data_5KIR
#
_model_server_result.job_id            hU84Xcc05aVaBcJl659a7g 
_model_server_result.datetime_utc      '2024-10-31 07:27:00' 
_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          5kir 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"P","auth_seq_id":607}' 
#
_entry.id    5KIR 
#
_exptl.entry_id    5KIR 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              18.038 
_entity.id                          6 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'AMMONIUM ION' 
_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            5KIR 
_cell.length_a            126.989 
_cell.length_b            149.422 
_cell.length_c            185.055 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5KIR 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        23 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'I 2 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,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U 
_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 H N N 
? 6 P N N 
#
_pdbx_entity_branch.entity_id    2 
_pdbx_entity_branch.type         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 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 
2 ? 2 3 2 MAN 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
2 n C NAG 1 C 1 NAG A 3 NAG 
2 n C NAG 2 C 2 NAG A 4 NAG 
2 n C MAN 3 C 3 MAN A 5 MAN 
2 n D NAG 1 D 1 NAG B 3 NAG 
2 n D NAG 2 D 2 NAG B 4 NAG 
2 n D MAN 3 D 3 MAN B 5 MAN 
#
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 3 A CYS 36 1_555 A SG CYS 14 A CYS 47 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf2 A SG CYS 4 A CYS 37 1_555 A SG CYS 127 A CYS 159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf3 A SG CYS 8 A CYS 41 1_555 A SG CYS 24 A CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf4 A SG CYS 26 A CYS 59 1_555 A SG CYS 36 A CYS 69 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf5 A SG CYS 537 A CYS 569 1_555 A SG CYS 543 A CYS 575 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf6 B SG CYS 3 B CYS 36 1_555 B SG CYS 14 B CYS 47 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf7 B SG CYS 4 B CYS 37 1_555 B SG CYS 127 B CYS 159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf8 B SG CYS 8 B CYS 41 1_555 B SG CYS 24 B CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf9 B SG CYS 26 B CYS 59 1_555 B SG CYS 36 B CYS 69 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf10 B SG CYS 537 B CYS 569 1_555 B SG CYS 543 B CYS 575 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
covale ? covale1 A ND2 ASN 112 A ASN 144 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? 
covale ? covale2 A ND2 ASN 378 A ASN 410 1_555 G C1 NAG . A NAG 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? 
covale ? covale3 B ND2 ASN 112 B ASN 144 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? 
covale ? covale4 B ND2 ASN 378 B ASN 410 1_555 O C1 NAG . B NAG 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? 
covale ? covale5 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? 
covale ? covale6 C O4 NAG . C NAG 2 1_555 C C1 MAN . C MAN 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? 
covale ? covale7 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? 
covale ? covale8 D O4 NAG . D NAG 2 1_555 D C1 MAN . D MAN 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? 
metalc ? metalc1 A NE2 HIS 356 A HIS 388 1_555 F CO COH . A COH 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.163 ? 
metalc ? metalc2 B NE2 HIS 356 B HIS 388 1_555 N CO COH . B COH 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.167 ? 
#
_chem_comp.formula           'H4 N 1' 
_chem_comp.formula_weight    18.038 
_chem_comp.id                NH4 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'AMMONIUM 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
N HN1 NH4 sing 386 n n 
N HN2 NH4 sing 387 n n 
N HN3 NH4 sing 388 n n 
N HN4 NH4 sing 389 n n 
#
_atom_sites.entry_id                     5KIR 
_atom_sites.fract_transf_matrix[1][1]    0.007875 
_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]    0.006692 
_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]    0.005404 
_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
E 3 RCX A 1 601 1 RCX RCX . 
F 4 COH A 1 602 2 COH COH . 
G 5 NAG A 1 606 6 NAG NAG . 
H 6 NH4 A 1 607 5 NH4 NH4 . 
I 7 GOL A 1 608 1 GOL GOL . 
J 8 PO4 A 1 609 2 PO4 PO4 . 
K 8 PO4 A 1 610 3 PO4 PO4 . 
L 8 PO4 A 1 611 6 PO4 PO4 . 
M 3 RCX B 1 601 1 RCX RCX . 
N 4 COH B 1 602 2 COH COH . 
O 5 NAG B 1 606 6 NAG NAG . 
P 6 NH4 B 1 607 4 NH4 NH4 . 
Q 8 PO4 B 1 608 1 PO4 PO4 . 
R 8 PO4 B 1 609 4 PO4 PO4 . 
S 8 PO4 B 1 610 5 PO4 PO4 . 
T 9 HOH A 1 701 43 HOH HOH . 
T 9 HOH A 2 702 120 HOH HOH . 
T 9 HOH A 3 703 159 HOH HOH . 
T 9 HOH A 4 704 39 HOH HOH . 
T 9 HOH A 5 705 77 HOH HOH . 
T 9 HOH A 6 706 68 HOH HOH . 
T 9 HOH A 7 707 67 HOH HOH . 
T 9 HOH A 8 708 35 HOH HOH . 
T 9 HOH A 9 709 18 HOH HOH . 
T 9 HOH A 10 710 60 HOH HOH . 
T 9 HOH A 11 711 84 HOH HOH . 
T 9 HOH A 12 712 31 HOH HOH . 
T 9 HOH A 13 713 53 HOH HOH . 
T 9 HOH A 14 714 2 HOH HOH . 
T 9 HOH A 15 715 100 HOH HOH . 
T 9 HOH A 16 716 26 HOH HOH . 
T 9 HOH A 17 717 11 HOH HOH . 
T 9 HOH A 18 718 1 HOH HOH . 
T 9 HOH A 19 719 90 HOH HOH . 
T 9 HOH A 20 720 54 HOH HOH . 
T 9 HOH A 21 721 50 HOH HOH . 
T 9 HOH A 22 722 28 HOH HOH . 
T 9 HOH A 23 723 107 HOH HOH . 
T 9 HOH A 24 724 57 HOH HOH . 
T 9 HOH A 25 725 19 HOH HOH . 
T 9 HOH A 26 726 132 HOH HOH . 
T 9 HOH A 27 727 4 HOH HOH . 
T 9 HOH A 28 728 29 HOH HOH . 
T 9 HOH A 29 729 166 HOH HOH . 
T 9 HOH A 30 730 12 HOH HOH . 
T 9 HOH A 31 731 15 HOH HOH . 
T 9 HOH A 32 732 165 HOH HOH . 
T 9 HOH A 33 733 109 HOH HOH . 
T 9 HOH A 34 734 8 HOH HOH . 
T 9 HOH A 35 735 121 HOH HOH . 
T 9 HOH A 36 736 74 HOH HOH . 
T 9 HOH A 37 737 36 HOH HOH . 
T 9 HOH A 38 738 22 HOH HOH . 
T 9 HOH A 39 739 129 HOH HOH . 
T 9 HOH A 40 740 48 HOH HOH . 
T 9 HOH A 41 741 69 HOH HOH . 
T 9 HOH A 42 742 95 HOH HOH . 
T 9 HOH A 43 743 24 HOH HOH . 
T 9 HOH A 44 744 66 HOH HOH . 
T 9 HOH A 45 745 81 HOH HOH . 
T 9 HOH A 46 746 80 HOH HOH . 
T 9 HOH A 47 747 10 HOH HOH . 
T 9 HOH A 48 748 118 HOH HOH . 
T 9 HOH A 49 749 20 HOH HOH . 
T 9 HOH A 50 750 142 HOH HOH . 
T 9 HOH A 51 751 91 HOH HOH . 
T 9 HOH A 52 752 71 HOH HOH . 
T 9 HOH A 53 753 143 HOH HOH . 
T 9 HOH A 54 754 160 HOH HOH . 
T 9 HOH A 55 755 104 HOH HOH . 
T 9 HOH A 56 756 153 HOH HOH . 
T 9 HOH A 57 757 25 HOH HOH . 
T 9 HOH A 58 758 136 HOH HOH . 
T 9 HOH A 59 759 55 HOH HOH . 
T 9 HOH A 60 760 62 HOH HOH . 
T 9 HOH A 61 761 167 HOH HOH . 
T 9 HOH A 62 762 52 HOH HOH . 
T 9 HOH A 63 763 168 HOH HOH . 
T 9 HOH A 64 764 61 HOH HOH . 
T 9 HOH A 65 765 83 HOH HOH . 
T 9 HOH A 66 766 151 HOH HOH . 
T 9 HOH A 67 767 135 HOH HOH . 
T 9 HOH A 68 768 105 HOH HOH . 
T 9 HOH A 69 769 30 HOH HOH . 
T 9 HOH A 70 770 150 HOH HOH . 
T 9 HOH A 71 771 114 HOH HOH . 
T 9 HOH A 72 772 145 HOH HOH . 
T 9 HOH A 73 773 79 HOH HOH . 
T 9 HOH A 74 774 63 HOH HOH . 
T 9 HOH A 75 775 134 HOH HOH . 
T 9 HOH A 76 776 154 HOH HOH . 
T 9 HOH A 77 777 127 HOH HOH . 
T 9 HOH A 78 778 106 HOH HOH . 
T 9 HOH A 79 779 101 HOH HOH . 
T 9 HOH A 80 780 115 HOH HOH . 
T 9 HOH A 81 781 88 HOH HOH . 
T 9 HOH A 82 782 87 HOH HOH . 
T 9 HOH A 83 783 125 HOH HOH . 
T 9 HOH A 84 784 147 HOH HOH . 
U 9 HOH B 1 701 16 HOH HOH . 
U 9 HOH B 2 702 99 HOH HOH . 
U 9 HOH B 3 703 3 HOH HOH . 
U 9 HOH B 4 704 130 HOH HOH . 
U 9 HOH B 5 705 42 HOH HOH . 
U 9 HOH B 6 706 72 HOH HOH . 
U 9 HOH B 7 707 33 HOH HOH . 
U 9 HOH B 8 708 38 HOH HOH . 
U 9 HOH B 9 709 85 HOH HOH . 
U 9 HOH B 10 710 56 HOH HOH . 
U 9 HOH B 11 711 117 HOH HOH . 
U 9 HOH B 12 712 158 HOH HOH . 
U 9 HOH B 13 713 76 HOH HOH . 
U 9 HOH B 14 714 13 HOH HOH . 
U 9 HOH B 15 715 94 HOH HOH . 
U 9 HOH B 16 716 137 HOH HOH . 
U 9 HOH B 17 717 102 HOH HOH . 
U 9 HOH B 18 718 32 HOH HOH . 
U 9 HOH B 19 719 126 HOH HOH . 
U 9 HOH B 20 720 44 HOH HOH . 
U 9 HOH B 21 721 103 HOH HOH . 
U 9 HOH B 22 722 46 HOH HOH . 
U 9 HOH B 23 723 37 HOH HOH . 
U 9 HOH B 24 724 49 HOH HOH . 
U 9 HOH B 25 725 65 HOH HOH . 
U 9 HOH B 26 726 119 HOH HOH . 
U 9 HOH B 27 727 128 HOH HOH . 
U 9 HOH B 28 728 133 HOH HOH . 
U 9 HOH B 29 729 96 HOH HOH . 
U 9 HOH B 30 730 47 HOH HOH . 
U 9 HOH B 31 731 70 HOH HOH . 
U 9 HOH B 32 732 7 HOH HOH . 
U 9 HOH B 33 733 40 HOH HOH . 
U 9 HOH B 34 734 27 HOH HOH . 
U 9 HOH B 35 735 23 HOH HOH . 
U 9 HOH B 36 736 148 HOH HOH . 
U 9 HOH B 37 737 156 HOH HOH . 
U 9 HOH B 38 738 6 HOH HOH . 
U 9 HOH B 39 739 17 HOH HOH . 
U 9 HOH B 40 740 157 HOH HOH . 
U 9 HOH B 41 741 152 HOH HOH . 
U 9 HOH B 42 742 92 HOH HOH . 
U 9 HOH B 43 743 45 HOH HOH . 
U 9 HOH B 44 744 78 HOH HOH . 
U 9 HOH B 45 745 59 HOH HOH . 
U 9 HOH B 46 746 73 HOH HOH . 
U 9 HOH B 47 747 82 HOH HOH . 
U 9 HOH B 48 748 21 HOH HOH . 
U 9 HOH B 49 749 169 HOH HOH . 
U 9 HOH B 50 750 97 HOH HOH . 
U 9 HOH B 51 751 64 HOH HOH . 
U 9 HOH B 52 752 163 HOH HOH . 
U 9 HOH B 53 753 155 HOH HOH . 
U 9 HOH B 54 754 34 HOH HOH . 
U 9 HOH B 55 755 113 HOH HOH . 
U 9 HOH B 56 756 89 HOH HOH . 
U 9 HOH B 57 757 9 HOH HOH . 
U 9 HOH B 58 758 164 HOH HOH . 
U 9 HOH B 59 759 123 HOH HOH . 
U 9 HOH B 60 760 162 HOH HOH . 
U 9 HOH B 61 761 108 HOH HOH . 
U 9 HOH B 62 762 170 HOH HOH . 
U 9 HOH B 63 763 131 HOH HOH . 
U 9 HOH B 64 764 116 HOH HOH . 
U 9 HOH B 65 765 112 HOH HOH . 
U 9 HOH B 66 766 111 HOH HOH . 
U 9 HOH B 67 767 75 HOH HOH . 
U 9 HOH B 68 768 149 HOH HOH . 
U 9 HOH B 69 769 146 HOH HOH . 
U 9 HOH B 70 770 122 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 N N NH4 . . . P 6 24.846 50.394 -8.7 1 55.33 ? N NH4 607 B 1 
HETATM 2 H HN1 NH4 . . . P 6 24.737 49.493 -8.33 1 66.4 ? HN1 NH4 607 B 1 
HETATM 3 H HN2 NH4 . . . P 6 24.131 50.571 -9.346 1 66.4 ? HN2 NH4 607 B 1 
HETATM 4 H HN3 NH4 . . . P 6 24.802 51.052 -7.975 1 66.4 ? HN3 NH4 607 B 1 
HETATM 5 H HN4 NH4 . . . P 6 25.715 50.459 -9.149 1 66.4 ? HN4 NH4 607 B 1 
#
_model_server_stats.io_time_ms              24 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    22 
_model_server_stats.query_time_ms           371 
_model_server_stats.encode_time_ms          10 
_model_server_stats.element_count           5 
#