data_4PV1
#
_model_server_result.job_id            9bazTKmRgx07A8T2p3NCOg 
_model_server_result.datetime_utc      '2024-11-26 01:18:54' 
_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          4pv1 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"M","auth_seq_id":305}' 
#
_entry.id    4PV1 
#
_exptl.entry_id    4PV1 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              618.503 
_entity.id                          11 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'HEME C' 
_entity.pdbx_number_of_molecules    4 
_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         120 
_cell.entry_id            4PV1 
_cell.length_a            159.085 
_cell.length_b            159.085 
_cell.length_c            361.322 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4PV1 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        178 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 61 2 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    hexadecameric 
_pdbx_struct_assembly.oligomeric_count      16 
_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,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 12_565 x,x-y+1,-z+1/6 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 -79.5425 137.771651 60.220333 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 11 K N N 
? 11 L N N 
? 11 M N N 
? 11 W 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
disulf ? disulf1 D SG CYS 113 D CYS 113 1_555 D SG CYS 128 D CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
covale ? covale1 C SG CYS 25 C CYS 25 1_555 W CAC HEC . C HEC 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.814 ? 
metalc ? metalc1 A NE2 HIS 86 A HIS 86 1_555 K FE HEC . A HEC 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.137 ? 
metalc ? metalc2 A NE2 HIS 100 A HIS 100 1_555 L FE HEC . A HEC 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.206 ? 
metalc ? metalc3 A NE2 HIS 187 A HIS 187 1_555 K FE HEC . A HEC 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? 
metalc ? metalc4 A NE2 HIS 202 A HIS 202 1_555 L FE HEC . A HEC 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.22 ? 
metalc ? metalc5 M FE HEC . A HEC 305 1_555 P O8 SMA . A SMA 308 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.211 ? 
metalc ? metalc6 M FE HEC . A HEC 305 1_555 CA O HOH . A HOH 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? 
metalc ? metalc7 U MG CLA . B CLA 204 1_555 DA O HOH . B HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? 
metalc ? metalc8 C N TYR 1 C TYR 1 1_555 W FE HEC . C HEC 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.004 ? 
metalc ? metalc9 C NE2 HIS 26 C HIS 26 1_555 W FE HEC . C HEC 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.14 ? 
metalc ? metalc10 D SG CYS 108 D CYS 108 1_555 X FE1 FES . D FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.305 ? 
metalc ? metalc11 D ND1 HIS 110 D HIS 110 1_555 X FE2 FES . D FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.277 ? 
metalc ? metalc12 D SG CYS 126 D CYS 126 1_555 X FE1 FES . D FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? 
metalc ? metalc13 D ND1 HIS 129 D HIS 129 1_555 X FE2 FES . D FES 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.145 ? 
#
_chem_comp.formula           'C34 H34 Fe N4 O4' 
_chem_comp.formula_weight    618.503 
_chem_comp.id                HEC 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'HEME C' 
_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
FE NA HEC sing 524 n n 
FE NB HEC sing 525 n n 
FE NC HEC sing 526 n n 
FE ND HEC sing 527 n n 
CHA C1A HEC doub 528 n n 
CHA C4D HEC sing 529 n n 
CHA HHA HEC sing 530 n n 
CHB C4A HEC doub 531 n n 
CHB C1B HEC sing 532 n n 
CHB HHB HEC sing 533 n n 
CHC C4B HEC doub 534 n n 
CHC C1C HEC sing 535 n n 
CHC HHC HEC sing 536 n n 
CHD C4C HEC doub 537 n n 
CHD C1D HEC sing 538 n n 
CHD HHD HEC sing 539 n n 
NA C1A HEC sing 540 n y 
NA C4A HEC sing 541 n y 
C1A C2A HEC sing 542 n y 
C2A C3A HEC doub 543 n y 
C2A CAA HEC sing 544 n n 
C3A C4A HEC sing 545 n y 
C3A CMA HEC sing 546 n n 
CMA HMA1 HEC sing 547 n n 
CMA HMA2 HEC sing 548 n n 
CMA HMA3 HEC sing 549 n n 
CAA CBA HEC sing 550 n n 
CAA HAA1 HEC sing 551 n n 
CAA HAA2 HEC sing 552 n n 
CBA CGA HEC sing 553 n n 
CBA HBA1 HEC sing 554 n n 
CBA HBA2 HEC sing 555 n n 
CGA O1A HEC doub 556 n n 
CGA O2A HEC sing 557 n n 
O2A H2A HEC sing 558 n n 
NB C1B HEC sing 559 n y 
NB C4B HEC sing 560 n y 
C1B C2B HEC doub 561 n y 
C2B C3B HEC sing 562 n y 
C2B CMB HEC sing 563 n n 
C3B C4B HEC sing 564 n y 
C3B CAB HEC doub 565 e n 
CMB HMB1 HEC sing 566 n n 
CMB HMB2 HEC sing 567 n n 
CMB HMB3 HEC sing 568 n n 
CAB CBB HEC sing 569 n n 
CAB HAB HEC sing 570 n n 
CBB HBB1 HEC sing 571 n n 
CBB HBB2 HEC sing 572 n n 
CBB HBB3 HEC sing 573 n n 
NC C1C HEC sing 574 n y 
NC C4C HEC sing 575 n y 
C1C C2C HEC doub 576 n y 
C2C C3C HEC sing 577 n y 
C2C CMC HEC sing 578 n n 
C3C C4C HEC sing 579 n y 
C3C CAC HEC doub 580 e n 
CMC HMC1 HEC sing 581 n n 
CMC HMC2 HEC sing 582 n n 
CMC HMC3 HEC sing 583 n n 
CAC CBC HEC sing 584 n n 
CAC HAC HEC sing 585 n n 
CBC HBC1 HEC sing 586 n n 
CBC HBC2 HEC sing 587 n n 
CBC HBC3 HEC sing 588 n n 
ND C1D HEC sing 589 n y 
ND C4D HEC sing 590 n y 
C1D C2D HEC doub 591 n y 
C2D C3D HEC sing 592 n y 
C2D CMD HEC sing 593 n n 
C3D C4D HEC doub 594 n y 
C3D CAD HEC sing 595 n n 
CMD HMD1 HEC sing 596 n n 
CMD HMD2 HEC sing 597 n n 
CMD HMD3 HEC sing 598 n n 
CAD CBD HEC sing 599 n n 
CAD HAD1 HEC sing 600 n n 
CAD HAD2 HEC sing 601 n n 
CBD CGD HEC sing 602 n n 
CBD HBD1 HEC sing 603 n n 
CBD HBD2 HEC sing 604 n n 
CGD O1D HEC doub 605 n n 
CGD O2D HEC sing 606 n n 
O2D H2D HEC sing 607 n n 
#
_atom_sites.entry_id                     4PV1 
_atom_sites.fract_transf_matrix[1][1]    0.006286 
_atom_sites.fract_transf_matrix[1][2]    0.003629 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.007258 
_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]    0.002768 
_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
I 9 MYS A 1 301 301 MYS MYS . 
J 10 CD A 1 302 302 CD CD . 
K 11 HEC A 1 303 303 HEC HEM . 
L 11 HEC A 1 304 304 HEC HEM . 
M 11 HEC A 1 305 305 HEC HEM . 
N 12 UMQ A 1 306 306 UMQ UMQ . 
O 12 UMQ A 1 307 307 UMQ UMQ . 
P 13 SMA A 1 308 308 SMA SMA . 
Q 14 7PH A 1 309 309 7PH 7PH . 
R 15 8K6 B 1 201 201 8K6 8K6 . 
S 10 CD B 1 202 202 CD CD . 
T 12 UMQ B 1 203 203 UMQ UMQ . 
U 16 CLA B 1 204 204 CLA CLA . 
V 17 OPC B 1 205 205 OPC OPC . 
W 11 HEC C 1 301 301 HEC HEM . 
X 18 FES D 1 201 201 FES FES . 
Y 19 SQD D 1 202 202 SQD SQD . 
Z 17 OPC D 1 203 203 OPC OPC . 
AA 17 OPC E 1 101 101 OPC OPC . 
BA 20 BCR G 1 101 101 BCR BCR . 
CA 21 HOH A 1 401 401 HOH HOH . 
CA 21 HOH A 2 402 402 HOH HOH . 
CA 21 HOH A 3 403 403 HOH HOH . 
CA 21 HOH A 4 404 404 HOH HOH . 
CA 21 HOH A 5 405 405 HOH HOH . 
CA 21 HOH A 6 406 406 HOH HOH . 
CA 21 HOH A 7 407 407 HOH HOH . 
CA 21 HOH A 8 408 408 HOH HOH . 
DA 21 HOH B 1 301 301 HOH HOH . 
DA 21 HOH B 2 302 302 HOH HOH . 
DA 21 HOH B 3 303 303 HOH HOH . 
DA 21 HOH B 4 304 304 HOH HOH . 
DA 21 HOH B 5 305 305 HOH HOH . 
EA 21 HOH C 1 1101 1101 HOH HOH . 
EA 21 HOH C 2 1102 1102 HOH HOH . 
FA 21 HOH G 1 201 201 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 FE FE HEC . . . M 11 -29.145 80.741 13.288 1 88.2 ? FE HEC 305 A 1 
HETATM 2 C CHA HEC . . . M 11 -26.375 79.581 14.955 1 105.53 ? CHA HEC 305 A 1 
HETATM 3 C CHB HEC . . . M 11 -27.181 81.458 10.549 1 103.34 ? CHB HEC 305 A 1 
HETATM 4 C CHC HEC . . . M 11 -31.891 81.951 11.575 1 107.59 ? CHC HEC 305 A 1 
HETATM 5 C CHD HEC . . . M 11 -31.182 79.829 15.886 1 96.27 ? CHD HEC 305 A 1 
HETATM 6 N NA HEC . . . M 11 -27.157 80.465 12.798 1 117.78 ? NA HEC 305 A 1 
HETATM 7 C C1A HEC . . . M 11 -26.172 80.149 13.716 1 108.56 ? C1A HEC 305 A 1 
HETATM 8 C C2A HEC . . . M 11 -24.892 80.517 13.138 1 93.26 ? C2A HEC 305 A 1 
HETATM 9 C C3A HEC . . . M 11 -25.116 81.033 11.928 1 100.51 ? C3A HEC 305 A 1 
HETATM 10 C C4A HEC . . . M 11 -26.543 81.01 11.685 1 107.03 ? C4A HEC 305 A 1 
HETATM 11 C CMA HEC . . . M 11 -24.04 81.562 10.956 1 106.42 ? CMA HEC 305 A 1 
HETATM 12 C CAA HEC . . . M 11 -23.503 80.357 13.795 1 82.39 ? CAA HEC 305 A 1 
HETATM 13 C CBA HEC . . . M 11 -23.383 81.301 14.987 1 85.77 ? CBA HEC 305 A 1 
HETATM 14 C CGA HEC . . . M 11 -21.942 81.388 15.415 1 104.29 ? CGA HEC 305 A 1 
HETATM 15 O O1A HEC . . . M 11 -21.057 80.956 14.632 1 93.98 ? O1A HEC 305 A 1 
HETATM 16 O O2A HEC . . . M 11 -21.678 81.895 16.536 1 126.93 ? O2A HEC 305 A 1 
HETATM 17 N NB HEC . . . M 11 -29.487 81.501 11.384 1 111.26 ? NB HEC 305 A 1 
HETATM 18 C C1B HEC . . . M 11 -28.507 81.821 10.467 1 108.11 ? C1B HEC 305 A 1 
HETATM 19 C C2B HEC . . . M 11 -29.11 82.604 9.406 1 107.46 ? C2B HEC 305 A 1 
HETATM 20 C C3B HEC . . . M 11 -30.42 82.741 9.686 1 103.4 ? C3B HEC 305 A 1 
HETATM 21 C C4B HEC . . . M 11 -30.673 82.049 10.937 1 106.47 ? C4B HEC 305 A 1 
HETATM 22 C CMB HEC . . . M 11 -28.31 83.144 8.196 1 90.39 ? CMB HEC 305 A 1 
HETATM 23 C CAB HEC . . . M 11 -31.536 83.481 8.901 1 75.1 ? CAB HEC 305 A 1 
HETATM 24 C CBB HEC . . . M 11 -31.343 84.202 7.79 1 85.08 ? CBB HEC 305 A 1 
HETATM 25 N NC HEC . . . M 11 -31.161 80.842 13.644 1 101.1 ? NC HEC 305 A 1 
HETATM 26 C C1C HEC . . . M 11 -32.111 81.431 12.833 1 98.81 ? C1C HEC 305 A 1 
HETATM 27 C C2C HEC . . . M 11 -33.379 81.414 13.533 1 85.1 ? C2C HEC 305 A 1 
HETATM 28 C C3C HEC . . . M 11 -33.186 80.825 14.729 1 98.79 ? C3C HEC 305 A 1 
HETATM 29 C C4C HEC . . . M 11 -31.784 80.457 14.814 1 105.77 ? C4C HEC 305 A 1 
HETATM 30 C CMC HEC . . . M 11 -34.681 81.992 12.93 1 71.24 ? CMC HEC 305 A 1 
HETATM 31 C CAC HEC . . . M 11 -34.191 80.541 15.879 1 87.59 ? CAC HEC 305 A 1 
HETATM 32 C CBC HEC . . . M 11 -35.481 80.893 15.874 1 82.54 ? CBC HEC 305 A 1 
HETATM 33 N ND HEC . . . M 11 -28.815 79.864 15.161 1 95.22 ? ND HEC 305 A 1 
HETATM 34 C C1D HEC . . . M 11 -29.844 79.522 16.035 1 83.51 ? C1D HEC 305 A 1 
HETATM 35 C C2D HEC . . . M 11 -29.281 78.78 17.14 1 72.42 ? C2D HEC 305 A 1 
HETATM 36 C C3D HEC . . . M 11 -27.772 78.702 16.868 1 83.79 ? C3D HEC 305 A 1 
HETATM 37 C C4D HEC . . . M 11 -27.578 79.398 15.608 1 92.92 ? C4D HEC 305 A 1 
HETATM 38 C CMD HEC . . . M 11 -30.037 78.198 18.353 1 74.3 ? CMD HEC 305 A 1 
HETATM 39 C CAD HEC . . . M 11 -26.727 77.994 17.768 1 83.27 ? CAD HEC 305 A 1 
HETATM 40 C CBD HEC . . . M 11 -25.51 78.87 18.059 1 92.68 ? CBD HEC 305 A 1 
HETATM 41 C CGD HEC . . . M 11 -25.853 79.951 19.05 1 102.52 ? CGD HEC 305 A 1 
HETATM 42 O O1D HEC . . . M 11 -25.006 80.858 19.262 1 96.82 ? O1D HEC 305 A 1 
HETATM 43 O O2D HEC . . . M 11 -26.97 79.906 19.626 1 110.77 ? O2D HEC 305 A 1 
#
_model_server_stats.io_time_ms              22 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    19 
_model_server_stats.query_time_ms           254 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           43 
#