data_2VMY
#
_model_server_result.job_id            2pgjOyyaIc4IvZViq2tfhQ 
_model_server_result.datetime_utc      '2024-11-24 16:33:11' 
_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          2vmy 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":505}' 
#
_entry.id    2VMY 
#
_exptl.entry_id    2VMY 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              473.439 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'N-[4-({[(6S)-2-amino-5-formyl-4-oxo-3,4,5,6,7,8-hexahydropteridin-6-yl]methyl}amino)benzoyl]-L-glutamic 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          90.33 
_cell.angle_gamma         90 
_cell.entry_id            2VMY 
_cell.length_a            57.382 
_cell.length_b            103.483 
_cell.length_c            61.959 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2VMY 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_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 
_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
? 4 E N N 
? 4 H 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 D C4A PLP . A PLP 501 1_555 C N GLY . A GLY 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.233 ? 
covale ? covale2 G C4A PLP . B PLP 501 1_555 F N GLY . B GLY 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.23 ? 
#
_chem_comp.formula           'C20 H23 N7 O7' 
_chem_comp.formula_weight    473.439 
_chem_comp.id                FFO 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'N-[4-({[(6S)-2-amino-5-formyl-4-oxo-3,4,5,6,7,8-hexahydropteridin-6-yl]methyl}amino)benzoyl]-L-glutamic acid' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     '[6S]-5-FORMYL-TETRAHYDROFOLATE;6S-FOLINIC ACID' 
#
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
N1 C2 FFO doub 83 n n 
N1 C8A FFO sing 84 n n 
C2 NA2 FFO sing 85 n n 
C2 N3 FFO sing 86 n n 
NA2 HN21 FFO sing 87 n n 
NA2 HN22 FFO sing 88 n n 
N3 C4 FFO sing 89 n n 
N3 H22 FFO sing 90 n n 
C4 O4 FFO doub 91 n n 
C4 C4A FFO sing 92 n n 
C4A N5 FFO sing 93 n n 
C4A C8A FFO doub 94 n n 
N5 C6 FFO sing 95 n n 
N5 C5A FFO sing 96 n n 
C6 C7 FFO sing 97 n n 
C6 C9 FFO sing 98 n n 
C6 H6 FFO sing 99 n n 
C7 N8 FFO sing 100 n n 
C7 H7 FFO sing 101 n n 
C7 H23 FFO sing 102 n n 
N8 C8A FFO sing 103 n n 
N8 H24 FFO sing 104 n n 
C9 N10 FFO sing 105 n n 
C9 H91 FFO sing 106 n n 
C9 H92 FFO sing 107 n n 
N10 C14 FFO sing 108 n n 
N10 HN0 FFO sing 109 n n 
C11 C12 FFO doub 110 n y 
C11 C16 FFO sing 111 n y 
C11 C FFO sing 112 n n 
C12 C13 FFO sing 113 n y 
C12 H12 FFO sing 114 n n 
C13 C14 FFO doub 115 n y 
C13 H13 FFO sing 116 n n 
C14 C15 FFO sing 117 n y 
C15 C16 FFO doub 118 n y 
C15 H15 FFO sing 119 n n 
C16 H16 FFO sing 120 n n 
C O FFO doub 121 n n 
C N FFO sing 122 n n 
N CA FFO sing 123 n n 
N HN FFO sing 124 n n 
CA CB FFO sing 125 n n 
CA CT FFO sing 126 n n 
CA HA FFO sing 127 n n 
CB CG FFO sing 128 n n 
CB HB1 FFO sing 129 n n 
CB HB2 FFO sing 130 n n 
CG CD FFO sing 131 n n 
CG HG1 FFO sing 132 n n 
CG HG2 FFO sing 133 n n 
CD OE1 FFO doub 134 n n 
CD OE2 FFO sing 135 n n 
OE2 HOE2 FFO sing 136 n n 
CT O1 FFO doub 137 n n 
CT O2 FFO sing 138 n n 
O2 HO2 FFO sing 139 n n 
C5A O5B FFO doub 140 n n 
C5A H5A FFO sing 141 n n 
#
_atom_sites.entry_id                     2VMY 
_atom_sites.fract_transf_matrix[1][1]    0.017427 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.0001 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.009663 
_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]    0.01614 
_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 GLY A 1 502 502 GLY GLY . 
D 3 PLP A 1 501 501 PLP PLP . 
E 4 FFO A 1 505 505 FFO FFO . 
F 2 GLY B 1 502 502 GLY GLY . 
G 3 PLP B 1 501 501 PLP PLP . 
H 4 FFO B 1 505 505 FFO FFO . 
I 5 MRD B 1 701 701 MRD MRD . 
J 6 HOH A 1 2001 2001 HOH HOH . 
J 6 HOH A 2 2002 2002 HOH HOH . 
J 6 HOH A 3 2003 2003 HOH HOH . 
J 6 HOH A 4 2004 2004 HOH HOH . 
J 6 HOH A 5 2005 2005 HOH HOH . 
J 6 HOH A 6 2006 2006 HOH HOH . 
J 6 HOH A 7 2007 2007 HOH HOH . 
J 6 HOH A 8 2008 2008 HOH HOH . 
J 6 HOH A 9 2009 2009 HOH HOH . 
J 6 HOH A 10 2010 2010 HOH HOH . 
J 6 HOH A 11 2011 2011 HOH HOH . 
J 6 HOH A 12 2012 2012 HOH HOH . 
K 6 HOH B 1 2001 2001 HOH HOH . 
K 6 HOH B 2 2002 2002 HOH HOH . 
K 6 HOH B 3 2003 2003 HOH HOH . 
K 6 HOH B 4 2004 2004 HOH HOH . 
K 6 HOH B 5 2005 2005 HOH HOH . 
K 6 HOH B 6 2006 2006 HOH HOH . 
K 6 HOH B 7 2007 2007 HOH HOH . 
K 6 HOH B 8 2008 2008 HOH HOH . 
K 6 HOH B 9 2009 2009 HOH HOH . 
K 6 HOH B 10 2010 2010 HOH HOH . 
K 6 HOH B 11 2011 2011 HOH HOH . 
K 6 HOH B 12 2012 2012 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 N N1 FFO . . . H 4 21.552 -7.958 22.615 1 59.72 ? N1 FFO 505 B 1 
HETATM 2 C C2 FFO . . . H 4 22.744 -7.545 23.076 1 59.86 ? C2 FFO 505 B 1 
HETATM 3 N NA2 FFO . . . H 4 23.395 -8.271 23.982 1 59.83 ? NA2 FFO 505 B 1 
HETATM 4 N N3 FFO . . . H 4 23.299 -6.348 22.604 1 59.81 ? N3 FFO 505 B 1 
HETATM 5 C C4 FFO . . . H 4 22.603 -5.59 21.653 1 59.63 ? C4 FFO 505 B 1 
HETATM 6 O O4 FFO . . . H 4 23.164 -4.424 21.204 1 59.44 ? O4 FFO 505 B 1 
HETATM 7 C C4A FFO . . . H 4 21.361 -6.046 21.196 1 59.92 ? C4A FFO 505 B 1 
HETATM 8 N N5 FFO . . . H 4 20.577 -5.361 20.231 1 60.24 ? N5 FFO 505 B 1 
HETATM 9 C C6 FFO . . . H 4 19.588 -6.113 19.432 1 60.19 ? C6 FFO 505 B 1 
HETATM 10 C C7 FFO . . . H 4 18.784 -7.048 20.349 1 60.05 ? C7 FFO 505 B 1 
HETATM 11 N N8 FFO . . . H 4 19.615 -7.74 21.257 1 59.91 ? N8 FFO 505 B 1 
HETATM 12 C C8A FFO . . . H 4 20.861 -7.248 21.704 1 59.91 ? C8A FFO 505 B 1 
HETATM 13 C C9 FFO . . . H 4 20.283 -6.922 18.324 1 60.54 ? C9 FFO 505 B 1 
HETATM 14 N N10 FFO . . . H 4 21.057 -6.012 17.463 1 60.55 ? N10 FFO 505 B 1 
HETATM 15 C C11 FFO . . . H 4 24.688 -7 15.779 1 60.58 ? C11 FFO 505 B 1 
HETATM 16 C C12 FFO . . . H 4 24.405 -7.379 17.093 1 60.54 ? C12 FFO 505 B 1 
HETATM 17 C C13 FFO . . . H 4 23.182 -7.054 17.675 1 60.28 ? C13 FFO 505 B 1 
HETATM 18 C C14 FFO . . . H 4 22.234 -6.349 16.933 1 60.59 ? C14 FFO 505 B 1 
HETATM 19 C C15 FFO . . . H 4 22.52 -5.97 15.618 1 60.59 ? C15 FFO 505 B 1 
HETATM 20 C C16 FFO . . . H 4 23.745 -6.291 15.039 1 60.5 ? C16 FFO 505 B 1 
HETATM 21 C C FFO . . . H 4 26.036 -7.382 15.168 1 60.62 ? C FFO 505 B 1 
HETATM 22 O O FFO . . . H 4 27.008 -7.587 15.895 1 60.64 ? O FFO 505 B 1 
HETATM 23 N N FFO . . . H 4 26.061 -7.491 13.835 1 60.74 ? N FFO 505 B 1 
HETATM 24 C CA FFO . . . H 4 27.3 -7.862 13.113 1 61 ? CA FFO 505 B 1 
HETATM 25 C CB FFO . . . H 4 27.535 -9.385 13.181 1 61.07 ? CB FFO 505 B 1 
HETATM 26 C CG FFO . . . H 4 26.562 -10.191 12.314 1 61.16 ? CG FFO 505 B 1 
HETATM 27 C CD FFO . . . H 4 26.765 -11.696 12.517 1 61.63 ? CD FFO 505 B 1 
HETATM 28 O OE1 FFO . . . H 4 27.938 -12.125 12.55 1 61.5 ? OE1 FFO 505 B 1 
HETATM 29 O OE2 FFO . . . H 4 25.735 -12.394 12.626 1 62.41 ? OE2 FFO 505 B 1 
HETATM 30 C CT FFO . . . H 4 27.298 -7.384 11.652 1 60.95 ? CT FFO 505 B 1 
HETATM 31 O O1 FFO . . . H 4 28.404 -7.396 11.073 1 60.94 ? O1 FFO 505 B 1 
HETATM 32 O O2 FFO . . . H 4 26.209 -7.027 11.151 1 61.2 ? O2 FFO 505 B 1 
HETATM 33 C C5A FFO . . . H 4 20.7 -3.903 19.991 1 60.82 ? C5A FFO 505 B 1 
HETATM 34 O O5B FFO . . . H 4 21.252 -3.51 18.963 1 61.35 ? O5B FFO 505 B 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    7 
_model_server_stats.query_time_ms           283 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           34 
#