data_3L71 # _model_server_result.job_id nZCH8s1dLu4iLdKHFu65Bg _model_server_result.datetime_utc '2024-11-06 02:56:27' _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 3l71 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"JA","auth_seq_id":501}' # _entry.id 3L71 # _exptl.entry_id 3L71 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 616.487 _entity.id 12 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PROTOPORPHYRIN IX CONTAINING FE' _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 90 _cell.entry_id 3L71 _cell.length_a 170.149 _cell.length_b 181.312 _cell.length_c 240.501 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3L71 _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 ? _pdbx_struct_assembly.oligomeric_details eicosameric _pdbx_struct_assembly.oligomeric_count 20 _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,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,QA,RA,SA,TA,UA,VA,WA,XA,YA,ZA,AB _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 12 W N N ? 12 X N N ? 12 JA N N ? 12 KA 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 E SG CYS 144 E CYS 144 1_555 E SG CYS 160 E CYS 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf2 H SG CYS 23 H CYS 24 1_555 H SG CYS 67 H CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? disulf ? disulf3 H SG CYS 39 H CYS 40 1_555 H SG CYS 53 H CYS 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? disulf ? disulf4 O SG CYS 144 R CYS 144 1_555 O SG CYS 160 R CYS 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf5 R SG CYS 23 U CYS 24 1_555 R SG CYS 67 U CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf6 R SG CYS 39 U CYS 40 1_555 R SG CYS 53 U CYS 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? metalc ? metalc1 C NE2 HIS 84 C HIS 84 1_555 W FE HEM . C HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.996 ? metalc ? metalc2 C NE2 HIS 98 C HIS 98 1_555 X FE HEM . C HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.009 ? metalc ? metalc3 C NE2 HIS 183 C HIS 183 1_555 W FE HEM . C HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.003 ? metalc ? metalc4 C NE2 HIS 197 C HIS 197 1_555 X FE HEM . C HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.007 ? metalc ? metalc5 D NE2 HIS 41 D HIS 41 1_555 CA FE HEC . D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2 ? metalc ? metalc6 D SD MET 160 D MET 160 1_555 CA FE HEC . D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.209 ? metalc ? metalc7 E SG CYS 139 E CYS 139 1_555 GA FE1 FES . E FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? metalc ? metalc8 E ND1 HIS 141 E HIS 141 1_555 GA FE2 FES . E FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.117 ? metalc ? metalc9 E SG CYS 158 E CYS 158 1_555 GA FE1 FES . E FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? metalc ? metalc10 E ND1 HIS 161 E HIS 161 1_555 GA FE2 FES . E FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.117 ? metalc ? metalc11 M NE2 HIS 84 P HIS 84 1_555 JA FE HEM . P HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.003 ? metalc ? metalc12 M NE2 HIS 98 P HIS 98 1_555 KA FE HEM . P HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? metalc ? metalc13 M NE2 HIS 183 P HIS 183 1_555 JA FE HEM . P HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2 ? metalc ? metalc14 M NE2 HIS 197 P HIS 197 1_555 KA FE HEM . P HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.005 ? metalc ? metalc15 N NE2 HIS 41 Q HIS 41 1_555 RA FE HEC . Q HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.001 ? metalc ? metalc16 N SD MET 160 Q MET 160 1_555 RA FE HEC . Q HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.16 ? metalc ? metalc17 O SG CYS 139 R CYS 139 1_555 VA FE1 FES . R FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.271 ? metalc ? metalc18 O ND1 HIS 141 R HIS 141 1_555 VA FE2 FES . R FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.102 ? metalc ? metalc19 O SG CYS 158 R CYS 158 1_555 VA FE1 FES . R FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.296 ? metalc ? metalc20 O ND1 HIS 161 R HIS 161 1_555 VA FE2 FES . R FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.085 ? # _chem_comp.formula 'C34 H32 Fe N4 O4' _chem_comp.formula_weight 616.487 _chem_comp.id HEM _chem_comp.mon_nstd_flag . _chem_comp.name 'PROTOPORPHYRIN IX CONTAINING FE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms HEME # 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 CHA C1A HEM sing 582 n n CHA C4D HEM doub 583 n n CHA HHA HEM sing 584 n n CHB C4A HEM sing 585 n n CHB C1B HEM doub 586 n n CHB HHB HEM sing 587 n n CHC C4B HEM sing 588 n n CHC C1C HEM doub 589 n n CHC HHC HEM sing 590 n n CHD C4C HEM doub 591 n n CHD C1D HEM sing 592 n n CHD HHD HEM sing 593 n n C1A C2A HEM doub 594 n y C1A NA HEM sing 595 n y C2A C3A HEM sing 596 n y C2A CAA HEM sing 597 n n C3A C4A HEM doub 598 n y C3A CMA HEM sing 599 n n C4A NA HEM sing 600 n y CMA HMA HEM sing 601 n n CMA HMAA HEM sing 602 n n CMA HMAB HEM sing 603 n n CAA CBA HEM sing 604 n n CAA HAA HEM sing 605 n n CAA HAAA HEM sing 606 n n CBA CGA HEM sing 607 n n CBA HBA HEM sing 608 n n CBA HBAA HEM sing 609 n n CGA O1A HEM doub 610 n n CGA O2A HEM sing 611 n n C1B C2B HEM sing 612 n n C1B NB HEM sing 613 n n C2B C3B HEM doub 614 n n C2B CMB HEM sing 615 n n C3B C4B HEM sing 616 n n C3B CAB HEM sing 617 n n C4B NB HEM doub 618 n n CMB HMB HEM sing 619 n n CMB HMBA HEM sing 620 n n CMB HMBB HEM sing 621 n n CAB CBB HEM doub 622 n n CAB HAB HEM sing 623 n n CBB HBB HEM sing 624 n n CBB HBBA HEM sing 625 n n C1C C2C HEM sing 626 n y C1C NC HEM sing 627 n y C2C C3C HEM doub 628 n y C2C CMC HEM sing 629 n n C3C C4C HEM sing 630 n y C3C CAC HEM sing 631 n n C4C NC HEM sing 632 n y CMC HMC HEM sing 633 n n CMC HMCA HEM sing 634 n n CMC HMCB HEM sing 635 n n CAC CBC HEM doub 636 n n CAC HAC HEM sing 637 n n CBC HBC HEM sing 638 n n CBC HBCA HEM sing 639 n n C1D C2D HEM sing 640 n n C1D ND HEM doub 641 n n C2D C3D HEM doub 642 n n C2D CMD HEM sing 643 n n C3D C4D HEM sing 644 n n C3D CAD HEM sing 645 n n C4D ND HEM sing 646 n n CMD HMD HEM sing 647 n n CMD HMDA HEM sing 648 n n CMD HMDB HEM sing 649 n n CAD CBD HEM sing 650 n n CAD HAD HEM sing 651 n n CAD HADA HEM sing 652 n n CBD CGD HEM sing 653 n n CBD HBD HEM sing 654 n n CBD HBDA HEM sing 655 n n CGD O1D HEM doub 656 n n CGD O2D HEM sing 657 n n O2A H2A HEM sing 658 n n O2D H2D HEM sing 659 n n FE NA HEM sing 660 n n FE NB HEM sing 661 n n FE NC HEM sing 662 n n FE ND HEM sing 663 n n # _atom_sites.entry_id 3L71 _atom_sites.fract_transf_matrix[1][1] 0.005877 _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] 0.005515 _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] 0.004158 _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 U 11 PEE A 1 2005 2005 PEE PEE . V 11 PEE A 1 2008 2008 PEE PEE . W 12 HEM C 1 501 501 HEM HEM . X 12 HEM C 1 502 502 HEM HEM . Y 13 AZO C 1 2001 2001 AZO AZO . Z 14 UQ C 1 2002 2002 UQ UQ . AA 11 PEE C 1 2007 2007 PEE PEE . BA 15 GOL C 1 2011 2011 GOL GOL . CA 16 HEC D 1 501 501 HEC HEC . DA 17 CDL D 1 2003 2003 CDL CDL . EA 18 BOG D 1 2009 2009 BOG BOG . FA 18 BOG D 1 2091 2091 BOG BOG . GA 19 FES E 1 501 501 FES FES . HA 17 CDL G 1 2004 2004 CDL CDL . IA 11 PEE N 1 3008 3008 PEE PEE . JA 12 HEM P 1 501 501 HEM HEM . KA 12 HEM P 1 502 502 HEM HEM . LA 18 BOG P 1 2010 2010 BOG BOG . MA 13 AZO P 1 3001 3001 AZO AZO . NA 14 UQ P 1 3002 3002 UQ UQ . OA 11 PEE P 1 3005 3005 PEE PEE . PA 11 PEE P 1 3007 3007 PEE PEE . QA 15 GOL P 1 3011 3011 GOL GOL . RA 16 HEC Q 1 501 501 HEC HEC . SA 17 CDL Q 1 3003 3003 CDL CDL . TA 18 BOG Q 1 3009 3009 BOG BOG . UA 18 BOG Q 1 3091 3091 BOG BOG . VA 19 FES R 1 501 501 FES FES . WA 17 CDL T 1 3004 3004 CDL CDL . XA 20 HOH C 1 381 2 HOH HOH . XA 20 HOH C 2 382 4 HOH HOH . XA 20 HOH C 3 383 108 HOH HOH . XA 20 HOH C 4 384 119 HOH HOH . XA 20 HOH C 5 385 168 HOH HOH . XA 20 HOH C 6 386 222 HOH HOH . XA 20 HOH C 7 1008 1008 HOH HOH . XA 20 HOH C 8 1238 1238 HOH HOH . YA 20 HOH E 1 1289 1289 HOH HOH . ZA 20 HOH P 1 381 1 HOH HOH . ZA 20 HOH P 2 382 5 HOH HOH . ZA 20 HOH P 3 383 6 HOH HOH . ZA 20 HOH P 4 384 28 HOH HOH . ZA 20 HOH P 5 385 35 HOH HOH . ZA 20 HOH P 6 386 109 HOH HOH . ZA 20 HOH P 7 387 214 HOH HOH . ZA 20 HOH P 8 959 959 HOH HOH . ZA 20 HOH P 9 1239 1239 HOH HOH . AB 20 HOH R 1 1230 1230 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 C CHA HEM . . . JA 12 35.828 141.284 95.082 1 51.45 ? CHA HEM 501 P 1 HETATM 2 C CHB HEM . . . JA 12 39.095 137.8 95.288 1 49.03 ? CHB HEM 501 P 1 HETATM 3 C CHC HEM . . . JA 12 35.732 134.732 93.825 1 47.69 ? CHC HEM 501 P 1 HETATM 4 C CHD HEM . . . JA 12 32.593 138.232 93.224 1 48.12 ? CHD HEM 501 P 1 HETATM 5 C C1A HEM . . . JA 12 37.009 140.59 95.279 1 51.76 ? C1A HEM 501 P 1 HETATM 6 C C2A HEM . . . JA 12 38.257 141.184 95.748 1 52.62 ? C2A HEM 501 P 1 HETATM 7 C C3A HEM . . . JA 12 39.184 140.22 95.722 1 50.28 ? C3A HEM 501 P 1 HETATM 8 C C4A HEM . . . JA 12 38.492 139.014 95.362 1 49.89 ? C4A HEM 501 P 1 HETATM 9 C CMA HEM . . . JA 12 40.663 140.359 95.938 1 48.8 ? CMA HEM 501 P 1 HETATM 10 C CAA HEM . . . JA 12 38.375 142.617 96.255 1 56.77 ? CAA HEM 501 P 1 HETATM 11 C CBA HEM . . . JA 12 38.127 142.657 97.761 1 60.77 ? CBA HEM 501 P 1 HETATM 12 C CGA HEM . . . JA 12 37.905 144.061 98.292 1 62.28 ? CGA HEM 501 P 1 HETATM 13 O O1A HEM . . . JA 12 36.77 144.567 98.201 1 62.65 ? O1A HEM 501 P 1 HETATM 14 O O2A HEM . . . JA 12 38.872 144.664 98.797 1 64.78 ? O2A HEM 501 P 1 HETATM 15 C C1B HEM . . . JA 12 38.444 136.641 94.946 1 48.76 ? C1B HEM 501 P 1 HETATM 16 C C2B HEM . . . JA 12 39.125 135.361 94.822 1 48.29 ? C2B HEM 501 P 1 HETATM 17 C C3B HEM . . . JA 12 38.134 134.482 94.516 1 48.85 ? C3B HEM 501 P 1 HETATM 18 C C4B HEM . . . JA 12 36.89 135.258 94.334 1 47.75 ? C4B HEM 501 P 1 HETATM 19 C CMB HEM . . . JA 12 40.614 135.101 95.042 1 47.77 ? CMB HEM 501 P 1 HETATM 20 C CAB HEM . . . JA 12 38.203 133.087 94.413 1 49.27 ? CAB HEM 501 P 1 HETATM 21 C CBB HEM . . . JA 12 39.289 132.326 93.678 1 46.55 ? CBB HEM 501 P 1 HETATM 22 C C1C HEM . . . JA 12 34.63 135.423 93.43 1 46.57 ? C1C HEM 501 P 1 HETATM 23 C C2C HEM . . . JA 12 33.479 134.833 92.76 1 45.98 ? C2C HEM 501 P 1 HETATM 24 C C3C HEM . . . JA 12 32.554 135.829 92.713 1 47.76 ? C3C HEM 501 P 1 HETATM 25 C C4C HEM . . . JA 12 33.208 137.028 93.16 1 47.45 ? C4C HEM 501 P 1 HETATM 26 C CMC HEM . . . JA 12 33.293 133.409 92.266 1 42.14 ? CMC HEM 501 P 1 HETATM 27 C CAC HEM . . . JA 12 31.188 135.729 92.398 1 49.22 ? CAC HEM 501 P 1 HETATM 28 C CBC HEM . . . JA 12 30.727 135.217 91.051 1 47.83 ? CBC HEM 501 P 1 HETATM 29 C C1D HEM . . . JA 12 33.183 139.339 93.775 1 50.06 ? C1D HEM 501 P 1 HETATM 30 C C2D HEM . . . JA 12 32.493 140.626 93.865 1 51.35 ? C2D HEM 501 P 1 HETATM 31 C C3D HEM . . . JA 12 33.434 141.491 94.313 1 51.51 ? C3D HEM 501 P 1 HETATM 32 C C4D HEM . . . JA 12 34.653 140.735 94.607 1 50.83 ? C4D HEM 501 P 1 HETATM 33 C CMD HEM . . . JA 12 31.02 140.922 93.552 1 48.62 ? CMD HEM 501 P 1 HETATM 34 C CAD HEM . . . JA 12 33.176 142.967 94.408 1 53.84 ? CAD HEM 501 P 1 HETATM 35 C CBD HEM . . . JA 12 32.601 143.455 95.728 1 55.84 ? CBD HEM 501 P 1 HETATM 36 C CGD HEM . . . JA 12 33.667 143.657 96.774 1 57.57 ? CGD HEM 501 P 1 HETATM 37 O O1D HEM . . . JA 12 34.695 144.289 96.465 1 59.21 ? O1D HEM 501 P 1 HETATM 38 O O2D HEM . . . JA 12 33.483 143.198 97.912 1 59.56 ? O2D HEM 501 P 1 HETATM 39 N NA HEM . . . JA 12 37.145 139.244 95.064 1 50.17 ? NA HEM 501 P 1 HETATM 40 N NB HEM . . . JA 12 37.081 136.578 94.583 1 47.9 ? NB HEM 501 P 1 HETATM 41 N NC HEM . . . JA 12 34.494 136.771 93.632 1 48.01 ? NC HEM 501 P 1 HETATM 42 N ND HEM . . . JA 12 34.493 139.399 94.288 1 48.83 ? ND HEM 501 P 1 HETATM 43 FE FE HEM . . . JA 12 35.789 138.007 94.448 1 45.4 ? FE HEM 501 P 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 31 _model_server_stats.query_time_ms 230 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #