data_5MJQ
#
_model_server_result.job_id            XZ3v5p5UiRRRX68ArOMRAw 
_model_server_result.datetime_utc      '2024-11-15 03:18:13' 
_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          5mjq 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":201}' 
#
_entry.id    5MJQ 
#
_exptl.entry_id    5MJQ 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              588.694 
_entity.id                          3 
_entity.src_method                  nat 
_entity.type                        non-polymer 
_entity.pdbx_description            PHYCOCYANOBILIN 
_entity.pdbx_number_of_molecules    3 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               N73X 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          90 
_cell.angle_gamma         120 
_cell.entry_id            5MJQ 
_cell.length_a            187.8 
_cell.length_b            187.8 
_cell.length_c            60.7 
_cell.Z_PDB               18 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5MJQ 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        155 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'H 3 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dodecameric 
_pdbx_struct_assembly.oligomeric_count      12 
_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    1,2,3,4,5,6 
#
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' 2_555 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 
3 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 0 0 
4 'crystal symmetry operation' 4_556 y,x,-z+1 -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 60.7 
5 'crystal symmetry operation' 5_556 x-y,-y,-z+1 1 0 0 0 -1 0 0 0 -1 0 0 60.7 
6 'crystal symmetry operation' 6_556 -x,-x+y,-z+1 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 60.7 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 3 C N N 
? 3 D N N 
? 3 E 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
covale ? covale1 A SG CYS 84 A CYS 84 1_555 C CAC CYC . A CYC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.846 ? 
covale ? covale2 B C GLY 71 B GLY 71 1_555 B N MEN 72 B MEN 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? 
covale ? covale3 B C MEN 72 B MEN 72 1_555 B N ALA 73 B ALA 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale4 B SG CYS 82 B CYS 82 1_555 D CAC CYC . B CYC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.762 ? 
covale ? covale5 B SG CYS 153 B CYS 153 1_555 E CAC CYC . B CYC 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.713 ? 
#
_chem_comp.formula           'C33 H40 N4 O6' 
_chem_comp.formula_weight    588.694 
_chem_comp.id                CYC 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              PHYCOCYANOBILIN 
_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
CHA C1A CYC doub 70 z n 
CHA C4D CYC sing 71 n n 
CHA HHA CYC sing 72 n n 
NA C1A CYC sing 73 n n 
NA C4A CYC doub 74 n n 
C1A C2A CYC sing 75 n n 
C2A C3A CYC doub 76 n n 
C2A CAA CYC sing 77 n n 
C3A C4A CYC sing 78 n n 
C3A CMA CYC sing 79 n n 
C4A CHB CYC sing 80 n n 
CMA HMA1 CYC sing 81 n n 
CMA HMA2 CYC sing 82 n n 
CMA HMA3 CYC sing 83 n n 
CAA CBA CYC sing 84 n n 
CAA HAA1 CYC sing 85 n n 
CAA HAA2 CYC sing 86 n n 
CBA CGA CYC sing 87 n n 
CBA HBA1 CYC sing 88 n n 
CBA HBA2 CYC sing 89 n n 
CGA O1A CYC doub 90 n n 
CGA O2A CYC sing 91 n n 
O2A H2A CYC sing 92 n n 
CHB C1B CYC doub 93 z n 
CHB HHB CYC sing 94 n n 
NB C1B CYC sing 95 n n 
NB C4B CYC sing 96 n n 
NB HB CYC sing 97 n n 
C1B C2B CYC sing 98 n n 
C2B C3B CYC doub 99 n n 
C2B CMB CYC sing 100 n n 
C3B C4B CYC sing 101 n n 
C3B CAB CYC sing 102 n n 
C4B OB CYC doub 103 n n 
CMB HMB1 CYC sing 104 n n 
CMB HMB2 CYC sing 105 n n 
CMB HMB3 CYC sing 106 n n 
CAB CBB CYC sing 107 n n 
CAB HAB1 CYC sing 108 n n 
CAB HAB2 CYC sing 109 n n 
CBB HBB1 CYC sing 110 n n 
CBB HBB2 CYC sing 111 n n 
CBB HBB3 CYC sing 112 n n 
NC C1C CYC sing 113 n n 
NC C4C CYC sing 114 n n 
NC HC CYC sing 115 n n 
C1C C2C CYC sing 116 n n 
C1C OC CYC doub 117 n n 
C2C C3C CYC sing 118 n n 
C2C CMC CYC sing 119 n n 
C2C H2C CYC sing 120 n n 
C3C C4C CYC sing 121 n n 
C3C CAC CYC sing 122 n n 
C3C H3C CYC sing 123 n n 
C4C CHD CYC doub 124 z n 
CMC HMC1 CYC sing 125 n n 
CMC HMC2 CYC sing 126 n n 
CMC HMC3 CYC sing 127 n n 
CAC CBC CYC sing 128 n n 
CAC HAC1 CYC sing 129 n n 
CAC HAC2 CYC sing 130 n n 
CBC HBC1 CYC sing 131 n n 
CBC HBC2 CYC sing 132 n n 
CBC HBC3 CYC sing 133 n n 
CHD C1D CYC sing 134 n n 
CHD HHD CYC sing 135 n n 
ND C1D CYC sing 136 n y 
ND C4D CYC sing 137 n y 
ND HD CYC sing 138 n n 
C1D C2D CYC doub 139 n y 
C2D C3D CYC sing 140 n y 
C2D CMD CYC sing 141 n n 
C3D C4D CYC doub 142 n y 
C3D CAD CYC sing 143 n n 
CMD HMD1 CYC sing 144 n n 
CMD HMD2 CYC sing 145 n n 
CMD HMD3 CYC sing 146 n n 
CAD CBD CYC sing 147 n n 
CAD HAD1 CYC sing 148 n n 
CAD HAD2 CYC sing 149 n n 
CBD CGD CYC sing 150 n n 
CBD HBD1 CYC sing 151 n n 
CBD HBD2 CYC sing 152 n n 
CGD O1D CYC doub 153 n n 
CGD O2D CYC sing 154 n n 
O2D H2D CYC sing 155 n n 
#
_atom_sites.entry_id                     5MJQ 
_atom_sites.fract_transf_matrix[1][1]    0.005325 
_atom_sites.fract_transf_matrix[1][2]    0.003074 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.006149 
_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]    0.016474 
_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 3 CYC A 1 501 501 CYC CYC . 
D 3 CYC B 1 201 502 CYC CYC . 
E 3 CYC B 1 202 503 CYC CYC . 
#
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 CYC . . . D 3 9.638 16.961 13.248 1 23.45 ? CHA CYC 201 B 1 
HETATM 2 N NA CYC . . . D 3 11.783 15.578 13.438 1 25.72 ? NA CYC 201 B 1 
HETATM 3 C C1A CYC . . . D 3 10.296 15.841 13.464 1 25.33 ? C1A CYC 201 B 1 
HETATM 4 C C2A CYC . . . D 3 9.649 14.498 13.798 1 26.66 ? C2A CYC 201 B 1 
HETATM 5 C C3A CYC . . . D 3 10.694 13.478 13.963 1 27.44 ? C3A CYC 201 B 1 
HETATM 6 C C4A CYC . . . D 3 12.012 14.143 13.74 1 26.27 ? C4A CYC 201 B 1 
HETATM 7 C CMA CYC . . . D 3 10.437 12.009 14.301 1 28.28 ? CMA CYC 201 B 1 
HETATM 8 C CAA CYC . . . D 3 8.145 14.262 13.934 1 27.26 ? CAA CYC 201 B 1 
HETATM 9 C CBA CYC . . . D 3 7.691 14.507 15.375 1 27.34 ? CBA CYC 201 B 1 
HETATM 10 C CGA CYC . . . D 3 8.086 15.911 15.832 1 28.93 ? CGA CYC 201 B 1 
HETATM 11 O O1A CYC . . . D 3 9.186 16.101 16.411 1 29.81 ? O1A CYC 201 B 1 
HETATM 12 O O2A CYC . . . D 3 7.314 16.885 15.635 1 29.92 ? O2A CYC 201 B 1 
HETATM 13 C CHB CYC . . . D 3 13.389 13.481 13.812 1 25.97 ? CHB CYC 201 B 1 
HETATM 14 N NB CYC . . . D 3 12.832 12.178 15.934 1 27.19 ? NB CYC 201 B 1 
HETATM 15 C C1B CYC . . . D 3 13.608 12.489 14.649 1 25.63 ? C1B CYC 201 B 1 
HETATM 16 C C2B CYC . . . D 3 14.646 11.426 14.538 1 25.99 ? C2B CYC 201 B 1 
HETATM 17 C C3B CYC . . . D 3 14.559 10.522 15.631 1 27.44 ? C3B CYC 201 B 1 
HETATM 18 C C4B CYC . . . D 3 13.453 10.916 16.55 1 28.63 ? C4B CYC 201 B 1 
HETATM 19 C CMB CYC . . . D 3 15.664 11.321 13.409 1 25.53 ? CMB CYC 201 B 1 
HETATM 20 C CAB CYC . . . D 3 15.476 9.315 15.823 1 27.2 ? CAB CYC 201 B 1 
HETATM 21 C CBB CYC . . . D 3 15.605 8.977 17.306 1 27.44 ? CBB CYC 201 B 1 
HETATM 22 O OB CYC . . . D 3 13.117 10.375 17.552 1 29.57 ? OB CYC 201 B 1 
HETATM 23 N NC CYC . . . D 3 12.484 21.608 9.845 1 19.59 ? NC CYC 201 B 1 
HETATM 24 C C1C CYC . . . D 3 13.188 22.715 9.132 1 20.29 ? C1C CYC 201 B 1 
HETATM 25 C C2C CYC . . . D 3 14.628 22.629 9.448 1 20.8 ? C2C CYC 201 B 1 
HETATM 26 C C3C CYC . . . D 3 14.854 21.273 10.063 1 20.78 ? C3C CYC 201 B 1 
HETATM 27 C C4C CYC . . . D 3 13.523 20.824 10.62 1 19.21 ? C4C CYC 201 B 1 
HETATM 28 C CMC CYC . . . D 3 15.434 22.78 8.139 1 20.82 ? CMC CYC 201 B 1 
HETATM 29 C CAC CYC . . . D 3 15.902 21.382 11.176 1 20.35 ? CAC CYC 201 B 1 
HETATM 30 C CBC CYC . . . D 3 17.285 21.563 10.556 1 19.79 ? CBC CYC 201 B 1 
HETATM 31 O OC CYC . . . D 3 12.694 23.528 8.433 1 20.73 ? OC CYC 201 B 1 
HETATM 32 C CHD CYC . . . D 3 13.321 19.79 11.416 1 18.86 ? CHD CYC 201 B 1 
HETATM 33 N ND CYC . . . D 3 11.53 18.206 12.314 1 17.17 ? ND CYC 201 B 1 
HETATM 34 C C1D CYC . . . D 3 11.96 19.462 12.044 1 18.25 ? C1D CYC 201 B 1 
HETATM 35 C C2D CYC . . . D 3 10.973 20.336 12.449 1 20.15 ? C2D CYC 201 B 1 
HETATM 36 C C3D CYC . . . D 3 9.96 19.61 12.954 1 22.01 ? C3D CYC 201 B 1 
HETATM 37 C C4D CYC . . . D 3 10.302 18.289 12.88 1 19.86 ? C4D CYC 201 B 1 
HETATM 38 C CMD CYC . . . D 3 10.979 21.86 12.36 1 20.33 ? CMD CYC 201 B 1 
HETATM 39 C CAD CYC . . . D 3 8.645 20.139 13.525 1 24.31 ? CAD CYC 201 B 1 
HETATM 40 C CBD CYC . . . D 3 7.567 20.12 12.443 1 26.71 ? CBD CYC 201 B 1 
HETATM 41 C CGD CYC . . . D 3 6.18 20.162 13.086 1 29.54 ? CGD CYC 201 B 1 
HETATM 42 O O1D CYC . . . D 3 5.269 20.868 12.576 1 30.51 ? O1D CYC 201 B 1 
HETATM 43 O O2D CYC . . . D 3 5.945 19.49 14.127 1 30.31 ? O2D CYC 201 B 1 
HETATM 44 H HHA CYC . . . D 3 8.711 16.943 13.325 1 28.24 ? HHA CYC 201 B 1 
HETATM 45 H HMA1 CYC . . . D 3 9.666 11.694 13.804 1 34.03 ? HMA1 CYC 201 B 1 
HETATM 46 H HMA2 CYC . . . D 3 10.269 11.921 15.252 1 34.03 ? HMA2 CYC 201 B 1 
HETATM 47 H HMA3 CYC . . . D 3 11.215 11.482 14.06 1 34.03 ? HMA3 CYC 201 B 1 
HETATM 48 H HAA1 CYC . . . D 3 7.671 14.867 13.342 1 32.81 ? HAA1 CYC 201 B 1 
HETATM 49 H HAA2 CYC . . . D 3 7.942 13.346 13.686 1 32.81 ? HAA2 CYC 201 B 1 
HETATM 50 H HBA1 CYC . . . D 3 8.108 13.852 15.957 1 32.91 ? HBA1 CYC 201 B 1 
HETATM 51 H HBA2 CYC . . . D 3 6.727 14.413 15.426 1 32.91 ? HBA2 CYC 201 B 1 
HETATM 52 H HHB CYC . . . D 3 14.075 13.782 13.261 1 31.27 ? HHB CYC 201 B 1 
HETATM 53 H HB CYC . . . D 3 12.169 12.626 16.25 1 32.73 ? HB CYC 201 B 1 
HETATM 54 H HMB1 CYC . . . D 3 15.3 11.728 12.607 1 30.74 ? HMB1 CYC 201 B 1 
HETATM 55 H HMB2 CYC . . . D 3 16.479 11.781 13.664 1 30.74 ? HMB2 CYC 201 B 1 
HETATM 56 H HMB3 CYC . . . D 3 15.86 10.387 13.237 1 30.74 ? HMB3 CYC 201 B 1 
HETATM 57 H HAB1 CYC . . . D 3 15.105 8.553 15.352 1 32.73 ? HAB1 CYC 201 B 1 
HETATM 58 H HAB2 CYC . . . D 3 16.354 9.519 15.463 1 32.73 ? HAB2 CYC 201 B 1 
HETATM 59 H HBB1 CYC . . . D 3 15.811 9.783 17.805 1 33.02 ? HBB1 CYC 201 B 1 
HETATM 60 H HBB2 CYC . . . D 3 16.317 8.33 17.429 1 33.02 ? HBB2 CYC 201 B 1 
HETATM 61 H HBB3 CYC . . . D 3 14.77 8.603 17.626 1 33.02 ? HBB3 CYC 201 B 1 
HETATM 62 H HC CYC . . . D 3 11.64 21.445 9.822 1 23.61 ? HC CYC 201 B 1 
HETATM 63 H H2C CYC . . . D 3 14.872 23.325 10.079 1 25.06 ? H2C CYC 201 B 1 
HETATM 64 H H3C CYC . . . D 3 15.152 20.65 9.383 1 25.04 ? H3C CYC 201 B 1 
HETATM 65 H HMC1 CYC . . . D 3 15.489 21.921 7.692 1 25.08 ? HMC1 CYC 201 B 1 
HETATM 66 H HMC2 CYC . . . D 3 14.992 23.419 7.558 1 25.08 ? HMC2 CYC 201 B 1 
HETATM 67 H HMC3 CYC . . . D 3 16.328 23.095 8.344 1 25.08 ? HMC3 CYC 201 B 1 
HETATM 68 H HAC1 CYC . . . D 3 15.891 20.573 11.711 1 24.52 ? HAC1 CYC 201 B 1 
HETATM 69 H HBC1 CYC . . . D 3 17.964 21.309 11.2 1 23.85 ? HBC1 CYC 201 B 1 
HETATM 70 H HBC2 CYC . . . D 3 17.362 21.003 9.767 1 23.85 ? HBC2 CYC 201 B 1 
HETATM 71 H HBC3 CYC . . . D 3 17.408 22.492 10.306 1 23.85 ? HBC3 CYC 201 B 1 
HETATM 72 H HHD CYC . . . D 3 14.04 19.232 11.605 1 22.73 ? HHD CYC 201 B 1 
HETATM 73 H HD CYC . . . D 3 11.965 17.481 12.16 1 20.7 ? HD CYC 201 B 1 
HETATM 74 H HMD1 CYC . . . D 3 10.528 22.23 13.135 1 24.49 ? HMD1 CYC 201 B 1 
HETATM 75 H HMD2 CYC . . . D 3 10.518 22.139 11.554 1 24.49 ? HMD2 CYC 201 B 1 
HETATM 76 H HMD3 CYC . . . D 3 11.895 22.179 12.336 1 24.49 ? HMD3 CYC 201 B 1 
HETATM 77 H HAD1 CYC . . . D 3 8.367 19.579 14.267 1 29.28 ? HAD1 CYC 201 B 1 
HETATM 78 H HAD2 CYC . . . D 3 8.772 21.049 13.837 1 29.28 ? HAD2 CYC 201 B 1 
HETATM 79 H HBD1 CYC . . . D 3 7.653 19.31 11.917 1 32.15 ? HBD1 CYC 201 B 1 
HETATM 80 H HBD2 CYC . . . D 3 7.677 20.892 11.866 1 32.15 ? HBD2 CYC 201 B 1 
#
_model_server_stats.io_time_ms              12 
_model_server_stats.parse_time_ms           17 
_model_server_stats.create_model_time_ms    7 
_model_server_stats.query_time_ms           257 
_model_server_stats.encode_time_ms          13 
_model_server_stats.element_count           80 
#