data_2XLP
#
_model_server_result.job_id            h_Wj3iwDuN1mRAtDpkvZRg 
_model_server_result.datetime_utc      '2024-10-18 06:15:04' 
_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          2xlp 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"P","auth_seq_id":501}' 
#
_entry.id    2XLP 
#
_exptl.entry_id    2XLP 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              743.405 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' 
_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            2XLP 
_cell.length_a            219.708 
_cell.length_b            219.708 
_cell.length_c            131.441 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2XLP 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        169 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 61' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA dimeric 2 author_and_software_defined_assembly 1 
PISA dimeric 2 author_and_software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,D,E,F,G,H,R,S,T,U,V,Y 1 1 
B,C,I,J,K,L,M,N,O,P,Q,W,X 2 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
? 3 F N N 
? 3 J N N 
? 3 P N N 
? 3 S N N 
#
_chem_comp.formula           'C21 H28 N7 O17 P3' 
_chem_comp.formula_weight    743.405 
_chem_comp.id                NAP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     "2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE" 
#
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
PA O1A NAP doub 361 n n 
PA O2A NAP sing 362 n n 
PA O5B NAP sing 363 n n 
PA O3 NAP sing 364 n n 
O2A HOA2 NAP sing 365 n n 
O5B C5B NAP sing 366 n n 
C5B C4B NAP sing 367 n n 
C5B H51A NAP sing 368 n n 
C5B H52A NAP sing 369 n n 
C4B O4B NAP sing 370 n n 
C4B C3B NAP sing 371 n n 
C4B H4B NAP sing 372 n n 
O4B C1B NAP sing 373 n n 
C3B O3B NAP sing 374 n n 
C3B C2B NAP sing 375 n n 
C3B H3B NAP sing 376 n n 
O3B HO3A NAP sing 377 n n 
C2B O2B NAP sing 378 n n 
C2B C1B NAP sing 379 n n 
C2B H2B NAP sing 380 n n 
O2B P2B NAP sing 381 n n 
C1B N9A NAP sing 382 n n 
C1B H1B NAP sing 383 n n 
N9A C8A NAP sing 384 n y 
N9A C4A NAP sing 385 n y 
C8A N7A NAP doub 386 n y 
C8A H8A NAP sing 387 n n 
N7A C5A NAP sing 388 n y 
C5A C6A NAP sing 389 n y 
C5A C4A NAP doub 390 n y 
C6A N6A NAP sing 391 n n 
C6A N1A NAP doub 392 n y 
N6A H61A NAP sing 393 n n 
N6A H62A NAP sing 394 n n 
N1A C2A NAP sing 395 n y 
C2A N3A NAP doub 396 n y 
C2A H2A NAP sing 397 n n 
N3A C4A NAP sing 398 n y 
O3 PN NAP sing 399 n n 
PN O1N NAP doub 400 n n 
PN O2N NAP sing 401 n n 
PN O5D NAP sing 402 n n 
O5D C5D NAP sing 403 n n 
C5D C4D NAP sing 404 n n 
C5D H51N NAP sing 405 n n 
C5D H52N NAP sing 406 n n 
C4D O4D NAP sing 407 n n 
C4D C3D NAP sing 408 n n 
C4D H4D NAP sing 409 n n 
O4D C1D NAP sing 410 n n 
C3D O3D NAP sing 411 n n 
C3D C2D NAP sing 412 n n 
C3D H3D NAP sing 413 n n 
O3D HO3N NAP sing 414 n n 
C2D O2D NAP sing 415 n n 
C2D C1D NAP sing 416 n n 
C2D H2D NAP sing 417 n n 
O2D HO2N NAP sing 418 n n 
C1D N1N NAP sing 419 n n 
C1D H1D NAP sing 420 n n 
N1N C2N NAP sing 421 n y 
N1N C6N NAP doub 422 n y 
C2N C3N NAP doub 423 n y 
C2N H2N NAP sing 424 n n 
C3N C7N NAP sing 425 n n 
C3N C4N NAP sing 426 n y 
C7N O7N NAP doub 427 n n 
C7N N7N NAP sing 428 n n 
N7N H71N NAP sing 429 n n 
N7N H72N NAP sing 430 n n 
C4N C5N NAP doub 431 n y 
C4N H4N NAP sing 432 n n 
C5N C6N NAP sing 433 n y 
C5N H5N NAP sing 434 n n 
C6N H6N NAP sing 435 n n 
P2B O1X NAP doub 436 n n 
P2B O2X NAP sing 437 n n 
P2B O3X NAP sing 438 n n 
O2X HOP2 NAP sing 439 n n 
O3X HOP3 NAP sing 440 n n 
#
_atom_sites.entry_id                     2XLP 
_atom_sites.fract_transf_matrix[1][1]    0.004551 
_atom_sites.fract_transf_matrix[1][2]    0.002628 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.005256 
_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]    0.007608 
_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 2 FAD A 1 500 500 FAD FAD . 
F 3 NAP A 1 501 501 NAP NAP . 
G 4 EPE A 1 1453 1453 EPE EPE . 
H 5 PEG A 1 1454 1454 PEG PEG . 
I 2 FAD B 1 500 500 FAD FAD . 
J 3 NAP B 1 501 501 NAP NAP . 
K 4 EPE B 1 1452 1452 EPE EPE . 
L 5 PEG B 1 1453 1453 PEG PEG . 
M 5 PEG B 1 1454 1454 PEG PEG . 
N 5 PEG B 1 1455 1455 PEG PEG . 
O 2 FAD C 1 500 500 FAD FAD . 
P 3 NAP C 1 501 501 NAP NAP . 
Q 4 EPE C 1 1452 1452 EPE EPE . 
R 2 FAD D 1 500 500 FAD FAD . 
S 3 NAP D 1 501 501 NAP NAP . 
T 4 EPE D 1 1453 1453 EPE EPE . 
U 5 PEG D 1 1454 1454 PEG PEG . 
V 6 HOH A 1 2001 2001 HOH HOH . 
V 6 HOH A 2 2002 2002 HOH HOH . 
V 6 HOH A 3 2003 2003 HOH HOH . 
V 6 HOH A 4 2004 2004 HOH HOH . 
V 6 HOH A 5 2005 2005 HOH HOH . 
V 6 HOH A 6 2006 2006 HOH HOH . 
V 6 HOH A 7 2007 2007 HOH HOH . 
V 6 HOH A 8 2008 2008 HOH HOH . 
V 6 HOH A 9 2009 2009 HOH HOH . 
V 6 HOH A 10 2010 2010 HOH HOH . 
V 6 HOH A 11 2011 2011 HOH HOH . 
V 6 HOH A 12 2012 2012 HOH HOH . 
V 6 HOH A 13 2013 2013 HOH HOH . 
V 6 HOH A 14 2014 2014 HOH HOH . 
V 6 HOH A 15 2015 2015 HOH HOH . 
V 6 HOH A 16 2016 2016 HOH HOH . 
V 6 HOH A 17 2017 2017 HOH HOH . 
V 6 HOH A 18 2018 2018 HOH HOH . 
V 6 HOH A 19 2019 2019 HOH HOH . 
V 6 HOH A 20 2020 2020 HOH HOH . 
V 6 HOH A 21 2021 2021 HOH HOH . 
V 6 HOH A 22 2022 2022 HOH HOH . 
V 6 HOH A 23 2023 2023 HOH HOH . 
V 6 HOH A 24 2024 2024 HOH HOH . 
W 6 HOH B 1 2001 2001 HOH HOH . 
W 6 HOH B 2 2002 2002 HOH HOH . 
W 6 HOH B 3 2003 2003 HOH HOH . 
W 6 HOH B 4 2004 2004 HOH HOH . 
W 6 HOH B 5 2005 2005 HOH HOH . 
W 6 HOH B 6 2006 2006 HOH HOH . 
W 6 HOH B 7 2007 2007 HOH HOH . 
W 6 HOH B 8 2008 2008 HOH HOH . 
W 6 HOH B 9 2009 2009 HOH HOH . 
W 6 HOH B 10 2010 2010 HOH HOH . 
W 6 HOH B 11 2011 2011 HOH HOH . 
W 6 HOH B 12 2012 2012 HOH HOH . 
W 6 HOH B 13 2013 2013 HOH HOH . 
W 6 HOH B 14 2014 2014 HOH HOH . 
W 6 HOH B 15 2015 2015 HOH HOH . 
W 6 HOH B 16 2016 2016 HOH HOH . 
W 6 HOH B 17 2017 2017 HOH HOH . 
W 6 HOH B 18 2018 2018 HOH HOH . 
W 6 HOH B 19 2019 2019 HOH HOH . 
W 6 HOH B 20 2020 2020 HOH HOH . 
W 6 HOH B 21 2021 2021 HOH HOH . 
W 6 HOH B 22 2022 2022 HOH HOH . 
W 6 HOH B 23 2023 2023 HOH HOH . 
W 6 HOH B 24 2024 2024 HOH HOH . 
W 6 HOH B 25 2025 2025 HOH HOH . 
W 6 HOH B 26 2026 2026 HOH HOH . 
W 6 HOH B 27 2027 2027 HOH HOH . 
W 6 HOH B 28 2028 2028 HOH HOH . 
W 6 HOH B 29 2029 2029 HOH HOH . 
W 6 HOH B 30 2030 2030 HOH HOH . 
X 6 HOH C 1 2001 2001 HOH HOH . 
X 6 HOH C 2 2002 2002 HOH HOH . 
X 6 HOH C 3 2003 2003 HOH HOH . 
X 6 HOH C 4 2004 2004 HOH HOH . 
X 6 HOH C 5 2005 2005 HOH HOH . 
X 6 HOH C 6 2006 2006 HOH HOH . 
X 6 HOH C 7 2007 2007 HOH HOH . 
X 6 HOH C 8 2008 2008 HOH HOH . 
X 6 HOH C 9 2009 2009 HOH HOH . 
X 6 HOH C 10 2010 2010 HOH HOH . 
X 6 HOH C 11 2011 2011 HOH HOH . 
X 6 HOH C 12 2012 2012 HOH HOH . 
X 6 HOH C 13 2013 2013 HOH HOH . 
X 6 HOH C 14 2014 2014 HOH HOH . 
X 6 HOH C 15 2015 2015 HOH HOH . 
X 6 HOH C 16 2016 2016 HOH HOH . 
X 6 HOH C 17 2017 2017 HOH HOH . 
X 6 HOH C 18 2018 2018 HOH HOH . 
X 6 HOH C 19 2019 2019 HOH HOH . 
X 6 HOH C 20 2020 2020 HOH HOH . 
X 6 HOH C 21 2021 2021 HOH HOH . 
X 6 HOH C 22 2022 2022 HOH HOH . 
X 6 HOH C 23 2023 2023 HOH HOH . 
X 6 HOH C 24 2024 2024 HOH HOH . 
Y 6 HOH D 1 2001 2001 HOH HOH . 
Y 6 HOH D 2 2002 2002 HOH HOH . 
Y 6 HOH D 3 2003 2003 HOH HOH . 
Y 6 HOH D 4 2004 2004 HOH HOH . 
Y 6 HOH D 5 2005 2005 HOH HOH . 
Y 6 HOH D 6 2006 2006 HOH HOH . 
Y 6 HOH D 7 2007 2007 HOH HOH . 
Y 6 HOH D 8 2008 2008 HOH HOH . 
Y 6 HOH D 9 2009 2009 HOH HOH . 
Y 6 HOH D 10 2010 2010 HOH HOH . 
Y 6 HOH D 11 2011 2011 HOH HOH . 
Y 6 HOH D 12 2012 2012 HOH HOH . 
Y 6 HOH D 13 2013 2013 HOH HOH . 
Y 6 HOH D 14 2014 2014 HOH HOH . 
Y 6 HOH D 15 2015 2015 HOH HOH . 
Y 6 HOH D 16 2016 2016 HOH HOH . 
Y 6 HOH D 17 2017 2017 HOH HOH . 
Y 6 HOH D 18 2018 2018 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 P PA NAP . . . P 3 -24.438 229.936 -13.865 1 50.62 ? PA NAP 501 C 1 
HETATM 2 O O1A NAP . . . P 3 -24.747 231.097 -14.761 1 51.04 ? O1A NAP 501 C 1 
HETATM 3 O O2A NAP . . . P 3 -25.405 228.677 -14.122 1 51.64 ? O2A NAP 501 C 1 
HETATM 4 O O5B NAP . . . P 3 -22.998 229.286 -14.107 1 50.99 ? O5B NAP 501 C 1 
HETATM 5 C C5B NAP . . . P 3 -22.678 228.107 -13.395 1 50.62 ? C5B NAP 501 C 1 
HETATM 6 C C4B NAP . . . P 3 -21.156 228.114 -13.635 1 52.2 ? C4B NAP 501 C 1 
HETATM 7 O O4B NAP . . . P 3 -20.467 227.304 -12.67 1 52.44 ? O4B NAP 501 C 1 
HETATM 8 C C3B NAP . . . P 3 -20.783 227.561 -15.038 1 53.14 ? C3B NAP 501 C 1 
HETATM 9 O O3B NAP . . . P 3 -19.616 228.253 -15.538 1 53.42 ? O3B NAP 501 C 1 
HETATM 10 C C2B NAP . . . P 3 -20.506 226.063 -14.711 1 53.47 ? C2B NAP 501 C 1 
HETATM 11 O O2B NAP . . . P 3 -19.539 225.33 -15.47 1 54.67 ? O2B NAP 501 C 1 
HETATM 12 C C1B NAP . . . P 3 -19.706 226.303 -13.416 1 53.13 ? C1B NAP 501 C 1 
HETATM 13 N N9A NAP . . . P 3 -19.587 224.998 -12.753 1 53.25 ? N9A NAP 501 C 1 
HETATM 14 C C8A NAP . . . P 3 -20.627 224.173 -12.337 1 52.95 ? C8A NAP 501 C 1 
HETATM 15 N N7A NAP . . . P 3 -20.154 223.076 -11.761 1 51.88 ? N7A NAP 501 C 1 
HETATM 16 C C5A NAP . . . P 3 -18.776 223.155 -11.769 1 53.01 ? C5A NAP 501 C 1 
HETATM 17 C C6A NAP . . . P 3 -17.753 222.295 -11.31 1 53.48 ? C6A NAP 501 C 1 
HETATM 18 N N6A NAP . . . P 3 -18.084 221.112 -10.69 1 55.02 ? N6A NAP 501 C 1 
HETATM 19 N N1A NAP . . . P 3 -16.481 222.639 -11.481 1 53.2 ? N1A NAP 501 C 1 
HETATM 20 C C2A NAP . . . P 3 -16.201 223.807 -12.1 1 53.93 ? C2A NAP 501 C 1 
HETATM 21 N N3A NAP . . . P 3 -17.115 224.677 -12.571 1 52.09 ? N3A NAP 501 C 1 
HETATM 22 C C4A NAP . . . P 3 -18.398 224.378 -12.419 1 52.55 ? C4A NAP 501 C 1 
HETATM 23 O O3 NAP . . . P 3 -24.461 230.547 -12.356 1 51.74 ? O3 NAP 501 C 1 
HETATM 24 P PN NAP . . . P 3 -23.978 232.093 -12.026 1 52.28 ? PN NAP 501 C 1 
HETATM 25 O O1N NAP . . . P 3 -22.8 232.6 -12.878 1 52.63 ? O1N NAP 501 C 1 
HETATM 26 O O2N NAP . . . P 3 -23.571 232.001 -10.515 1 50.67 ? O2N NAP 501 C 1 
HETATM 27 O O5D NAP . . . P 3 -25.223 233.145 -11.991 1 57.44 ? O5D NAP 501 C 1 
HETATM 28 C C5D NAP . . . P 3 -26.049 233.059 -13.163 1 62.07 ? C5D NAP 501 C 1 
HETATM 29 C C4D NAP . . . P 3 -27.155 234.146 -13.148 1 65.77 ? C4D NAP 501 C 1 
HETATM 30 O O4D NAP . . . P 3 -27.018 234.978 -11.959 1 66.93 ? O4D NAP 501 C 1 
HETATM 31 C C3D NAP . . . P 3 -27.059 235.067 -14.411 1 67.65 ? C3D NAP 501 C 1 
HETATM 32 O O3D NAP . . . P 3 -28.142 234.783 -15.319 1 67.37 ? O3D NAP 501 C 1 
HETATM 33 C C2D NAP . . . P 3 -27.233 236.512 -13.865 1 68.57 ? C2D NAP 501 C 1 
HETATM 34 O O2D NAP . . . P 3 -28.595 236.943 -13.974 1 69.33 ? O2D NAP 501 C 1 
HETATM 35 C C1D NAP . . . P 3 -26.993 236.403 -12.323 1 69.5 ? C1D NAP 501 C 1 
HETATM 36 N N1N NAP . . . P 3 -25.764 237.13 -11.813 1 73.07 ? N1N NAP 501 C 1 
HETATM 37 C C2N NAP . . . P 3 -25.51 238.456 -12.103 1 73.49 ? C2N NAP 501 C 1 
HETATM 38 C C3N NAP . . . P 3 -24.354 239.157 -11.585 1 74.16 ? C3N NAP 501 C 1 
HETATM 39 C C7N NAP . . . P 3 -24.056 240.604 -11.881 1 74.18 ? C7N NAP 501 C 1 
HETATM 40 O O7N NAP . . . P 3 -23.13 240.817 -12.653 1 75.13 ? O7N NAP 501 C 1 
HETATM 41 N N7N NAP . . . P 3 -24.744 241.696 -11.358 1 70.6 ? N7N NAP 501 C 1 
HETATM 42 C C4N NAP . . . P 3 -23.459 238.433 -10.753 1 72.75 ? C4N NAP 501 C 1 
HETATM 43 C C5N NAP . . . P 3 -23.745 237.077 -10.472 1 72.57 ? C5N NAP 501 C 1 
HETATM 44 C C6N NAP . . . P 3 -24.897 236.457 -11.004 1 73.16 ? C6N NAP 501 C 1 
HETATM 45 P P2B NAP . . . P 3 -19.928 224.986 -17.009 1 54.97 ? P2B NAP 501 C 1 
HETATM 46 O O1X NAP . . . P 3 -21.502 224.618 -17.193 1 55.85 ? O1X NAP 501 C 1 
HETATM 47 O O2X NAP . . . P 3 -18.918 223.956 -17.555 1 56.74 ? O2X NAP 501 C 1 
HETATM 48 O O3X NAP . . . P 3 -19.8 226.429 -17.781 1 55.35 ? O3X NAP 501 C 1 
#
_model_server_stats.io_time_ms              61 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    17 
_model_server_stats.query_time_ms           311 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           48 
#