data_6KD5
#
_model_server_result.job_id            vS8kuphh4PON3hAnsRtL3Q 
_model_server_result.datetime_utc      '2024-11-30 07:49:12' 
_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          6kd5 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":402}' 
#
_entry.id    6KD5 
#
_exptl.entry_id    6KD5 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              96.063 
_entity.id                          6 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'SULFATE ION' 
_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            6KD5 
_cell.length_a            55.84 
_cell.length_b            62.4 
_cell.length_c            171.63 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6KD5 
_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        ? 
_pdbx_struct_assembly.oligomeric_details    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_pdbx_struct_assembly.details               author_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 
_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
? 6 F N N 
? 6 G N N 
? 6 H N N 
? 6 J N N 
? 6 K N N 
? 6 L N N 
? 6 M N N 
#
loop_
_pdbx_entity_branch.entity_id
_pdbx_entity_branch.type
4 oligosaccharide 
5 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 ? 4 2 1 FUC NAG C1 O1 . O6 HO6 . sing 
2 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . 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
4 n D NAG 1 D 1 NAG A 801 NAG 
4 n D FUC 2 D 2 FUC A 802 FUC 
5 n E NAG 1 E 1 NAG B 811 NAG 
5 n E NAG 2 E 2 NAG B 812 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 35 A CYS 204 1_555 A SG CYS 48 A CYS 217 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? 
disulf ? disulf2 A SG CYS 42 A CYS 211 1_555 A SG CYS 57 A CYS 226 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
disulf ? disulf3 A SG CYS 81 A CYS 250 1_555 A SG CYS 135 A CYS 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? 
disulf ? disulf4 A SG CYS 94 A CYS 263 1_555 A SG CYS 145 A CYS 314 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? 
disulf ? disulf5 A SG CYS 148 A CYS 317 1_555 B SG CYS 109 B CYS 434 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? 
disulf ? disulf6 B SG CYS 26 B CYS 351 1_555 B SG CYS 42 B CYS 367 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? 
disulf ? disulf7 B SG CYS 123 B CYS 448 1_555 B SG CYS 192 B CYS 517 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? 
disulf ? disulf8 B SG CYS 155 B CYS 480 1_555 B SG CYS 171 B CYS 496 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf9 B SG CYS 182 B CYS 507 1_555 B SG CYS 210 B CYS 535 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? 
covale ? covale1 A ND2 ASN 86 A ASN 255 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? 
covale ? covale2 B NE2 HIS 41 B HIS 366 1_555 C C1 0QE 6 C 0QE 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.279 ? 
covale ? covale3 B ND2 ASN 80 B ASN 405 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? 
covale ? covale4 B OG SER 186 B SER 511 1_555 C C AR7 5 C AR7 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.422 ? 
covale ? covale5 C C1 DKA 1 C DKA 1 1_555 C N ARG 2 C ARG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale6 C C LYS 4 C LYS 4 1_555 C N AR7 5 C AR7 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.379 ? 
covale ? covale7 C C AR7 5 C AR7 5 1_555 C C1 0QE 6 C 0QE 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.544 ? 
covale ? covale8 D O6 NAG . D NAG 1 1_555 D C1 FUC . D FUC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? 
covale ? covale9 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? 
metalc ? metalc1 A O VAL 40 A VAL 209 1_555 I CA CA . A CA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? 
metalc ? metalc2 A OD1 ASP 43 A ASP 212 1_555 I CA CA . A CA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.485 ? 
metalc ? metalc3 A O VAL 45 A VAL 214 1_555 I CA CA . A CA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.375 ? 
metalc ? metalc4 A OD2 ASP 47 A ASP 216 1_555 I CA CA . A CA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.494 ? 
metalc ? metalc5 A OD2 ASP 53 A ASP 222 1_555 I CA CA . A CA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.302 ? 
metalc ? metalc6 A OE2 GLU 54 A GLU 223 1_555 I CA CA . A CA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.371 ? 
#
_chem_comp.formula           'O4 S -2' 
_chem_comp.formula_weight    96.063 
_chem_comp.id                SO4 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'SULFATE ION' 
_chem_comp.type              non-polymer 
_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
S O1 SO4 doub 406 n n 
S O2 SO4 doub 407 n n 
S O3 SO4 sing 408 n n 
S O4 SO4 sing 409 n n 
#
_atom_sites.entry_id                     6KD5 
_atom_sites.fract_transf_matrix[1][1]    0.017908 
_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]    0.016026 
_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]    0.005826 
_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
F 6 SO4 A 1 401 3 SO4 SO4 . 
G 6 SO4 A 1 402 5 SO4 SO4 . 
H 6 SO4 A 1 403 7 SO4 SO4 . 
I 7 CA A 1 404 11 CA CA . 
J 6 SO4 B 1 601 1 SO4 SO4 . 
K 6 SO4 B 1 602 4 SO4 SO4 . 
L 6 SO4 B 1 603 6 SO4 SO4 . 
M 6 SO4 C 1 101 2 SO4 SO4 . 
N 8 HOH A 1 501 50 HOH HOH . 
N 8 HOH A 2 502 9 HOH HOH . 
N 8 HOH A 3 503 68 HOH HOH . 
N 8 HOH A 4 504 79 HOH HOH . 
N 8 HOH A 5 505 45 HOH HOH . 
N 8 HOH A 6 506 31 HOH HOH . 
N 8 HOH A 7 507 55 HOH HOH . 
N 8 HOH A 8 508 23 HOH HOH . 
N 8 HOH A 9 509 34 HOH HOH . 
N 8 HOH A 10 510 72 HOH HOH . 
N 8 HOH A 11 511 5 HOH HOH . 
N 8 HOH A 12 512 37 HOH HOH . 
N 8 HOH A 13 513 25 HOH HOH . 
N 8 HOH A 14 514 71 HOH HOH . 
N 8 HOH A 15 515 44 HOH HOH . 
N 8 HOH A 16 516 38 HOH HOH . 
N 8 HOH A 17 517 11 HOH HOH . 
N 8 HOH A 18 518 30 HOH HOH . 
N 8 HOH A 19 519 6 HOH HOH . 
N 8 HOH A 20 520 22 HOH HOH . 
N 8 HOH A 21 521 29 HOH HOH . 
N 8 HOH A 22 522 17 HOH HOH . 
N 8 HOH A 23 523 42 HOH HOH . 
N 8 HOH A 24 524 56 HOH HOH . 
N 8 HOH A 25 525 10 HOH HOH . 
N 8 HOH A 26 526 65 HOH HOH . 
N 8 HOH A 27 527 81 HOH HOH . 
N 8 HOH A 28 528 66 HOH HOH . 
O 8 HOH B 1 701 36 HOH HOH . 
O 8 HOH B 2 702 35 HOH HOH . 
O 8 HOH B 3 703 19 HOH HOH . 
O 8 HOH B 4 704 1 HOH HOH . 
O 8 HOH B 5 705 4 HOH HOH . 
O 8 HOH B 6 706 26 HOH HOH . 
O 8 HOH B 7 707 16 HOH HOH . 
O 8 HOH B 8 708 39 HOH HOH . 
O 8 HOH B 9 709 58 HOH HOH . 
O 8 HOH B 10 710 75 HOH HOH . 
O 8 HOH B 11 711 27 HOH HOH . 
O 8 HOH B 12 712 14 HOH HOH . 
O 8 HOH B 13 713 48 HOH HOH . 
O 8 HOH B 14 714 15 HOH HOH . 
O 8 HOH B 15 715 61 HOH HOH . 
O 8 HOH B 16 716 67 HOH HOH . 
O 8 HOH B 17 717 24 HOH HOH . 
O 8 HOH B 18 718 51 HOH HOH . 
O 8 HOH B 19 719 74 HOH HOH . 
O 8 HOH B 20 720 7 HOH HOH . 
O 8 HOH B 21 721 70 HOH HOH . 
O 8 HOH B 22 722 53 HOH HOH . 
O 8 HOH B 23 723 32 HOH HOH . 
O 8 HOH B 24 724 13 HOH HOH . 
O 8 HOH B 25 725 43 HOH HOH . 
O 8 HOH B 26 726 3 HOH HOH . 
O 8 HOH B 27 727 18 HOH HOH . 
O 8 HOH B 28 728 77 HOH HOH . 
O 8 HOH B 29 729 76 HOH HOH . 
O 8 HOH B 30 730 80 HOH HOH . 
O 8 HOH B 31 731 21 HOH HOH . 
O 8 HOH B 32 732 28 HOH HOH . 
O 8 HOH B 33 733 2 HOH HOH . 
O 8 HOH B 34 734 20 HOH HOH . 
O 8 HOH B 35 735 54 HOH HOH . 
O 8 HOH B 36 736 49 HOH HOH . 
O 8 HOH B 37 737 46 HOH HOH . 
O 8 HOH B 38 738 8 HOH HOH . 
O 8 HOH B 39 739 47 HOH HOH . 
O 8 HOH B 40 740 41 HOH HOH . 
O 8 HOH B 41 741 52 HOH HOH . 
O 8 HOH B 42 742 73 HOH HOH . 
O 8 HOH B 43 743 33 HOH HOH . 
O 8 HOH B 44 744 12 HOH HOH . 
O 8 HOH B 45 745 78 HOH HOH . 
O 8 HOH B 46 746 62 HOH HOH . 
O 8 HOH B 47 747 40 HOH HOH . 
O 8 HOH B 48 748 69 HOH HOH . 
O 8 HOH B 49 749 63 HOH HOH . 
O 8 HOH B 50 750 64 HOH HOH . 
O 8 HOH B 51 751 59 HOH HOH . 
O 8 HOH B 52 752 57 HOH HOH . 
O 8 HOH B 53 753 60 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 S S SO4 . . . G 6 10.097 2.307 -51.998 1 63.33 ? S SO4 402 A 1 
HETATM 2 O O1 SO4 . . . G 6 10.359 2.336 -53.419 1 54.8 ? O1 SO4 402 A 1 
HETATM 3 O O2 SO4 . . . G 6 8.726 2.69 -51.753 1 63.3 ? O2 SO4 402 A 1 
HETATM 4 O O3 SO4 . . . G 6 10.305 0.975 -51.483 1 63.3 ? O3 SO4 402 A 1 
HETATM 5 O O4 SO4 . . . G 6 10.993 3.227 -51.335 1 54.12 ? O4 SO4 402 A 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           23 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           314 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           5 
#