data_3MCO
#
_model_server_result.job_id            g_nDT19MGPh2wHwyrI5Fiw 
_model_server_result.datetime_utc      '2024-10-12 13:23:55' 
_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          3mco 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":425}' 
#
_entry.id    3MCO 
#
_exptl.entry_id    3MCO 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              505.208 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER' 
_entity.pdbx_number_of_molecules    2 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         82 
_cell.angle_beta          81 
_cell.angle_gamma         68.08 
_cell.entry_id            3MCO 
_cell.length_a            42.521 
_cell.length_b            58.472 
_cell.length_c            109.327 
_cell.Z_PDB               2 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3MCO 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 author_and_software_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,D,E,F,G,M 1 1 
B,H,I,J,K,L,N 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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 3 E N N 
? 3 J 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
metalc ? metalc1 A OD1 ASP 121 A ASP 101 1_555 F MG MG . A MG 426 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.522 ? 
metalc ? metalc2 A OD2 ASP 121 A ASP 101 1_555 G MG MG . A MG 427 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.125 ? 
metalc ? metalc3 A OD1 ASP 123 A ASP 103 1_555 F MG MG . A MG 426 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.33 ? 
metalc ? metalc4 A OD2 ASP 123 A ASP 103 1_555 G MG MG . A MG 427 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.334 ? 
metalc ? metalc5 C O4 PH2 . A PH2 423 1_555 G MG MG . A MG 427 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.248 ? 
metalc ? metalc6 E O1B APC . A APC 425 1_555 F MG MG . A MG 426 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? 
metalc ? metalc7 E O1A APC . A APC 425 1_555 F MG MG . A MG 426 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.271 ? 
metalc ? metalc8 E O3G APC . A APC 425 1_555 G MG MG . A MG 427 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.179 ? 
metalc ? metalc9 E O1B APC . A APC 425 1_555 G MG MG . A MG 427 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.423 ? 
metalc ? metalc10 F MG MG . A MG 426 1_555 M O HOH . A HOH 456 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.304 ? 
metalc ? metalc11 B OD1 ASP 121 B ASP 101 1_555 K MG MG . B MG 426 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.218 ? 
metalc ? metalc12 B OD2 ASP 121 B ASP 101 1_555 L MG MG . B MG 427 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.462 ? 
metalc ? metalc13 B OD1 ASP 123 B ASP 103 1_555 K MG MG . B MG 426 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.362 ? 
metalc ? metalc14 B OD2 ASP 123 B ASP 103 1_555 L MG MG . B MG 427 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.493 ? 
metalc ? metalc15 H O4 PH2 . B PH2 423 1_555 L MG MG . B MG 427 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.445 ? 
metalc ? metalc16 J O1B APC . B APC 425 1_555 K MG MG . B MG 426 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
metalc ? metalc17 J O1A APC . B APC 425 1_555 K MG MG . B MG 426 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.198 ? 
metalc ? metalc18 J O3G APC . B APC 425 1_555 L MG MG . B MG 427 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.557 ? 
metalc ? metalc19 K MG MG . B MG 426 1_555 N O HOH . B HOH 438 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.371 ? 
#
_chem_comp.formula           'C11 H18 N5 O12 P3' 
_chem_comp.formula_weight    505.208 
_chem_comp.id                APC 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     "ALPHA,BETA-METHYLENEADENOSINE-5'-TRIPHOSPHATE" 
#
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
PG O1G APC doub 13 n n 
PG O2G APC sing 14 n n 
PG O3G APC sing 15 n n 
PG O3B APC sing 16 n n 
O2G HOG2 APC sing 17 n n 
O3G HOG3 APC sing 18 n n 
PB O1B APC doub 19 n n 
PB O2B APC sing 20 n n 
PB O3B APC sing 21 n n 
PB C3A APC sing 22 n n 
O2B HOB2 APC sing 23 n n 
PA O1A APC doub 24 n n 
PA O2A APC sing 25 n n 
PA C3A APC sing 26 n n 
PA O5' APC sing 27 n n 
O2A HOA2 APC sing 28 n n 
C3A H3A1 APC sing 29 n n 
C3A H3A2 APC sing 30 n n 
O5' C5' APC sing 31 n n 
C5' C4' APC sing 32 n n 
C5' "H5'1" APC sing 33 n n 
C5' "H5'2" APC sing 34 n n 
C4' O4' APC sing 35 n n 
C4' C3' APC sing 36 n n 
C4' H4' APC sing 37 n n 
O4' C1' APC sing 38 n n 
C3' O3' APC sing 39 n n 
C3' C2' APC sing 40 n n 
C3' H3' APC sing 41 n n 
O3' HO3' APC sing 42 n n 
C2' O2' APC sing 43 n n 
C2' C1' APC sing 44 n n 
C2' H2' APC sing 45 n n 
O2' HO2' APC sing 46 n n 
C1' N9 APC sing 47 n n 
C1' H1' APC sing 48 n n 
N9 C8 APC sing 49 n y 
N9 C4 APC sing 50 n y 
C8 N7 APC doub 51 n y 
C8 H8 APC sing 52 n n 
N7 C5 APC sing 53 n y 
C5 C6 APC sing 54 n y 
C5 C4 APC doub 55 n y 
C6 N6 APC sing 56 n n 
C6 N1 APC doub 57 n y 
N6 HN61 APC sing 58 n n 
N6 HN62 APC sing 59 n n 
N1 C2 APC sing 60 n y 
C2 N3 APC doub 61 n y 
C2 H2 APC sing 62 n n 
N3 C4 APC sing 63 n y 
#
_atom_sites.entry_id                     3MCO 
_atom_sites.fract_transf_matrix[1][1]    0.023518 
_atom_sites.fract_transf_matrix[1][2]    -0.009462 
_atom_sites.fract_transf_matrix[1][3]    -0.002905 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.018435 
_atom_sites.fract_transf_matrix[2][3]    -0.00163 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.009297 
_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 2 PH2 A 1 423 1 PH2 PH2 . 
D 2 PH2 A 1 424 2 PH2 PH2 . 
E 3 APC A 1 425 1 APC APC . 
F 4 MG A 1 426 1 MG MG . 
G 4 MG A 1 427 3 MG MG . 
H 2 PH2 B 1 423 3 PH2 PH2 . 
I 2 PH2 B 1 424 4 PH2 PH2 . 
J 3 APC B 1 425 2 APC APC . 
K 4 MG B 1 426 2 MG MG . 
L 4 MG B 1 427 4 MG MG . 
M 5 HOH A 1 428 1 HOH HOH . 
M 5 HOH A 2 429 3 HOH HOH . 
M 5 HOH A 3 430 4 HOH HOH . 
M 5 HOH A 4 431 7 HOH HOH . 
M 5 HOH A 5 432 8 HOH HOH . 
M 5 HOH A 6 433 10 HOH HOH . 
M 5 HOH A 7 434 13 HOH HOH . 
M 5 HOH A 8 435 18 HOH HOH . 
M 5 HOH A 9 436 19 HOH HOH . 
M 5 HOH A 10 437 22 HOH HOH . 
M 5 HOH A 11 438 26 HOH HOH . 
M 5 HOH A 12 439 27 HOH HOH . 
M 5 HOH A 13 440 29 HOH HOH . 
M 5 HOH A 14 441 30 HOH HOH . 
M 5 HOH A 15 442 32 HOH HOH . 
M 5 HOH A 16 443 33 HOH HOH . 
M 5 HOH A 17 444 37 HOH HOH . 
M 5 HOH A 18 445 38 HOH HOH . 
M 5 HOH A 19 446 39 HOH HOH . 
M 5 HOH A 20 447 41 HOH HOH . 
M 5 HOH A 21 448 43 HOH HOH . 
M 5 HOH A 22 449 45 HOH HOH . 
M 5 HOH A 23 450 46 HOH HOH . 
M 5 HOH A 24 451 48 HOH HOH . 
M 5 HOH A 25 452 49 HOH HOH . 
M 5 HOH A 26 453 52 HOH HOH . 
M 5 HOH A 27 454 55 HOH HOH . 
M 5 HOH A 28 455 56 HOH HOH . 
M 5 HOH A 29 456 58 HOH HOH . 
N 5 HOH B 1 428 2 HOH HOH . 
N 5 HOH B 2 429 5 HOH HOH . 
N 5 HOH B 3 430 6 HOH HOH . 
N 5 HOH B 4 431 9 HOH HOH . 
N 5 HOH B 5 432 11 HOH HOH . 
N 5 HOH B 6 433 12 HOH HOH . 
N 5 HOH B 7 434 14 HOH HOH . 
N 5 HOH B 8 435 15 HOH HOH . 
N 5 HOH B 9 436 16 HOH HOH . 
N 5 HOH B 10 437 17 HOH HOH . 
N 5 HOH B 11 438 20 HOH HOH . 
N 5 HOH B 12 439 21 HOH HOH . 
N 5 HOH B 13 440 23 HOH HOH . 
N 5 HOH B 14 441 24 HOH HOH . 
N 5 HOH B 15 442 25 HOH HOH . 
N 5 HOH B 16 443 28 HOH HOH . 
N 5 HOH B 17 444 31 HOH HOH . 
N 5 HOH B 18 445 34 HOH HOH . 
N 5 HOH B 19 446 35 HOH HOH . 
N 5 HOH B 20 447 40 HOH HOH . 
N 5 HOH B 21 448 42 HOH HOH . 
N 5 HOH B 22 449 44 HOH HOH . 
N 5 HOH B 23 450 47 HOH HOH . 
N 5 HOH B 24 451 50 HOH HOH . 
N 5 HOH B 25 452 51 HOH HOH . 
N 5 HOH B 26 453 53 HOH HOH . 
N 5 HOH B 27 454 54 HOH HOH . 
N 5 HOH B 28 455 57 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 P PG APC . . . J 3 -2.217 -9.728 -60.251 1 32.32 ? PG APC 425 B 1 
HETATM 2 O O1G APC . . . J 3 -0.773 -9.396 -60.533 1 28.6 ? O1G APC 425 B 1 
HETATM 3 O O2G APC . . . J 3 -3.18 -8.619 -60.784 1 30.3 ? O2G APC 425 B 1 
HETATM 4 O O3G APC . . . J 3 -2.296 -9.736 -58.686 1 31.72 ? O3G APC 425 B 1 
HETATM 5 P PB APC . . . J 3 -1.822 -12.446 -60.42 1 31.66 ? PB APC 425 B 1 
HETATM 6 O O1B APC . . . J 3 -1.174 -12.199 -59.099 1 32.6 ? O1B APC 425 B 1 
HETATM 7 O O2B APC . . . J 3 -2.754 -13.601 -60.29 1 30.26 ? O2B APC 425 B 1 
HETATM 8 O O3B APC . . . J 3 -2.641 -11.155 -60.822 1 29.98 ? O3B APC 425 B 1 
HETATM 9 P PA APC . . . J 3 0.56 -14.142 -61.242 1 33.29 ? PA APC 425 B 1 
HETATM 10 O O1A APC . . . J 3 0.418 -14.48 -59.815 1 35.23 ? O1A APC 425 B 1 
HETATM 11 O O2A APC . . . J 3 0.236 -15.339 -62.118 1 35.84 ? O2A APC 425 B 1 
HETATM 12 C C3A APC . . . J 3 -0.522 -12.725 -61.683 1 30.88 ? C3A APC 425 B 1 
HETATM 13 O O5' APC . . . J 3 2.008 -13.677 -61.543 1 35.64 ? O5' APC 425 B 1 
HETATM 14 C C5' APC . . . J 3 2.243 -13.508 -62.907 1 38.32 ? C5' APC 425 B 1 
HETATM 15 C C4' APC . . . J 3 3.383 -12.537 -63.161 1 36.17 ? C4' APC 425 B 1 
HETATM 16 O O4' APC . . . J 3 3.068 -11.172 -63.03 1 35.78 ? O4' APC 425 B 1 
HETATM 17 C C3' APC . . . J 3 4.643 -12.818 -62.398 1 39.16 ? C3' APC 425 B 1 
HETATM 18 O O3' APC . . . J 3 5.318 -13.987 -62.815 1 43.53 ? O3' APC 425 B 1 
HETATM 19 C C2' APC . . . J 3 5.392 -11.576 -62.402 1 39.02 ? C2' APC 425 B 1 
HETATM 20 O O2' APC . . . J 3 6.497 -11.512 -63.273 1 38.39 ? O2' APC 425 B 1 
HETATM 21 C C1' APC . . . J 3 4.321 -10.504 -62.589 1 35.81 ? C1' APC 425 B 1 
HETATM 22 N N9 APC . . . J 3 4.297 -9.301 -61.623 1 39.2 ? N9 APC 425 B 1 
HETATM 23 C C8 APC . . . J 3 4.319 -7.986 -61.939 1 35.76 ? C8 APC 425 B 1 
HETATM 24 N N7 APC . . . J 3 4.357 -7.266 -60.744 1 33.14 ? N7 APC 425 B 1 
HETATM 25 C C5 APC . . . J 3 4.36 -8.189 -59.69 1 34.25 ? C5 APC 425 B 1 
HETATM 26 C C6 APC . . . J 3 4.395 -7.972 -58.173 1 30.79 ? C6 APC 425 B 1 
HETATM 27 N N6 APC . . . J 3 4.454 -6.61 -57.686 1 29.55 ? N6 APC 425 B 1 
HETATM 28 N N1 APC . . . J 3 4.409 -9.019 -57.354 1 28.35 ? N1 APC 425 B 1 
HETATM 29 C C2 APC . . . J 3 4.377 -10.339 -57.886 1 30.75 ? C2 APC 425 B 1 
HETATM 30 N N3 APC . . . J 3 4.345 -10.547 -59.343 1 34.74 ? N3 APC 425 B 1 
HETATM 31 C C4 APC . . . J 3 4.343 -9.432 -60.191 1 33.18 ? C4 APC 425 B 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    29 
_model_server_stats.query_time_ms           278 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           31 
#