data_TMD # _chem_comp.id TMD _chem_comp.name "(6,7-DIHYDRO)4-[(E)-BUTENYL]-4,N-DIMETHYL-THREONINE" _chem_comp.type "L-PEPTIDE LINKING" _chem_comp.pdbx_type ATOMP _chem_comp.formula "C10 H21 N O3" _chem_comp.mon_nstd_parent_comp_id THR _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 203.279 _chem_comp.one_letter_code T _chem_comp.three_letter_code TMD _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 1CWK _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site EBI _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 TMD N N N 0 1 N N N Y Y N 5.547 34.654 19.787 -1.138 -0.952 -1.746 N TMD 1 TMD CN CN C 0 1 N N N N N N 4.985 36.042 19.966 -2.396 -0.580 -2.408 CN TMD 2 TMD CA CA C 0 1 N N S Y N N 6.748 34.431 18.972 -0.317 0.264 -1.685 CA TMD 3 TMD C C C 0 1 N N N Y N Y 8.007 35.183 19.432 0.531 0.360 -2.926 C TMD 4 TMD O O O 0 1 N N N Y N Y 8.005 35.998 20.369 0.848 1.443 -3.360 O TMD 5 TMD OXT OXT O 0 1 N Y N Y N Y 9.153 34.866 18.802 0.936 -0.756 -3.551 OXT TMD 6 TMD CB CB C 0 1 N N R N N N 6.514 34.768 17.437 0.585 0.209 -0.452 CB TMD 7 TMD CD1 CD1 C 0 1 N N N N N N 5.120 34.524 15.290 0.626 0.057 2.041 CD1 TMD 8 TMD CD2 CD2 C 0 1 N N N N N N 5.233 32.641 16.941 -1.188 1.337 0.897 CD2 TMD 9 TMD CE CE C 0 1 N N N N N N 6.293 34.080 14.432 -0.235 -0.040 3.301 CE TMD 10 TMD CZ CZ C 0 1 N N N N N N 6.251 34.581 12.997 0.667 -0.095 4.534 CZ TMD 11 TMD CH CH C 0 1 N N N N N N 7.549 34.098 12.272 -0.195 -0.192 5.794 CH TMD 12 TMD OG2 OG2 O 0 1 N N N N N N 6.411 36.186 17.358 1.437 -0.935 -0.536 OG2 TMD 13 TMD CG1 CG1 C 0 1 N N R N N N 5.222 34.151 16.796 -0.276 0.112 0.807 CG1 TMD 14 TMD H HN H 0 1 N Y N Y Y N 4.804 34.053 19.430 -0.662 -1.591 -2.366 H TMD 15 TMD HN1 1HN H 0 1 N N N N N N 4.073 36.211 20.584 -3.042 -1.455 -2.477 HN1 TMD 16 TMD HN2 2HN H 0 1 N N N N N N 5.797 36.698 20.355 -2.896 0.195 -1.828 HN2 TMD 17 TMD HN3 3HN H 0 1 N N N N N N 4.806 36.478 18.955 -2.183 -0.205 -3.409 HN3 TMD 18 TMD HA HA H 0 1 N N N Y N N 6.934 33.341 19.114 -0.967 1.137 -1.621 HA TMD 19 TMD HXT HXT H 0 1 N Y N Y N Y 9.931 35.330 19.086 1.481 -0.695 -4.347 HXT TMD 20 TMD HB HB H 0 1 N N N N N N 7.363 34.324 16.867 1.194 1.112 -0.407 HB TMD 21 TMD HD13 1HD1 H 0 0 N N N N N N 4.955 35.621 15.176 1.235 0.960 2.086 HD13 TMD 22 TMD HD12 2HD1 H 0 0 N N N N N N 4.165 34.138 14.863 1.276 -0.816 1.977 HD12 TMD 23 TMD HD21 1HD2 H 0 0 N N N N N N 4.314 32.202 16.485 -0.579 2.240 0.942 HD21 TMD 24 TMD HD22 2HD2 H 0 0 N N N N N N 6.162 32.189 16.521 -1.831 1.377 0.018 HD22 TMD 25 TMD HD23 3HD2 H 0 0 N N N N N N 5.361 32.325 18.002 -1.802 1.268 1.795 HD23 TMD 26 TMD HE2 1HE H 0 1 N N N N N N 7.256 34.365 14.914 -0.844 -0.943 3.255 HE2 TMD 27 TMD HE3 2HE H 0 1 N N N N N N 6.390 32.969 14.452 -0.885 0.833 3.365 HE3 TMD 28 TMD HZ2 1HZ H 0 1 N N N N N N 5.321 34.275 12.462 1.276 0.807 4.579 HZ2 TMD 29 TMD HZ3 2HZ H 0 1 N N N N N N 6.107 35.684 12.931 1.316 -0.968 4.470 HZ3 TMD 30 TMD HH1 1HH H 0 1 N N N N N N 7.518 34.465 11.219 0.448 -0.232 6.673 HH1 TMD 31 TMD HH2 2HH H 0 1 N N N N N N 8.478 34.403 12.806 -0.844 0.680 5.858 HH2 TMD 32 TMD HH3 3HH H 0 1 N N N N N N 7.692 32.994 12.337 -0.803 -1.095 5.749 HH3 TMD 33 TMD HG2 HO2 H 0 1 N N N N N N 6.271 36.387 16.440 0.860 -1.710 -0.574 HG2 TMD 34 TMD HG1 HG1 H 0 1 N N N N N N 4.338 34.569 17.332 -0.885 -0.790 0.762 HG1 TMD 35 # 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 TMD N CN SING N N 1 TMD N CA SING N N 2 TMD N H SING N N 3 TMD CN HN1 SING N N 4 TMD CN HN2 SING N N 5 TMD CN HN3 SING N N 6 TMD CA C SING N N 7 TMD CA CB SING N N 8 TMD CA HA SING N N 9 TMD C O DOUB N N 10 TMD C OXT SING N N 11 TMD OXT HXT SING N N 12 TMD CB OG2 SING N N 13 TMD CB CG1 SING N N 14 TMD CB HB SING N N 15 TMD CD1 CE SING N N 16 TMD CD1 CG1 SING N N 17 TMD CD1 HD13 SING N N 18 TMD CD1 HD12 SING N N 19 TMD CD2 CG1 SING N N 20 TMD CD2 HD21 SING N N 21 TMD CD2 HD22 SING N N 22 TMD CD2 HD23 SING N N 23 TMD CE CZ SING N N 24 TMD CE HE2 SING N N 25 TMD CE HE3 SING N N 26 TMD CZ CH SING N N 27 TMD CZ HZ2 SING N N 28 TMD CZ HZ3 SING N N 29 TMD CH HH1 SING N N 30 TMD CH HH2 SING N N 31 TMD CH HH3 SING N N 32 TMD OG2 HG2 SING N N 33 TMD CG1 HG1 SING N N 34 # 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 TMD SMILES ACDLabs 10.04 "O=C(O)C(NC)C(O)C(CCCC)C" TMD SMILES_CANONICAL CACTVS 3.341 "CCCC[C@@H](C)[C@@H](O)[C@H](NC)C(O)=O" TMD SMILES CACTVS 3.341 "CCCC[CH](C)[CH](O)[CH](NC)C(O)=O" TMD SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "CCCC[C@@H](C)[C@H]([C@@H](C(=O)O)NC)O" TMD SMILES "OpenEye OEToolkits" 1.5.0 "CCCCC(C)C(C(C(=O)O)NC)O" TMD InChI InChI 1.03 "InChI=1S/C10H21NO3/c1-4-5-6-7(2)9(12)8(11-3)10(13)14/h7-9,11-12H,4-6H2,1-3H3,(H,13,14)/t7-,8+,9-/m1/s1" TMD InChIKey InChI 1.03 HGBRSLPVPAQWHK-HRDYMLBCSA-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 TMD "SYSTEMATIC NAME" ACDLabs 10.04 "4-butyl-2,4,5-trideoxy-2-(methylamino)-L-xylonic acid" TMD "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "(2S,3R,4R)-3-hydroxy-4-methyl-2-methylamino-octanoic 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 TMD "Create component" 1999-07-08 EBI TMD "Modify descriptor" 2011-06-04 RCSB TMD "Modify backbone" 2023-11-03 PDBE TMD "Modify PCM" 2024-09-27 PDBE # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id TMD _pdbx_chem_comp_pcm.modified_residue_id ? _pdbx_chem_comp_pcm.type None _pdbx_chem_comp_pcm.category "Non-standard residue" _pdbx_chem_comp_pcm.position "Amino-acid side chain and backbone" _pdbx_chem_comp_pcm.polypeptide_position "Any 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 ? #