data_3RG2
#
_model_server_result.job_id            e5oRfZli858abKrfqh3MIQ 
_model_server_result.datetime_utc      '2024-11-14 09:45:17' 
_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          3rg2 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"GA","auth_seq_id":698}' 
#
_entry.id    3RG2 
#
_exptl.entry_id    3RG2 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              450.469 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "5'-deoxy-5'-({[2-(2-hydroxyphenyl)ethyl]sulfonyl}amino)adenosine" 
_entity.pdbx_number_of_molecules    10 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          107.06 
_cell.angle_gamma         90 
_cell.entry_id            3RG2 
_cell.length_a            160.575 
_cell.length_b            101.771 
_cell.length_c            240.678 
_cell.Z_PDB               20 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3RG2 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 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 dimeric 2 author_and_software_defined_assembly 1 
PISA dimeric 2 author_and_software_defined_assembly 2 
PISA dimeric 2 author_and_software_defined_assembly 3 
PISA dimeric 2 author_and_software_defined_assembly 4 
PISA dimeric 2 author_and_software_defined_assembly 5 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,K,L,M,N,O,P,Q,R,S,T,U,V,W 1 1 
C,H,X,Y,Z,RA,SA,TA 2 1 
D,E,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA 3 1 
F,I,LA,MA,NA,UA,VA,WA,XA,YA 4 1 
G,J,OA,PA,QA,ZA,AB,BB,CB 5 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
? 2 K N N 
? 2 Q N N 
? 2 X N N 
? 2 AA N N 
? 2 GA N N 
? 2 LA N N 
? 2 OA N N 
? 2 RA N N 
? 2 UA N N 
? 2 ZA 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 A OG SER 577 A SER 575 1_555 L P24 PNS . A PNS 991 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.593 ? 
covale ? covale2 K C21 SVS . A SVS 698 1_555 R S44 PNS . B PNS 991 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.875 ? 
covale ? covale3 L S44 PNS . A PNS 991 1_555 Q C21 SVS . B SVS 698 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.841 ? 
covale ? covale4 B OG SER 577 B SER 575 1_555 R P24 PNS . B PNS 991 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.604 ? 
covale ? covale5 C OG SER 577 C SER 575 1_555 Y P24 PNS . C PNS 991 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.621 ? 
covale ? covale6 X C21 SVS . C SVS 698 1_555 SA S44 PNS . H PNS 991 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.812 ? 
covale ? covale7 Y S44 PNS . C PNS 991 1_555 RA C21 SVS . H SVS 698 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.819 ? 
covale ? covale8 D OG SER 577 D SER 575 1_555 BA P24 PNS . D PNS 991 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.608 ? 
covale ? covale9 AA C21 SVS . D SVS 698 1_555 HA S44 PNS . E PNS 991 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.853 ? 
covale ? covale10 BA S44 PNS . D PNS 991 1_555 GA C21 SVS . E SVS 698 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.839 ? 
covale ? covale11 E OG SER 577 E SER 575 1_555 HA P24 PNS . E PNS 991 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.594 ? 
covale ? covale12 F OG SER 577 F SER 575 1_555 MA P24 PNS . F PNS 991 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.632 ? 
covale ? covale13 LA C21 SVS . F SVS 698 1_555 VA S44 PNS . I PNS 991 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.868 ? 
covale ? covale14 MA S44 PNS . F PNS 991 1_555 UA C21 SVS . I SVS 698 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.855 ? 
covale ? covale15 G OG SER 577 G SER 575 1_555 PA P24 PNS . G PNS 991 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.612 ? 
covale ? covale16 OA C21 SVS . G SVS 698 1_555 AB S44 PNS . J PNS 991 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.823 ? 
covale ? covale17 PA S44 PNS . G PNS 991 1_555 ZA C21 SVS . J SVS 698 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.818 ? 
covale ? covale18 H OG SER 577 H SER 575 1_555 SA P24 PNS . H PNS 991 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.594 ? 
covale ? covale19 I OG SER 577 I SER 575 1_555 VA P24 PNS . I PNS 991 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.592 ? 
covale ? covale20 J OG SER 577 J SER 575 1_555 AB P24 PNS . J PNS 991 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.586 ? 
#
_chem_comp.formula           'C18 H22 N6 O6 S' 
_chem_comp.formula_weight    450.469 
_chem_comp.id                SVS 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "5'-deoxy-5'-({[2-(2-hydroxyphenyl)ethyl]sulfonyl}amino)adenosine" 
_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
S O2P SVS doub 332 n n 
N1 C6 SVS sing 333 n y 
C2 N1 SVS doub 334 n y 
C2 H2 SVS sing 335 n n 
N3 C2 SVS sing 336 n y 
N3 C4 SVS doub 337 n y 
C4 C5 SVS sing 338 n y 
C5 C6 SVS doub 339 n y 
C5 N7 SVS sing 340 n y 
C6 N6 SVS sing 341 n n 
N6 HN6 SVS sing 342 n n 
N6 HN6A SVS sing 343 n n 
C8 N7 SVS doub 344 n y 
C8 H8 SVS sing 345 n n 
N9 C4 SVS sing 346 n y 
N9 C8 SVS sing 347 n y 
C1' N9 SVS sing 348 n n 
C1' O4' SVS sing 349 n n 
C1' H1' SVS sing 350 n n 
C14 C19 SVS sing 351 n y 
O14 C14 SVS sing 352 n n 
O14 HO14 SVS sing 353 n n 
C15 C14 SVS doub 354 n y 
C15 C16 SVS sing 355 n y 
C15 H15 SVS sing 356 n n 
C16 C17 SVS doub 357 n y 
C16 H16 SVS sing 358 n n 
C17 C18 SVS sing 359 n y 
C17 H17 SVS sing 360 n n 
C18 H18 SVS sing 361 n n 
C19 C18 SVS doub 362 n y 
C19 C21 SVS sing 363 n n 
O1P S SVS doub 364 n n 
C2' C1' SVS sing 365 n n 
C2' H2' SVS sing 366 n n 
O2' C2' SVS sing 367 n n 
O2' HO2' SVS sing 368 n n 
C21 H21 SVS sing 369 n n 
C22 S SVS sing 370 n n 
C22 C21 SVS sing 371 n n 
C22 H22 SVS sing 372 n n 
C3' C2' SVS sing 373 n n 
C3' C4' SVS sing 374 n n 
C3' H3' SVS sing 375 n n 
O3' C3' SVS sing 376 n n 
O3' HO3' SVS sing 377 n n 
C4' C5' SVS sing 378 n n 
C4' O4' SVS sing 379 n n 
C4' H4' SVS sing 380 n n 
C5' N5' SVS sing 381 n n 
C5' H5' SVS sing 382 n n 
C5' "H5'A" SVS sing 383 n n 
N5' S SVS sing 384 n n 
N5' HN5' SVS sing 385 n n 
C21 H211 SVS sing 386 n n 
C22 H221 SVS sing 387 n n 
#
_atom_sites.entry_id                     3RG2 
_atom_sites.fract_transf_matrix[1][1]    0.006228 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001911 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.009826 
_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]    0.004346 
_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
K 2 SVS A 1 698 698 SVS SVS . 
L 3 PNS A 1 991 991 PNS PNS . 
M 4 IOD A 1 616 6 IOD IOD . 
N 4 IOD A 1 617 10 IOD IOD . 
O 4 IOD A 1 618 21 IOD IOD . 
P 4 IOD A 1 619 24 IOD IOD . 
Q 2 SVS B 1 698 698 SVS SVS . 
R 3 PNS B 1 991 991 PNS PNS . 
S 4 IOD B 1 616 1 IOD IOD . 
T 4 IOD B 1 617 11 IOD IOD . 
U 4 IOD B 1 618 17 IOD IOD . 
V 4 IOD B 1 619 20 IOD IOD . 
W 4 IOD B 1 620 22 IOD IOD . 
X 2 SVS C 1 698 698 SVS SVS . 
Y 3 PNS C 1 991 991 PNS PNS . 
Z 4 IOD C 1 616 12 IOD IOD . 
AA 2 SVS D 1 698 698 SVS SVS . 
BA 3 PNS D 1 991 991 PNS PNS . 
CA 4 IOD D 1 616 2 IOD IOD . 
DA 4 IOD D 1 617 13 IOD IOD . 
EA 4 IOD D 1 618 18 IOD IOD . 
FA 4 IOD D 1 619 25 IOD IOD . 
GA 2 SVS E 1 698 698 SVS SVS . 
HA 3 PNS E 1 991 991 PNS PNS . 
IA 4 IOD E 1 616 3 IOD IOD . 
JA 4 IOD E 1 617 7 IOD IOD . 
KA 4 IOD E 1 618 14 IOD IOD . 
LA 2 SVS F 1 698 698 SVS SVS . 
MA 3 PNS F 1 991 991 PNS PNS . 
NA 4 IOD F 1 616 15 IOD IOD . 
OA 2 SVS G 1 698 698 SVS SVS . 
PA 3 PNS G 1 991 991 PNS PNS . 
QA 4 IOD G 1 616 16 IOD IOD . 
RA 2 SVS H 1 698 698 SVS SVS . 
SA 3 PNS H 1 991 991 PNS PNS . 
TA 4 IOD H 1 616 8 IOD IOD . 
UA 2 SVS I 1 698 698 SVS SVS . 
VA 3 PNS I 1 991 991 PNS PNS . 
WA 4 IOD I 1 616 4 IOD IOD . 
XA 4 IOD I 1 617 9 IOD IOD . 
YA 4 IOD I 1 618 23 IOD IOD . 
ZA 2 SVS J 1 698 698 SVS SVS . 
AB 3 PNS J 1 991 991 PNS PNS . 
BB 4 IOD J 1 616 5 IOD IOD . 
CB 4 IOD J 1 617 19 IOD IOD . 
#
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 S S SVS . . . GA 2 -108.65 -75.227 41.849 1 106.98 ? S SVS 698 E 1 
HETATM 2 N N1 SVS . . . GA 2 -101.456 -68.056 40.921 1 93.43 ? N1 SVS 698 E 1 
HETATM 3 C C2 SVS . . . GA 2 -102.656 -67.542 40.61 1 89.99 ? C2 SVS 698 E 1 
HETATM 4 N N3 SVS . . . GA 2 -103.753 -68.316 40.538 1 101.39 ? N3 SVS 698 E 1 
HETATM 5 C C4 SVS . . . GA 2 -103.678 -69.649 40.781 1 97.23 ? C4 SVS 698 E 1 
HETATM 6 C C5 SVS . . . GA 2 -102.451 -70.21 41.106 1 108.54 ? C5 SVS 698 E 1 
HETATM 7 C C6 SVS . . . GA 2 -101.319 -69.384 41.175 1 99.74 ? C6 SVS 698 E 1 
HETATM 8 N N6 SVS . . . GA 2 -100.092 -69.884 41.498 1 54.41 ? N6 SVS 698 E 1 
HETATM 9 N N7 SVS . . . GA 2 -102.667 -71.532 41.299 1 99.9 ? N7 SVS 698 E 1 
HETATM 10 C C8 SVS . . . GA 2 -103.984 -71.777 41.1 1 84.35 ? C8 SVS 698 E 1 
HETATM 11 N N9 SVS . . . GA 2 -104.589 -70.629 40.778 1 77 ? N9 SVS 698 E 1 
HETATM 12 C C1' SVS . . . GA 2 -106.034 -70.477 40.505 1 88.92 ? C1' SVS 698 E 1 
HETATM 13 C C14 SVS . . . GA 2 -104.376 -77.663 41.463 1 103 ? C14 SVS 698 E 1 
HETATM 14 O O14 SVS . . . GA 2 -105.262 -78.475 40.796 1 80.86 ? O14 SVS 698 E 1 
HETATM 15 C C15 SVS . . . GA 2 -103.015 -77.932 41.267 1 74.09 ? C15 SVS 698 E 1 
HETATM 16 C C16 SVS . . . GA 2 -102.023 -77.173 41.887 1 79.56 ? C16 SVS 698 E 1 
HETATM 17 C C17 SVS . . . GA 2 -102.4 -76.13 42.724 1 97.03 ? C17 SVS 698 E 1 
HETATM 18 C C18 SVS . . . GA 2 -103.754 -75.853 42.928 1 110.25 ? C18 SVS 698 E 1 
HETATM 19 C C19 SVS . . . GA 2 -104.766 -76.589 42.298 1 119 ? C19 SVS 698 E 1 
HETATM 20 O O1P SVS . . . GA 2 -109.791 -75.917 41.287 1 102.61 ? O1P SVS 698 E 1 
HETATM 21 C C2' SVS . . . GA 2 -106.396 -70.3 39.045 1 101.07 ? C2' SVS 698 E 1 
HETATM 22 O O2' SVS . . . GA 2 -107.21 -69.129 38.977 1 112.68 ? O2' SVS 698 E 1 
HETATM 23 C C21 SVS . . . GA 2 -106.215 -76.204 42.651 1 124.22 ? C21 SVS 698 E 1 
HETATM 24 C C22 SVS . . . GA 2 -107.178 -75.969 41.468 1 120.2 ? C22 SVS 698 E 1 
HETATM 25 O O2P SVS . . . GA 2 -108.827 -75.134 43.265 1 141.95 ? O2P SVS 698 E 1 
HETATM 26 C C3' SVS . . . GA 2 -107.277 -71.477 38.7 1 92.23 ? C3' SVS 698 E 1 
HETATM 27 O O3' SVS . . . GA 2 -108.418 -71.075 37.935 1 102.02 ? O3' SVS 698 E 1 
HETATM 28 C C4' SVS . . . GA 2 -107.738 -71.953 40.051 1 96.59 ? C4' SVS 698 E 1 
HETATM 29 O O4' SVS . . . GA 2 -106.691 -71.648 40.956 1 94.19 ? O4' SVS 698 E 1 
HETATM 30 C C5' SVS . . . GA 2 -107.955 -73.446 40.074 1 130.55 ? C5' SVS 698 E 1 
HETATM 31 N N5' SVS . . . GA 2 -108.662 -73.74 41.296 1 135.31 ? N5' SVS 698 E 1 
#
_model_server_stats.io_time_ms              96 
_model_server_stats.parse_time_ms           20 
_model_server_stats.create_model_time_ms    73 
_model_server_stats.query_time_ms           377 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           31 
#