data_NDD # _chem_comp.id NDD _chem_comp.name 2,6-DICARBOXYNAPHTHALENE _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C12 H8 O4" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 1999-07-08 _chem_comp.pdbx_modified_date 2024-09-27 _chem_comp.pdbx_ambiguous_flag N _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.formula_weight 216.190 _chem_comp.one_letter_code ? _chem_comp.three_letter_code NDD _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details ? _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 1HAC _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB _chem_comp.pdbx_pcm Y # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.alt_atom_id _chem_comp_atom.type_symbol _chem_comp_atom.charge _chem_comp_atom.pdbx_align _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_leaving_atom_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_n_terminal_atom_flag _chem_comp_atom.pdbx_c_terminal_atom_flag _chem_comp_atom.model_Cartn_x _chem_comp_atom.model_Cartn_y _chem_comp_atom.model_Cartn_z _chem_comp_atom.pdbx_model_Cartn_x_ideal _chem_comp_atom.pdbx_model_Cartn_y_ideal _chem_comp_atom.pdbx_model_Cartn_z_ideal _chem_comp_atom.pdbx_component_atom_id _chem_comp_atom.pdbx_component_comp_id _chem_comp_atom.pdbx_ordinal NDD C1 C1 C 0 1 Y N N N N N 33.957 17.848 4.815 -0.954 -0.004 1.593 C1 NDD 1 NDD C2 C2 C 0 1 Y N N N N N 33.829 17.040 5.967 0.090 0.000 2.502 C2 NDD 2 NDD C3 C3 C 0 1 Y N N N N N 33.320 15.754 5.775 1.424 -0.000 2.056 C3 NDD 3 NDD C4 C4 C 0 1 Y N N N N N 32.974 15.262 4.517 1.714 -0.000 0.730 C4 NDD 4 NDD C4A C4A C 0 1 Y N N N N N 33.103 16.084 3.392 0.674 0.000 -0.218 C4A NDD 5 NDD C5 C5 C 0 1 Y N N N N N 32.787 15.580 2.121 0.954 -0.000 -1.593 C5 NDD 6 NDD C6 C6 C 0 1 Y N N N N N 32.976 16.336 0.959 -0.090 -0.000 -2.502 C6 NDD 7 NDD C7 C7 C 0 1 Y N N N N N 33.482 17.630 1.115 -1.424 0.000 -2.056 C7 NDD 8 NDD C8 C8 C 0 1 Y N N N N N 33.769 18.150 2.383 -1.714 0.000 -0.730 C8 NDD 9 NDD C8A C8A C 0 1 Y N N N N N 33.599 17.381 3.537 -0.674 0.000 0.218 C8A NDD 10 NDD "C2'" "C2'" C 0 1 N N N N N N 34.236 17.584 7.334 -0.198 0.000 3.951 "C2'" NDD 11 NDD "O1'" "O1'" O 0 1 N N N N N N 34.645 18.736 7.325 -1.348 0.001 4.341 "O1'" NDD 12 NDD "O2'" "O2'" O 0 1 N Y N N N N 34.124 16.867 8.447 0.814 0.000 4.839 "O2'" NDD 13 NDD "C6'" "C6'" C 0 1 N N N N N N 32.636 15.805 -0.420 0.198 0.000 -3.951 "C6'" NDD 14 NDD "O3'" "O3'" O 0 1 N N N N N N 32.027 14.740 -0.560 1.348 0.000 -4.341 "O3'" NDD 15 NDD "O4'" "O4'" O 0 1 N N N N N N 33.018 16.553 -1.458 -0.814 0.000 -4.839 "O4'" NDD 16 NDD H1 H1 H 0 1 N N N N N N 34.348 18.874 4.916 -1.977 -0.008 1.940 H1 NDD 17 NDD H3 H3 H 0 1 N N N N N N 33.185 15.100 6.653 2.227 -0.000 2.778 H3 NDD 18 NDD H4 H4 H 0 1 N N N N N N 32.600 14.229 4.412 2.744 -0.000 0.403 H4 NDD 19 NDD H5 H5 H 0 1 N N N N N N 32.378 14.559 2.032 1.977 0.000 -1.940 H5 NDD 20 NDD H7 H7 H 0 1 N N N N N N 33.658 18.252 0.221 -2.227 0.000 -2.778 H7 NDD 21 NDD H8 H8 H 0 1 N N N N N N 34.136 19.186 2.474 -2.744 0.001 -0.403 H8 NDD 22 NDD HO2 HO2 H 0 1 N N N N N N 34.377 17.205 9.297 0.625 0.000 5.788 HO2 NDD 23 NDD HO4 HO4 H 0 1 N N N N N N 32.805 16.220 -2.322 -0.625 0.000 -5.788 HO4 NDD 24 # 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 NDD C1 C2 DOUB Y N 1 NDD C1 C8A SING Y N 2 NDD C1 H1 SING N N 3 NDD C2 C3 SING Y N 4 NDD C2 "C2'" SING N N 5 NDD C3 C4 DOUB Y N 6 NDD C3 H3 SING N N 7 NDD C4 C4A SING Y N 8 NDD C4 H4 SING N N 9 NDD C4A C5 DOUB Y N 10 NDD C4A C8A SING Y N 11 NDD C5 C6 SING Y N 12 NDD C5 H5 SING N N 13 NDD C6 C7 DOUB Y N 14 NDD C6 "C6'" SING N N 15 NDD C7 C8 SING Y N 16 NDD C7 H7 SING N N 17 NDD C8 C8A DOUB Y N 18 NDD C8 H8 SING N N 19 NDD "C2'" "O1'" DOUB N N 20 NDD "C2'" "O2'" SING N N 21 NDD "O2'" HO2 SING N N 22 NDD "C6'" "O3'" DOUB N N 23 NDD "C6'" "O4'" SING N N 24 NDD "O4'" HO4 SING N N 25 # loop_ _pdbx_chem_comp_descriptor.comp_id _pdbx_chem_comp_descriptor.type _pdbx_chem_comp_descriptor.program _pdbx_chem_comp_descriptor.program_version _pdbx_chem_comp_descriptor.descriptor NDD SMILES ACDLabs 10.04 "O=C(O)c1ccc2c(c1)ccc(C(=O)O)c2" NDD SMILES_CANONICAL CACTVS 3.341 "OC(=O)c1ccc2cc(ccc2c1)C(O)=O" NDD SMILES CACTVS 3.341 "OC(=O)c1ccc2cc(ccc2c1)C(O)=O" NDD SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "c1cc(cc2c1cc(cc2)C(=O)O)C(=O)O" NDD SMILES "OpenEye OEToolkits" 1.5.0 "c1cc(cc2c1cc(cc2)C(=O)O)C(=O)O" NDD InChI InChI 1.03 "InChI=1S/C12H8O4/c13-11(14)9-3-1-7-5-10(12(15)16)4-2-8(7)6-9/h1-6H,(H,13,14)(H,15,16)" NDD InChIKey InChI 1.03 RXOHFPCZGPKIRD-UHFFFAOYSA-N # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version _pdbx_chem_comp_identifier.identifier NDD "SYSTEMATIC NAME" ACDLabs 10.04 "naphthalene-2,6-dicarboxylic acid" NDD "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "naphthalene-2,6-dicarboxylic acid" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site NDD "Create component" 1999-07-08 RCSB NDD "Modify descriptor" 2011-06-04 RCSB NDD "Modify PCM" 2024-09-27 PDBE # loop_ _pdbx_chem_comp_pcm.pcm_id _pdbx_chem_comp_pcm.comp_id _pdbx_chem_comp_pcm.modified_residue_id _pdbx_chem_comp_pcm.type _pdbx_chem_comp_pcm.category _pdbx_chem_comp_pcm.position _pdbx_chem_comp_pcm.polypeptide_position _pdbx_chem_comp_pcm.comp_id_linking_atom _pdbx_chem_comp_pcm.modified_residue_id_linking_atom _pdbx_chem_comp_pcm.uniprot_specific_ptm_accession _pdbx_chem_comp_pcm.uniprot_generic_ptm_accession 1 NDD LYS None Crosslinker "Amino-acid side chain" "Any position" "C2'" NZ ? ? 2 NDD LYS None Crosslinker "Amino-acid side chain" "Any position" "C6'" NZ ? ? #