data_3D68
#
_model_server_result.job_id            f1mETZwcSszVCLvCRZmy1A 
_model_server_result.datetime_utc      '2024-11-06 02:51:54' 
_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          3d68 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"O","auth_seq_id":650}' 
#
_entry.id    3D68 
#
_exptl.entry_id    3D68 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              175.209 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            ARGININE 
_entity.pdbx_number_of_molecules    3 
_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            3D68 
_cell.length_a            159.46 
_cell.length_b            159.46 
_cell.length_c            139.18 
_cell.Z_PDB               18 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3D68 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        152 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 31 2 1' 
#
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 monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 author_and_software_defined_assembly 2 
PISA monomeric 1 author_and_software_defined_assembly 3 
#
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,I 1 1 
B,J,K,L,M,N,O 2 1 
C,P,Q,R,S,T 3 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 I N N 
? 4 O N N 
? 4 T 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 179 A CYS 156 1_555 A SG CYS 192 A CYS 169 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? 
disulf ? disulf2 A SG CYS 251 A CYS 228 1_555 A SG CYS 275 A CYS 252 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? 
disulf ? disulf3 A SG CYS 266 A CYS 243 1_555 A SG CYS 280 A CYS 257 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? 
disulf ? disulf4 B SG CYS 179 B CYS 156 1_555 B SG CYS 192 B CYS 169 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.01 ? 
disulf ? disulf5 B SG CYS 251 B CYS 228 1_555 B SG CYS 275 B CYS 252 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? 
disulf ? disulf6 B SG CYS 266 B CYS 243 1_555 B SG CYS 280 B CYS 257 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.128 ? 
disulf ? disulf7 C SG CYS 179 C CYS 156 1_555 C SG CYS 192 C CYS 169 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? 
disulf ? disulf8 C SG CYS 251 C CYS 228 1_555 C SG CYS 275 C CYS 252 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.093 ? 
disulf ? disulf9 C SG CYS 266 C CYS 243 1_555 C SG CYS 280 C CYS 257 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? 
covale ? covale1 A ND2 ASN 45 A ASN 22 1_555 D C1 NAG . A NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.474 ? 
covale ? covale2 A ND2 ASN 74 A ASN 51 1_555 E C1 NAG . A NAG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? 
covale ? covale3 A ND2 ASN 86 A ASN 63 1_555 F C1 NAG . A NAG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.505 ? 
covale ? covale4 A ND2 ASN 109 A ASN 86 1_555 G C1 NAG . A NAG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.467 ? 
covale ? covale5 B ND2 ASN 45 B ASN 22 1_555 J C1 NAG . B NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.459 ? 
covale ? covale6 B ND2 ASN 74 B ASN 51 1_555 K C1 NAG . B NAG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? 
covale ? covale7 B ND2 ASN 86 B ASN 63 1_555 L C1 NAG . B NAG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.475 ? 
covale ? covale8 B ND2 ASN 109 B ASN 86 1_555 M C1 NAG . B NAG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.47 ? 
covale ? covale9 C ND2 ASN 45 C ASN 22 1_555 P C1 NAG . C NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.473 ? 
covale ? covale10 C ND2 ASN 74 C ASN 51 1_555 Q C1 NAG . C NAG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.463 ? 
covale ? covale11 C ND2 ASN 109 C ASN 86 1_555 R C1 NAG . C NAG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? 
metalc ? metalc1 A ND1 HIS 182 A HIS 159 1_555 H ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.171 ? 
metalc ? metalc2 A OE1 GLU 185 A GLU 162 1_555 H ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
metalc ? metalc3 A ND1 HIS 311 A HIS 288 1_555 H ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.105 ? 
metalc ? metalc4 B ND1 HIS 182 B HIS 159 1_555 N ZN ZN . B ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.009 ? 
metalc ? metalc5 B OE1 GLU 185 B GLU 162 1_555 N ZN ZN . B ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? 
metalc ? metalc6 B ND1 HIS 311 B HIS 288 1_555 N ZN ZN . B ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.982 ? 
metalc ? metalc7 C ND1 HIS 182 C HIS 159 1_555 S ZN ZN . C ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.878 ? 
metalc ? metalc8 C OE1 GLU 185 C GLU 162 1_555 S ZN ZN . C ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.166 ? 
metalc ? metalc9 C ND1 HIS 311 C HIS 288 1_555 S ZN ZN . C ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? 
#
_chem_comp.formula           'C6 H15 N4 O2 1' 
_chem_comp.formula_weight    175.209 
_chem_comp.id                ARG 
_chem_comp.mon_nstd_flag     y 
_chem_comp.name              ARGININE 
_chem_comp.type              'l-peptide linking' 
_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
N CA ARG sing 13 n n 
N H ARG sing 14 n n 
N H2 ARG sing 15 n n 
CA C ARG sing 16 n n 
CA CB ARG sing 17 n n 
CA HA ARG sing 18 n n 
C O ARG doub 19 n n 
C OXT ARG sing 20 n n 
CB CG ARG sing 21 n n 
CB HB2 ARG sing 22 n n 
CB HB3 ARG sing 23 n n 
CG CD ARG sing 24 n n 
CG HG2 ARG sing 25 n n 
CG HG3 ARG sing 26 n n 
CD NE ARG sing 27 n n 
CD HD2 ARG sing 28 n n 
CD HD3 ARG sing 29 n n 
NE CZ ARG sing 30 n n 
NE HE ARG sing 31 n n 
CZ NH1 ARG sing 32 n n 
CZ NH2 ARG doub 33 n n 
NH1 HH11 ARG sing 34 n n 
NH1 HH12 ARG sing 35 n n 
NH2 HH21 ARG sing 36 n n 
NH2 HH22 ARG sing 37 n n 
OXT HXT ARG sing 38 n n 
#
_atom_sites.entry_id                     3D68 
_atom_sites.fract_transf_matrix[1][1]    0.006271 
_atom_sites.fract_transf_matrix[1][2]    0.003621 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.007241 
_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]    0.007185 
_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
D 2 NAG A 1 601 601 NAG NAG . 
E 2 NAG A 1 602 602 NAG NAG . 
F 2 NAG A 1 603 603 NAG NAG . 
G 2 NAG A 1 604 604 NAG NAG . 
H 3 ZN A 1 501 501 ZN ZN . 
I 4 ARG A 1 650 650 ARG ARG . 
J 2 NAG B 1 601 601 NAG NAG . 
K 2 NAG B 1 602 602 NAG NAG . 
L 2 NAG B 1 603 603 NAG NAG . 
M 2 NAG B 1 604 604 NAG NAG . 
N 3 ZN B 1 501 501 ZN ZN . 
O 4 ARG B 1 650 650 ARG ARG . 
P 2 NAG C 1 601 601 NAG NAG . 
Q 2 NAG C 1 602 602 NAG NAG . 
R 2 NAG C 1 604 604 NAG NAG . 
S 3 ZN C 1 501 501 ZN ZN . 
T 4 ARG C 1 650 650 ARG ARG . 
#
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 N ARG . . . O 4 56.657 -4.858 20.127 1 72.58 ? N ARG 650 B 1 
HETATM 2 C CA ARG . . . O 4 56.212 -3.406 20.007 1 73.97 ? CA ARG 650 B 1 
HETATM 3 C C ARG . . . O 4 56.616 -2.553 18.757 1 74.25 ? C ARG 650 B 1 
HETATM 4 O O ARG . . . O 4 55.755 -1.88 18.165 1 73.89 ? O ARG 650 B 1 
HETATM 5 C CB ARG . . . O 4 56.67 -2.57 21.207 1 74.13 ? CB ARG 650 B 1 
HETATM 6 C CG ARG . . . O 4 56.228 -1.069 21.087 1 73.89 ? CG ARG 650 B 1 
HETATM 7 C CD ARG . . . O 4 56.995 -0.094 21.957 1 74.73 ? CD ARG 650 B 1 
HETATM 8 N NE ARG . . . O 4 57.022 1.249 21.363 1 77.07 ? NE ARG 650 B 1 
HETATM 9 C CZ ARG . . . O 4 55.987 2.093 21.312 1 77.08 ? CZ ARG 650 B 1 
HETATM 10 N NH1 ARG . . . O 4 54.819 1.737 21.822 1 78.67 ? NH1 ARG 650 B 1 
HETATM 11 N NH2 ARG . . . O 4 56.11 3.292 20.742 1 74.75 ? NH2 ARG 650 B 1 
HETATM 12 O OXT ARG . . . O 4 57.782 -2.398 18.354 1 74.37 ? OXT ARG 650 B 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    16 
_model_server_stats.query_time_ms           226 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           12 
#