data_4P5I # _model_server_result.job_id SRWmh2NcXQP26GgHRmQ7Vg _model_server_result.datetime_utc '2025-02-26 21:01:24' _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 4p5i # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":301}' # _entry.id 4P5I # _exptl.entry_id 4P5I _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 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 120 _cell.entry_id 4P5I _cell.length_a 76.25 _cell.length_b 76.25 _cell.length_c 281.94 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4P5I _symmetry.cell_setting . _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 65 2 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 _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' 10_665 -y+1,-x+1,-z+1/6 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 38.125 66.034437 46.99 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 NAG _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 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _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 B NAG 1 B 1 NAG A 302 NAG 2 n B NAG 2 B 2 NAG A 303 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 18 A CYS 18 1_555 A SG CYS 227 A CYS 227 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.076 ? disulf ? disulf2 A SG CYS 49 A CYS 49 1_555 A SG CYS 262 A CYS 262 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf3 A SG CYS 150 A CYS 150 1_555 A SG CYS 213 A CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.959 ? covale ? covale1 A ND2 ASN 80 A ASN 80 1_555 C C1 NAG . A NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale2 A ND2 ASN 113 A ASN 113 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.372 ? covale ? covale3 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? # _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 237 n n C1 O1 NAG sing 238 n n C1 O5 NAG sing 239 n n C1 H1 NAG sing 240 n n C2 C3 NAG sing 241 n n C2 N2 NAG sing 242 n n C2 H2 NAG sing 243 n n C3 C4 NAG sing 244 n n C3 O3 NAG sing 245 n n C3 H3 NAG sing 246 n n C4 C5 NAG sing 247 n n C4 O4 NAG sing 248 n n C4 H4 NAG sing 249 n n C5 C6 NAG sing 250 n n C5 O5 NAG sing 251 n n C5 H5 NAG sing 252 n n C6 O6 NAG sing 253 n n C6 H61 NAG sing 254 n n C6 H62 NAG sing 255 n n C7 C8 NAG sing 256 n n C7 N2 NAG sing 257 n n C7 O7 NAG doub 258 n n C8 H81 NAG sing 259 n n C8 H82 NAG sing 260 n n C8 H83 NAG sing 261 n n N2 HN2 NAG sing 262 n n O1 HO1 NAG sing 263 n n O3 HO3 NAG sing 264 n n O4 HO4 NAG sing 265 n n O6 HO6 NAG sing 266 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 4P5I _atom_sites.fract_transf_matrix[1][1] 0.013115 _atom_sites.fract_transf_matrix[1][2] 0.007572 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015144 _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] 0.003547 _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 3 NAG A 1 301 301 NAG NAG . D 4 HOH A 1 401 517 HOH HOH . D 4 HOH A 2 402 454 HOH HOH . D 4 HOH A 3 403 527 HOH HOH . D 4 HOH A 4 404 478 HOH HOH . D 4 HOH A 5 405 409 HOH HOH . D 4 HOH A 6 406 543 HOH HOH . D 4 HOH A 7 407 411 HOH HOH . D 4 HOH A 8 408 496 HOH HOH . D 4 HOH A 9 409 451 HOH HOH . D 4 HOH A 10 410 413 HOH HOH . D 4 HOH A 11 411 573 HOH HOH . D 4 HOH A 12 412 505 HOH HOH . D 4 HOH A 13 413 567 HOH HOH . D 4 HOH A 14 414 545 HOH HOH . D 4 HOH A 15 415 440 HOH HOH . D 4 HOH A 16 416 406 HOH HOH . D 4 HOH A 17 417 563 HOH HOH . D 4 HOH A 18 418 430 HOH HOH . D 4 HOH A 19 419 476 HOH HOH . D 4 HOH A 20 420 408 HOH HOH . D 4 HOH A 21 421 547 HOH HOH . D 4 HOH A 22 422 535 HOH HOH . D 4 HOH A 23 423 509 HOH HOH . D 4 HOH A 24 424 503 HOH HOH . D 4 HOH A 25 425 540 HOH HOH . D 4 HOH A 26 426 477 HOH HOH . D 4 HOH A 27 427 512 HOH HOH . D 4 HOH A 28 428 464 HOH HOH . D 4 HOH A 29 429 520 HOH HOH . D 4 HOH A 30 430 495 HOH HOH . D 4 HOH A 31 431 446 HOH HOH . D 4 HOH A 32 432 414 HOH HOH . D 4 HOH A 33 433 515 HOH HOH . D 4 HOH A 34 434 571 HOH HOH . D 4 HOH A 35 435 493 HOH HOH . D 4 HOH A 36 436 404 HOH HOH . D 4 HOH A 37 437 561 HOH HOH . D 4 HOH A 38 438 526 HOH HOH . D 4 HOH A 39 439 532 HOH HOH . D 4 HOH A 40 440 501 HOH HOH . D 4 HOH A 41 441 537 HOH HOH . D 4 HOH A 42 442 507 HOH HOH . D 4 HOH A 43 443 570 HOH HOH . D 4 HOH A 44 444 514 HOH HOH . D 4 HOH A 45 445 539 HOH HOH . D 4 HOH A 46 446 401 HOH HOH . D 4 HOH A 47 447 402 HOH HOH . D 4 HOH A 48 448 403 HOH HOH . D 4 HOH A 49 449 405 HOH HOH . D 4 HOH A 50 450 407 HOH HOH . D 4 HOH A 51 451 410 HOH HOH . D 4 HOH A 52 452 412 HOH HOH . D 4 HOH A 53 453 415 HOH HOH . D 4 HOH A 54 454 416 HOH HOH . D 4 HOH A 55 455 417 HOH HOH . D 4 HOH A 56 456 418 HOH HOH . D 4 HOH A 57 457 419 HOH HOH . D 4 HOH A 58 458 420 HOH HOH . D 4 HOH A 59 459 421 HOH HOH . D 4 HOH A 60 460 422 HOH HOH . D 4 HOH A 61 461 423 HOH HOH . D 4 HOH A 62 462 424 HOH HOH . D 4 HOH A 63 463 425 HOH HOH . D 4 HOH A 64 464 426 HOH HOH . D 4 HOH A 65 465 427 HOH HOH . D 4 HOH A 66 466 428 HOH HOH . D 4 HOH A 67 467 429 HOH HOH . D 4 HOH A 68 468 431 HOH HOH . D 4 HOH A 69 469 432 HOH HOH . D 4 HOH A 70 470 433 HOH HOH . D 4 HOH A 71 471 434 HOH HOH . D 4 HOH A 72 472 435 HOH HOH . D 4 HOH A 73 473 436 HOH HOH . D 4 HOH A 74 474 437 HOH HOH . D 4 HOH A 75 475 438 HOH HOH . D 4 HOH A 76 476 439 HOH HOH . D 4 HOH A 77 477 441 HOH HOH . D 4 HOH A 78 478 442 HOH HOH . D 4 HOH A 79 479 443 HOH HOH . D 4 HOH A 80 480 444 HOH HOH . D 4 HOH A 81 481 445 HOH HOH . D 4 HOH A 82 482 447 HOH HOH . D 4 HOH A 83 483 448 HOH HOH . D 4 HOH A 84 484 449 HOH HOH . D 4 HOH A 85 485 450 HOH HOH . D 4 HOH A 86 486 452 HOH HOH . D 4 HOH A 87 487 453 HOH HOH . D 4 HOH A 88 488 455 HOH HOH . D 4 HOH A 89 489 456 HOH HOH . D 4 HOH A 90 490 457 HOH HOH . D 4 HOH A 91 491 458 HOH HOH . D 4 HOH A 92 492 459 HOH HOH . D 4 HOH A 93 493 460 HOH HOH . D 4 HOH A 94 494 461 HOH HOH . D 4 HOH A 95 495 462 HOH HOH . D 4 HOH A 96 496 463 HOH HOH . D 4 HOH A 97 497 465 HOH HOH . D 4 HOH A 98 498 466 HOH HOH . D 4 HOH A 99 499 467 HOH HOH . D 4 HOH A 100 500 468 HOH HOH . D 4 HOH A 101 501 469 HOH HOH . D 4 HOH A 102 502 470 HOH HOH . D 4 HOH A 103 503 471 HOH HOH . D 4 HOH A 104 504 472 HOH HOH . D 4 HOH A 105 505 473 HOH HOH . D 4 HOH A 106 506 474 HOH HOH . D 4 HOH A 107 507 475 HOH HOH . D 4 HOH A 108 508 479 HOH HOH . D 4 HOH A 109 509 480 HOH HOH . D 4 HOH A 110 510 481 HOH HOH . D 4 HOH A 111 511 482 HOH HOH . D 4 HOH A 112 512 483 HOH HOH . D 4 HOH A 113 513 484 HOH HOH . D 4 HOH A 114 514 485 HOH HOH . D 4 HOH A 115 515 486 HOH HOH . D 4 HOH A 116 516 487 HOH HOH . D 4 HOH A 117 517 488 HOH HOH . D 4 HOH A 118 518 489 HOH HOH . D 4 HOH A 119 519 490 HOH HOH . D 4 HOH A 120 520 491 HOH HOH . D 4 HOH A 121 521 492 HOH HOH . D 4 HOH A 122 522 494 HOH HOH . D 4 HOH A 123 523 497 HOH HOH . D 4 HOH A 124 524 498 HOH HOH . D 4 HOH A 125 525 499 HOH HOH . D 4 HOH A 126 526 500 HOH HOH . D 4 HOH A 127 527 502 HOH HOH . D 4 HOH A 128 528 504 HOH HOH . D 4 HOH A 129 529 506 HOH HOH . D 4 HOH A 130 530 508 HOH HOH . D 4 HOH A 131 531 510 HOH HOH . D 4 HOH A 132 532 511 HOH HOH . D 4 HOH A 133 533 513 HOH HOH . D 4 HOH A 134 534 516 HOH HOH . D 4 HOH A 135 535 518 HOH HOH . D 4 HOH A 136 536 519 HOH HOH . D 4 HOH A 137 537 521 HOH HOH . D 4 HOH A 138 538 522 HOH HOH . D 4 HOH A 139 539 523 HOH HOH . D 4 HOH A 140 540 524 HOH HOH . D 4 HOH A 141 541 525 HOH HOH . D 4 HOH A 142 542 528 HOH HOH . D 4 HOH A 143 543 529 HOH HOH . D 4 HOH A 144 544 530 HOH HOH . D 4 HOH A 145 545 531 HOH HOH . D 4 HOH A 146 546 533 HOH HOH . D 4 HOH A 147 547 534 HOH HOH . D 4 HOH A 148 548 536 HOH HOH . D 4 HOH A 149 549 538 HOH HOH . D 4 HOH A 150 550 541 HOH HOH . D 4 HOH A 151 551 542 HOH HOH . D 4 HOH A 152 552 544 HOH HOH . D 4 HOH A 153 553 546 HOH HOH . D 4 HOH A 154 554 548 HOH HOH . D 4 HOH A 155 555 549 HOH HOH . D 4 HOH A 156 556 550 HOH HOH . D 4 HOH A 157 557 551 HOH HOH . D 4 HOH A 158 558 552 HOH HOH . D 4 HOH A 159 559 553 HOH HOH . D 4 HOH A 160 560 554 HOH HOH . D 4 HOH A 161 561 555 HOH HOH . D 4 HOH A 162 562 556 HOH HOH . D 4 HOH A 163 563 557 HOH HOH . D 4 HOH A 164 564 558 HOH HOH . D 4 HOH A 165 565 559 HOH HOH . D 4 HOH A 166 566 560 HOH HOH . D 4 HOH A 167 567 562 HOH HOH . D 4 HOH A 168 568 564 HOH HOH . D 4 HOH A 169 569 565 HOH HOH . D 4 HOH A 170 570 566 HOH HOH . D 4 HOH A 171 571 568 HOH HOH . D 4 HOH A 172 572 569 HOH HOH . D 4 HOH A 173 573 572 HOH HOH . D 4 HOH A 174 574 574 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 . . . C 3 27.611 16.753 19.202 1 27.61 ? C1 NAG 301 A 1 HETATM 2 C C2 NAG . . . C 3 27.832 16.689 17.674 1 33.66 ? C2 NAG 301 A 1 HETATM 3 C C3 NAG . . . C 3 28.971 15.742 17.282 1 36.02 ? C3 NAG 301 A 1 HETATM 4 C C4 NAG . . . C 3 30.249 16.139 18.009 1 41.38 ? C4 NAG 301 A 1 HETATM 5 C C5 NAG . . . C 3 29.947 16.157 19.5 1 40.59 ? C5 NAG 301 A 1 HETATM 6 C C6 NAG . . . C 3 31.197 16.551 20.284 1 34.62 ? C6 NAG 301 A 1 HETATM 7 C C7 NAG . . . C 3 25.765 17.19 16.454 1 36.04 ? C7 NAG 301 A 1 HETATM 8 C C8 NAG . . . C 3 24.426 16.644 16.058 1 29.17 ? C8 NAG 301 A 1 HETATM 9 N N2 NAG . . . C 3 26.626 16.307 16.966 1 33.78 ? N2 NAG 301 A 1 HETATM 10 O O3 NAG . . . C 3 29.193 15.784 15.889 1 39.65 ? O3 NAG 301 A 1 HETATM 11 O O4 NAG . . . C 3 31.337 15.263 17.737 1 48.07 ? O4 NAG 301 A 1 HETATM 12 O O5 NAG . . . C 3 28.868 17.037 19.808 1 35.45 ? O5 NAG 301 A 1 HETATM 13 O O6 NAG . . . C 3 31.375 17.945 20.196 1 36.83 ? O6 NAG 301 A 1 HETATM 14 O O7 NAG . . . C 3 26.005 18.391 16.311 1 38.45 ? O7 NAG 301 A 1 # _model_server_stats.io_time_ms 72 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 302 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 14 #