data_6RGR
#
_model_server_result.job_id            X4gA2Pz-VuwNXyM-qt-uoA 
_model_server_result.datetime_utc      '2024-11-26 23:46:43' 
_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          6rgr 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":402}' 
#
_entry.id    6RGR 
#
_exptl.entry_id    6RGR 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              164.156 
_entity.id                          3 
_entity.src_method                  man 
_entity.type                        non-polymer 
_entity.pdbx_description            beta-L-rhamnopyranose 
_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         120 
_cell.entry_id            6RGR 
_cell.length_a            80.499 
_cell.length_b            80.499 
_cell.length_c            113.413 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6RGR 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        152 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 31 2 1' 
#
_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 
_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' 6_555 -x,-x+y,-z+1/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 37.804333 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 3 C N N 
? 3 D 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 279 A CYS 279 1_555 A SG CYS 279 A CYS 279 6_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? 
metalc ? metalc1 A OD1 ASN 134 A ASN 134 1_555 F NA NA . A NA 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.874 ? 
metalc ? metalc2 A O VAL 179 A VAL 179 1_555 I NA NA . A NA 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.39 ? 
metalc ? metalc3 A OD1 ASN 182 A ASN 182 1_555 G NA NA . A NA 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.891 ? 
metalc ? metalc4 A O GLY 185 A GLY 185 1_555 F NA NA . A NA 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.568 ? 
metalc ? metalc5 A O GLY 233 A GLY 233 1_555 G NA NA . A NA 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.656 ? 
metalc ? metalc6 A OE1 GLN 251 A GLN 251 1_555 G NA NA . A NA 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.972 ? 
metalc ? metalc7 A OD2 ASP 339 A ASP 339 1_555 H NA NA . A NA 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.668 ? 
metalc ? metalc8 A OG SER 357 A SER 357 1_555 H NA NA . A NA 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.659 ? 
metalc ? metalc9 G NA NA . A NA 406 1_555 M O HOH . A HOH 628 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.902 ? 
metalc ? metalc10 I NA NA . A NA 408 1_555 M O HOH . A HOH 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.655 ? 
metalc ? metalc11 I NA NA . A NA 408 1_555 M O HOH . A HOH 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.64 ? 
#
_chem_comp.formula           'C6 H12 O5' 
_chem_comp.formula_weight    164.156 
_chem_comp.id                RM4 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              beta-L-rhamnopyranose 
_chem_comp.type              'l-saccharide, beta linking' 
_chem_comp.pdbx_synonyms     beta-L-rhamnose;6-deoxy-beta-L-mannopyranose;L-rhamnose;rhamnose 
#
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
C2 C1 RM4 sing 286 n n 
C1 O5 RM4 sing 287 n n 
C1 O1 RM4 sing 288 n n 
C1 H1 RM4 sing 289 n n 
C3 C2 RM4 sing 290 n n 
C2 O2 RM4 sing 291 n n 
C2 H2 RM4 sing 292 n n 
O3 C3 RM4 sing 293 n n 
C3 C4 RM4 sing 294 n n 
C3 H3 RM4 sing 295 n n 
O4 C4 RM4 sing 296 n n 
C4 C5 RM4 sing 297 n n 
C4 H4 RM4 sing 298 n n 
C5 C6 RM4 sing 299 n n 
C5 O5 RM4 sing 300 n n 
C5 H5 RM4 sing 301 n n 
C6 H61 RM4 sing 302 n n 
C6 H62 RM4 sing 303 n n 
C6 H63 RM4 sing 304 n n 
O1 HO1 RM4 sing 305 n n 
O2 HO2 RM4 sing 306 n n 
O3 HO3 RM4 sing 307 n n 
O4 HO4 RM4 sing 308 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
RM4 LRhapb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 
RM4 b-L-rhamnopyranose 'COMMON NAME' GMML 1 
RM4 b-L-Rhap 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 
RM4 Rha 'SNFG CARBOHYDRATE SYMBOL' GMML 1 
#
_atom_sites.entry_id                     6RGR 
_atom_sites.fract_transf_matrix[1][1]    0.012423 
_atom_sites.fract_transf_matrix[1][2]    0.007172 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.014344 
_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]    0.008817 
_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
B 2 EDO A 1 401 910 EDO EDO . 
C 3 RM4 A 1 402 945 RM4 RM4 . 
D 3 RM4 A 1 403 965 RM4 RM4 . 
E 2 EDO A 1 404 970 EDO EDO . 
F 4 NA A 1 405 990 NA NA . 
G 4 NA A 1 406 991 NA NA . 
H 4 NA A 1 407 992 NA NA . 
I 4 NA A 1 408 993 NA NA . 
J 5 CL A 1 409 994 CL CL . 
K 5 CL A 1 410 995 CL CL . 
L 5 CL A 1 411 996 CL CL . 
M 6 HOH A 1 501 69 HOH HOH . 
M 6 HOH A 2 502 37 HOH HOH . 
M 6 HOH A 3 503 113 HOH HOH . 
M 6 HOH A 4 504 151 HOH HOH . 
M 6 HOH A 5 505 112 HOH HOH . 
M 6 HOH A 6 506 137 HOH HOH . 
M 6 HOH A 7 507 124 HOH HOH . 
M 6 HOH A 8 508 80 HOH HOH . 
M 6 HOH A 9 509 105 HOH HOH . 
M 6 HOH A 10 510 74 HOH HOH . 
M 6 HOH A 11 511 70 HOH HOH . 
M 6 HOH A 12 512 77 HOH HOH . 
M 6 HOH A 13 513 78 HOH HOH . 
M 6 HOH A 14 514 100 HOH HOH . 
M 6 HOH A 15 515 118 HOH HOH . 
M 6 HOH A 16 516 96 HOH HOH . 
M 6 HOH A 17 517 57 HOH HOH . 
M 6 HOH A 18 518 25 HOH HOH . 
M 6 HOH A 19 519 35 HOH HOH . 
M 6 HOH A 20 520 136 HOH HOH . 
M 6 HOH A 21 521 5 HOH HOH . 
M 6 HOH A 22 522 131 HOH HOH . 
M 6 HOH A 23 523 52 HOH HOH . 
M 6 HOH A 24 524 172 HOH HOH . 
M 6 HOH A 25 525 59 HOH HOH . 
M 6 HOH A 26 526 49 HOH HOH . 
M 6 HOH A 27 527 110 HOH HOH . 
M 6 HOH A 28 528 86 HOH HOH . 
M 6 HOH A 29 529 14 HOH HOH . 
M 6 HOH A 30 530 27 HOH HOH . 
M 6 HOH A 31 531 53 HOH HOH . 
M 6 HOH A 32 532 161 HOH HOH . 
M 6 HOH A 33 533 98 HOH HOH . 
M 6 HOH A 34 534 23 HOH HOH . 
M 6 HOH A 35 535 36 HOH HOH . 
M 6 HOH A 36 536 93 HOH HOH . 
M 6 HOH A 37 537 138 HOH HOH . 
M 6 HOH A 38 538 43 HOH HOH . 
M 6 HOH A 39 539 106 HOH HOH . 
M 6 HOH A 40 540 16 HOH HOH . 
M 6 HOH A 41 541 132 HOH HOH . 
M 6 HOH A 42 542 55 HOH HOH . 
M 6 HOH A 43 543 158 HOH HOH . 
M 6 HOH A 44 544 88 HOH HOH . 
M 6 HOH A 45 545 60 HOH HOH . 
M 6 HOH A 46 546 170 HOH HOH . 
M 6 HOH A 47 547 40 HOH HOH . 
M 6 HOH A 48 548 123 HOH HOH . 
M 6 HOH A 49 549 85 HOH HOH . 
M 6 HOH A 50 550 41 HOH HOH . 
M 6 HOH A 51 551 147 HOH HOH . 
M 6 HOH A 52 552 102 HOH HOH . 
M 6 HOH A 53 553 31 HOH HOH . 
M 6 HOH A 54 554 56 HOH HOH . 
M 6 HOH A 55 555 129 HOH HOH . 
M 6 HOH A 56 556 8 HOH HOH . 
M 6 HOH A 57 557 83 HOH HOH . 
M 6 HOH A 58 558 29 HOH HOH . 
M 6 HOH A 59 559 1 HOH HOH . 
M 6 HOH A 60 560 169 HOH HOH . 
M 6 HOH A 61 561 44 HOH HOH . 
M 6 HOH A 62 562 171 HOH HOH . 
M 6 HOH A 63 563 90 HOH HOH . 
M 6 HOH A 64 564 79 HOH HOH . 
M 6 HOH A 65 565 155 HOH HOH . 
M 6 HOH A 66 566 94 HOH HOH . 
M 6 HOH A 67 567 64 HOH HOH . 
M 6 HOH A 68 568 126 HOH HOH . 
M 6 HOH A 69 569 154 HOH HOH . 
M 6 HOH A 70 570 162 HOH HOH . 
M 6 HOH A 71 571 134 HOH HOH . 
M 6 HOH A 72 572 51 HOH HOH . 
M 6 HOH A 73 573 38 HOH HOH . 
M 6 HOH A 74 574 117 HOH HOH . 
M 6 HOH A 75 575 7 HOH HOH . 
M 6 HOH A 76 576 39 HOH HOH . 
M 6 HOH A 77 577 71 HOH HOH . 
M 6 HOH A 78 578 68 HOH HOH . 
M 6 HOH A 79 579 114 HOH HOH . 
M 6 HOH A 80 580 6 HOH HOH . 
M 6 HOH A 81 581 121 HOH HOH . 
M 6 HOH A 82 582 84 HOH HOH . 
M 6 HOH A 83 583 168 HOH HOH . 
M 6 HOH A 84 584 42 HOH HOH . 
M 6 HOH A 85 585 92 HOH HOH . 
M 6 HOH A 86 586 58 HOH HOH . 
M 6 HOH A 87 587 33 HOH HOH . 
M 6 HOH A 88 588 61 HOH HOH . 
M 6 HOH A 89 589 50 HOH HOH . 
M 6 HOH A 90 590 75 HOH HOH . 
M 6 HOH A 91 591 99 HOH HOH . 
M 6 HOH A 92 592 128 HOH HOH . 
M 6 HOH A 93 593 101 HOH HOH . 
M 6 HOH A 94 594 139 HOH HOH . 
M 6 HOH A 95 595 28 HOH HOH . 
M 6 HOH A 96 596 19 HOH HOH . 
M 6 HOH A 97 597 82 HOH HOH . 
M 6 HOH A 98 598 65 HOH HOH . 
M 6 HOH A 99 599 26 HOH HOH . 
M 6 HOH A 100 600 127 HOH HOH . 
M 6 HOH A 101 601 12 HOH HOH . 
M 6 HOH A 102 602 120 HOH HOH . 
M 6 HOH A 103 603 89 HOH HOH . 
M 6 HOH A 104 604 66 HOH HOH . 
M 6 HOH A 105 605 46 HOH HOH . 
M 6 HOH A 106 606 11 HOH HOH . 
M 6 HOH A 107 607 2 HOH HOH . 
M 6 HOH A 108 608 24 HOH HOH . 
M 6 HOH A 109 609 15 HOH HOH . 
M 6 HOH A 110 610 13 HOH HOH . 
M 6 HOH A 111 611 133 HOH HOH . 
M 6 HOH A 112 612 22 HOH HOH . 
M 6 HOH A 113 613 107 HOH HOH . 
M 6 HOH A 114 614 47 HOH HOH . 
M 6 HOH A 115 615 4 HOH HOH . 
M 6 HOH A 116 616 140 HOH HOH . 
M 6 HOH A 117 617 48 HOH HOH . 
M 6 HOH A 118 618 45 HOH HOH . 
M 6 HOH A 119 619 32 HOH HOH . 
M 6 HOH A 120 620 34 HOH HOH . 
M 6 HOH A 121 621 10 HOH HOH . 
M 6 HOH A 122 622 95 HOH HOH . 
M 6 HOH A 123 623 54 HOH HOH . 
M 6 HOH A 124 624 152 HOH HOH . 
M 6 HOH A 125 625 76 HOH HOH . 
M 6 HOH A 126 626 63 HOH HOH . 
M 6 HOH A 127 627 21 HOH HOH . 
M 6 HOH A 128 628 20 HOH HOH . 
M 6 HOH A 129 629 109 HOH HOH . 
M 6 HOH A 130 630 97 HOH HOH . 
M 6 HOH A 131 631 9 HOH HOH . 
M 6 HOH A 132 632 125 HOH HOH . 
M 6 HOH A 133 633 111 HOH HOH . 
M 6 HOH A 134 634 81 HOH HOH . 
M 6 HOH A 135 635 104 HOH HOH . 
M 6 HOH A 136 636 91 HOH HOH . 
M 6 HOH A 137 637 87 HOH HOH . 
M 6 HOH A 138 638 157 HOH HOH . 
M 6 HOH A 139 639 146 HOH HOH . 
M 6 HOH A 140 640 163 HOH HOH . 
M 6 HOH A 141 641 3 HOH HOH . 
M 6 HOH A 142 642 62 HOH HOH . 
M 6 HOH A 143 643 18 HOH HOH . 
M 6 HOH A 144 644 153 HOH HOH . 
M 6 HOH A 145 645 135 HOH HOH . 
M 6 HOH A 146 646 17 HOH HOH . 
M 6 HOH A 147 647 167 HOH HOH . 
M 6 HOH A 148 648 148 HOH HOH . 
M 6 HOH A 149 649 160 HOH HOH . 
M 6 HOH A 150 650 165 HOH HOH . 
M 6 HOH A 151 651 156 HOH HOH . 
M 6 HOH A 152 652 143 HOH HOH . 
M 6 HOH A 153 653 150 HOH HOH . 
M 6 HOH A 154 654 130 HOH HOH . 
M 6 HOH A 155 655 67 HOH HOH . 
M 6 HOH A 156 656 122 HOH HOH . 
M 6 HOH A 157 657 142 HOH HOH . 
M 6 HOH A 158 658 108 HOH HOH . 
M 6 HOH A 159 659 145 HOH HOH . 
M 6 HOH A 160 660 144 HOH HOH . 
M 6 HOH A 161 661 164 HOH HOH . 
M 6 HOH A 162 662 159 HOH HOH . 
M 6 HOH A 163 663 116 HOH HOH . 
M 6 HOH A 164 664 119 HOH HOH . 
M 6 HOH A 165 665 30 HOH HOH . 
M 6 HOH A 166 666 149 HOH HOH . 
M 6 HOH A 167 667 72 HOH HOH . 
M 6 HOH A 168 668 166 HOH HOH . 
M 6 HOH A 169 669 141 HOH HOH . 
M 6 HOH A 170 670 73 HOH HOH . 
M 6 HOH A 171 671 115 HOH HOH . 
M 6 HOH A 172 672 103 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 RM4 . . . C 3 3.504 -45.722 20.456 1 28.75 ? C1 RM4 402 A 1 
HETATM 2 C C2 RM4 . . . C 3 2.295 -45.757 19.514 1 28.62 ? C2 RM4 402 A 1 
HETATM 3 C C3 RM4 . . . C 3 1.082 -46.243 20.326 1 29.35 ? C3 RM4 402 A 1 
HETATM 4 C C4 RM4 . . . C 3 0.922 -45.349 21.544 1 32.69 ? C4 RM4 402 A 1 
HETATM 5 C C5 RM4 . . . C 3 2.213 -45.208 22.368 1 33.78 ? C5 RM4 402 A 1 
HETATM 6 C C6 RM4 . . . C 3 2.097 -44.181 23.493 1 35.9 ? C6 RM4 402 A 1 
HETATM 7 O O1 RM4 . . . C 3 4.673 -45.275 19.804 1 28.22 ? O1 RM4 402 A 1 
HETATM 8 O O2 RM4 . . . C 3 2.035 -44.465 18.947 1 28.45 ? O2 RM4 402 A 1 
HETATM 9 O O3 RM4 . . . C 3 -0.128 -46.163 19.558 1 28.73 ? O3 RM4 402 A 1 
HETATM 10 O O4 RM4 . . . C 3 -0.13 -45.91 22.319 1 36.14 ? O4 RM4 402 A 1 
HETATM 11 O O5 RM4 . . . C 3 3.282 -44.795 21.52 1 31.64 ? O5 RM4 402 A 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           31 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           333 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           11 
#