data_2C38
#
_model_server_result.job_id            5OEmN9ZZfASVH6-NdHQVsA 
_model_server_result.datetime_utc      '2025-09-08 11:29:56' 
_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          2c38 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"FA","auth_seq_id":401}' 
#
_entry.id    2C38 
#
_exptl.entry_id    2C38 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              347.221 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'ADENOSINE MONOPHOSPHATE' 
_entity.pdbx_number_of_molecules    28 
_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            2C38 
_cell.length_a            206.26 
_cell.length_b            213.61 
_cell.length_c            434.04 
_cell.Z_PDB               96 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2C38 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        20 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'C 2 2 21' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PQS hexameric 6 author_and_software_defined_assembly 1 
PQS hexameric 6 author_and_software_defined_assembly 2 
PQS hexameric 6 author_and_software_defined_assembly 3 
PQS hexameric 6 author_and_software_defined_assembly 4 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,D,E,F,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA 1 1 
G,H,I,J,K,L,JA,KA,LA,MA,NA,OA,PA,QA,RA,SA,TA 2 1 
M,N,O,P,Q,R,UA,VA,WA,XA,YA,ZA,AB 3 1 
S,T,U,V,W,X,BB,CB,DB,EB,FB,GB,HB,IB,JB,KB,LB 4 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 Z N N 
? 4 AA N N 
? 4 BA N N 
? 4 CA N N 
? 4 FA N N 
? 4 GA N N 
? 4 HA N N 
? 4 IA N N 
? 4 KA N N 
? 4 LA N N 
? 4 MA N N 
? 4 NA N N 
? 4 PA N N 
? 4 QA N N 
? 4 RA N N 
? 4 SA N N 
? 4 VA N N 
? 4 WA N N 
? 4 XA N N 
? 4 YA N N 
? 4 DB N N 
? 4 EB N N 
? 4 FB N N 
? 4 GB N N 
? 4 IB N N 
? 4 JB N N 
? 4 KB N N 
? 4 LB 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 Z O3' AMP . B AMP 401 1_555 AA P AMP . B AMP 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.6 ? 
covale ? covale2 AA O3' AMP . B AMP 402 1_555 BA P AMP . B AMP 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.603 ? 
covale ? covale3 BA O3' AMP . B AMP 403 1_555 CA P AMP . B AMP 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.599 ? 
covale ? covale4 FA O3' AMP . F AMP 401 1_555 GA P AMP . F AMP 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.605 ? 
covale ? covale5 GA O3' AMP . F AMP 402 1_555 HA P AMP . F AMP 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.588 ? 
covale ? covale6 HA O3' AMP . F AMP 403 1_555 IA P AMP . F AMP 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.61 ? 
covale ? covale7 KA O3' AMP . H AMP 401 1_555 LA P AMP . H AMP 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.59 ? 
covale ? covale8 LA O3' AMP . H AMP 402 1_555 MA P AMP . H AMP 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.597 ? 
covale ? covale9 MA O3' AMP . H AMP 403 1_555 NA P AMP . H AMP 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.614 ? 
covale ? covale10 PA O3' AMP . J AMP 401 1_555 QA P AMP . J AMP 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.61 ? 
covale ? covale11 QA O3' AMP . J AMP 402 1_555 RA P AMP . J AMP 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.604 ? 
covale ? covale12 RA O3' AMP . J AMP 403 1_555 SA P AMP . J AMP 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.614 ? 
covale ? covale13 VA O3' AMP . N AMP 401 1_555 WA P AMP . N AMP 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.587 ? 
covale ? covale14 WA O3' AMP . N AMP 402 1_555 XA P AMP . N AMP 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.601 ? 
covale ? covale15 XA O3' AMP . N AMP 403 1_555 YA P AMP . N AMP 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.606 ? 
covale ? covale16 DB O3' AMP . V AMP 401 1_555 EB P AMP . V AMP 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.598 ? 
covale ? covale17 EB O3' AMP . V AMP 402 1_555 FB P AMP . V AMP 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.592 ? 
covale ? covale18 FB O3' AMP . V AMP 403 1_555 GB P AMP . V AMP 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.607 ? 
covale ? covale19 X NH1 ARG 99 X ARG 99 1_555 LB O2P AMP . X AMP 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
covale ? covale20 IB O3' AMP . X AMP 401 1_555 JB P AMP . X AMP 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.588 ? 
covale ? covale21 JB O3' AMP . X AMP 402 1_555 KB P AMP . X AMP 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.594 ? 
covale ? covale22 KB O3' AMP . X AMP 403 1_555 LB P AMP . X AMP 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.598 ? 
#
_chem_comp.formula           'C10 H14 N5 O7 P' 
_chem_comp.formula_weight    347.221 
_chem_comp.id                AMP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'ADENOSINE MONOPHOSPHATE' 
_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
P O1P AMP doub 13 n n 
P O2P AMP sing 14 n n 
P O3P AMP sing 15 n n 
P O5' AMP sing 16 n n 
O2P HOP2 AMP sing 17 n n 
O3P HOP3 AMP sing 18 n n 
O5' C5' AMP sing 19 n n 
C5' C4' AMP sing 20 n n 
C5' "H5'1" AMP sing 21 n n 
C5' "H5'2" AMP sing 22 n n 
C4' O4' AMP sing 23 n n 
C4' C3' AMP sing 24 n n 
C4' H4' AMP sing 25 n n 
O4' C1' AMP sing 26 n n 
C3' O3' AMP sing 27 n n 
C3' C2' AMP sing 28 n n 
C3' H3' AMP sing 29 n n 
O3' HO3' AMP sing 30 n n 
C2' O2' AMP sing 31 n n 
C2' C1' AMP sing 32 n n 
C2' H2' AMP sing 33 n n 
O2' HO2' AMP sing 34 n n 
C1' N9 AMP sing 35 n n 
C1' H1' AMP sing 36 n n 
N9 C8 AMP sing 37 n y 
N9 C4 AMP sing 38 n y 
C8 N7 AMP doub 39 n y 
C8 H8 AMP sing 40 n n 
N7 C5 AMP sing 41 n y 
C5 C6 AMP sing 42 n y 
C5 C4 AMP doub 43 n y 
C6 N6 AMP sing 44 n n 
C6 N1 AMP doub 45 n y 
N6 HN61 AMP sing 46 n n 
N6 HN62 AMP sing 47 n n 
N1 C2 AMP sing 48 n y 
C2 N3 AMP doub 49 n y 
C2 H2 AMP sing 50 n n 
N3 C4 AMP sing 51 n y 
#
_atom_sites.entry_id                     2C38 
_atom_sites.fract_transf_matrix[1][1]    0.004848 
_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]    0.004681 
_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]    0.002304 
_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
Y 3 CL B 1 301 301 CL CL . 
Z 4 AMP B 1 401 401 AMP AMP . 
AA 4 AMP B 1 402 402 AMP AMP . 
BA 4 AMP B 1 403 403 AMP AMP . 
CA 4 AMP B 1 404 404 AMP AMP . 
DA 3 CL D 1 301 301 CL CL . 
EA 3 CL F 1 301 301 CL CL . 
FA 4 AMP F 1 401 401 AMP AMP . 
GA 4 AMP F 1 402 402 AMP AMP . 
HA 4 AMP F 1 403 403 AMP AMP . 
IA 4 AMP F 1 404 404 AMP AMP . 
JA 3 CL H 1 301 301 CL CL . 
KA 4 AMP H 1 401 401 AMP AMP . 
LA 4 AMP H 1 402 402 AMP AMP . 
MA 4 AMP H 1 403 403 AMP AMP . 
NA 4 AMP H 1 404 404 AMP AMP . 
OA 3 CL J 1 301 301 CL CL . 
PA 4 AMP J 1 401 401 AMP AMP . 
QA 4 AMP J 1 402 402 AMP AMP . 
RA 4 AMP J 1 403 403 AMP AMP . 
SA 4 AMP J 1 404 404 AMP AMP . 
TA 3 CL L 1 301 301 CL CL . 
UA 3 CL N 1 301 301 CL CL . 
VA 4 AMP N 1 401 401 AMP AMP . 
WA 4 AMP N 1 402 402 AMP AMP . 
XA 4 AMP N 1 403 403 AMP AMP . 
YA 4 AMP N 1 404 404 AMP AMP . 
ZA 3 CL P 1 301 301 CL CL . 
AB 3 CL R 1 301 301 CL CL . 
BB 3 CL T 1 301 301 CL CL . 
CB 3 CL V 1 301 301 CL CL . 
DB 4 AMP V 1 401 401 AMP AMP . 
EB 4 AMP V 1 402 402 AMP AMP . 
FB 4 AMP V 1 403 403 AMP AMP . 
GB 4 AMP V 1 404 404 AMP AMP . 
HB 3 CL X 1 301 301 CL CL . 
IB 4 AMP X 1 401 401 AMP AMP . 
JB 4 AMP X 1 402 402 AMP AMP . 
KB 4 AMP X 1 403 403 AMP AMP . 
LB 4 AMP X 1 404 404 AMP AMP . 
#
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 P AMP . . . FA 4 -14.266 -19.803 -33.847 1 90.56 ? P AMP 401 F 1 
HETATM 2 O O1P AMP . . . FA 4 -15.284 -19.18 -32.954 1 90.94 ? O1P AMP 401 F 1 
HETATM 3 O O2P AMP . . . FA 4 -14.396 -21.231 -34.253 1 90.62 ? O2P AMP 401 F 1 
HETATM 4 O O3P AMP . . . FA 4 -12.95 -19.667 -33.179 1 91.11 ? O3P AMP 401 F 1 
HETATM 5 O O5' AMP . . . FA 4 -14.192 -18.947 -35.193 1 89.03 ? O5' AMP 401 F 1 
HETATM 6 C C5' AMP . . . FA 4 -14.551 -17.575 -35.185 1 86.91 ? C5' AMP 401 F 1 
HETATM 7 C C4' AMP . . . FA 4 -13.428 -16.698 -35.699 1 84.97 ? C4' AMP 401 F 1 
HETATM 8 O O4' AMP . . . FA 4 -12.53 -16.341 -34.618 1 84.87 ? O4' AMP 401 F 1 
HETATM 9 C C3' AMP . . . FA 4 -12.464 -17.291 -36.716 1 83.43 ? C3' AMP 401 F 1 
HETATM 10 O O3' AMP . . . FA 4 -13.045 -17.505 -37.996 1 81.29 ? O3' AMP 401 F 1 
HETATM 11 C C2' AMP . . . FA 4 -11.466 -16.148 -36.728 1 84.14 ? C2' AMP 401 F 1 
HETATM 12 O O2' AMP . . . FA 4 -11.93 -15.049 -37.489 1 84.03 ? O2' AMP 401 F 1 
HETATM 13 C C1' AMP . . . FA 4 -11.376 -15.801 -35.234 1 85.21 ? C1' AMP 401 F 1 
HETATM 14 N N9 AMP . . . FA 4 -10.129 -16.29 -34.628 1 85.4 ? N9 AMP 401 F 1 
HETATM 15 C C8 AMP . . . FA 4 -9.898 -17.392 -33.84 1 85.41 ? C8 AMP 401 F 1 
HETATM 16 N N7 AMP . . . FA 4 -8.638 -17.544 -33.483 1 85.27 ? N7 AMP 401 F 1 
HETATM 17 C C5 AMP . . . FA 4 -7.989 -16.465 -34.083 1 85.74 ? C5 AMP 401 F 1 
HETATM 18 C C6 AMP . . . FA 4 -6.635 -16.01 -34.111 1 85.76 ? C6 AMP 401 F 1 
HETATM 19 N N6 AMP . . . FA 4 -5.61 -16.607 -33.492 1 85.71 ? N6 AMP 401 F 1 
HETATM 20 N N1 AMP . . . FA 4 -6.349 -14.886 -34.814 1 85.76 ? N1 AMP 401 F 1 
HETATM 21 C C2 AMP . . . FA 4 -7.345 -14.248 -35.454 1 85.75 ? C2 AMP 401 F 1 
HETATM 22 N N3 AMP . . . FA 4 -8.642 -14.566 -35.505 1 85.76 ? N3 AMP 401 F 1 
HETATM 23 C C4 AMP . . . FA 4 -8.9 -15.689 -34.793 1 85.74 ? C4 AMP 401 F 1 
#
_model_server_stats.io_time_ms              23 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    50 
_model_server_stats.query_time_ms           319 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           23 
#