data_6C3P
#
_model_server_result.job_id            EwhdpLZL1HQq05bf2VTSAQ 
_model_server_result.datetime_utc      '2024-11-22 22:17:55' 
_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          6c3p 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"Q","auth_seq_id":2001}' 
#
_entry.id    6C3P 
#
_exptl.entry_id    6C3P 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-DIPHOSPHATE" 
_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            6C3P 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6C3P 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    octameric 
_pdbx_struct_assembly.oligomeric_count      8 
_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 
_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    ? 
_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 M N N 
? 4 Q N N 
? 4 U N N 
? 4 Y 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 A SG CYS 116 A CYS 110 1_555 A SG CYS 148 A CYS 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? 
disulf ? disulf2 B SG CYS 116 D CYS 110 1_555 B SG CYS 148 D CYS 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? 
disulf ? disulf3 C SG CYS 116 B CYS 110 1_555 C SG CYS 148 B CYS 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? 
disulf ? disulf4 D SG CYS 116 C CYS 110 1_555 D SG CYS 148 C CYS 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? 
disulf ? disulf5 E SG CYS 6 E CYS 6 1_555 E SG CYS 26 E CYS 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf6 F SG CYS 6 H CYS 6 1_555 F SG CYS 26 H CYS 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf7 G SG CYS 6 G CYS 6 1_555 G SG CYS 26 G CYS 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf8 H SG CYS 6 F CYS 6 1_555 H SG CYS 26 F CYS 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
metalc ? metalc1 E OG SER 720 E SER 720 1_555 N MG MG . E MG 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? 
metalc ? metalc2 E OE1 GLN 774 E GLN 774 1_555 N MG MG . E MG 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.088 ? 
metalc ? metalc3 M O3B ADP . E ADP 2001 1_555 O MG MG . E MG 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.142 ? 
metalc ? metalc4 N MG MG . E MG 2002 1_555 P O2B ATP . E ATP 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.962 ? 
metalc ? metalc5 N MG MG . E MG 2002 1_555 P O3B ATP . E ATP 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.236 ? 
metalc ? metalc6 N MG MG . E MG 2002 1_555 P O3A ATP . E ATP 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.483 ? 
metalc ? metalc7 F OG SER 720 H SER 720 1_555 R MG MG . H MG 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? 
metalc ? metalc8 F OE1 GLN 774 H GLN 774 1_555 R MG MG . H MG 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.088 ? 
metalc ? metalc9 Q O3B ADP . H ADP 2001 1_555 S MG MG . H MG 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.143 ? 
metalc ? metalc10 R MG MG . H MG 2002 1_555 T O2B ATP . H ATP 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.961 ? 
metalc ? metalc11 R MG MG . H MG 2002 1_555 T O3B ATP . H ATP 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.236 ? 
metalc ? metalc12 R MG MG . H MG 2002 1_555 T O3A ATP . H ATP 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.483 ? 
metalc ? metalc13 G OG SER 720 G SER 720 1_555 V MG MG . G MG 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? 
metalc ? metalc14 G OE1 GLN 774 G GLN 774 1_555 V MG MG . G MG 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.089 ? 
metalc ? metalc15 U O3B ADP . G ADP 2001 1_555 W MG MG . G MG 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.143 ? 
metalc ? metalc16 V MG MG . G MG 2002 1_555 X O3B ATP . G ATP 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.234 ? 
metalc ? metalc17 V MG MG . G MG 2002 1_555 X O2B ATP . G ATP 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.961 ? 
metalc ? metalc18 V MG MG . G MG 2002 1_555 X O3A ATP . G ATP 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.483 ? 
metalc ? metalc19 H OG SER 720 F SER 720 1_555 Z MG MG . F MG 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? 
metalc ? metalc20 H OE1 GLN 774 F GLN 774 1_555 Z MG MG . F MG 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.088 ? 
metalc ? metalc21 Y O3B ADP . F ADP 2001 1_555 AA MG MG . F MG 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.142 ? 
metalc ? metalc22 Z MG MG . F MG 2002 1_555 BA O3B ATP . F ATP 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.234 ? 
metalc ? metalc23 Z MG MG . F MG 2002 1_555 BA O2B ATP . F ATP 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.961 ? 
metalc ? metalc24 Z MG MG . F MG 2002 1_555 BA O3A ATP . F ATP 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.483 ? 
#
_chem_comp.formula           'C10 H15 N5 O10 P2' 
_chem_comp.formula_weight    427.201 
_chem_comp.id                ADP 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              "ADENOSINE-5'-DIPHOSPHATE" 
_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
PB O1B ADP doub 1 n n 
PB O2B ADP sing 2 n n 
PB O3B ADP sing 3 n n 
PB O3A ADP sing 4 n n 
O2B HOB2 ADP sing 5 n n 
O3B HOB3 ADP sing 6 n n 
PA O1A ADP doub 7 n n 
PA O2A ADP sing 8 n n 
PA O3A ADP sing 9 n n 
PA O5' ADP sing 10 n n 
O2A HOA2 ADP sing 11 n n 
O5' C5' ADP sing 12 n n 
C5' C4' ADP sing 13 n n 
C5' "H5'1" ADP sing 14 n n 
C5' "H5'2" ADP sing 15 n n 
C4' O4' ADP sing 16 n n 
C4' C3' ADP sing 17 n n 
C4' H4' ADP sing 18 n n 
O4' C1' ADP sing 19 n n 
C3' O3' ADP sing 20 n n 
C3' C2' ADP sing 21 n n 
C3' H3' ADP sing 22 n n 
O3' HO3' ADP sing 23 n n 
C2' O2' ADP sing 24 n n 
C2' C1' ADP sing 25 n n 
C2' H2' ADP sing 26 n n 
O2' HO2' ADP sing 27 n n 
C1' N9 ADP sing 28 n n 
C1' H1' ADP sing 29 n n 
N9 C8 ADP sing 30 n y 
N9 C4 ADP sing 31 n y 
C8 N7 ADP doub 32 n y 
C8 H8 ADP sing 33 n n 
N7 C5 ADP sing 34 n y 
C5 C6 ADP sing 35 n y 
C5 C4 ADP doub 36 n y 
C6 N6 ADP sing 37 n n 
C6 N1 ADP doub 38 n y 
N6 HN61 ADP sing 39 n n 
N6 HN62 ADP sing 40 n n 
N1 C2 ADP sing 41 n y 
C2 N3 ADP doub 42 n y 
C2 H2 ADP sing 43 n n 
N3 C4 ADP sing 44 n y 
#
_atom_sites.entry_id                     6C3P 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_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
I 3 ATP A 1 501 1 ATP ATP . 
J 3 ATP A 1 502 4 ATP ATP . 
K 3 ATP D 1 501 3 ATP ATP . 
L 3 ATP C 1 501 2 ATP ATP . 
M 4 ADP E 1 2001 2001 ADP ADP . 
N 5 MG E 1 2002 2002 MG MG . 
O 5 MG E 1 2003 2003 MG MG . 
P 3 ATP E 1 2004 2004 ATP ATP . 
Q 4 ADP H 1 2001 2001 ADP ADP . 
R 5 MG H 1 2002 2002 MG MG . 
S 5 MG H 1 2003 2003 MG MG . 
T 3 ATP H 1 2004 2004 ATP ATP . 
U 4 ADP G 1 2001 2001 ADP ADP . 
V 5 MG G 1 2002 2002 MG MG . 
W 5 MG G 1 2003 2003 MG MG . 
X 3 ATP G 1 2004 2004 ATP ATP . 
Y 4 ADP F 1 2001 2001 ADP ADP . 
Z 5 MG F 1 2002 2002 MG MG . 
AA 5 MG F 1 2003 2003 MG MG . 
BA 3 ATP F 1 2004 2004 ATP ATP . 
#
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 PB ADP . . . Q 4 140.965 250.38 149.143 1 169.79 ? PB ADP 2001 H 1 
HETATM 2 O O1B ADP . . . Q 4 141.089 249.019 148.506 1 169.79 ? O1B ADP 2001 H 1 
HETATM 3 O O2B ADP . . . Q 4 141.945 251.397 148.614 1 169.79 ? O2B ADP 2001 H 1 
HETATM 4 O O3B ADP . . . Q 4 139.552 250.882 149.298 1 169.79 ? O3B ADP 2001 H 1 
HETATM 5 P PA ADP . . . Q 4 141.476 251.37 151.693 1 169.79 ? PA ADP 2001 H 1 
HETATM 6 O O1A ADP . . . Q 4 141.106 252.641 150.965 1 169.79 ? O1A ADP 2001 H 1 
HETATM 7 O O2A ADP . . . Q 4 140.712 250.973 152.935 1 169.79 ? O2A ADP 2001 H 1 
HETATM 8 O O3A ADP . . . Q 4 141.398 250.134 150.668 1 169.79 ? O3A ADP 2001 H 1 
HETATM 9 O O5' ADP . . . Q 4 143.036 251.42 152.063 1 169.79 ? O5' ADP 2001 H 1 
HETATM 10 C C5' ADP . . . Q 4 144.018 251.554 151.043 1 169.79 ? C5' ADP 2001 H 1 
HETATM 11 C C4' ADP . . . Q 4 145.384 251.424 151.699 1 169.79 ? C4' ADP 2001 H 1 
HETATM 12 O O4' ADP . . . Q 4 145.292 251.914 153.035 1 169.79 ? O4' ADP 2001 H 1 
HETATM 13 C C3' ADP . . . Q 4 145.841 249.977 151.773 1 169.79 ? C3' ADP 2001 H 1 
HETATM 14 O O3' ADP . . . Q 4 147.073 249.849 151.061 1 169.79 ? O3' ADP 2001 H 1 
HETATM 15 C C2' ADP . . . Q 4 146.065 249.68 153.242 1 169.79 ? C2' ADP 2001 H 1 
HETATM 16 O O2' ADP . . . Q 4 147.378 249.158 153.452 1 169.79 ? O2' ADP 2001 H 1 
HETATM 17 C C1' ADP . . . Q 4 145.907 251.013 153.951 1 169.79 ? C1' ADP 2001 H 1 
HETATM 18 N N9 ADP . . . Q 4 145.027 250.857 155.13 1 169.79 ? N9 ADP 2001 H 1 
HETATM 19 C C8 ADP . . . Q 4 143.692 250.707 155.1 1 169.79 ? C8 ADP 2001 H 1 
HETATM 20 N N7 ADP . . . Q 4 143.187 250.591 156.355 1 169.79 ? N7 ADP 2001 H 1 
HETATM 21 C C5 ADP . . . Q 4 144.22 250.667 157.211 1 169.79 ? C5 ADP 2001 H 1 
HETATM 22 C C6 ADP . . . Q 4 144.399 250.618 158.678 1 169.79 ? C6 ADP 2001 H 1 
HETATM 23 N N6 ADP . . . Q 4 143.344 250.463 159.509 1 169.79 ? N6 ADP 2001 H 1 
HETATM 24 N N1 ADP . . . Q 4 145.651 250.734 159.164 1 169.79 ? N1 ADP 2001 H 1 
HETATM 25 C C2 ADP . . . Q 4 146.716 250.894 158.356 1 169.79 ? C2 ADP 2001 H 1 
HETATM 26 N N3 ADP . . . Q 4 146.629 250.947 157.017 1 169.79 ? N3 ADP 2001 H 1 
HETATM 27 C C4 ADP . . . Q 4 145.431 250.838 156.399 1 169.79 ? C4 ADP 2001 H 1 
#
_model_server_stats.io_time_ms              22 
_model_server_stats.parse_time_ms           32 
_model_server_stats.create_model_time_ms    58 
_model_server_stats.query_time_ms           286 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           27 
#