data_DTT
#
_chem_comp.id DTT
_chem_comp.name 2,3-DIHYDROXY-1,4-DITHIOBUTANE
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula 'C4 H10 O2 S2'
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms 1,4-DITHIOTHREITOL
_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 154.251
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code DTT
_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 1DK8
_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
DTT S1 S1 S 0 1 N N N N N N 3.613 21.875 25.371 -0.052 -0.255 -3.408 S1 DTT 1
DTT C1 C1 C 0 1 N N N N N N 2.114 21.652 24.350 0.740 -0.255 -1.777 C1 DTT 2
DTT C2 C2 C 0 1 N N R N N N 1.317 22.899 24.012 -0.334 -0.255 -0.688 C2 DTT 3
DTT O2 O2 O 0 1 N N N N N N 0.570 23.184 25.182 -1.148 0.910 -0.822 O2 DTT 4
DTT C3 C3 C 0 1 N N R N N N 0.313 22.713 22.814 0.334 -0.255 0.688 C3 DTT 5
DTT O3 O3 O 0 1 N N N N N N -0.922 23.332 23.201 1.147 0.911 0.822 O3 DTT 6
DTT C4 C4 C 0 1 N N N N N N 0.740 23.463 21.538 -0.740 -0.256 1.777 C4 DTT 7
DTT S4 S4 S 0 1 N N N N N N 2.395 23.126 20.757 0.052 -0.255 3.408 S4 DTT 8
DTT HS1 HS1 H 0 1 N N N N N N 4.111 21.094 25.582 1.036 -0.255 -4.197 HS1 DTT 9
DTT H11 1H1 H 0 1 N N N N N N 2.381 21.115 23.409 1.360 0.635 -1.675 H11 DTT 10
DTT H12 2H1 H 0 1 N N N N N N 1.444 20.902 24.832 1.361 -1.144 -1.675 H12 DTT 11
DTT H2 H2 H 0 1 N N N N N N 2.017 23.707 23.697 -0.954 -1.146 -0.790 H2 DTT 12
DTT HO2 HO2 H 0 1 N N N N N N 0.071 23.964 24.970 -0.562 1.673 -0.725 HO2 DTT 13
DTT H3 H3 H 0 1 N N N N N N 0.255 21.620 22.600 0.955 -1.145 0.790 H3 DTT 14
DTT HO3 HO3 H 0 1 N N N N N N -1.527 23.219 22.478 0.560 1.674 0.725 HO3 DTT 15
DTT H41 1H4 H 0 1 N N N N N N -0.048 23.314 20.764 -1.361 0.633 1.675 H41 DTT 16
DTT H42 2H4 H 0 1 N N N N N N 0.661 24.558 21.732 -1.360 -1.146 1.675 H42 DTT 17
DTT HS2 HS2 H 0 1 N N N N N N 2.658 23.588 19.970 -1.036 -0.256 4.197 HS2 DTT 18
#
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
DTT S1 C1 SING N N 1
DTT S1 HS1 SING N N 2
DTT C1 C2 SING N N 3
DTT C1 H11 SING N N 4
DTT C1 H12 SING N N 5
DTT C2 O2 SING N N 6
DTT C2 C3 SING N N 7
DTT C2 H2 SING N N 8
DTT O2 HO2 SING N N 9
DTT C3 O3 SING N N 10
DTT C3 C4 SING N N 11
DTT C3 H3 SING N N 12
DTT O3 HO3 SING N N 13
DTT C4 S4 SING N N 14
DTT C4 H41 SING N N 15
DTT C4 H42 SING N N 16
DTT S4 HS2 SING N N 17
#
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
DTT SMILES ACDLabs 10.04 'SCC(O)C(O)CS'
DTT SMILES_CANONICAL CACTVS 3.341 'O[C@@H](CS)[C@@H](O)CS'
DTT SMILES CACTVS 3.341 'O[CH](CS)[CH](O)CS'
DTT SMILES_CANONICAL 'OpenEye OEToolkits' 1.5.0 'C([C@@H]([C@H](CS)O)O)S'
DTT SMILES 'OpenEye OEToolkits' 1.5.0 'C(C(C(CS)O)O)S'
DTT InChI InChI 1.03 'InChI=1S/C4H10O2S2/c5-3(1-7)4(6)2-8/h3-8H,1-2H2/t3-,4-/m0/s1'
DTT InChIKey InChI 1.03 VHJLVAABSRFDPM-IMJSIDKUSA-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
DTT 'SYSTEMATIC NAME' ACDLabs 10.04 '(2R,3R)-1,4-disulfanylbutane-2,3-diol'
DTT 'SYSTEMATIC NAME' 'OpenEye OEToolkits' 1.5.0 '(2R,3R)-1,4-bis-sulfanylbutane-2,3-diol'
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
DTT 'Create component' 1999-07-08 EBI
DTT 'Modify descriptor' 2011-06-04 RCSB
DTT 'Modify synonyms' 2020-06-05 PDBE
DTT 'Modify PCM' 2024-09-27 PDBE
#
_pdbx_chem_comp_synonyms.ordinal 1
_pdbx_chem_comp_synonyms.comp_id DTT
_pdbx_chem_comp_synonyms.name 1,4-DITHIOTHREITOL
_pdbx_chem_comp_synonyms.provenance ?
_pdbx_chem_comp_synonyms.type ?
#
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 DTT CYS None Crosslinker 'Amino-acid side chain' 'Any position' S1 SG ? ?
2 DTT CYS None Crosslinker 'Amino-acid side chain' 'Any position' S4 SG ? ?
#
_pdbe_chem_comp_drugbank_details.comp_id DTT
_pdbe_chem_comp_drugbank_details.drugbank_id DB04447
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name 1,4-Dithiothreitol
_pdbe_chem_comp_drugbank_details.description
'A reagent commonly used in biochemical studies as a protective agent to prevent the oxidation of SH (thiol) groups and for reducing disulphides to dithiols. [PubChem]'
_pdbe_chem_comp_drugbank_details.cas_number 3483-12-3
_pdbe_chem_comp_drugbank_details.mechanism_of_action ?
#
loop_
_pdbe_chem_comp_synonyms.comp_id
_pdbe_chem_comp_synonyms.name
_pdbe_chem_comp_synonyms.provenance
_pdbe_chem_comp_synonyms.type
DTT 1,4-DITHIOTHREITOL wwPDB ?
DTT 1,4-Dithiothreitol DrugBank ?
DTT 2,3-dihydroxy-1,4-dithiobutane DrugBank ?
#
_pdbe_chem_comp_drugbank_classification.comp_id DTT
_pdbe_chem_comp_drugbank_classification.drugbank_id DB04447
_pdbe_chem_comp_drugbank_classification.parent 1,2-diols
_pdbe_chem_comp_drugbank_classification.kingdom 'Organic compounds'
_pdbe_chem_comp_drugbank_classification.class 'Organooxygen compounds'
_pdbe_chem_comp_drugbank_classification.superclass 'Organic oxygen compounds'
_pdbe_chem_comp_drugbank_classification.description
'This compound belongs to the class of organic compounds known as 1,2-diols. These are polyols containing an alcohol group at two adjacent positions.'
#
loop_
_pdbe_chem_comp_drugbank_targets.comp_id
_pdbe_chem_comp_drugbank_targets.drugbank_id
_pdbe_chem_comp_drugbank_targets.name
_pdbe_chem_comp_drugbank_targets.organism
_pdbe_chem_comp_drugbank_targets.uniprot_id
_pdbe_chem_comp_drugbank_targets.pharmacologically_active
_pdbe_chem_comp_drugbank_targets.ordinal
DTT DB04447 'Thymidylate synthase' 'Escherichia coli (strain K12)' P0A884 unknown 1
DTT DB04447 'Thymidylate synthase' Yeast P12461 unknown 2
DTT DB04447 'Triosephosphate isomerase' Humans P60174 unknown 3
DTT DB04447 'Maleylacetoacetate isomerase' Humans O43708 unknown 4
DTT DB04447 '3-hydroxy-3-methylglutaryl-coenzyme A reductase' Humans P04035 unknown 5
DTT DB04447 'Listeriolysin regulatory protein' 'Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e)' P22262 unknown 6
DTT DB04447 'Spermidine/spermine N(1)-acetyltransferase' 'Bacillus subtilis (strain 168)' P21340 unknown 7
DTT DB04447 'Holo-[acyl-carrier-protein] synthase' 'Bacillus subtilis (strain 168)' P96618 unknown 8
DTT DB04447 'Histidinol dehydrogenase' 'Escherichia coli (strain K12)' P06988 unknown 9
DTT DB04447 'Shikimate dehydrogenase (NADP(+))' 'Escherichia coli (strain K12)' P15770 unknown 10
DTT DB04447 Galectin-1 Humans P09382 unknown 11
DTT DB04447 'Calcium/calmodulin-dependent protein kinase type II subunit alpha' Humans Q9UQM7 unknown 12
DTT DB04447 'Large ribosomal subunit protein bL27' 'Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)' P60493 unknown 13
DTT DB04447 'Aldehyde dehydrogenase 1A1' Humans P00352 unknown 14
DTT DB04447 'Organic hydroperoxide resistance protein' 'Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228)' Q9HZZ3 unknown 15
DTT DB04447 '3-carboxy-cis,cis-muconate cycloisomerase' 'Pseudomonas putida' P32427 unknown 16
DTT DB04447 'Transient receptor potential cation channel subfamily M member 7' Humans Q96QT4 unknown 17
DTT DB04447 'Unsaturated glucuronyl hydrolase' 'Bacillus sp. (strain GL1)' Q9RC92 unknown 18
DTT DB04447 "GTP 3',8-cyclase" 'Staphylococcus aureus (strain MW2)' P65389 unknown 19
DTT DB04447 'C protein alpha-antigen' 'Streptococcus agalactiae serotype Ia (strain ATCC 27591 / A909 / CDC SS700)' Q02192 unknown 20
DTT DB04447 'Mitochondrial peptide methionine sulfoxide reductase' Humans Q9UJ68 unknown 21
DTT DB04447 'Chaperone protein TorD' 'Shewanella massilia' O87949 unknown 22
DTT DB04447 Axin-1 Humans O15169 unknown 23
DTT DB04447 'Peptidyl-prolyl cis-trans isomerase B' Humans P23284 unknown 24
DTT DB04447 Amylosucrase 'Neisseria polysaccharea' Q9ZEU2 unknown 25
#
loop_
_software.name
_software.version
_software.description
rdkit 2025.03.3 'Core functionality.'
pdbeccdutils 1.0.0 'Wrapper to provide 2D templates and molecular fragments.'
#
loop_
_pdbe_chem_comp_atom_depiction.comp_id
_pdbe_chem_comp_atom_depiction.atom_id
_pdbe_chem_comp_atom_depiction.element
_pdbe_chem_comp_atom_depiction.model_Cartn_x
_pdbe_chem_comp_atom_depiction.model_Cartn_y
_pdbe_chem_comp_atom_depiction.pdbx_ordinal
DTT S1 S 3.805 -0.375 1
DTT C1 C 5.104 0.375 2
DTT C2 C 6.404 -0.375 3
DTT O2 O 6.404 -1.875 4
DTT C3 C 7.702 0.375 5
DTT O3 O 7.702 1.875 6
DTT C4 C 9.002 -0.375 7
DTT S4 S 10.301 0.375 8
#
loop_
_pdbe_chem_comp_bond_depiction.comp_id
_pdbe_chem_comp_bond_depiction.atom_id_1
_pdbe_chem_comp_bond_depiction.atom_id_2
_pdbe_chem_comp_bond_depiction.value_order
_pdbe_chem_comp_bond_depiction.bond_dir
_pdbe_chem_comp_bond_depiction.pdbx_ordinal
DTT S1 C1 SINGLE NONE 1
DTT C1 C2 SINGLE NONE 2
DTT C2 O2 SINGLE BEGINWEDGE 3
DTT C2 C3 SINGLE NONE 4
DTT C3 O3 SINGLE BEGINWEDGE 5
DTT C3 C4 SINGLE NONE 6
DTT C4 S4 SINGLE NONE 7
#
#
#
_pdbe_chem_comp_rdkit_properties.comp_id DTT
_pdbe_chem_comp_rdkit_properties.exactmw 154.012
_pdbe_chem_comp_rdkit_properties.amw 154.256
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 2
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 2
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 7
_pdbe_chem_comp_rdkit_properties.NumHBD 4
_pdbe_chem_comp_rdkit_properties.NumHBA 4
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 8
_pdbe_chem_comp_rdkit_properties.NumAtoms 18
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 4
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 1
_pdbe_chem_comp_rdkit_properties.NumRings 0
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 0
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 0
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 2
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 73.318
_pdbe_chem_comp_rdkit_properties.tpsa 40.460
_pdbe_chem_comp_rdkit_properties.CrippenClogP -0.432
_pdbe_chem_comp_rdkit_properties.CrippenMR 39.720
_pdbe_chem_comp_rdkit_properties.chi0v 5.266
_pdbe_chem_comp_rdkit_properties.chi1v 2.383
_pdbe_chem_comp_rdkit_properties.chi2v 0.762
_pdbe_chem_comp_rdkit_properties.chi3v 0.762
_pdbe_chem_comp_rdkit_properties.chi4v 0.278
_pdbe_chem_comp_rdkit_properties.chi0n 13.633
_pdbe_chem_comp_rdkit_properties.chi1n 6.199
_pdbe_chem_comp_rdkit_properties.chi2n 0.392
_pdbe_chem_comp_rdkit_properties.chi3n 0.392
_pdbe_chem_comp_rdkit_properties.chi4n 0.093
_pdbe_chem_comp_rdkit_properties.hallKierAlpha 0.620
_pdbe_chem_comp_rdkit_properties.kappa1 1.612
_pdbe_chem_comp_rdkit_properties.kappa2 4.494
_pdbe_chem_comp_rdkit_properties.kappa3 2.814
_pdbe_chem_comp_rdkit_properties.Phi 0.906
#
loop_
_pdbe_chem_comp_external_mappings.comp_id
_pdbe_chem_comp_external_mappings.source
_pdbe_chem_comp_external_mappings.resource
_pdbe_chem_comp_external_mappings.resource_id
DTT UniChem ChEMBL CHEMBL406270
DTT UniChem ChEBI CHEBI:42106
DTT UniChem BRENDA 90418
DTT UniChem BRENDA 260042
DTT UniChem MolPort Molport-003-941-214
DTT UniChem SureChEMBL 538995
DTT UniChem 'EPA CompTox Dashboard' DTXSID501316708
DTT UniChem fdasrs T8ID5YZU6Y
DTT UniChem HMDB HMDB0013593
DTT UniChem PubChem 439196
DTT UniChem 'Probes And Drugs' PD012504
DTT UniChem DrugBank DB04447
#
loop_
_pdbe_chem_comp_rdkit_conformer.comp_id
_pdbe_chem_comp_rdkit_conformer.atom_id
_pdbe_chem_comp_rdkit_conformer.Cartn_x_rdkit
_pdbe_chem_comp_rdkit_conformer.Cartn_y_rdkit
_pdbe_chem_comp_rdkit_conformer.Cartn_z_rdkit
_pdbe_chem_comp_rdkit_conformer.rdkit_method
_pdbe_chem_comp_rdkit_conformer.rdkit_ordinal
DTT S1 3.038 0.914 0.524 ETKDGv3 1
DTT C1 1.409 0.524 -0.189 ETKDGv3 2
DTT C2 0.567 -0.312 0.793 ETKDGv3 3
DTT O2 1.289 -1.448 1.203 ETKDGv3 4
DTT C3 -0.808 -0.739 0.209 ETKDGv3 5
DTT O3 -1.472 -1.541 1.153 ETKDGv3 6
DTT C4 -1.718 0.461 -0.123 ETKDGv3 7
DTT S4 -1.492 1.029 -1.841 ETKDGv3 8
DTT HS1 3.440 1.630 -0.620 ETKDGv3 9
DTT H11 0.902 1.486 -0.403 ETKDGv3 10
DTT H12 1.553 -0.030 -1.141 ETKDGv3 11
DTT H2 0.383 0.309 1.698 ETKDGv3 12
DTT HO2 1.462 -2.000 0.395 ETKDGv3 13
DTT H3 -0.644 -1.330 -0.724 ETKDGv3 14
DTT HO3 -1.139 -2.470 1.038 ETKDGv3 15
DTT H41 -2.783 0.160 -0.020 ETKDGv3 16
DTT H42 -1.539 1.305 0.577 ETKDGv3 17
DTT HS2 -2.449 2.051 -1.699 ETKDGv3 18
#