data_7XMD
#
_model_server_result.job_id            jgrtM7GH5BqWmEb7DCPZfA 
_model_server_result.datetime_utc      '2025-02-27 01:23:26' 
_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          7xmd 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":704}' 
#
_entry.id    7XMD 
#
_exptl.entry_id    7XMD 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              744.034 
_entity.id                          8 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            1,2-dioleoyl-sn-glycero-3-phosphoethanolamine 
_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            7XMD 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7XMD 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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 
_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    ? 
_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
? 8 H N N 
? 8 K 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 NE2 HIS 106 A HIS 106 1_555 F FE HEM . A HEM 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.985 ? 
metalc ? metalc2 A ND1 HIS 284 A HIS 284 1_555 G CU CU . A CU 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2 ? 
metalc ? metalc3 A NE2 HIS 333 A HIS 333 1_555 G CU CU . A CU 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2 ? 
metalc ? metalc4 A NE2 HIS 334 A HIS 334 1_555 G CU CU . A CU 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.995 ? 
metalc ? metalc5 A NE2 HIS 419 A HIS 419 1_555 E FE HEO . A HEO 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? 
metalc ? metalc6 A NE2 HIS 421 A HIS 421 1_555 F FE HEM . A HEM 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.972 ? 
#
_chem_comp.formula           'C41 H78 N O8 P' 
_chem_comp.formula_weight    744.034 
_chem_comp.id                PEE 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              1,2-dioleoyl-sn-glycero-3-phosphoethanolamine 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     DOPE 
#
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 C5 PEE sing 466 n n 
C5 C4 PEE sing 467 n n 
C4 O4P PEE sing 468 n n 
O4P P PEE sing 469 n n 
O1P P PEE doub 470 n n 
C1 O3P PEE sing 471 n n 
C1 C2 PEE sing 472 n n 
O3P P PEE sing 473 n n 
P O2P PEE sing 474 n n 
C2 C3 PEE sing 475 n n 
C2 O2 PEE sing 476 n n 
C3 O3 PEE sing 477 n n 
O2 C10 PEE sing 478 n n 
C31 C30 PEE sing 479 n n 
C31 C32 PEE sing 480 n n 
C33 C32 PEE sing 481 n n 
C33 C34 PEE sing 482 n n 
C30 O3 PEE sing 483 n n 
C30 O5 PEE doub 484 n n 
C10 O4 PEE doub 485 n n 
C10 C11 PEE sing 486 n n 
C34 C35 PEE sing 487 n n 
C11 C12 PEE sing 488 n n 
C35 C36 PEE sing 489 n n 
C36 C37 PEE sing 490 n n 
C37 C38 PEE sing 491 n n 
C38 C39 PEE doub 492 z n 
C12 C13 PEE sing 493 n n 
C39 C40 PEE sing 494 n n 
C13 C14 PEE sing 495 n n 
C14 C15 PEE sing 496 n n 
C40 C41 PEE sing 497 n n 
C15 C16 PEE sing 498 n n 
C41 C42 PEE sing 499 n n 
C16 C17 PEE sing 500 n n 
C42 C43 PEE sing 501 n n 
C17 C18 PEE sing 502 n n 
C43 C44 PEE sing 503 n n 
C18 C19 PEE doub 504 z n 
C46 C47 PEE sing 505 n n 
C46 C45 PEE sing 506 n n 
C44 C45 PEE sing 507 n n 
C19 C20 PEE sing 508 n n 
C20 C21 PEE sing 509 n n 
C21 C22 PEE sing 510 n n 
C22 C23 PEE sing 511 n n 
C23 C24 PEE sing 512 n n 
C24 C25 PEE sing 513 n n 
C26 C25 PEE sing 514 n n 
C26 C27 PEE sing 515 n n 
C27 H7 PEE sing 516 n n 
C27 H8 PEE sing 517 n n 
C27 H82 PEE sing 518 n n 
C26 H5 PEE sing 519 n n 
C26 H6 PEE sing 520 n n 
C25 H12 PEE sing 521 n n 
C25 H4 PEE sing 522 n n 
C24 H10 PEE sing 523 n n 
C24 H11 PEE sing 524 n n 
C23 H83 PEE sing 525 n n 
C23 H9 PEE sing 526 n n 
C22 H2 PEE sing 527 n n 
C22 H3 PEE sing 528 n n 
C21 H14 PEE sing 529 n n 
C21 H1 PEE sing 530 n n 
C20 H16 PEE sing 531 n n 
C20 H13 PEE sing 532 n n 
C19 H18 PEE sing 533 n n 
C18 H20 PEE sing 534 n n 
C17 H22 PEE sing 535 n n 
C17 H19 PEE sing 536 n n 
C16 H21 PEE sing 537 n n 
C16 H28 PEE sing 538 n n 
C15 H23 PEE sing 539 n n 
C15 H24 PEE sing 540 n n 
C14 H25 PEE sing 541 n n 
C14 H26 PEE sing 542 n n 
C13 H17 PEE sing 543 n n 
C13 H27 PEE sing 544 n n 
C12 H15 PEE sing 545 n n 
C12 H29 PEE sing 546 n n 
C11 H30 PEE sing 547 n n 
C11 H31 PEE sing 548 n n 
C2 H32 PEE sing 549 n n 
C1 H33 PEE sing 550 n n 
C1 H34 PEE sing 551 n n 
O2P H35 PEE sing 552 n n 
C4 H36 PEE sing 553 n n 
C4 H37 PEE sing 554 n n 
C5 H38 PEE sing 555 n n 
C5 H39 PEE sing 556 n n 
N H40 PEE sing 557 n n 
N H41 PEE sing 558 n n 
C3 H43 PEE sing 559 n n 
C3 H44 PEE sing 560 n n 
C31 H45 PEE sing 561 n n 
C31 H46 PEE sing 562 n n 
C32 H47 PEE sing 563 n n 
C32 H48 PEE sing 564 n n 
C33 H49 PEE sing 565 n n 
C33 H50 PEE sing 566 n n 
C34 H51 PEE sing 567 n n 
C34 H52 PEE sing 568 n n 
C35 H53 PEE sing 569 n n 
C35 H54 PEE sing 570 n n 
C36 H55 PEE sing 571 n n 
C36 H56 PEE sing 572 n n 
C37 H57 PEE sing 573 n n 
C37 H58 PEE sing 574 n n 
C38 H59 PEE sing 575 n n 
C39 H60 PEE sing 576 n n 
C40 H81 PEE sing 577 n n 
C40 H61 PEE sing 578 n n 
C41 H80 PEE sing 579 n n 
C41 H62 PEE sing 580 n n 
C42 H63 PEE sing 581 n n 
C42 H64 PEE sing 582 n n 
C43 H65 PEE sing 583 n n 
C43 H66 PEE sing 584 n n 
C44 H67 PEE sing 585 n n 
C44 H68 PEE sing 586 n n 
C45 H69 PEE sing 587 n n 
C45 H70 PEE sing 588 n n 
C46 H71 PEE sing 589 n n 
C46 H72 PEE sing 590 n n 
C47 H73 PEE sing 591 n n 
C47 H74 PEE sing 592 n n 
C47 H75 PEE sing 593 n n 
#
_atom_sites.entry_id                     7XMD 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_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 5 HEO A 1 701 1002 HEO HEO . 
F 6 HEM A 1 702 1001 HEM HEM . 
G 7 CU A 1 703 1003 CU CU . 
H 8 PEE A 1 704 1004 PEE PEE . 
I 9 JYR A 1 705 1006 JYR XN4 . 
J 10 UNX B 1 401 1005 UNX UNX . 
K 8 PEE C 1 301 301 PEE PEE . 
#
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 C C27 PEE . . . H 8 184.197 172.977 165.818 1 88.13 ? C27 PEE 704 A 1 
HETATM 2 C C26 PEE . . . H 8 183.647 173.728 167.008 1 88.13 ? C26 PEE 704 A 1 
HETATM 3 C C25 PEE . . . H 8 184.652 174.276 167.995 1 88.13 ? C25 PEE 704 A 1 
HETATM 4 C C24 PEE . . . H 8 185.303 173.321 168.97 1 88.13 ? C24 PEE 704 A 1 
HETATM 5 C C23 PEE . . . H 8 186.401 172.457 168.399 1 88.13 ? C23 PEE 704 A 1 
HETATM 6 C C22 PEE . . . H 8 187.118 171.626 169.432 1 88.13 ? C22 PEE 704 A 1 
HETATM 7 C C21 PEE . . . H 8 186.26 170.581 170.096 1 88.13 ? C21 PEE 704 A 1 
HETATM 8 C C20 PEE . . . H 8 186.908 169.924 171.289 1 88.13 ? C20 PEE 704 A 1 
HETATM 9 C C19 PEE . . . H 8 188.31 169.425 171.039 1 88.13 ? C19 PEE 704 A 1 
HETATM 10 C C18 PEE . . . H 8 188.906 168.685 172.209 1 88.13 ? C18 PEE 704 A 1 
HETATM 11 C C17 PEE . . . H 8 188.933 169.481 173.487 1 88.13 ? C17 PEE 704 A 1 
HETATM 12 C C16 PEE . . . H 8 188.849 168.641 174.735 1 88.13 ? C16 PEE 704 A 1 
HETATM 13 C C15 PEE . . . H 8 190.012 167.712 174.947 1 88.13 ? C15 PEE 704 A 1 
HETATM 14 C C14 PEE . . . H 8 189.82 166.741 176.084 1 88.13 ? C14 PEE 704 A 1 
HETATM 15 C C13 PEE . . . H 8 191.079 166.028 176.499 1 88.13 ? C13 PEE 704 A 1 
HETATM 16 C C12 PEE . . . H 8 190.852 164.816 177.381 1 88.13 ? C12 PEE 704 A 1 
HETATM 17 C C11 PEE . . . H 8 189.965 165.101 178.547 1 88.13 ? C11 PEE 704 A 1 
HETATM 18 C C10 PEE . . . H 8 189.826 163.923 179.462 1 88.13 ? C10 PEE 704 A 1 
HETATM 19 O O4 PEE . . . H 8 189.355 162.865 179.14 1 88.13 ? O4 PEE 704 A 1 
HETATM 20 O O2 PEE . . . H 8 190.348 164.125 180.68 1 88.13 ? O2 PEE 704 A 1 
HETATM 21 C C2 PEE . . . H 8 190.785 162.951 181.415 1 88.13 ? C2 PEE 704 A 1 
HETATM 22 C C1 PEE . . . H 8 192.292 162.861 181.347 1 88.13 ? C1 PEE 704 A 1 
HETATM 23 O O3P PEE . . . H 8 192.966 163.765 182.267 1 88.13 ? O3P PEE 704 A 1 
HETATM 24 P P PEE . . . H 8 193.718 163.146 183.544 1 88.13 ? P PEE 704 A 1 
HETATM 25 O O2P PEE . . . H 8 192.709 162.965 184.643 1 88.13 ? O2P PEE 704 A 1 
HETATM 26 O O1P PEE . . . H 8 194.965 163.932 183.834 1 88.13 ? O1P PEE 704 A 1 
HETATM 27 O O4P PEE . . . H 8 194.116 161.673 183.041 1 88.13 ? O4P PEE 704 A 1 
HETATM 28 C C4 PEE . . . H 8 195.432 161.426 182.467 1 88.13 ? C4 PEE 704 A 1 
HETATM 29 C C5 PEE . . . H 8 195.674 162.246 181.227 1 88.13 ? C5 PEE 704 A 1 
HETATM 30 N N PEE . . . H 8 196.979 161.922 180.611 1 88.13 ? N PEE 704 A 1 
HETATM 31 C C3 PEE . . . H 8 190.222 162.971 182.818 1 88.13 ? C3 PEE 704 A 1 
HETATM 32 O O3 PEE . . . H 8 189.052 162.123 182.848 1 88.13 ? O3 PEE 704 A 1 
HETATM 33 C C30 PEE . . . H 8 187.975 162.556 182.2 1 88.13 ? C30 PEE 704 A 1 
HETATM 34 O O5 PEE . . . H 8 187.303 161.84 181.505 1 88.13 ? O5 PEE 704 A 1 
HETATM 35 C C31 PEE . . . H 8 187.728 164.023 182.437 1 88.13 ? C31 PEE 704 A 1 
HETATM 36 C C32 PEE . . . H 8 186.316 164.348 182.798 1 88.13 ? C32 PEE 704 A 1 
HETATM 37 C C33 PEE . . . H 8 185.37 164.182 181.624 1 88.13 ? C33 PEE 704 A 1 
HETATM 38 C C34 PEE . . . H 8 185.654 165.1 180.464 1 88.13 ? C34 PEE 704 A 1 
HETATM 39 C C35 PEE . . . H 8 184.832 164.796 179.239 1 88.13 ? C35 PEE 704 A 1 
HETATM 40 C C36 PEE . . . H 8 184.813 165.892 178.205 1 88.13 ? C36 PEE 704 A 1 
HETATM 41 C C37 PEE . . . H 8 186.149 166.225 177.6 1 88.13 ? C37 PEE 704 A 1 
HETATM 42 C C38 PEE . . . H 8 186.065 167.252 176.502 1 88.13 ? C38 PEE 704 A 1 
HETATM 43 C C39 PEE . . . H 8 185.221 166.824 175.328 1 88.13 ? C39 PEE 704 A 1 
HETATM 44 C C40 PEE . . . H 8 184.953 167.912 174.319 1 88.13 ? C40 PEE 704 A 1 
HETATM 45 C C41 PEE . . . H 8 184.089 169.035 174.834 1 88.13 ? C41 PEE 704 A 1 
HETATM 46 C C42 PEE . . . H 8 183.724 170.06 173.788 1 88.13 ? C42 PEE 704 A 1 
HETATM 47 C C43 PEE . . . H 8 183.13 169.466 172.534 1 88.13 ? C43 PEE 704 A 1 
HETATM 48 C C44 PEE . . . H 8 182.672 170.479 171.515 1 88.13 ? C44 PEE 704 A 1 
HETATM 49 C C45 PEE . . . H 8 181.505 171.322 171.961 1 88.13 ? C45 PEE 704 A 1 
HETATM 50 C C46 PEE . . . H 8 181.02 172.301 170.924 1 88.13 ? C46 PEE 704 A 1 
HETATM 51 C C47 PEE . . . H 8 182.049 173.333 170.533 1 88.13 ? C47 PEE 704 A 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    10 
_model_server_stats.query_time_ms           327 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           51 
#