data_1MV6 # _entry.id 1MV6 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.392 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 1MV6 pdb_00001mv6 10.2210/pdb1mv6/pdb RCSB RCSB017210 ? ? WWPDB D_1000017210 ? ? # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2002-12-18 2 'Structure model' 1 1 2008-04-28 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2022-02-23 5 'Structure model' 1 4 2024-05-22 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Derived calculations' 6 5 'Structure model' 'Data collection' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 4 'Structure model' database_2 2 4 'Structure model' pdbx_nmr_software 3 4 'Structure model' pdbx_struct_assembly 4 4 'Structure model' pdbx_struct_oper_list 5 4 'Structure model' struct_conn 6 5 'Structure model' chem_comp_atom 7 5 'Structure model' chem_comp_bond # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 4 'Structure model' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' 3 4 'Structure model' '_pdbx_nmr_software.name' 4 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1MV6 _pdbx_database_status.recvd_initial_deposition_date 2002-09-24 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_mr REL _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 1YFV '1yfv is the Tandem, sheared GA pairs in the same stem, determined by 2D NMR' unspecified PDB 1GID '1gid is the Tandem, sheared AA pairs in the J4/5 loop of Tetrahymena thermophila, determined by x-ray crystallography' unspecified PDB 1MUV '1mUV is The tandem, sheared AA Pairs with same stem' unspecified PDB 1MV1 ;1MV1 IS THE Tandem, Sheared PA Pairs in 5'(rGGCPAGCCU)2 ; unspecified PDB 1MV2 ;1mv2 is The tandem, Face-to-Face AP Pairs in 5'(rGGCAPGCCU)2 ; unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Znosko, B.M.' 1 'Burkard, M.E.' 2 'Krugh, T.R.' 3 'Turner, D.H.' 4 # loop_ _citation.id _citation.title _citation.journal_abbrev _citation.journal_volume _citation.page_first _citation.page_last _citation.year _citation.journal_id_ASTM _citation.country _citation.journal_id_ISSN _citation.journal_id_CSD _citation.book_publisher _citation.pdbx_database_id_PubMed _citation.pdbx_database_id_DOI primary ;Molecular Recognition in Purine-Rich Internal Loops: Thermodynamic, Structural, and Dynamic Consequences of Purine for Adenine Substitutions in 5'(rGGCAAGCCU)2 ; Biochemistry 41 14978 14987 2002 BICHAW US 0006-2960 0033 ? 12475247 10.1021/bi0203278 1 ;Sheared Aanti-Aanti Base Pairs in a Destabilizing 2x2 Internal Loop: The NMR Structure of 5'(rGGCAAGCCU)2 ; Biochemistry 41 14969 14977 2002 BICHAW US 0006-2960 0033 ? ? 10.1021/bi020326f # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Znosko, B.M.' 1 ? primary 'Burkard, M.E.' 2 ? primary 'Krugh, T.R.' 3 ? primary 'Turner, D.H.' 4 ? 1 'Znosko, B.M.' 5 ? 1 'Burkard, M.E.' 6 ? 1 'Schroeder, S.J.' 7 ? 1 'Krugh, T.R.' 8 ? 1 'Turner, D.H.' 9 ? # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description "5'-R(*GP*GP*CP*(P5P)P*(P5P)P*GP*CP*CP*U)-3'" _entity.formula_weight 2840.755 _entity.pdbx_number_of_molecules 2 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.details ? # _entity_poly.entity_id 1 _entity_poly.type polyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code 'GGC(P5P)(P5P)GCCU' _entity_poly.pdbx_seq_one_letter_code_can GGCAAGCCU _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 G n 1 2 G n 1 3 C n 1 4 P5P n 1 5 P5P n 1 6 G n 1 7 C n 1 8 C n 1 9 U n # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 P5P 'RNA linking' n ;PURINE RIBOSIDE-5'-MONOPHOSPHATE ; ? 'C10 H13 N4 O7 P' 332.207 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 G 1 1 1 G G A . n A 1 2 G 2 2 2 G G A . n A 1 3 C 3 3 3 C C A . n A 1 4 P5P 4 4 4 P5P P A . n A 1 5 P5P 5 5 5 P5P P A . n A 1 6 G 6 6 6 G G A . n A 1 7 C 7 7 7 C C A . n A 1 8 C 8 8 8 C C A . n A 1 9 U 9 9 9 U U A . n B 1 1 G 1 1 1 G G B . n B 1 2 G 2 2 2 G G B . n B 1 3 C 3 3 3 C C B . n B 1 4 P5P 4 4 4 P5P P B . n B 1 5 P5P 5 5 5 P5P P B . n B 1 6 G 6 6 6 G G B . n B 1 7 C 7 7 7 C C B . n B 1 8 C 8 8 8 C C B . n B 1 9 U 9 9 9 U U B . n # _exptl.entry_id 1MV6 _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews ? _exptl_crystal.density_percent_sol ? _exptl_crystal.description ? # _diffrn.id 1 _diffrn.crystal_id 1 _diffrn.ambient_temp ? _diffrn.ambient_temp_details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type ? # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength . _diffrn_radiation_wavelength.wt 1.0 # _database_PDB_matrix.entry_id 1MV6 _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _struct.entry_id 1MV6 _struct.title ;The tandem, Sheared PP Pairs in 5'(rGGCPPGCCU)2 ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1MV6 _struct_keywords.pdbx_keywords RNA _struct_keywords.text 'ribonucleic acid, duplex, tandem mismatch, purine, RNA' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1MV6 _struct_ref.pdbx_db_accession 1MV6 _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 1MV6 A 1 ? 9 ? 1MV6 1 ? 9 ? 1 9 2 1 1MV6 B 1 ? 9 ? 1MV6 1 ? 9 ? 1 9 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B # _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] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # _struct_biol.id 1 # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_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_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? A C 3 "O3'" ? ? ? 1_555 A P5P 4 P ? ? A C 3 A P5P 4 1_555 ? ? ? ? ? ? ? 1.614 ? ? covale2 covale both ? A P5P 4 "O3'" ? ? ? 1_555 A P5P 5 P ? ? A P5P 4 A P5P 5 1_555 ? ? ? ? ? ? ? 1.614 ? ? covale3 covale both ? A P5P 5 "O3'" ? ? ? 1_555 A G 6 P ? ? A P5P 5 A G 6 1_555 ? ? ? ? ? ? ? 1.618 ? ? covale4 covale both ? B C 3 "O3'" ? ? ? 1_555 B P5P 4 P ? ? B C 3 B P5P 4 1_555 ? ? ? ? ? ? ? 1.619 ? ? covale5 covale both ? B P5P 4 "O3'" ? ? ? 1_555 B P5P 5 P ? ? B P5P 4 B P5P 5 1_555 ? ? ? ? ? ? ? 1.614 ? ? covale6 covale both ? B P5P 5 "O3'" ? ? ? 1_555 B G 6 P ? ? B P5P 5 B G 6 1_555 ? ? ? ? ? ? ? 1.618 ? ? hydrog1 hydrog ? ? A G 1 N1 ? ? ? 1_555 B C 8 N3 ? ? A G 1 B C 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 B C 8 O2 ? ? A G 1 B C 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 B C 8 N4 ? ? A G 1 B C 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 2 N1 ? ? ? 1_555 B C 7 N3 ? ? A G 2 B C 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A G 2 N2 ? ? ? 1_555 B C 7 O2 ? ? A G 2 B C 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 2 O6 ? ? ? 1_555 B C 7 N4 ? ? A G 2 B C 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A C 3 N3 ? ? ? 1_555 B G 6 N1 ? ? A C 3 B G 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A C 3 N4 ? ? ? 1_555 B G 6 O6 ? ? A C 3 B G 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A C 3 O2 ? ? ? 1_555 B G 6 N2 ? ? A C 3 B G 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 6 N1 ? ? ? 1_555 B C 3 N3 ? ? A G 6 B C 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A G 6 N2 ? ? ? 1_555 B C 3 O2 ? ? A G 6 B C 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A G 6 O6 ? ? ? 1_555 B C 3 N4 ? ? A G 6 B C 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A C 7 N3 ? ? ? 1_555 B G 2 N1 ? ? A C 7 B G 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A C 7 N4 ? ? ? 1_555 B G 2 O6 ? ? A C 7 B G 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A C 7 O2 ? ? ? 1_555 B G 2 N2 ? ? A C 7 B G 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A C 8 N3 ? ? ? 1_555 B G 1 N1 ? ? A C 8 B G 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A C 8 N4 ? ? ? 1_555 B G 1 O6 ? ? A C 8 B G 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A C 8 O2 ? ? ? 1_555 B G 1 N2 ? ? A C 8 B G 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 "O4'" A C 3 ? ? "C1'" A C 3 ? ? N1 A C 3 ? ? 114.25 108.50 5.75 0.70 N 2 1 "O4'" A C 7 ? ? "C1'" A C 7 ? ? N1 A C 7 ? ? 113.47 108.50 4.97 0.70 N 3 1 "O4'" A C 8 ? ? "C1'" A C 8 ? ? N1 A C 8 ? ? 113.70 108.50 5.20 0.70 N 4 1 "O4'" B C 3 ? ? "C1'" B C 3 ? ? N1 B C 3 ? ? 113.18 108.50 4.68 0.70 N 5 1 "O4'" B C 7 ? ? "C1'" B C 7 ? ? N1 B C 7 ? ? 113.19 108.50 4.69 0.70 N 6 1 "O4'" B C 8 ? ? "C1'" B C 8 ? ? N1 B C 8 ? ? 113.38 108.50 4.88 0.70 N 7 1 "O4'" B U 9 ? ? "C1'" B U 9 ? ? N1 B U 9 ? ? 112.76 108.50 4.26 0.70 N 8 2 "O4'" A C 3 ? ? "C1'" A C 3 ? ? N1 A C 3 ? ? 113.74 108.50 5.24 0.70 N 9 2 "O4'" A C 7 ? ? "C1'" A C 7 ? ? N1 A C 7 ? ? 113.69 108.50 5.19 0.70 N 10 2 "O4'" A C 8 ? ? "C1'" A C 8 ? ? N1 A C 8 ? ? 113.62 108.50 5.12 0.70 N 11 2 "O4'" B C 3 ? ? "C1'" B C 3 ? ? N1 B C 3 ? ? 113.92 108.50 5.42 0.70 N 12 2 "O4'" B G 6 ? ? "C1'" B G 6 ? ? N9 B G 6 ? ? 112.78 108.50 4.28 0.70 N 13 2 "O4'" B C 7 ? ? "C1'" B C 7 ? ? N1 B C 7 ? ? 113.48 108.50 4.98 0.70 N 14 2 "O4'" B C 8 ? ? "C1'" B C 8 ? ? N1 B C 8 ? ? 113.43 108.50 4.93 0.70 N 15 3 "O4'" A C 3 ? ? "C1'" A C 3 ? ? N1 A C 3 ? ? 114.32 108.50 5.82 0.70 N 16 3 "O4'" A C 7 ? ? "C1'" A C 7 ? ? N1 A C 7 ? ? 113.97 108.50 5.47 0.70 N 17 3 "O4'" A C 8 ? ? "C1'" A C 8 ? ? N1 A C 8 ? ? 113.68 108.50 5.18 0.70 N 18 3 "O4'" B C 3 ? ? "C1'" B C 3 ? ? N1 B C 3 ? ? 113.03 108.50 4.53 0.70 N 19 3 "O4'" B C 7 ? ? "C1'" B C 7 ? ? N1 B C 7 ? ? 113.49 108.50 4.99 0.70 N 20 3 "O4'" B C 8 ? ? "C1'" B C 8 ? ? N1 B C 8 ? ? 113.82 108.50 5.32 0.70 N 21 3 "O4'" B U 9 ? ? "C1'" B U 9 ? ? N1 B U 9 ? ? 113.18 108.50 4.68 0.70 N # loop_ _pdbx_struct_mod_residue.id _pdbx_struct_mod_residue.label_asym_id _pdbx_struct_mod_residue.label_comp_id _pdbx_struct_mod_residue.label_seq_id _pdbx_struct_mod_residue.auth_asym_id _pdbx_struct_mod_residue.auth_comp_id _pdbx_struct_mod_residue.auth_seq_id _pdbx_struct_mod_residue.PDB_ins_code _pdbx_struct_mod_residue.parent_comp_id _pdbx_struct_mod_residue.details 1 A P5P 4 A P5P 4 ? A ;PURINE RIBOSIDE-5'-MONOPHOSPHATE ; 2 A P5P 5 A P5P 5 ? A ;PURINE RIBOSIDE-5'-MONOPHOSPHATE ; 3 B P5P 4 B P5P 4 ? A ;PURINE RIBOSIDE-5'-MONOPHOSPHATE ; 4 B P5P 5 B P5P 5 ? A ;PURINE RIBOSIDE-5'-MONOPHOSPHATE ; # _pdbx_nmr_ensemble.entry_id 1MV6 _pdbx_nmr_ensemble.conformers_calculated_total_number 33 _pdbx_nmr_ensemble.conformers_submitted_total_number 3 _pdbx_nmr_ensemble.conformer_selection_criteria 'Random Structures to show variety' _pdbx_nmr_ensemble.average_constraints_per_residue ? _pdbx_nmr_ensemble.average_constraint_violations_per_residue ? _pdbx_nmr_ensemble.maximum_distance_constraint_violation ? _pdbx_nmr_ensemble.average_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_upper_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_lower_distance_constraint_violation ? _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.maximum_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.average_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.torsion_angle_constraint_violation_method ? # _pdbx_nmr_representative.entry_id 1MV6 _pdbx_nmr_representative.conformer_id 3 _pdbx_nmr_representative.selection_criteria 'closest to the average' # loop_ _pdbx_nmr_sample_details.solution_id _pdbx_nmr_sample_details.contents _pdbx_nmr_sample_details.solvent_system 1 '1mM RNA, 80 mM NaCl, 10mM phosphate buffer, 0.5mM EDTA; 90% H2O, 10% D2O' '90% H2O/10% D2O' 2 '2mM RNA, 80 mM NaCl, 10mM phosphate buffer, 0.5mM EDTA; 99.996% D2O' '99.996% D2O' # loop_ _pdbx_nmr_exptl_sample_conditions.conditions_id _pdbx_nmr_exptl_sample_conditions.temperature _pdbx_nmr_exptl_sample_conditions.pressure _pdbx_nmr_exptl_sample_conditions.pH _pdbx_nmr_exptl_sample_conditions.ionic_strength _pdbx_nmr_exptl_sample_conditions.pressure_units _pdbx_nmr_exptl_sample_conditions.temperature_units 1 273 ambient 6.5 '90% H2O, 10% D2O' ? K 2 303 ambient 7.7 '99.996% D2O' ? K # _pdbx_nmr_exptl.experiment_id 1 _pdbx_nmr_exptl.solution_id 2 _pdbx_nmr_exptl.conditions_id 2 _pdbx_nmr_exptl.type '2D NOESY' # _pdbx_nmr_refine.entry_id 1MV6 _pdbx_nmr_refine.method 'simulated annealing, energy minimization' _pdbx_nmr_refine.details 'total of 63 interproton distance restraints per strand, 18 hydrogen bond restraints, and 50 dihedral angle restraints per strand.' _pdbx_nmr_refine.software_ordinal 1 # loop_ _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.classification _pdbx_nmr_software.authors _pdbx_nmr_software.ordinal VNMR 5.2 collection Varian 1 Felix 2000 'data analysis' MSI 2 Discover 95.0 'structure solution' MSI 3 Discover 95.0 refinement MSI 4 # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal C OP3 O N N 1 C P P N N 2 C OP1 O N N 3 C OP2 O N N 4 C "O5'" O N N 5 C "C5'" C N N 6 C "C4'" C N R 7 C "O4'" O N N 8 C "C3'" C N S 9 C "O3'" O N N 10 C "C2'" C N R 11 C "O2'" O N N 12 C "C1'" C N R 13 C N1 N N N 14 C C2 C N N 15 C O2 O N N 16 C N3 N N N 17 C C4 C N N 18 C N4 N N N 19 C C5 C N N 20 C C6 C N N 21 C HOP3 H N N 22 C HOP2 H N N 23 C "H5'" H N N 24 C "H5''" H N N 25 C "H4'" H N N 26 C "H3'" H N N 27 C "HO3'" H N N 28 C "H2'" H N N 29 C "HO2'" H N N 30 C "H1'" H N N 31 C H41 H N N 32 C H42 H N N 33 C H5 H N N 34 C H6 H N N 35 G OP3 O N N 36 G P P N N 37 G OP1 O N N 38 G OP2 O N N 39 G "O5'" O N N 40 G "C5'" C N N 41 G "C4'" C N R 42 G "O4'" O N N 43 G "C3'" C N S 44 G "O3'" O N N 45 G "C2'" C N R 46 G "O2'" O N N 47 G "C1'" C N R 48 G N9 N Y N 49 G C8 C Y N 50 G N7 N Y N 51 G C5 C Y N 52 G C6 C N N 53 G O6 O N N 54 G N1 N N N 55 G C2 C N N 56 G N2 N N N 57 G N3 N N N 58 G C4 C Y N 59 G HOP3 H N N 60 G HOP2 H N N 61 G "H5'" H N N 62 G "H5''" H N N 63 G "H4'" H N N 64 G "H3'" H N N 65 G "HO3'" H N N 66 G "H2'" H N N 67 G "HO2'" H N N 68 G "H1'" H N N 69 G H8 H N N 70 G H1 H N N 71 G H21 H N N 72 G H22 H N N 73 P5P N1 N Y N 74 P5P C2 C Y N 75 P5P N3 N Y N 76 P5P C4 C Y N 77 P5P C5 C Y N 78 P5P C6 C Y N 79 P5P N7 N Y N 80 P5P C8 C Y N 81 P5P N9 N Y N 82 P5P "C1'" C N R 83 P5P "C2'" C N R 84 P5P "O2'" O N N 85 P5P "C3'" C N S 86 P5P "O3'" O N N 87 P5P "C4'" C N R 88 P5P "O4'" O N N 89 P5P "C5'" C N N 90 P5P "O5'" O N N 91 P5P P P N N 92 P5P OP1 O N N 93 P5P OP2 O N N 94 P5P OP3 O N N 95 P5P H2 H N N 96 P5P H6 H N N 97 P5P H8 H N N 98 P5P "H1'" H N N 99 P5P "H2'" H N N 100 P5P "HO2'" H N N 101 P5P "H3'" H N N 102 P5P "HO3'" H N N 103 P5P "H4'" H N N 104 P5P "H5'1" H N N 105 P5P "H5'2" H N N 106 P5P HOP2 H N N 107 P5P HOP3 H N N 108 U OP3 O N N 109 U P P N N 110 U OP1 O N N 111 U OP2 O N N 112 U "O5'" O N N 113 U "C5'" C N N 114 U "C4'" C N R 115 U "O4'" O N N 116 U "C3'" C N S 117 U "O3'" O N N 118 U "C2'" C N R 119 U "O2'" O N N 120 U "C1'" C N R 121 U N1 N N N 122 U C2 C N N 123 U O2 O N N 124 U N3 N N N 125 U C4 C N N 126 U O4 O N N 127 U C5 C N N 128 U C6 C N N 129 U HOP3 H N N 130 U HOP2 H N N 131 U "H5'" H N N 132 U "H5''" H N N 133 U "H4'" H N N 134 U "H3'" H N N 135 U "HO3'" H N N 136 U "H2'" H N N 137 U "HO2'" H N N 138 U "H1'" H N N 139 U H3 H N N 140 U H5 H N N 141 U H6 H N N 142 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal C OP3 P sing N N 1 C OP3 HOP3 sing N N 2 C P OP1 doub N N 3 C P OP2 sing N N 4 C P "O5'" sing N N 5 C OP2 HOP2 sing N N 6 C "O5'" "C5'" sing N N 7 C "C5'" "C4'" sing N N 8 C "C5'" "H5'" sing N N 9 C "C5'" "H5''" sing N N 10 C "C4'" "O4'" sing N N 11 C "C4'" "C3'" sing N N 12 C "C4'" "H4'" sing N N 13 C "O4'" "C1'" sing N N 14 C "C3'" "O3'" sing N N 15 C "C3'" "C2'" sing N N 16 C "C3'" "H3'" sing N N 17 C "O3'" "HO3'" sing N N 18 C "C2'" "O2'" sing N N 19 C "C2'" "C1'" sing N N 20 C "C2'" "H2'" sing N N 21 C "O2'" "HO2'" sing N N 22 C "C1'" N1 sing N N 23 C "C1'" "H1'" sing N N 24 C N1 C2 sing N N 25 C N1 C6 sing N N 26 C C2 O2 doub N N 27 C C2 N3 sing N N 28 C N3 C4 doub N N 29 C C4 N4 sing N N 30 C C4 C5 sing N N 31 C N4 H41 sing N N 32 C N4 H42 sing N N 33 C C5 C6 doub N N 34 C C5 H5 sing N N 35 C C6 H6 sing N N 36 G OP3 P sing N N 37 G OP3 HOP3 sing N N 38 G P OP1 doub N N 39 G P OP2 sing N N 40 G P "O5'" sing N N 41 G OP2 HOP2 sing N N 42 G "O5'" "C5'" sing N N 43 G "C5'" "C4'" sing N N 44 G "C5'" "H5'" sing N N 45 G "C5'" "H5''" sing N N 46 G "C4'" "O4'" sing N N 47 G "C4'" "C3'" sing N N 48 G "C4'" "H4'" sing N N 49 G "O4'" "C1'" sing N N 50 G "C3'" "O3'" sing N N 51 G "C3'" "C2'" sing N N 52 G "C3'" "H3'" sing N N 53 G "O3'" "HO3'" sing N N 54 G "C2'" "O2'" sing N N 55 G "C2'" "C1'" sing N N 56 G "C2'" "H2'" sing N N 57 G "O2'" "HO2'" sing N N 58 G "C1'" N9 sing N N 59 G "C1'" "H1'" sing N N 60 G N9 C8 sing Y N 61 G N9 C4 sing Y N 62 G C8 N7 doub Y N 63 G C8 H8 sing N N 64 G N7 C5 sing Y N 65 G C5 C6 sing N N 66 G C5 C4 doub Y N 67 G C6 O6 doub N N 68 G C6 N1 sing N N 69 G N1 C2 sing N N 70 G N1 H1 sing N N 71 G C2 N2 sing N N 72 G C2 N3 doub N N 73 G N2 H21 sing N N 74 G N2 H22 sing N N 75 G N3 C4 sing N N 76 P5P N1 C2 sing Y N 77 P5P N1 C6 doub Y N 78 P5P C2 N3 doub Y N 79 P5P C2 H2 sing N N 80 P5P N3 C4 sing Y N 81 P5P C4 C5 doub Y N 82 P5P C4 N9 sing Y N 83 P5P C5 C6 sing Y N 84 P5P C5 N7 sing Y N 85 P5P C6 H6 sing N N 86 P5P N7 C8 doub Y N 87 P5P C8 N9 sing Y N 88 P5P C8 H8 sing N N 89 P5P N9 "C1'" sing N N 90 P5P "C1'" "C2'" sing N N 91 P5P "C1'" "O4'" sing N N 92 P5P "C1'" "H1'" sing N N 93 P5P "C2'" "O2'" sing N N 94 P5P "C2'" "C3'" sing N N 95 P5P "C2'" "H2'" sing N N 96 P5P "O2'" "HO2'" sing N N 97 P5P "C3'" "O3'" sing N N 98 P5P "C3'" "C4'" sing N N 99 P5P "C3'" "H3'" sing N N 100 P5P "O3'" "HO3'" sing N N 101 P5P "C4'" "O4'" sing N N 102 P5P "C4'" "C5'" sing N N 103 P5P "C4'" "H4'" sing N N 104 P5P "C5'" "O5'" sing N N 105 P5P "C5'" "H5'1" sing N N 106 P5P "C5'" "H5'2" sing N N 107 P5P "O5'" P sing N N 108 P5P P OP1 doub N N 109 P5P P OP2 sing N N 110 P5P P OP3 sing N N 111 P5P OP2 HOP2 sing N N 112 P5P OP3 HOP3 sing N N 113 U OP3 P sing N N 114 U OP3 HOP3 sing N N 115 U P OP1 doub N N 116 U P OP2 sing N N 117 U P "O5'" sing N N 118 U OP2 HOP2 sing N N 119 U "O5'" "C5'" sing N N 120 U "C5'" "C4'" sing N N 121 U "C5'" "H5'" sing N N 122 U "C5'" "H5''" sing N N 123 U "C4'" "O4'" sing N N 124 U "C4'" "C3'" sing N N 125 U "C4'" "H4'" sing N N 126 U "O4'" "C1'" sing N N 127 U "C3'" "O3'" sing N N 128 U "C3'" "C2'" sing N N 129 U "C3'" "H3'" sing N N 130 U "O3'" "HO3'" sing N N 131 U "C2'" "O2'" sing N N 132 U "C2'" "C1'" sing N N 133 U "C2'" "H2'" sing N N 134 U "O2'" "HO2'" sing N N 135 U "C1'" N1 sing N N 136 U "C1'" "H1'" sing N N 137 U N1 C2 sing N N 138 U N1 C6 sing N N 139 U C2 O2 doub N N 140 U C2 N3 sing N N 141 U N3 C4 sing N N 142 U N3 H3 sing N N 143 U C4 O4 doub N N 144 U C4 C5 sing N N 145 U C5 C6 doub N N 146 U C5 H5 sing N N 147 U C6 H6 sing N N 148 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1MV6 'a-form double helix' 1MV6 'internal loop' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A G 1 1_555 B C 8 1_555 -0.619 -0.173 -0.293 -8.258 -4.544 -1.243 1 A_G1:C8_B A 1 ? B 8 ? 19 1 1 A G 2 1_555 B C 7 1_555 -0.370 -0.075 -0.115 -4.460 -10.259 -0.432 2 A_G2:C7_B A 2 ? B 7 ? 19 1 1 A C 3 1_555 B G 6 1_555 0.717 -0.181 0.046 -2.369 -15.275 1.559 3 A_C3:G6_B A 3 ? B 6 ? 19 1 1 A G 6 1_555 B C 3 1_555 -0.554 -0.185 -0.324 -5.724 -16.838 0.836 4 A_G6:C3_B A 6 ? B 3 ? 19 1 1 A C 7 1_555 B G 2 1_555 0.445 -0.086 0.019 -6.205 -5.706 -1.054 5 A_C7:G2_B A 7 ? B 2 ? 19 1 1 A C 8 1_555 B G 1 1_555 0.573 -0.150 -0.295 7.224 -2.004 -0.765 6 A_C8:G1_B A 8 ? B 1 ? 19 1 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A G 1 1_555 B C 8 1_555 A G 2 1_555 B C 7 1_555 -0.021 -1.874 3.195 -0.294 4.600 30.799 -4.313 -0.013 2.891 8.600 0.549 31.134 1 AA_G1G2:C7C8_BB A 1 ? B 8 ? A 2 ? B 7 ? 1 A G 2 1_555 B C 7 1_555 A C 3 1_555 B G 6 1_555 0.085 -1.741 3.209 -0.310 3.402 33.470 -3.539 -0.195 3.022 5.888 0.537 33.639 2 AA_G2C3:G6C7_BB A 2 ? B 7 ? A 3 ? B 6 ? 1 A G 6 1_555 B C 3 1_555 A C 7 1_555 B G 2 1_555 0.111 -1.857 3.257 -1.465 4.957 33.356 -3.966 -0.418 2.951 8.572 2.534 33.743 3 AA_G6C7:G2C3_BB A 6 ? B 3 ? A 7 ? B 2 ? 1 A C 7 1_555 B G 2 1_555 A C 8 1_555 B G 1 1_555 0.074 -1.817 2.998 1.640 1.790 28.159 -4.096 0.190 2.878 3.669 -3.363 28.262 4 AA_C7C8:G1G2_BB A 7 ? B 2 ? A 8 ? B 1 ? # _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.type ? _pdbx_nmr_spectrometer.manufacturer Varian _pdbx_nmr_spectrometer.model INOVA _pdbx_nmr_spectrometer.field_strength 500 # _atom_sites.entry_id 1MV6 _atom_sites.fract_transf_matrix[1][1] 1.000000 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 1.000000 _atom_sites.fract_transf_matrix[2][3] 0.000000 _atom_sites.fract_transf_matrix[3][1] 0.000000 _atom_sites.fract_transf_matrix[3][2] 0.000000 _atom_sites.fract_transf_matrix[3][3] 1.000000 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C H N O P # loop_