Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 783
Aptamer sequence: CGTACGGAATTCGCTAGCCCCCCGGCAGGCCACGGCTTGGGTTGGTCCCACTGCGCGTGGATCCGAGCTCCACGTG
Target unique ID: 54704426
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_1291 T20 Molecule Tetracycline hydrochloride 63.6 nM 100 mM NaCl, 20 mM Tris-HCl (pH 7.6), 2 mM MgCl2, 5 mM KCl, 1 mM CaCl2, 0.02% Tween-20 18617415
Structure information of aptamer
Aptamer Sequence: CGTACGGAATTCGCTAGCCCCCCGGCAGGCCACGGCTTGGGTTGGTCCCACTGCGCGTGGATCCGAGCTCCACGTG
The optimal secondary structure in dot-bracket notation: ....(((.....((((((((.(((........)))...))))))))....)))((((((((.......))))))))
The centroid secondary structure in dot-bracket notation: ............((((((((.(((........)))...)))))))).......((((((((.......))))))))
The MFE structure
The Centroid structure
The mountain plot representation
Aptamer information
Type Detail Type Detail
Aptamer ID Apta_1291 Description T20
Aptamer chemistry DNA Length 76 nt
GC content 68.4% Molecular weight 23,366.87 Da
Molarity of 1 μg/μl solution 42.80 μM Number of G-quadruplexes 1
G-Score 20 Function Targeted binding
Sequence CGTACGGAATTCGCTAGCCCCCCGGCAGGCCACGGCTTGGGTTGGTCCCACTGCGCGTGGATCCGAGCTCCACGTG
Applications Binding to tetracyclines
Target information
Type Detail Type Detail
PubChem ID 54704426 Molecular name Tetracycline hydrochloride
Molecular formula C22H25ClN2O8 Molecular weight 480.9
IUPAC name (4S,4aS,5aS,6S,12aR)-4-(dimethylamino)-1,6,10,11,12a-pentahydroxy-6-methyl-3,12-dioxo-4,4a,5,5a-tetrahydrotetracene-2-carboxamide;hydrochloride InChIKey YCIHPQHVWDULOY-FMZCEJRJSA-N
LogP 0.051 Topological polar surface area 181.62
Hydrogen bond acceptor 9 Hydrogen bond donor 6

Synonym(s):
TETRACYCLINE HYDROCHLORIDE; 64-75-5; Tetracycline HCl; Achromycin hydrochloride; Tetracycline (hydrochloride); Supramycin; Sustamycin; Sumycin; Telotrex; UNII-P6R62377KV; NCI-C55561; MFCD00078142; Achromycin; Quatrex; P6R62377KV; Bristacycline; Dumocyclin; (4S,4aS,5aS,6S,12aS)-4-(dimethylamino)-3,6,10,12,12a-pentahydroxy-6-methyl-1,11-dioxo-1,4,4a,5,5a,6,11,12a-octahydrotetracene-2-carboxamide hydrochloride; 64-75-5 (HCl); DSSTox_CID_1321; DSSTox_RID_76081; DSSTox_GSID_21321; Hostacycline; Mephacyclin; Quadracycline; Remicyclin; Stilciclina; Tetrabakat; Tetracompren; Tetralution; Tetramavan; Topicycline; Triphacyclin; Actisite; Artomycin; Diacycine; Partrex; Piracaps; Ricycline; Subamycin; Tefilin; Tetrabid; Tetrablet; Tetracaps; Tetrakap; Tetramed; Tetrosol; Paltet; Qidtet; Retet; Teline; Unicin; Tetra-wedel; Neocyclin B; Ro-Cycline; Tetracycline.HCl; Polyotic ointment; TetraSURE; Tet-cy; Tetra-D; Vetquamycin-324; Cancycline-250; (4S,4aS,5aS,6S,12aR)-4-(dimethylamino)-1,6,10,11,12a-pentahydroxy-6-methyl-3,12-dioxo-4,4a,5,5a-tetrahydrotetracene-2-carboxamide;hydrochloride; Cefracycline tablets; Tetracycline chloride; Panmycin hydrochloride; Sentry av ornacycline; T-250 Capsules; Tetracyn hydrochloride; Tetraciclina cloridrato; ALA TET; Polycycline hydrochloride; Chlorowodorku tetracykliny; Chlorhydrate de tetracycline; CCRIS 2351; SR-01000000212; SR-05000001723; (-)-Tetrahcycline hydrochloride; Tetraciclina cloridrato [Italian]; Chlorowodorku tetracykliny [Polish]; (4S,4aS,5aS,6S,12aS)-4-(dimethylamino)-3,6,10,12,12a-pentahydroxy-6-methyl-1,11-dioxo-4,4a,5,5a-tetrahydrotetracene-2-carboxamide;hydrochloride; Prestwick_434; EINECS 200-593-8; Bristacycline (TN); Chlorhydrate de tetracycline [French]; Tetracycline hydrochloride [USP:JAN]; Tetracycline hydrochloride (internal use); AI3-50120; CAS-64-75-5; NCGC00016291-01; EC 200-593-8; U-5965; SCHEMBL34248; SPECTRUM1500566; CHEMBL454950; DTXSID6021321; NCI-c55561;Tetracycline HCl; Tetracycline hydrochloride, powder; HMS1568K22; HMS1921C19; Pharmakon1600-01500566; HY-B0474; Tox21_110355; Tox21_200516; CCG-39267; NSC757338; s2574; AKOS015951263; Tox21_110355_1; BCP9000227; KS-1431; MCULE-8111555447; NSC 757338; NSC-757338; Tetracycline hydrochloride (JP17/USP); NCGC00017323-08; NCGC00180907-01; NCGC00180907-02; NCGC00258070-01; (4S,4aS,5aS,6S,12aS)-4-(Dimethylamino)-1,4,4a,5,5a,6,11,12a-octahydro-3,6,10,12,12a-pentahydroxy-6-methyl-1,11-dioxo-2-naphthacenecarboxamide monohydrochloride; (4S,6S,12aS,4aS,5aS)-4-(dimethylamino)-3,6,10,12,12a-pentahydroxy-6-methyl-1,1 1-dioxo-4,5,6,12a,4a,5a-hexahydronaphthacene-2-carboxamide, chloride; 2-Naphthacenecarboxamide, 4-(dimethylamino)-1,4,4a,5,5a,6,11,12a-octahydro-3,6,10,12,12a-pentahydroxy-6-methyl-1,11-dioxo-, monohydrochloride, (4S,4aS,5aS,6S,12aS)-; 2-Naphthacenecarboxamide, 4-(dimethylamino)-1,4,4a,5,5a,6,11,12a-octahydro-3,6,10,12,12a-pentahydroxy-6-methyl-1,11-dioxo-, monohydrochloride, (4S-(4alpha,4aalpha,5aalpha,6beta,12aalpha))-; K044; BCP0726000161; SW196293-4; D02122; D92606; SR-01000000212-4; SR-05000001723-2; Q27286287; Tetracycline hydrochloride 100 microg/mL in Acetonitrile; Tetracycline hydrochloride, meets USP testing specifications; Tetracycline hydrochloride, VETRANAL(TM), analytical standard; Tetracycline hydrochloride, >=95% (European Pharmacopoeia HPLC assay); Tetracycline hydrochloride, British Pharmacopoeia (BP) Reference Standard; Tetracycline hydrochloride, European Pharmacopoeia (EP) Reference Standard; Tetracycline hydrochloride, powder, BioReagent, suitable for cell culture; Tetracycline hydrochloride, Pharmaceutical Secondary Standard; Certified Reference Material; Tetracycline hydrochloride, United States Pharmacopeia (USP) Reference Standard; (4S,4AS,5AS,6S,12AR)-4-(DIMETHYLAMINO)-1,6,10,11,12A-PENTAHYDROXY-6-METHYL-3,12-DIOXO-3,4,4A,5,5A,6,12,12A-OCTAHYDROTETRACENE-2-CARBOXAMIDE HYDROCHLORIDE; (4S,4AS,5aS,6S,12aS)-4-(Dimethylamino)-3,6,10,12,12a-pentahydroxy-6-methyl-1,11-dioxo-4,4a,5,5a-tetrahydrotetracene-2-carboxamide hydrochloride; (4S,4aS,5aS,6S,12aS,Z)-2-(amino(hydroxy)methylene)-4-(dimethylamino)-6,10,11,12a-tetrahydroxy-6-methyl-4a,5a,6,12a-tetrahydrotetracene-1,3,12(2H,4H,5H)-trione hydrochloride; 2-Naphthacenecarboxamide, 4-(dimethylamino)-1,4,4a,5,5a,6,11,12a-octahydro-3,6,10,12,12a-pentahydroxy-6-methyl-1,11-dioxo-, monohydrochloride, (4S-(4alpha,4aalpha,5aalpha,6beta,12alpha))-; 2-Naphthacenecarboxamide,4-(dimethylamino)-1,4,4a,5,5a,6,11,12a-octahydro-3,6,10,12,12a-pentahydroxy-6-methyl-1,11-dioxo-, monohydrochloride,(4S,4aS,5aS,6S,12aS)-

Activity data
Interaction ID 783
Target type Molecule
Target unique ID 54704426
Activity 63.6 nM
Binding Conditions/Buffer

100 mM NaCl, 20 mM Tris-HCl (pH 7.6), 2 mM MgCl2, 5 mM KCl, 1 mM CaCl2, 0.02% Tween-20

Assay

N/A

PubMed ID 18617415
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_1117 DNA CGTACGGAATTCGCTAGCGGACTGGAGTCTAGACCGGGTAGCTGTGGTGGATCCGAGCTCCACGTG 73.68%
Apta_708 DNA CGTACGGAATTCGCTAGCGGGCGGGGGTGCTGGGGGAATGGAGTGCTGCGTGCTGCGGGGATCCGAGCTCCACGTG 71.05%
Apta_1115 DNA CGTACGGAATTCGCTAGCGGTGACGGACGTGGGGTGCACGAAGGGAGGGGATCCGAGCTCCACGTG 71.05%
Apta_1116 DNA CGTACGGAATTCGCTAGCCGGGGTGGGAACCAGTCTTGCGCGGGTGACGGATCCGAGCTCCACGTG 69.74%
Apta_665 DNA CGCCAATCTCAAAGCCCGCCACCTGCCCCTCACTGCCCACCTGTGGAATCCATGTCGCTC 53.95%
Apta_949 DNA TCCAGCACTCCACGCATAACCCCGTCCTCGGAAAGAGCGCGGGCCTGGGACGGCTACTGCCCGGATTTATGTGTTATGCGTGCGACGGTGAA 53.26%
Apta_464 DNA GTCAGATTCCACTATAGTAGGTTGGGTAGGGTGGTCGCAGTGGATGATATGTCGTAGGGG 52.63%
Apta_511 DNA ATCCGTCACACCTGCTCTCAGGGGATCACATTCTTGACGGTGTGATACAGTGCCTGGTGTTGGCTCCCGTAT 52.63%
Apta_572 DNA CCGTAACCCTGCGGGGGGGGGAGAAGGCAATGGGGGACAACTCGCCGGTAGCCATCCATAT 52.63%
Apta_704 DNA GTACGAATTCACGAGGTTGCCAGCGGGGCCAGCCACTTCTGTCAGTGAATTCCTGCTCGTATATCTACTCGCCCGCCTGCGAGCATGGAGTCGGATCCTCTA 51.96%
Apta_1017 DNA TAGGGAATTCGTCGACGGATCCCTGCAGTTTGGTAGGGTGCGAGCAACATCAGGCACCTGCAGGTCGACGCATGCGCCG 51.90%
Apta_369 DNA GGCTGTTGTGAGCCTCCTCCCAGAGGGAAGACTTTAGGTTCGGTTCACGTCCCGCTTATTCTTACTCCC 51.32%
Apta_405 DNA TCTAGCCCACTGCATAGAGGTAGCCACGTATGTGGGTGTTACCCATTCGTAGCTACCGGTG 51.32%
Apta_652 DNA CCTGCACCTCGTCCAGCATGCACACCGATGGCGGTCCTGGCAGGGGGTGTGCGTG 51.32%
Apta_796 DNA GTGCTGGATGTCACCTCCACTCACCACCTCTTCTCCGCTCCTCGTCATGACACATCCAG 51.32%
Apta_799 DNA GTTCGTGGTGTGCTGGATGTCCCGTGCACGGCGCCACGTTTTCCTCTCATCCCCGATGACACATCCAGCAGCACGA 51.32%
Apta_815 DNA CATCCGTCACACCTGCTCTGGCCACTAACATGGGGACCAGGTGGTGTTGGCTCCCGTATC 51.32%
Apta_826 DNA ATCCGTCACACCTGCTCTGCACGGGCTCAGTTTGGCTTTGTATCCTAAGAGGGATGGTGTTGGCTCCCGTAT 51.32%
Apta_910 DNA TCACGTGCATGATAGACGGCGAAGCCGTCGAGTTGCTGTGTGCCGATGCACGTGA 51.32%
Apta_1034 DNA ATGCGGATCCCGCGCGCGACCGTGTCAGCGGGGACTAGCGGTGTAGCGCGAAGCTTGCGC 51.32%