV _atom_sites.fract_transf_matrix[1][1] 0.020291 _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] 0.011248 _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] 0.007156 _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 MN A 1 501 403 MN MN . D 3 UDH A 1 502 404 UDH UDH . E 4 NGS A 1 503 405 NGS NGS . F 5 SO4 A 1 504 854 SO4 SO4 . G 5 SO4 A 1 505 857 SO4 SO4 . H 5 SO4 A 1 506 860 SO4 SO4 . I 5 SO4 A 1 507 862 SO4 SO4 . J 5 SO4 A 1 508 863 SO4 SO4 . K 5 SO4 A 1 509 865 SO4 SO4 . L 2 MN B 1 501 403 MN MN . M 3 UDH B 1 502 404 UDH UDH . N 4 NGS B 1 503 405 NGS NGS . O 5 SO4 B 1 504 856 SO4 SO4 . P 5 SO4 B 1 505 859 SO4 SO4 . Q 5 SO4 B 1 506 861 SO4 SO4 . R 5 SO4 B 1 507 864 SO4 SO4 . S 6 HOH A 1 601 2 HOH HOH . S 6 HOH A 2 602 7 HOH HOH . S 6 HOH A 3 603 10 HOH HOH . S 6 HOH A 4 604 11 HOH HOH . S 6 HOH A 5 605 12 HOH HOH . S 6 HOH A 6 606 15 HOH HOH . S 6 HOH A 7 607 17 HOH HOH . S 6 HOH A 8 608 18 HOH HOH . S 6 HOH A 9 609 19 HOH HOH . S 6 HOH A 10 610 21 HOH HOH . S 6 HOH A 11 611 24 HOH HOH . S 6 HOH A 12 612 25 HOH HOH . S 6 HOH A 13 613 27 HOH HOH . S 6 HOH A 14 614 32 HOH HOH . S 6 HOH A 15 615 34 HOH HOH . S 6 HOH A 16 616 35 HOH HOH . S 6 HOH A 17 617 37 HOH HOH . S 6 HOH A 18 618 38 HOH HOH . S 6 HOH A 19 619 40 HOH HOH . S 6 HOH A 20 620 42 HOH HOH . S 6 HOH A 21 621 45 HOH HOH . S 6 HOH A 22 622 46 HOH HOH . S 6 HOH A 23 623 49 HOH HOH . S 6 HOH A 24 624 50 HOH HOH . S 6 HOH A 25 625 52 HOH HOH . S 6 HOH A 26 626 54 HOH HOH . S 6 HOH A 27 627 55 HOH HOH . S 6 HOH A 28 628 56 HOH HOH . S 6 HOH A 29 629 57 HOH HOH . S 6 HOH A 30 630 61 HOH HOH . S 6 HOH A 31 631 62 HOH HOH . S 6 HOH A 32 632 64 HOH HOH . S 6 HOH A 33 633 65 HOH HOH . S 6 HOH A 34 634 67 HOH HOH . S 6 HOH A 35 635 68 HOH HOH . S 6 HOH A 36 636 69 HOH HOH . S 6 HOH A 37 637 72 HOH HOH . S 6 HOH A 38 638 74 HOH HOH . S 6 HOH A 39 639 75 HOH HOH . S 6 HOH A 40 640 76 HOH HOH . S 6 HOH A 41 641 81 HOH HOH . S 6 HOH A 42 642 82 HOH HOH . S 6 HOH A 43 643 83 HOH HOH . S 6 HOH A 44 644 84 HOH HOH . S 6 HOH A 45 645 87 HOH HOH . S 6 HOH A 46 646 88 HOH HOH . S 6 HOH A 47 647 90 HOH HOH . S 6 HOH A 48 648 91 HOH HOH . S 6 HOH A 49 649 92 HOH HOH . S 6 HOH A 50 650 93 HOH HOH . S 6 HOH A 51 651 94 HOH HOH . S 6 HOH A 52 652 95 HOH HOH . S 6 HOH A 53 653 97 HOH HOH . S 6 HOH A 54 654 98 HOH HOH . S 6 HOH A 55 655 99 HOH HOH . S 6 HOH A 56 656 101 HOH HOH . S 6 HOH A 57 657 102 HOH HOH . S 6 HOH A 58 658 103 HOH HOH . S 6 HOH A 59 659 107 HOH HOH . S 6 HOH A 60 660 111 HOH HOH . S 6 HOH A 61 661 112 HOH HOH . S 6 HOH A 62 662 113 HOH HOH . S 6 HOH A 63 663 116 HOH HOH . S 6 HOH A 64 664 128 HOH HOH . S 6 HOH A 65 665 119 HOH HOH . S 6 HOH A 66 666 121 HOH HOH . S 6 HOH A 67 667 124 HOH HOH . S 6 HOH A 68 668 126 HOH HOH . S 6 HOH A 69 669 127 HOH HOH . S 6 HOH A 70 670 133 HOH HOH . S 6 HOH A 71 671 138 HOH HOH . S 6 HOH A 72 672 140 HOH HOH . S 6 HOH A 73 673 141 HOH HOH . T 6 HOH B 1 601 1 HOH HOH . T 6 HOH B 2 602 3 HOH HOH . T 6 HOH B 3 603 4 HOH HOH . T 6 HOH B 4 604 5 HOH HOH . T 6 HOH B 5 605 6 HOH HOH . T 6 HOH B 6 606 8 HOH HOH . T 6 HOH B 7 607 9 HOH HOH . T 6 HOH B 8 608 13 HOH HOH . T 6 HOH B 9 609 14 HOH HOH . T 6 HOH B 10 610 16 HOH HOH . T 6 HOH B 11 611 20 HOH HOH . T 6 HOH B 12 612 22 HOH HOH . T 6 HOH B 13 613 23 HOH HOH . T 6 HOH B 14 614 26 HOH HOH . T 6 HOH B 15 615 28 HOH HOH . T 6 HOH B 16 616 29 HOH HOH . T 6 HOH B 17 617 30 HOH HOH . T 6 HOH B 18 618 31 HOH HOH . T 6 HOH B 19 619 33 HOH HOH . T 6 HOH B 20 620 36 HOH HOH . T 6 HOH B 21 621 39 HOH HOH . T 6 HOH B 22 622 41 HOH HOH . T 6 HOH B 23 623 43 HOH HOH . T 6 HOH B 24 624 44 HOH HOH . T 6 HOH B 25 625 47 HOH HOH . T 6 HOH B 26 626 48 HOH HOH . T 6 HOH B 27 627 51 HOH HOH . T 6 HOH B 28 628 53 HOH HOH . T 6 HOH B 29 629 58 HOH HOH . T 6 HOH B 30 630 59 HOH HOH . T 6 HOH B 31 631 60 HOH HOH . T 6 HOH B 32 632 63 HOH HOH . T 6 HOH B 33 633 66 HOH HOH . T 6 HOH B 34 634 70 HOH HOH . T 6 HOH B 35 635 71 HOH HOH . T 6 HOH B 36 636 73 HOH HOH . T 6 HOH B 37 637 77 HOH HOH . T 6 HOH B 38 638 78 HOH HOH . T 6 HOH B 39 639 79 HOH HOH . T 6 HOH B 40 640 80 HOH HOH . T 6 HOH B 41 641 85 HOH HOH . T 6 HOH B 42 642 86 HOH HOH . T 6 HOH B 43 643 89 HOH HOH . T 6 HOH B 44 644 96 HOH HOH . T 6 HOH B 45 645 100 HOH HOH . T 6 HOH B 46 646 104 HOH HOH . T 6 HOH B 47 647 105 HOH HOH . T 6 HOH B 48 648 106 HOH HOH . T 6 HOH B 49 649 108 HOH HOH . T 6 HOH B 50 650 109 HOH HOH . T 6 HOH B 51 651 110 HOH HOH . T 6 HOH B 52 652 114 HOH HOH . T 6 HOH B 53 653 115 HOH HOH . T 6 HOH B 54 654 118 HOH HOH . T 6 HOH B 55 655 120 HOH HOH . T 6 HOH B 56 656 122 HOH HOH . T 6 HOH B 57 657 123 HOH HOH . T 6 HOH B 58 658 125 HOH HOH . T 6 HOH B 59 659 117 HOH HOH . T 6 HOH B 60 660 129 HOH HOH . T 6 HOH B 61 661 130 HOH HOH . T 6 HOH B 62 662 131 HOH HOH . T 6 HOH B 63 663 132 HOH HOH . T 6 HOH B 64 664 134 HOH HOH . T 6 HOH B 65 665 135 HOH HOH . T 6 HOH B 66 666 136 HOH HOH . T 6 HOH B 67 667 137 HOH HOH . T 6 HOH B 68 668 139 HOH HOH . T 6 HOH B 69 669 142 HOH HOH . T 6 HOH B 70 670 143 HOH HOH . T 6 HOH B 71 671 145 HOH HOH . T 6 HOH B 72 672 146 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 NGS . . . N 4 20.154 -15.638 74.021 1 25.23 ? C1 NGS 503 B 1 HETATM 2 C C2 NGS . . . N 4 19.476 -15.274 72.746 1 19.67 ? C2 NGS 503 B 1 HETATM 3 C C3 NGS . . . N 4 19.978 -13.907 72.286 1 22.15 ? C3 NGS 503 B 1 HETATM 4 C C4 NGS . . . N 4 19.917 -12.901 73.404 1 23.86 ? C4 NGS 503 B 1 HETATM 5 C C5 NGS . . . N 4 20.504 -13.431 74.677 1 24.41 ? C5 NGS 503 B 1 HETATM 6 C C6 NGS . . . N 4 20.271 -12.484 75.812 1 24.17 ? C6 NGS 503 B 1 HETATM 7 O O1 NGS . . . N 4 19.654 -16.839 74.469 1 27.29 ? O1 NGS 503 B 1 HETATM 8 O O3 NGS . . . N 4 19.243 -13.449 71.193 1 22.67 ? O3 NGS 503 B 1 HETATM 9 O O5 NGS . . . N 4 19.92 -14.653 74.95 1 24.14 ? O5 NGS 503 B 1 HETATM 10 O O6 NGS . . . N 4 18.97 -12.637 76.265 1 33.81 ? O6 NGS 503 B 1 HETATM 11 N N2 NGS . . . N 4 19.694 -16.307 71.731 1 20.93 ? N2 NGS 503 B 1 HETATM 12 C C7 NGS . . . N 4 18.581 -17.178 71.349 1 21.82 ? C7 NGS 503 B 1 HETATM 13 O O7 NGS . . . N 4 17.49 -17.034 71.88 1 24.42 ? O7 NGS 503 B 1 HETATM 14 C C8 NGS . . . N 4 18.789 -18.254 70.297 1 25.46 ? C8 NGS 503 B 1 HETATM 15 S S NGS . . . N 4 18.522 -11.891 77.449 1 29.86 ? S NGS 503 B 1 HETATM 16 O O7A NGS . . . N 4 19.08 -12.46 78.657 1 26.25 ? O7A NGS 503 B 1 HETATM 17 O O8 NGS . . . N 4 18.864 -10.465 77.321 1 32.67 ? O8 NGS 503 B 1 HETATM 18 O O9 NGS . . . N 4 17.101 -12.064 77.667 1 40.13 ? O9 NGS 503 B 1 HETATM 19 O O4 NGS . . . N 4 20.649 -11.801 73.029 1 17.72 ? O4 NGS 503 B 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 26 _model_server_stats.query_time_ms 327 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 19 #