data_3EY2
#
_model_server_result.job_id            9uWfllOucKJlGPpvG-3mrg 
_model_server_result.datetime_utc      '2024-10-18 22:20:52' 
_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          3ey2 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":501}' 
#
_entry.id    3EY2 
#
_exptl.entry_id    3EY2 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              88.151 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            N-methylpropane-1,3-diamine 
_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            3EY2 
_cell.length_a            24.69 
_cell.length_b            42.92 
_cell.length_c            46.12 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3EY2 
_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        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 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      2 
_struct_asym.id                             C 
_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
covale ? covale1 A O3' DA 5 A DA 105 1_555 A P USM 6 A USM 106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.579 ? 
covale ? covale2 A O3' USM 6 A USM 106 1_555 A P DA 7 A DA 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.599 ? 
covale ? covale3 B O3' DA 5 B DA 205 1_555 B P USM 6 B USM 206 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.593 ? 
covale ? covale4 B O3' USM 6 B USM 206 1_555 B P DA 7 B DA 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.6 ? 
hydrog WATSON-CRICK hydrog1 A N1 DG 1 A DG 101 1_555 B N3 DC 10 B DC 210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog2 A N2 DG 1 A DG 101 1_555 B O2 DC 10 B DC 210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog3 A O6 DG 1 A DG 101 1_555 B N4 DC 10 B DC 210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog4 A N3 DC 2 A DC 102 1_555 B N1 DG 9 B DG 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog5 A N4 DC 2 A DC 102 1_555 B O6 DG 9 B DG 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog6 A O2 DC 2 A DC 102 1_555 B N2 DG 9 B DG 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog7 A N1 DG 3 A DG 103 1_555 B N3 DC 8 B DC 208 1_555 ? ? ? ? A ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog8 A N2 DG 3 A DG 103 1_555 B O2 DC 8 B DC 208 1_555 ? ? ? ? A ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog9 A O6 DG 3 A DG 103 1_555 B N4 DC 8 B DC 208 1_555 ? ? ? ? A ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog10 A N3 DT 4 A DT 104 1_555 B N1 DA 7 B DA 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog11 A O4 DT 4 A DT 104 1_555 B N6 DA 7 B DA 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog12 A N1 DA 5 A DA 105 1_555 B N3 USM 6 B USM 206 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog13 A N6 DA 5 A DA 105 1_555 B O4 USM 6 B USM 206 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog14 A N3 USM 6 A USM 106 1_555 B N1 DA 5 B DA 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog15 A O4 USM 6 A USM 106 1_555 B N6 DA 5 B DA 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog16 A N1 DA 7 A DA 107 1_555 B N3 DT 4 B DT 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog17 A N6 DA 7 A DA 107 1_555 B O4 DT 4 B DT 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog18 A N3 DC 8 A DC 108 1_555 B N1 DG 3 B DG 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog19 A N4 DC 8 A DC 108 1_555 B O6 DG 3 B DG 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog20 A O2 DC 8 A DC 108 1_555 B N2 DG 3 B DG 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog21 A N1 DG 9 A DG 109 1_555 B N3 DC 2 B DC 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog22 A N2 DG 9 A DG 109 1_555 B O2 DC 2 B DC 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog23 A O6 DG 9 A DG 109 1_555 B N4 DC 2 B DC 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog24 A N3 DC 10 A DC 110 1_555 B N1 DG 1 B DG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog25 A N4 DC 10 A DC 110 1_555 B O6 DG 1 B DG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog26 A O2 DC 10 A DC 110 1_555 B N2 DG 1 B DG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
#
_chem_comp.formula           'C4 H12 N2' 
_chem_comp.formula_weight    88.151 
_chem_comp.id                N3D 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              N-methylpropane-1,3-diamine 
_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 N3D sing 152 n n 
C2 C3 N3D sing 153 n n 
C3 C4 N3D sing 154 n n 
C4 N5 N3D sing 155 n n 
N5 C6 N3D sing 156 n n 
N1 HN1 N3D sing 157 n n 
N1 HN1A N3D sing 158 n n 
C2 H2 N3D sing 159 n n 
C2 H2A N3D sing 160 n n 
C3 H3 N3D sing 161 n n 
C3 H3A N3D sing 162 n n 
C4 H4 N3D sing 163 n n 
C4 H4A N3D sing 164 n n 
N5 HN5 N3D sing 165 n n 
C6 H6 N3D sing 166 n n 
C6 H6A N3D sing 167 n n 
C6 H6B N3D sing 168 n n 
#
_atom_sites.entry_id                     3EY2 
_atom_sites.fract_transf_matrix[1][1]    0.040502 
_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]    0.023299 
_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]    0.021683 
_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 N3D B 1 501 501 N3D N3D . 
D 3 HOH A 1 301 301 HOH HOH . 
D 3 HOH A 2 305 305 HOH HOH . 
D 3 HOH A 3 309 309 HOH HOH . 
D 3 HOH A 4 310 310 HOH HOH . 
D 3 HOH A 5 311 311 HOH HOH . 
D 3 HOH A 6 312 312 HOH HOH . 
D 3 HOH A 7 319 319 HOH HOH . 
D 3 HOH A 8 321 321 HOH HOH . 
D 3 HOH A 9 328 328 HOH HOH . 
D 3 HOH A 10 331 331 HOH HOH . 
D 3 HOH A 11 332 332 HOH HOH . 
D 3 HOH A 12 333 333 HOH HOH . 
D 3 HOH A 13 334 334 HOH HOH . 
D 3 HOH A 14 336 336 HOH HOH . 
D 3 HOH A 15 337 337 HOH HOH . 
D 3 HOH A 16 342 342 HOH HOH . 
D 3 HOH A 17 343 343 HOH HOH . 
D 3 HOH A 18 344 344 HOH HOH . 
D 3 HOH A 19 346 346 HOH HOH . 
D 3 HOH A 20 347 347 HOH HOH . 
D 3 HOH A 21 348 348 HOH HOH . 
D 3 HOH A 22 349 349 HOH HOH . 
D 3 HOH A 23 350 350 HOH HOH . 
D 3 HOH A 24 351 351 HOH HOH . 
D 3 HOH A 25 353 353 HOH HOH . 
D 3 HOH A 26 354 354 HOH HOH . 
D 3 HOH A 27 356 356 HOH HOH . 
D 3 HOH A 28 357 357 HOH HOH . 
D 3 HOH A 29 359 359 HOH HOH . 
D 3 HOH A 30 360 360 HOH HOH . 
D 3 HOH A 31 362 362 HOH HOH . 
D 3 HOH A 32 365 365 HOH HOH . 
D 3 HOH A 33 367 367 HOH HOH . 
D 3 HOH A 34 368 368 HOH HOH . 
D 3 HOH A 35 369 369 HOH HOH . 
D 3 HOH A 36 370 370 HOH HOH . 
D 3 HOH A 37 377 377 HOH HOH . 
D 3 HOH A 38 380 380 HOH HOH . 
D 3 HOH A 39 381 381 HOH HOH . 
D 3 HOH A 40 385 385 HOH HOH . 
D 3 HOH A 41 386 386 HOH HOH . 
D 3 HOH A 42 387 387 HOH HOH . 
D 3 HOH A 43 388 388 HOH HOH . 
D 3 HOH A 44 389 389 HOH HOH . 
D 3 HOH A 45 394 394 HOH HOH . 
D 3 HOH A 46 395 395 HOH HOH . 
D 3 HOH A 47 398 398 HOH HOH . 
D 3 HOH A 48 399 399 HOH HOH . 
D 3 HOH A 49 401 401 HOH HOH . 
D 3 HOH A 50 402 402 HOH HOH . 
D 3 HOH A 51 403 403 HOH HOH . 
D 3 HOH A 52 405 405 HOH HOH . 
D 3 HOH A 53 407 407 HOH HOH . 
D 3 HOH A 54 408 408 HOH HOH . 
D 3 HOH A 55 410 410 HOH HOH . 
D 3 HOH A 56 412 412 HOH HOH . 
D 3 HOH A 57 413 413 HOH HOH . 
D 3 HOH A 58 414 414 HOH HOH . 
D 3 HOH A 59 416 416 HOH HOH . 
D 3 HOH A 60 417 417 HOH HOH . 
D 3 HOH A 61 419 419 HOH HOH . 
D 3 HOH A 62 420 420 HOH HOH . 
D 3 HOH A 63 422 422 HOH HOH . 
D 3 HOH A 64 423 423 HOH HOH . 
D 3 HOH A 65 425 425 HOH HOH . 
D 3 HOH A 66 429 429 HOH HOH . 
D 3 HOH A 67 433 433 HOH HOH . 
E 3 HOH B 1 302 302 HOH HOH . 
E 3 HOH B 2 303 303 HOH HOH . 
E 3 HOH B 3 304 304 HOH HOH . 
E 3 HOH B 4 306 306 HOH HOH . 
E 3 HOH B 5 307 307 HOH HOH . 
E 3 HOH B 6 308 308 HOH HOH . 
E 3 HOH B 7 313 313 HOH HOH . 
E 3 HOH B 8 314 314 HOH HOH . 
E 3 HOH B 9 315 315 HOH HOH . 
E 3 HOH B 10 316 316 HOH HOH . 
E 3 HOH B 11 317 317 HOH HOH . 
E 3 HOH B 12 318 318 HOH HOH . 
E 3 HOH B 13 320 320 HOH HOH . 
E 3 HOH B 14 322 322 HOH HOH . 
E 3 HOH B 15 323 323 HOH HOH . 
E 3 HOH B 16 324 324 HOH HOH . 
E 3 HOH B 17 325 325 HOH HOH . 
E 3 HOH B 18 326 326 HOH HOH . 
E 3 HOH B 19 327 327 HOH HOH . 
E 3 HOH B 20 329 329 HOH HOH . 
E 3 HOH B 21 330 330 HOH HOH . 
E 3 HOH B 22 335 335 HOH HOH . 
E 3 HOH B 23 338 338 HOH HOH . 
E 3 HOH B 24 339 339 HOH HOH . 
E 3 HOH B 25 340 340 HOH HOH . 
E 3 HOH B 26 341 341 HOH HOH . 
E 3 HOH B 27 345 345 HOH HOH . 
E 3 HOH B 28 352 352 HOH HOH . 
E 3 HOH B 29 355 355 HOH HOH . 
E 3 HOH B 30 358 358 HOH HOH . 
E 3 HOH B 31 361 361 HOH HOH . 
E 3 HOH B 32 363 363 HOH HOH . 
E 3 HOH B 33 364 364 HOH HOH . 
E 3 HOH B 34 366 366 HOH HOH . 
E 3 HOH B 35 371 371 HOH HOH . 
E 3 HOH B 36 372 372 HOH HOH . 
E 3 HOH B 37 373 373 HOH HOH . 
E 3 HOH B 38 374 374 HOH HOH . 
E 3 HOH B 39 375 375 HOH HOH . 
E 3 HOH B 40 376 376 HOH HOH . 
E 3 HOH B 41 378 378 HOH HOH . 
E 3 HOH B 42 379 379 HOH HOH . 
E 3 HOH B 43 382 382 HOH HOH . 
E 3 HOH B 44 383 383 HOH HOH . 
E 3 HOH B 45 384 384 HOH HOH . 
E 3 HOH B 46 390 390 HOH HOH . 
E 3 HOH B 47 391 391 HOH HOH . 
E 3 HOH B 48 392 392 HOH HOH . 
E 3 HOH B 49 393 393 HOH HOH . 
E 3 HOH B 50 396 396 HOH HOH . 
E 3 HOH B 51 397 397 HOH HOH . 
E 3 HOH B 52 400 400 HOH HOH . 
E 3 HOH B 53 404 404 HOH HOH . 
E 3 HOH B 54 406 406 HOH HOH . 
E 3 HOH B 55 409 409 HOH HOH . 
E 3 HOH B 56 411 411 HOH HOH . 
E 3 HOH B 57 415 415 HOH HOH . 
E 3 HOH B 58 418 418 HOH HOH . 
E 3 HOH B 59 421 421 HOH HOH . 
E 3 HOH B 60 424 424 HOH HOH . 
E 3 HOH B 61 426 426 HOH HOH . 
E 3 HOH B 62 427 427 HOH HOH . 
E 3 HOH B 63 428 428 HOH HOH . 
E 3 HOH B 64 430 430 HOH HOH . 
E 3 HOH B 65 431 431 HOH HOH . 
E 3 HOH B 66 432 432 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 N3D . . . C 2 3.495 21.717 0.542 1 19.99 ? N1 N3D 501 B 1 
HETATM 2 C C2 N3D . . . C 2 2.43 20.644 0.414 1 13.06 ? C2 N3D 501 B 1 
HETATM 3 C C3 N3D . . . C 2 2.994 19.378 0.942 1 18.91 ? C3 N3D 501 B 1 
HETATM 4 C C4 N3D . . . C 2 2.037 18.216 0.811 1 16.81 ? C4 N3D 501 B 1 
HETATM 5 N N5 N3D . . . C 2 2.302 17.211 1.916 1 17.78 ? N5 N3D 501 B 1 
HETATM 6 C C6 N3D . . . C 2 1.441 15.996 1.688 1 10.04 ? C6 N3D 501 B 1 
#
_model_server_stats.io_time_ms              17 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           325 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           6 
#