data_1NCD
#
_model_server_result.job_id            b_xCUctYtj8a_ZS0zTc9zw 
_model_server_result.datetime_utc      '2024-11-22 17:57:45' 
_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          1ncd 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":0}' 
#
_entry.id    1NCD 
#
_exptl.entry_id    1NCD 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              40.078 
_entity.id                          7 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'CALCIUM ION' 
_entity.pdbx_number_of_molecules    1 
_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            1NCD 
_cell.length_a            167 
_cell.length_b            167 
_cell.length_c            124 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1NCD 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        90 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 4 21 2' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    dodecameric 
_pdbx_struct_assembly.oligomeric_count      12 
_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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2,3,4 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 4_555 y+1/2,-x+1/2,z 0 1 0 -1 0 0 0 0 1 83.5 83.5 0 
3 'crystal symmetry operation' 3_545 -y+1/2,x-1/2,z 0 -1 0 1 0 0 0 0 1 83.5 -83.5 0 
4 'crystal symmetry operation' 2_655 -x+1,-y,z -1 0 0 0 -1 0 0 0 1 167 0 0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      7 
_struct_asym.id                             G 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
loop_
_pdbx_entity_branch.entity_id
_pdbx_entity_branch.type
4 oligosaccharide 
5 oligosaccharide 
#
loop_
_pdbx_entity_branch_link.link_id
_pdbx_entity_branch_link.details
_pdbx_entity_branch_link.entity_id
_pdbx_entity_branch_link.entity_branch_list_num_1
_pdbx_entity_branch_link.entity_branch_list_num_2
_pdbx_entity_branch_link.comp_id_1
_pdbx_entity_branch_link.comp_id_2
_pdbx_entity_branch_link.atom_id_1
_pdbx_entity_branch_link.leaving_atom_id_1
_pdbx_entity_branch_link.atom_stereo_config_1
_pdbx_entity_branch_link.atom_id_2
_pdbx_entity_branch_link.leaving_atom_id_2
_pdbx_entity_branch_link.atom_stereo_config_2
_pdbx_entity_branch_link.value_order
1 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 
2 ? 4 3 2 BMA NAG C1 O1 . O4 HO4 . sing 
3 ? 4 4 3 MAN BMA C1 O1 . O3 HO3 . sing 
4 ? 4 5 4 MAN MAN C1 O1 . O2 HO2 . sing 
5 ? 4 6 5 MAN MAN C1 O1 . O2 HO2 . sing 
6 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 
#
loop_
_pdbx_branch_scheme.entity_id
_pdbx_branch_scheme.hetero
_pdbx_branch_scheme.asym_id
_pdbx_branch_scheme.mon_id
_pdbx_branch_scheme.num
_pdbx_branch_scheme.pdb_asym_id
_pdbx_branch_scheme.pdb_seq_num
_pdbx_branch_scheme.pdb_mon_id
_pdbx_branch_scheme.auth_asym_id
_pdbx_branch_scheme.auth_seq_num
_pdbx_branch_scheme.auth_mon_id
4 n D NAG 1 A 1 NAG N 200 NAG 
4 n D NAG 2 A 2 NAG N 200 NAG 
4 n D BMA 3 A 3 BMA N 200 MAN 
4 n D MAN 4 A 4 MAN N 200 MAN 
4 n D MAN 5 A 5 MAN N 200 MAN 
4 n D MAN 6 A 6 MAN N 200 MAN 
5 n E NAG 1 B 1 NAG N 146 NAG 
5 n E NAG 2 B 2 NAG N 146 NAG 
#
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 12 N CYS 92 1_555 A SG CYS 338 N CYS 417 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.004 ? 
disulf ? disulf2 A SG CYS 44 N CYS 124 1_555 A SG CYS 49 N CYS 129 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.005 ? 
disulf ? disulf3 A SG CYS 96 N CYS 175 1_555 A SG CYS 114 N CYS 193 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.985 ? 
disulf ? disulf4 A SG CYS 104 N CYS 183 1_555 A SG CYS 151 N CYS 230 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.003 ? 
disulf ? disulf5 A SG CYS 153 N CYS 232 1_555 A SG CYS 158 N CYS 237 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.974 ? 
disulf ? disulf6 A SG CYS 199 N CYS 278 1_555 A SG CYS 212 N CYS 291 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? 
disulf ? disulf7 A SG CYS 201 N CYS 280 1_555 A SG CYS 210 N CYS 289 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.99 ? 
disulf ? disulf8 A SG CYS 239 N CYS 318 1_555 A SG CYS 257 N CYS 337 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.973 ? 
disulf ? disulf9 A SG CYS 342 N CYS 421 1_555 A SG CYS 368 N CYS 447 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf10 B SG CYS 23 L CYS 23 1_555 B SG CYS 88 L CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? 
disulf ? disulf11 B SG CYS 134 L CYS 134 1_555 B SG CYS 194 L CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? 
disulf ? disulf12 B SG CYS 214 L CYS 214 1_555 C SG CYS 135 H CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? 
disulf ? disulf13 C SG CYS 22 H CYS 22 1_555 C SG CYS 96 H CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.011 ? 
disulf ? disulf14 C SG CYS 147 H CYS 142 1_555 C SG CYS 202 H CYS 208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? 
covale ? covale1 A ND2 ASN 6 N ASN 86 1_555 F C1 NAG . N NAG 475 1_555 ? ? ? A ? ? ? ? ? ? ? ? 1.462 ? 
covale ? covale2 A ND2 ASN 66 N ASN 146 1_555 E C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? 
covale ? covale3 A ND2 ASN 121 N ASN 200 1_555 D C1 NAG . A NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.472 ? 
covale ? covale4 D O4 NAG . A NAG 1 1_555 D C1 NAG . A NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? 
covale ? covale5 D O4 NAG . A NAG 2 1_555 D C1 BMA . A BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? 
covale ? covale6 D O3 BMA . A BMA 3 1_555 D C1 MAN . A MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? 
covale ? covale7 D O2 MAN . A MAN 4 1_555 D C1 MAN . A MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? 
covale ? covale8 D O2 MAN . A MAN 5 1_555 D C1 MAN . A MAN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.413 ? 
covale ? covale9 E O4 NAG . B NAG 1 1_555 E C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? 
metalc ? metalc1 G CA CA . N CA 0 1_555 A O ASP 214 N ASP 293 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.003 ? 
metalc ? metalc2 G CA CA . N CA 0 1_555 A O ASN 215 N ASN 294 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.207 ? 
metalc ? metalc3 G CA CA . N CA 0 1_555 A O GLY 218 N GLY 297 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.625 ? 
metalc ? metalc4 G CA CA . N CA 0 1_555 A OD2 ASP 245 N ASP 324 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.001 ? 
metalc ? metalc5 G CA CA . N CA 0 1_555 A O ASN 264 N ASN 344 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.87 ? 
metalc ? metalc6 G CA CA . N CA 0 1_555 A O ASN 267 N ASN 347 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.103 ? 
#
_chem_comp.formula           'Ca 2' 
_chem_comp.formula_weight    40.078 
_chem_comp.id                CA 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'CALCIUM ION' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
_atom_sites.entry_id                     1NCD 
_atom_sites.fract_transf_matrix[1][1]    0.005988 
_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]    0.005988 
_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]    0.008065 
_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
F 6 NAG N 1 475 86 NAG NAG A 
G 7 CA N 1 0 0 CA CA . 
H 8 HOH N 1 478 53 HOH HOH . 
H 8 HOH N 2 479 103 HOH HOH . 
H 8 HOH N 3 480 104 HOH HOH . 
H 8 HOH N 4 481 108 HOH HOH . 
H 8 HOH N 5 482 110 HOH HOH . 
H 8 HOH N 6 483 120 HOH HOH . 
H 8 HOH N 7 484 131 HOH HOH . 
H 8 HOH N 8 485 148 HOH HOH . 
H 8 HOH N 9 486 203 HOH HOH . 
H 8 HOH N 10 487 204 HOH HOH . 
H 8 HOH N 11 488 205 HOH HOH . 
H 8 HOH N 12 489 206 HOH HOH . 
H 8 HOH N 13 490 207 HOH HOH . 
H 8 HOH N 14 491 211 HOH HOH . 
H 8 HOH N 15 492 212 HOH HOH . 
H 8 HOH N 16 493 213 HOH HOH . 
H 8 HOH N 17 494 217 HOH HOH . 
H 8 HOH N 18 495 224 HOH HOH . 
H 8 HOH N 19 496 226 HOH HOH . 
H 8 HOH N 20 497 228 HOH HOH . 
H 8 HOH N 21 498 229 HOH HOH . 
H 8 HOH N 22 499 231 HOH HOH . 
H 8 HOH N 23 500 232 HOH HOH . 
H 8 HOH N 24 501 235 HOH HOH . 
H 8 HOH N 25 502 236 HOH HOH . 
H 8 HOH N 26 503 237 HOH HOH . 
H 8 HOH N 27 504 241 HOH HOH . 
H 8 HOH N 28 505 242 HOH HOH . 
H 8 HOH N 29 506 243 HOH HOH . 
H 8 HOH N 30 507 250 HOH HOH . 
H 8 HOH N 31 508 251 HOH HOH . 
H 8 HOH N 32 509 253 HOH HOH . 
H 8 HOH N 33 510 254 HOH HOH . 
H 8 HOH N 34 511 256 HOH HOH . 
H 8 HOH N 35 512 259 HOH HOH . 
H 8 HOH N 36 513 261 HOH HOH . 
H 8 HOH N 37 514 263 HOH HOH . 
H 8 HOH N 38 515 266 HOH HOH . 
H 8 HOH N 39 516 268 HOH HOH . 
H 8 HOH N 40 517 269 HOH HOH . 
H 8 HOH N 41 518 270 HOH HOH . 
H 8 HOH N 42 519 271 HOH HOH . 
H 8 HOH N 43 520 274 HOH HOH . 
H 8 HOH N 44 521 275 HOH HOH . 
H 8 HOH N 45 522 276 HOH HOH . 
H 8 HOH N 46 523 277 HOH HOH . 
H 8 HOH N 47 524 278 HOH HOH . 
H 8 HOH N 48 525 280 HOH HOH . 
H 8 HOH N 49 526 281 HOH HOH . 
H 8 HOH N 50 527 283 HOH HOH . 
H 8 HOH N 51 528 284 HOH HOH . 
H 8 HOH N 52 529 286 HOH HOH . 
H 8 HOH N 53 530 289 HOH HOH . 
H 8 HOH N 54 531 290 HOH HOH . 
H 8 HOH N 55 532 291 HOH HOH . 
H 8 HOH N 56 533 292 HOH HOH . 
H 8 HOH N 57 534 293 HOH HOH . 
H 8 HOH N 58 535 295 HOH HOH . 
H 8 HOH N 59 536 298 HOH HOH . 
H 8 HOH N 60 537 299 HOH HOH . 
H 8 HOH N 61 538 301 HOH HOH . 
H 8 HOH N 62 539 302 HOH HOH . 
H 8 HOH N 63 540 311 HOH HOH . 
I 8 HOH L 1 215 1 HOH HOH . 
I 8 HOH L 2 216 86 HOH HOH . 
J 8 HOH H 1 228 14 HOH HOH . 
J 8 HOH H 2 229 15 HOH HOH . 
J 8 HOH H 3 230 66 HOH HOH . 
J 8 HOH H 4 231 113 HOH HOH . 
#
_atom_site.group_PDB             HETATM 
_atom_site.id                    1 
_atom_site.type_symbol           CA 
_atom_site.label_atom_id         CA 
_atom_site.label_comp_id         CA 
_atom_site.label_seq_id          . 
_atom_site.label_alt_id          . 
_atom_site.pdbx_PDB_ins_code     . 
_atom_site.label_asym_id         G 
_atom_site.label_entity_id       7 
_atom_site.Cartn_x               46.294 
_atom_site.Cartn_y               19.879 
_atom_site.Cartn_z               126.235 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        20.5 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          CA 
_atom_site.auth_comp_id          CA 
_atom_site.auth_seq_id           0 
_atom_site.auth_asym_id          N 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           308 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           1 
#