data_1RGU
#
_model_server_result.job_id            8eHIZLSoi16KdrgL0IEqlw 
_model_server_result.datetime_utc      '2024-11-24 14:05:55' 
_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          1rgu 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":999}' 
#
_entry.id    1RGU 
#
_exptl.entry_id    1RGU 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              202.34 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            SPERMINE 
_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         90 
_cell.entry_id            1RGU 
_cell.length_a            49.716 
_cell.length_b            104.557 
_cell.length_c            193.18 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1RGU 
_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
? dimeric 2 author_defined_assembly 1 
? dimeric 2 author_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,E,F,G,J,L 1 1 
B,D,H,I,K,M 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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      4 
_struct_asym.id                             F 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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
metalc ? metalc1 A O3' DG 4 D DG 806 1_555 E V VO4 . A VO4 699 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.75 ? 
metalc ? metalc2 B O3' DG 4 F DG 806 1_555 H V VO4 . B VO4 699 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.815 ? 
metalc ? metalc3 C NE2 HIS 140 A HIS 263 1_555 E V VO4 . A VO4 699 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? 
metalc ? metalc4 E V VO4 . A VO4 699 1_555 G O4 OTS . A OTS 995 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.925 ? 
metalc ? metalc5 D NE2 HIS 140 B HIS 263 1_555 H V VO4 . B VO4 699 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.989 ? 
metalc ? metalc6 H V VO4 . B VO4 699 1_555 I O4 OTS . B OTS 996 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.972 ? 
#
_chem_comp.formula           'C10 H26 N4' 
_chem_comp.formula_weight    202.34 
_chem_comp.id                SPM 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              SPERMINE 
_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
N1 C2 SPM sing 426 n n 
N1 HN11 SPM sing 427 n n 
N1 HN12 SPM sing 428 n n 
C2 C3 SPM sing 429 n n 
C2 H21 SPM sing 430 n n 
C2 H22 SPM sing 431 n n 
C3 C4 SPM sing 432 n n 
C3 H31 SPM sing 433 n n 
C3 H32 SPM sing 434 n n 
C4 N5 SPM sing 435 n n 
C4 H41 SPM sing 436 n n 
C4 H42 SPM sing 437 n n 
N5 C6 SPM sing 438 n n 
N5 HN5 SPM sing 439 n n 
C6 C7 SPM sing 440 n n 
C6 H61 SPM sing 441 n n 
C6 H62 SPM sing 442 n n 
C7 C8 SPM sing 443 n n 
C7 H71 SPM sing 444 n n 
C7 H72 SPM sing 445 n n 
C8 C9 SPM sing 446 n n 
C8 H81 SPM sing 447 n n 
C8 H82 SPM sing 448 n n 
C9 N10 SPM sing 449 n n 
C9 H91 SPM sing 450 n n 
C9 H92 SPM sing 451 n n 
N10 C11 SPM sing 452 n n 
N10 HN0 SPM sing 453 n n 
C11 C12 SPM sing 454 n n 
C11 H111 SPM sing 455 n n 
C11 H112 SPM sing 456 n n 
C12 C13 SPM sing 457 n n 
C12 H121 SPM sing 458 n n 
C12 H122 SPM sing 459 n n 
C13 N14 SPM sing 460 n n 
C13 H131 SPM sing 461 n n 
C13 H132 SPM sing 462 n n 
N14 HN41 SPM sing 463 n n 
N14 HN42 SPM sing 464 n n 
#
_atom_sites.entry_id                     1RGU 
_atom_sites.fract_transf_matrix[1][1]    0.020114 
_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]    0.009564 
_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]    0.005177 
_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 VO4 A 1 699 699 VO4 VO4 . 
F 4 SPM A 1 999 999 SPM SPM . 
G 5 OTS A 1 995 995 OTS OTS . 
H 3 VO4 B 1 699 699 VO4 VO4 . 
I 5 OTS B 1 996 996 OTS OTS . 
J 6 HOH D 1 633 633 HOH HOH . 
J 6 HOH D 2 675 675 HOH HOH . 
K 6 HOH F 1 638 638 HOH HOH . 
K 6 HOH F 2 812 812 HOH HOH . 
K 6 HOH F 3 1145 1145 HOH HOH . 
K 6 HOH F 4 1153 1153 HOH HOH . 
L 6 HOH A 1 616 616 HOH HOH . 
L 6 HOH A 2 626 626 HOH HOH . 
L 6 HOH A 3 627 627 HOH HOH . 
L 6 HOH A 4 629 629 HOH HOH . 
L 6 HOH A 5 636 636 HOH HOH . 
L 6 HOH A 6 642 642 HOH HOH . 
L 6 HOH A 7 647 647 HOH HOH . 
L 6 HOH A 8 653 653 HOH HOH . 
L 6 HOH A 9 664 664 HOH HOH . 
L 6 HOH A 10 667 667 HOH HOH . 
L 6 HOH A 11 672 672 HOH HOH . 
L 6 HOH A 12 677 677 HOH HOH . 
L 6 HOH A 13 678 678 HOH HOH . 
L 6 HOH A 14 679 679 HOH HOH . 
L 6 HOH A 15 680 680 HOH HOH . 
L 6 HOH A 16 681 681 HOH HOH . 
L 6 HOH A 17 684 684 HOH HOH . 
L 6 HOH A 18 687 687 HOH HOH . 
L 6 HOH A 19 688 688 HOH HOH . 
L 6 HOH A 20 689 689 HOH HOH . 
L 6 HOH A 21 690 690 HOH HOH . 
L 6 HOH A 22 691 691 HOH HOH . 
L 6 HOH A 23 692 692 HOH HOH . 
L 6 HOH A 24 694 694 HOH HOH . 
L 6 HOH A 25 700 700 HOH HOH . 
L 6 HOH A 26 701 701 HOH HOH . 
L 6 HOH A 27 702 702 HOH HOH . 
L 6 HOH A 28 706 706 HOH HOH . 
L 6 HOH A 29 708 708 HOH HOH . 
L 6 HOH A 30 713 713 HOH HOH . 
L 6 HOH A 31 720 720 HOH HOH . 
L 6 HOH A 32 722 722 HOH HOH . 
L 6 HOH A 33 755 755 HOH HOH . 
L 6 HOH A 34 758 758 HOH HOH . 
L 6 HOH A 35 763 763 HOH HOH . 
L 6 HOH A 36 766 766 HOH HOH . 
L 6 HOH A 37 768 768 HOH HOH . 
L 6 HOH A 38 770 770 HOH HOH . 
L 6 HOH A 39 776 776 HOH HOH . 
L 6 HOH A 40 781 781 HOH HOH . 
L 6 HOH A 41 789 789 HOH HOH . 
L 6 HOH A 42 794 794 HOH HOH . 
L 6 HOH A 43 803 803 HOH HOH . 
L 6 HOH A 44 833 833 HOH HOH . 
L 6 HOH A 45 835 835 HOH HOH . 
L 6 HOH A 46 852 852 HOH HOH . 
L 6 HOH A 47 855 855 HOH HOH . 
L 6 HOH A 48 856 856 HOH HOH . 
L 6 HOH A 49 857 857 HOH HOH . 
L 6 HOH A 50 858 858 HOH HOH . 
L 6 HOH A 51 860 860 HOH HOH . 
L 6 HOH A 52 861 861 HOH HOH . 
L 6 HOH A 53 862 862 HOH HOH . 
L 6 HOH A 54 865 865 HOH HOH . 
L 6 HOH A 55 866 866 HOH HOH . 
L 6 HOH A 56 867 867 HOH HOH . 
L 6 HOH A 57 870 870 HOH HOH . 
L 6 HOH A 58 873 873 HOH HOH . 
L 6 HOH A 59 874 874 HOH HOH . 
L 6 HOH A 60 876 876 HOH HOH . 
L 6 HOH A 61 901 901 HOH HOH . 
L 6 HOH A 62 908 908 HOH HOH . 
L 6 HOH A 63 913 913 HOH HOH . 
L 6 HOH A 64 930 930 HOH HOH . 
L 6 HOH A 65 933 933 HOH HOH . 
L 6 HOH A 66 939 939 HOH HOH . 
L 6 HOH A 67 941 941 HOH HOH . 
L 6 HOH A 68 943 943 HOH HOH . 
L 6 HOH A 69 945 945 HOH HOH . 
L 6 HOH A 70 949 949 HOH HOH . 
L 6 HOH A 71 1007 1007 HOH HOH . 
L 6 HOH A 72 1009 1009 HOH HOH . 
L 6 HOH A 73 1014 1014 HOH HOH . 
L 6 HOH A 74 1015 1015 HOH HOH . 
L 6 HOH A 75 1033 1033 HOH HOH . 
L 6 HOH A 76 1105 1105 HOH HOH . 
L 6 HOH A 77 1117 1117 HOH HOH . 
L 6 HOH A 78 1120 1120 HOH HOH . 
L 6 HOH A 79 1136 1136 HOH HOH . 
L 6 HOH A 80 1140 1140 HOH HOH . 
L 6 HOH A 81 1149 1149 HOH HOH . 
L 6 HOH A 82 1151 1151 HOH HOH . 
M 6 HOH B 1 613 613 HOH HOH . 
M 6 HOH B 2 614 614 HOH HOH . 
M 6 HOH B 3 615 615 HOH HOH . 
M 6 HOH B 4 617 617 HOH HOH . 
M 6 HOH B 5 618 618 HOH HOH . 
M 6 HOH B 6 622 622 HOH HOH . 
M 6 HOH B 7 624 624 HOH HOH . 
M 6 HOH B 8 625 625 HOH HOH . 
M 6 HOH B 9 628 628 HOH HOH . 
M 6 HOH B 10 631 631 HOH HOH . 
M 6 HOH B 11 632 632 HOH HOH . 
M 6 HOH B 12 634 634 HOH HOH . 
M 6 HOH B 13 635 635 HOH HOH . 
M 6 HOH B 14 640 640 HOH HOH . 
M 6 HOH B 15 641 641 HOH HOH . 
M 6 HOH B 16 643 643 HOH HOH . 
M 6 HOH B 17 645 645 HOH HOH . 
M 6 HOH B 18 648 648 HOH HOH . 
M 6 HOH B 19 649 649 HOH HOH . 
M 6 HOH B 20 651 651 HOH HOH . 
M 6 HOH B 21 652 652 HOH HOH . 
M 6 HOH B 22 654 654 HOH HOH . 
M 6 HOH B 23 661 661 HOH HOH . 
M 6 HOH B 24 663 663 HOH HOH . 
M 6 HOH B 25 668 668 HOH HOH . 
M 6 HOH B 26 669 669 HOH HOH . 
M 6 HOH B 27 673 673 HOH HOH . 
M 6 HOH B 28 674 674 HOH HOH . 
M 6 HOH B 29 676 676 HOH HOH . 
M 6 HOH B 30 682 682 HOH HOH . 
M 6 HOH B 31 686 686 HOH HOH . 
M 6 HOH B 32 693 693 HOH HOH . 
M 6 HOH B 33 695 695 HOH HOH . 
M 6 HOH B 34 703 703 HOH HOH . 
M 6 HOH B 35 726 726 HOH HOH . 
M 6 HOH B 36 730 730 HOH HOH . 
M 6 HOH B 37 731 731 HOH HOH . 
M 6 HOH B 38 735 735 HOH HOH . 
M 6 HOH B 39 737 737 HOH HOH . 
M 6 HOH B 40 739 739 HOH HOH . 
M 6 HOH B 41 745 745 HOH HOH . 
M 6 HOH B 42 746 746 HOH HOH . 
M 6 HOH B 43 749 749 HOH HOH . 
M 6 HOH B 44 752 752 HOH HOH . 
M 6 HOH B 45 753 753 HOH HOH . 
M 6 HOH B 46 756 756 HOH HOH . 
M 6 HOH B 47 765 765 HOH HOH . 
M 6 HOH B 48 798 798 HOH HOH . 
M 6 HOH B 49 819 819 HOH HOH . 
M 6 HOH B 50 836 836 HOH HOH . 
M 6 HOH B 51 851 851 HOH HOH . 
M 6 HOH B 52 864 864 HOH HOH . 
M 6 HOH B 53 880 880 HOH HOH . 
M 6 HOH B 54 881 881 HOH HOH . 
M 6 HOH B 55 882 882 HOH HOH . 
M 6 HOH B 56 883 883 HOH HOH . 
M 6 HOH B 57 886 886 HOH HOH . 
M 6 HOH B 58 887 887 HOH HOH . 
M 6 HOH B 59 888 888 HOH HOH . 
M 6 HOH B 60 889 889 HOH HOH . 
M 6 HOH B 61 890 890 HOH HOH . 
M 6 HOH B 62 892 892 HOH HOH . 
M 6 HOH B 63 893 893 HOH HOH . 
M 6 HOH B 64 895 895 HOH HOH . 
M 6 HOH B 65 897 897 HOH HOH . 
M 6 HOH B 66 898 898 HOH HOH . 
M 6 HOH B 67 899 899 HOH HOH . 
M 6 HOH B 68 900 900 HOH HOH . 
M 6 HOH B 69 902 902 HOH HOH . 
M 6 HOH B 70 923 923 HOH HOH . 
M 6 HOH B 71 926 926 HOH HOH . 
M 6 HOH B 72 954 954 HOH HOH . 
M 6 HOH B 73 958 958 HOH HOH . 
M 6 HOH B 74 959 959 HOH HOH . 
M 6 HOH B 75 961 961 HOH HOH . 
M 6 HOH B 76 966 966 HOH HOH . 
M 6 HOH B 77 967 967 HOH HOH . 
M 6 HOH B 78 968 968 HOH HOH . 
M 6 HOH B 79 969 969 HOH HOH . 
M 6 HOH B 80 970 970 HOH HOH . 
M 6 HOH B 81 972 972 HOH HOH . 
M 6 HOH B 82 974 974 HOH HOH . 
M 6 HOH B 83 982 982 HOH HOH . 
M 6 HOH B 84 983 983 HOH HOH . 
M 6 HOH B 85 984 984 HOH HOH . 
M 6 HOH B 86 985 985 HOH HOH . 
M 6 HOH B 87 1004 1004 HOH HOH . 
M 6 HOH B 88 1029 1029 HOH HOH . 
M 6 HOH B 89 1054 1054 HOH HOH . 
M 6 HOH B 90 1071 1071 HOH HOH . 
M 6 HOH B 91 1098 1098 HOH HOH . 
M 6 HOH B 92 1126 1126 HOH HOH . 
M 6 HOH B 93 1135 1135 HOH HOH . 
M 6 HOH B 94 1137 1137 HOH HOH . 
M 6 HOH B 95 1147 1147 HOH HOH . 
M 6 HOH B 96 1152 1152 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 N1 SPM . . . F 4 -0.11 57.24 -22.623 1 36.38 ? N1 SPM 999 A 1 
HETATM 2 C C2 SPM . . . F 4 0.171 56.541 -21.372 1 33.83 ? C2 SPM 999 A 1 
HETATM 3 C C3 SPM . . . F 4 1.369 57.16 -20.69 1 34.93 ? C3 SPM 999 A 1 
HETATM 4 C C4 SPM . . . F 4 2.107 56.131 -19.847 1 37.91 ? C4 SPM 999 A 1 
HETATM 5 N N5 SPM . . . F 4 2.112 56.445 -18.436 1 39.01 ? N5 SPM 999 A 1 
HETATM 6 C C6 SPM . . . F 4 2.609 55.465 -17.496 1 42.26 ? C6 SPM 999 A 1 
HETATM 7 C C7 SPM . . . F 4 3.764 55.937 -16.617 1 44.27 ? C7 SPM 999 A 1 
HETATM 8 C C8 SPM . . . F 4 4.455 54.727 -16.009 1 47.91 ? C8 SPM 999 A 1 
HETATM 9 C C9 SPM . . . F 4 5.587 55.084 -15.05 1 51.96 ? C9 SPM 999 A 1 
HETATM 10 N N10 SPM . . . F 4 6.348 53.898 -14.691 1 54.14 ? N10 SPM 999 A 1 
HETATM 11 C C11 SPM . . . F 4 5.975 53.068 -13.547 1 54.99 ? C11 SPM 999 A 1 
HETATM 12 C C12 SPM . . . F 4 5.704 51.597 -13.903 1 53.51 ? C12 SPM 999 A 1 
HETATM 13 C C13 SPM . . . F 4 6.393 50.64 -12.924 1 53.36 ? C13 SPM 999 A 1 
HETATM 14 N N14 SPM . . . F 4 6.284 49.258 -13.374 1 50.96 ? N14 SPM 999 A 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    10 
_model_server_stats.query_time_ms           343 
_model_server_stats.encode_time_ms          15 
_model_server_stats.element_count           14 
#