data_5LLX
#
_model_server_result.job_id            XWkX3PykhQy1RU1cB0Z1QA 
_model_server_result.datetime_utc      '2024-12-01 06:41:40' 
_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          5llx 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":701}' 
#
_entry.id    5LLX 
#
_exptl.entry_id    5LLX 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              585.67 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '3-[2-[(Z)-[3-(2-carboxyethyl)-5-[(Z)-(4-ethenyl-3-methyl-5-oxidanylidene-pyrrol-2-ylidene)methyl]-4-methyl-pyrrol-1-ium -2-ylidene]methyl]-5-[(Z)-[(3E)-3-ethylidene-4-methyl-5-oxidanylidene-pyrrolidin-2-ylidene]methyl]-4-methyl-1H-pyrrol-3- yl]propanoic acid' 
_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            5LLX 
_cell.length_a            50.73 
_cell.length_b            78.64 
_cell.length_c            452.04 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5LLX 
_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,F,G,H,I,J,K,L 
_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
? 2 C N N 
? 2 G 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 19 A CYS 17 1_555 C CBA LBV . A LBV 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.777 ? 
covale ? covale2 B SG CYS 19 B CYS 17 1_555 G CBA LBV . B LBV 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.663 ? 
metalc ? metalc1 A OD1 ASP 566 A ASP 564 1_555 F MG MG . A MG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.956 ? 
metalc ? metalc2 A O LEU 567 A LEU 565 1_555 F MG MG . A MG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? 
metalc ? metalc3 A OE2 GLU 609 A GLU 607 1_555 F MG MG . A MG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.786 ? 
metalc ? metalc4 E O1G GTP . A GTP 703 1_555 F MG MG . A MG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.224 ? 
metalc ? metalc5 E O1B GTP . A GTP 703 1_555 F MG MG . A MG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.984 ? 
metalc ? metalc6 E O1A GTP . A GTP 703 1_555 F MG MG . A MG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.236 ? 
metalc ? metalc7 B OD1 ASP 566 B ASP 564 1_555 J MG MG . B MG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.91 ? 
metalc ? metalc8 B O LEU 567 B LEU 565 1_555 J MG MG . B MG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.212 ? 
metalc ? metalc9 B OE2 GLU 609 B GLU 607 1_555 J MG MG . B MG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.848 ? 
metalc ? metalc10 I O1G GTP . B GTP 703 1_555 J MG MG . B MG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.165 ? 
metalc ? metalc11 I O1B GTP . B GTP 703 1_555 J MG MG . B MG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.881 ? 
metalc ? metalc12 I O1A GTP . B GTP 703 1_555 J MG MG . B MG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.489 ? 
#
_chem_comp.formula           'C33 H37 N4 O6 1' 
_chem_comp.formula_weight    585.67 
_chem_comp.id                LBV 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '3-[2-[(Z)-[3-(2-carboxyethyl)-5-[(Z)-(4-ethenyl-3-methyl-5-oxidanylidene-pyrrol-2-ylidene)methyl]-4-methyl-pyrrol-1-ium -2-ylidene]methyl]-5-[(Z)-[(3E)-3-ethylidene-4-methyl-5-oxidanylidene-pyrrolidin-2-ylidene]methyl]-4-methyl-1H-pyrrol-3- yl]propanoic acid' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     '2(R),3(E)- PHYTOCHROMOBILIN' 
#
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
C1A N_A LBV sing 223 n n 
C1A C2A LBV sing 224 n n 
C1B C2B LBV doub 225 n y 
C1B CHB LBV sing 226 n n 
O1B CGB LBV doub 227 n n 
C1C CHC LBV doub 228 z n 
C1D CHD LBV doub 229 z n 
C2A CMA LBV sing 230 n n 
C2A C3A LBV sing 231 n n 
C2B CMB LBV sing 232 n n 
C2C C1C LBV sing 233 n n 
O2C CGC LBV doub 234 n n 
C2D C1D LBV sing 235 n n 
C2D CMD LBV sing 236 n n 
C3A CAA LBV doub 237 e n 
C3B C2B LBV sing 238 n y 
C3B CAB LBV sing 239 n n 
C3C C2C LBV doub 240 n n 
C3C C4C LBV sing 241 n n 
C3D C2D LBV doub 242 n n 
C4A C3A LBV sing 243 n n 
C4A CHB LBV doub 244 z n 
C4B C3B LBV doub 245 n y 
C4B N_B LBV sing 246 n y 
C4C N_C LBV doub 247 n n 
C4D C3D LBV sing 248 n n 
C4D N_D LBV sing 249 n n 
CAA CBA LBV sing 250 n n 
CAC C2C LBV sing 251 n n 
CAC CBC LBV sing 252 n n 
CAD C3D LBV sing 253 n n 
CBB CAB LBV sing 254 n n 
CBB CGB LBV sing 255 n n 
CBD CAD LBV doub 256 n n 
CGB O2B LBV sing 257 n n 
CGC O1C LBV sing 258 n n 
CGC CBC LBV sing 259 n n 
CHC C4B LBV sing 260 n n 
CHD C4C LBV sing 261 n n 
CMC C3C LBV sing 262 n n 
N_A C4A LBV sing 263 n n 
O_A C1A LBV doub 264 n n 
N_B C1B LBV sing 265 n y 
N_C C1C LBV sing 266 n n 
N_D C1D LBV sing 267 n n 
O_D C4D LBV doub 268 n n 
O1C HO1C LBV sing 269 n n 
C2A H2A LBV sing 270 n n 
O2B HO2B LBV sing 271 n n 
CAA HAA1 LBV sing 272 n n 
CAB HAB1 LBV sing 273 n n 
CAB HAB2 LBV sing 274 n n 
CAC HAC1 LBV sing 275 n n 
CAC HAC2 LBV sing 276 n n 
CAD HAD1 LBV sing 277 n n 
CBA HBA1 LBV sing 278 n n 
CBA HBA2 LBV sing 279 n n 
CBA HBA3 LBV sing 280 n n 
CBB HBB1 LBV sing 281 n n 
CBB HBB2 LBV sing 282 n n 
CBC HBC1 LBV sing 283 n n 
CBC HBC2 LBV sing 284 n n 
CBD HBD1 LBV sing 285 n n 
CBD HBD2 LBV sing 286 n n 
CHB HHB1 LBV sing 287 n n 
CHC HHC1 LBV sing 288 n n 
CHD HHD1 LBV sing 289 n n 
CMA HMA1 LBV sing 290 n n 
CMA HMA2 LBV sing 291 n n 
CMA HMA3 LBV sing 292 n n 
CMB HMB1 LBV sing 293 n n 
CMB HMB2 LBV sing 294 n n 
CMB HMB3 LBV sing 295 n n 
CMC HMC1 LBV sing 296 n n 
CMC HMC2 LBV sing 297 n n 
CMC HMC3 LBV sing 298 n n 
CMD HMD1 LBV sing 299 n n 
CMD HMD2 LBV sing 300 n n 
CMD HMD3 LBV sing 301 n n 
N_A HAD LBV sing 302 n n 
N_B HAE LBV sing 303 n n 
N_C HAF LBV sing 304 n n 
N_D HAG LBV sing 305 n n 
#
_atom_sites.entry_id                     5LLX 
_atom_sites.fract_transf_matrix[1][1]    0.019712 
_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]    0.012716 
_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]    0.002212 
_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 LBV A 1 701 2 LBV LBV . 
D 3 CL A 1 702 2 CL CL . 
E 4 GTP A 1 703 2 GTP GTP . 
F 5 MG A 1 704 1 MG MG . 
G 2 LBV B 1 701 1 LBV LBV . 
H 3 CL B 1 702 1 CL CL . 
I 4 GTP B 1 703 1 GTP GTP . 
J 5 MG B 1 704 2 MG MG . 
K 6 HOH A 1 801 11 HOH HOH . 
K 6 HOH A 2 802 3 HOH HOH . 
L 6 HOH B 1 801 10 HOH HOH . 
L 6 HOH B 2 802 9 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 C1A LBV . . . G 2 -7.502 -4.331 470.896 1 54.47 ? C1A LBV 701 B 1 
HETATM 2 C C1B LBV . . . G 2 -3.631 -2.627 469.236 1 43.82 ? C1B LBV 701 B 1 
HETATM 3 O O1B LBV . . . G 2 0.432 1.673 467.175 1 62.02 ? O1B LBV 701 B 1 
HETATM 4 C C1C LBV . . . G 2 -3.564 1.76 470.723 1 44.34 ? C1C LBV 701 B 1 
HETATM 5 O O1C LBV . . . G 2 -4.272 5.27 468.901 1 59.78 ? O1C LBV 701 B 1 
HETATM 6 C C1D LBV . . . G 2 -6.663 3.664 473.708 1 90.45 ? C1D LBV 701 B 1 
HETATM 7 C C2A LBV . . . G 2 -7.25 -5.657 470.447 1 55.34 ? C2A LBV 701 B 1 
HETATM 8 C C2B LBV . . . G 2 -2.425 -2.423 468.61 1 49.67 ? C2B LBV 701 B 1 
HETATM 9 O O2B LBV . . . G 2 0.362 0.274 465.446 1 66.31 ? O2B LBV 701 B 1 
HETATM 10 C C2C LBV . . . G 2 -3.095 3.047 471.093 1 55.32 ? C2C LBV 701 B 1 
HETATM 11 O O2C LBV . . . G 2 -2.724 6.391 470.012 1 81.45 ? O2C LBV 701 B 1 
HETATM 12 C C2D LBV . . . G 2 -7.399 3.75 474.896 1 94.84 ? C2D LBV 701 B 1 
HETATM 13 C C3A LBV . . . G 2 -5.915 -5.634 469.933 1 56.25 ? C3A LBV 701 B 1 
HETATM 14 C C3B LBV . . . G 2 -2.092 -1.08 468.742 1 62.68 ? C3B LBV 701 B 1 
HETATM 15 C C3C LBV . . . G 2 -3.895 3.526 472.078 1 63.19 ? C3C LBV 701 B 1 
HETATM 16 C C3D LBV . . . G 2 -7.928 5.014 474.979 1 101.33 ? C3D LBV 701 B 1 
HETATM 17 C C4A LBV . . . G 2 -5.495 -4.295 469.885 1 47.39 ? C4A LBV 701 B 1 
HETATM 18 C C4B LBV . . . G 2 -3.086 -0.444 469.46 1 58.39 ? C4B LBV 701 B 1 
HETATM 19 C C4C LBV . . . G 2 -4.895 2.55 472.334 1 60.72 ? C4C LBV 701 B 1 
HETATM 20 C C4D LBV . . . G 2 -7.52 5.737 473.841 1 98.17 ? C4D LBV 701 B 1 
HETATM 21 C CAA LBV . . . G 2 -5.177 -6.706 469.428 1 70.39 ? CAA LBV 701 B 1 
HETATM 22 C CAB LBV . . . G 2 -0.934 -0.433 468.251 1 77.01 ? CAB LBV 701 B 1 
HETATM 23 C CAC LBV . . . G 2 -1.957 3.71 470.546 1 61.22 ? CAC LBV 701 B 1 
HETATM 24 C CAD LBV . . . G 2 -8.738 5.586 475.981 1 102.75 ? CAD LBV 701 B 1 
HETATM 25 C CBA LBV . . . G 2 -5.585 -8.061 469.472 1 65.64 ? CBA LBV 701 B 1 
HETATM 26 C CBB LBV . . . G 2 -1.237 0.164 467 1 75.61 ? CBB LBV 701 B 1 
HETATM 27 C CBC LBV . . . G 2 -2.274 4.288 469.274 1 74.3 ? CBC LBV 701 B 1 
HETATM 28 C CBD LBV . . . G 2 -8.364 6.743 476.639 1 103.74 ? CBD LBV 701 B 1 
HETATM 29 C CGB LBV . . . G 2 -0.057 0.757 466.501 1 71.23 ? CGB LBV 701 B 1 
HETATM 30 C CGC LBV . . . G 2 -3.158 5.406 469.414 1 74.19 ? CGC LBV 701 B 1 
HETATM 31 C CHB LBV . . . G 2 -4.316 -3.86 469.324 1 41.92 ? CHB LBV 701 B 1 
HETATM 32 C CHC LBV . . . G 2 -3.054 0.922 469.753 1 58.62 ? CHC LBV 701 B 1 
HETATM 33 C CHD LBV . . . G 2 -5.967 2.577 473.243 1 73.76 ? CHD LBV 701 B 1 
HETATM 34 C CMA LBV . . . G 2 -8.233 -5.956 469.461 1 53.48 ? CMA LBV 701 B 1 
HETATM 35 C CMB LBV . . . G 2 -1.656 -3.4 467.947 1 41.18 ? CMB LBV 701 B 1 
HETATM 36 C CMC LBV . . . G 2 -3.725 4.778 472.711 1 55.79 ? CMC LBV 701 B 1 
HETATM 37 C CMD LBV . . . G 2 -7.511 2.657 475.776 1 83.45 ? CMD LBV 701 B 1 
HETATM 38 N N_A LBV . . . G 2 -6.455 -3.549 470.474 1 49.26 ? N_A LBV 701 B 1 
HETATM 39 O O_A LBV . . . G 2 -8.569 -3.838 471.272 1 41.98 ? O_A LBV 701 B 1 
HETATM 40 N N_B LBV . . . G 2 -4.045 -1.41 469.756 1 38.27 ? N_B LBV 701 B 1 
HETATM 41 N N_C LBV . . . G 2 -4.668 1.505 471.49 1 30.43 ? N_C LBV 701 B 1 
HETATM 42 N N_D LBV . . . G 2 -6.769 4.884 473.112 1 87.75 ? N_D LBV 701 B 1 
HETATM 43 O O_D LBV . . . G 2 -7.712 6.876 473.444 1 105.6 ? O_D LBV 701 B 1 
#
_model_server_stats.io_time_ms              37 
_model_server_stats.parse_time_ms           31 
_model_server_stats.create_model_time_ms    43 
_model_server_stats.query_time_ms           323 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           43 
#