Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 618
Aptamer sequence: GATCGAGGGCAGCGATAGCTGGGCTAATAAGGTTAGCCCCATCGGTC
Target unique ID: 221493
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_585 ch1-47 Molecule Cholic acid 31 μM 50 mM Tris-HCl, 300 mM NaCl, 30 mM KCl, 5 mM MgCl2, pH 7.6 10978501
Structure information of aptamer
Aptamer Sequence: GATCGAGGGCAGCGATAGCTGGGCTAATAAGGTTAGCCCCATCGGTC
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_585 Description ch1-47
Aptamer chemistry DNA Length 47 nt
GC content 57.4% Molecular weight 14,569.34 Da
Molarity of 1 μg/μl solution 68.64 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Aptasensor
Sequence GATCGAGGGCAGCGATAGCTGGGCTAATAAGGTTAGCCCCATCGGTC
Applications Recognition of cholic acid
Target information
Type Detail Type Detail
PubChem ID 221493 Molecular name Cholic acid
Molecular formula C24H40O5 Molecular weight 408.6
IUPAC name (4R)-4-[(3R,5S,7R,8R,9S,10S,12S,13R,14S,17R)-3,7,12-trihydroxy-10,13-dimethyl-2,3,4,5,6,7,8,9,11,12,14,15,16,17-tetradecahydro-1H-cyclopenta[a]phenanthren-17-yl]pentanoic acid InChIKey BHQCQFFYRZLCQQ-OELDTZBJSA-N
LogP 3.449 Topological polar surface area 97.99
Hydrogen bond acceptor 4 Hydrogen bond donor 4

Synonym(s):
cholic acid; 81-25-4; cholate; Colalin; Cholalic acid; Cholalin; Cholsaeure; Cholbam; NSC-6135; 3alpha,7alpha,12alpha-Trihydroxy-5beta-cholanic acid; Cholic acid, 5beta-; 3alpha,7alpha,12alpha-Trihydroxy-5beta-cholan-24-oic acid; (R)-4-((3R,5S,7R,8R,9S,10S,12S,13R,14S,17R)-3,7,12-Trihydroxy-10,13-dimethylhexadecahydro-1H-cyclopenta[a]phenanthren-17-yl)pentanoic acid; SODIUM CHOLATE; UNII-G1JO7801AE; MFCD00003672; HSDB 982; (4R)-4-[(3R,5S,7R,8R,9S,10S,12S,13R,14S,17R)-3,7,12-trihydroxy-10,13-dimethyl-2,3,4,5,6,7,8,9,11,12,14,15,16,17-tetradecahydro-1H-cyclopenta[a]phenanthren-17-yl]pentanoic acid; Cholic acid [USAN]; 3,7,12-Trihydroxycholanic acid; Cholan-24-oic acid, 3,7,12-trihydroxy-, (3a,5b,7a,12a)-; TERPENES AND TERPENOIDS; CHEMBL205596; G1JO7801AE; CHEBI:16359; NSC6135; 3alpha,7alpha,12alpha-Trihydroxy-5beta-cholanate; CHD; Cholic acid (USAN); 3-alpha,7-alpha,12-alpha-Trihydroxy-5-beta-cholan-24-oic acid; 5beta-Cholan-24-oic acid, 3alpha,7alpha,12alpha-trihydroxy-; C24H40O5; 3,7,12-Trihydroxycholan-24-oic acid, (3alpha,5beta,7alpha,12alpha)-; 17-beta-(1-Methyl-3-carboxypropyl)etiocholane-3alpha,7alpha,12alpha-triol; 3,7,12-Trihydroxy-cholan-24-oic acid (3-alpha,5-beta,7-alpha,12-alpha); Cholan-24-oic acid, 3,7,12-trihydroxy-, (3alpha,5beta,7alpha,12alpha)-; 129874-08-4; 4-[(3R,7R,8R,9S,10S,12S,13R,14S,17R)-3,7,12-Trihydroxy-10,13-dimethyl-2,3,4,5,6,7,8,9,11,12,14,15,16,17-tetradecahydro-1H-cyclopenta[a]phenanthren-17-yl]pentanoic acid; kolbam; (3alpha,5beta,7alpha,12alpha)-3,7,12-trihydroxycholan-24-oic acid; (3alpha,5beta,7alpha,8x,12alpha)-3,7,12-trihydroxycholan-24-oic acid; SMR000112165; Colalin (VAN); Cholsaeure [German]; 5beta-Cholanic acid-3alpha,7alpha,12alpha-triol; Cholalate; OrphacolReg; cholic-acid; CCRIS 1626; (3alpha,5beta,7alpha,8xi,12alpha)-3,7,12-trihydroxycholan-24-oic acid; 5b-Cholate; 5b-Cholic acid; CholsA currencyure; Cholbam (TN); EINECS 201-337-8; Cholic acid (8CI); 5.beta.-Cholic acid; BRN 2822009; 361-09-1; Spectrum5_002005; 3alpha,7alpha,12alpha-Trihydroxycholanic acid; bmse000650; EC 201-337-8; 3-alpha,7-alpha,12-alpha-Trihydroxycholansaeure; BIDD:PXR0196; SCHEMBL27461; GTPL609; 3.alpha.,7.alpha.,12.alpha.-Trihydroxy-5.beta.-cholanic acid; 4-10-00-02072 (Beilstein Handbook Reference); MLS001066422; MLS002207051; 3a,7a,12a-Trihydroxycholanate; 3alpha,7alpha,12alpha-Trihydroxy-5beta-cholanoic acid; DTXSID6040660; BDBM21680; 3-alpha,7-alpha,12-alpha-Trihydroxycholansaeure [German]; HMS2268L18; 3a,7a,12a-Trihydroxy-b-cholanate; 3a,7a,12a-Trihydroxycholanic acid; HY-N0324; ZINC6858022; 3a,7a,12a-Trihydroxy-5b-cholanate; 5b-Cholanic acid-3a,7a,12a-triol; BBL029799; LMST04010001; s3742; STK801993; 3a,7a,12a-Trihydroxy-5b-cholanoate; 3a,7a,12a-Trihydroxy-beta-cholanate; AKOS005622502; 3a,7a,12a-Trihydroxy-b-cholanic acid; CCG-268746; CS-6608; DB02659; MCULE-7032345049; 3a,7a,12a-Trihydroxy-5A-cholanic acid; 3a,7a,12a-Trihydroxy-5b-cholanic acid; NCGC00142384-03; 3a,7a,12a-Trihydroxy-5b-cholanoic acid; 3a,7a,12a-Trihydroxy-beta-cholanic acid; 4-((1S,2S,7S,11S,16S,5R,9R,10R,14R,15R)-5,9,16-trihydroxy-2,15-dimethyltetracy clo[8.7.0.0<2,7>.0<11,15>]heptadec-14-yl)pentanoic acid; AS-69849; BP-30084; K446; 3?,7?,12?-Trihydroxy-5?-cholanic acid; 3a,7a,12a-Trihydroxy-5b-cholan-24-oate; Cholic acid, Vetec(TM) reagent grade, 98%; N1680; Cholic acid, from ox or sheep bile, >=98%; 3a,7a,12a-Trihydroxy-5b-cholan-24-oic acid; 7060-EP2289879A1; 7060-EP2289883A1; 7060-EP2315303A1; C-5900; C00695; D10699; 198976-EP2280282A1; A830252; Q287415; SR-01000765698; 3alpha,7alpha,12alpha-Trihydroxy-beta-cholanic acid; SR-01000765698-4; 3.alpha.,12.alpha.-Trihydroxy-5.beta.-cholanic acid; 3-.alpha.,7-.alpha.,12-.alpha.-Trihydroxycholansaeure; 3alpha, 7alpha, 12alpha-trihydroxy-5beta-cholanic acid; 3alpha, 7alpha, 12alpha-trihydroxy-5beta-cholanoic acid; 3-&alpha,7-&alpha,12-&alpha-trihydroxy-5-&beta-cholanate; Cholic acid, British Pharmacopoeia (BP) Reference Standard; Cholic acid, European Pharmacopoeia (EP) Reference Standard; UNII-JIY1ILR284 component BHQCQFFYRZLCQQ-OELDTZBJSA-N; 17b-[1-Methyl-3-carboxypropyl]etiocholane-3a,7a,12a-triol; 5.beta.-Cholan-24-oic acid,7.alpha.,12.alpha.-trihydroxy-; 5beta-Cholanic acid, 3alpha,7alpha,12alpha-trihydroxy- (7CI); 5beta-Cholanic acid-3alpha,7alpha,12alpha-triol 5beta-Cholic acid; Cholic acid, 500 mug/mL in methanol, certified reference material; Cholic acid, United States Pharmacopeia (USP) Reference Standard; 17beta-[1-Methyl-3-carboxypropyl]etiocholane-3alpha,7alpha,12alpha-triol; 3-.alpha.,7-.alpha.,12-.alpha.-Trihydroxy-5-.beta.-cholan-24-oic acid; 3alpha,7alpha,12alpha-Trihydroxy-5beta-cholan-24-oic Acid (Cholic Acid); 5.beta.-Cholan-24-oic acid, 3.alpha.,7.alpha.,12.alpha.-trihydroxy-; (3.alpha.,5.beta.,7.alpha.,12.alpha.)-3,7,12-Trihydroxycholan-24-oic acid sodium salt; (3alpha,5beta,7alpha,8alpha,12alpha,14beta,17alpha)-3,7,12-trihydroxycholan-24-oic acid; 17.beta.-(1-Methyl-3-carboxypropyl)etiocholane-3.alpha.,7.alpha.,12.alpha.-triol; 3,7,12-Trihydroxy-cholan-24-oic acid, (3.alpha.,5.beta.,7.alpha.,12.alpha.)-; Cholan-24-oic acid, 3,7,12-trihydroxy-, (3-alpha,5-beta,7-alpha,12-alpha)-; Cholan-24-oic acid, 3,7,12-trihydroxy-, (3-alpha,5-beta,7-alpha,12-alpha)- (9CI); Cholan-24-oic acid, 3,7,12-trihydroxy-, (3alpha,5beta,7alpha,12alpha)- (9CI); Cholan-24-oic acid,7,12-trihydroxy-, (3.alpha.,5.beta.,7.alpha.,12.alpha.)-; (4R)-4-((3R,7R,8R,9S,10S,12S,13R,14S,17R)-3,7,12-trihydroxy-10,13-dimethylhexadecahydro-1H-cyclopenta[a]phenanthren-17-yl)pentanoic acid; (4R)-4-[(1R,3aS,3bR,4R,5aS,7R,9aS,9bS,11S,11aR)-4,7,11-trihydroxy-9a,11a-dimethyl-hexadecahydro-1H-cyclopenta[a]phenanthren-1-yl]pentanoic acid; (4R)-4-[(1S,2S,5R,7S,9R,10R,11S,14R,15R,16S)-5,9,16-trihydroxy-2,15-dimethyltetracyclo[8.7.0.0^{2,7}.0^{11,15}]heptadecan-14-yl]pentanoic acid; (R)-4-((3R,5S,7R,8R,10S,12S,13R,14S,17R)-3,7,12-trihydroxy-10,13-dimethyl-hexadecahydro-1H-cyclopenta[a]phenanthren-17-yl)pentanoic acid; 10321-98-9

Activity data

No relevant experimental diagram

 Interaction ID 618
Target type Molecule
Target unique ID 221493
Activity 31 μM
Binding Conditions/Buffer

50 mM Tris-HCl, 300 mM NaCl, 30 mM KCl, 5 mM MgCl2, pH 7.6
Assay

N/A
PubMed ID 10978501
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_391 DNA ACCGTGGAGGATAGTTCGGTGGCTGTTCAGGGTCTCCTCCACGGT 59.57%
Apta_1256 DNA GATCGGGTGTGGGTGGCGTAAAGGGAGCATCGGACA 57.45%
Apta_981 DNA TATGGAGAGTCAATGAGTACAGTCTCGTCTCAATAACGGAGCCTCGTCCGTGCCCCCG 56.90%
Apta_47 DNA GACCTAGCAGTGGACATGTGGCAGGGTGAAGTGGCATCGTC 55.32%
Apta_262 DNA ACGGACTCGCAAAAGGTGGAACAGGAGTGGGCCCCGCGGC 55.32%
Apta_506 DNA AAGCGCGCGAGACTACGTTTGTAGGGATACCGATGTCG 55.32%
Apta_552 DNA CACCTGGGGGAGTATTGCGGAGGAAGGTTCCAGGTG 55.32%
Apta_1093 DNA AGGAGGGTAGGTAGTGCTTGGTAGGGAAACTCCGCCGATT 55.32%
Apta_600 DNA GTCTCTGTGTGCGCCAGAGAACACTGGGGCAGATATGGGCCAGCACAGAATGAGGCCC 55.17%
Apta_600 DNA GTCTCTGTGTGCGCCAGAGAACACTGGGGCAGATATGGGCCAGCACAGAATGAGGCCC 55.17%
Apta_684 DNA GGCGGACCAAGGGGACACCACAGATGAATGTACAGTACCATGTTACTGCGCCCGTAGGTG 55.00%
Apta_729 DNA AACACCGTGGAGGATAGTTCGGTGGCTGTTCAGGGTCTCCTCCCGGTG 54.17%
Apta_943 DNA GAAGGTGGAGCGGTTAGGATACTAGCGAATGAAGACACGTTAGCTGATCT 54.00%
Apta_1043 DNA TTCAAGGCGGCGAGATTTAGTGGTTGGGAGGCTGTACGCCCTACGTGAAC 54.00%
Apta_726 DNA TACCAGTGCGATGCTCAGGCCGATGTCAACTTTTTCTAACTCACTGGTTTTGCCTGACGCATTCGGTTGAC 53.52%
Apta_980 DNA AACGAGCACGCTTTGTGTACAGCCACTAAATAAGGTATGTAGTCAGCACCCTCGTAAC 53.45%
Apta_56 DNA GCAGCTAAGCAGGCGGCTCACAAAACCATTCGCATGCGGC 53.19%
Apta_222 DNA AGCGACTGACGATCTTGAGTAAACCGCTCATCCACGTAGT 53.19%
Apta_258 DNA CACTGCGGGGGTCTATACGTGAGGAAGAAGTGGGCAGGTC 53.19%
Apta_393 DNA AGGAGGATAGTTCGGTGGCTGTTCAGGGTCTCCTCCT 53.19%

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AptaDB is an online database we developed to integrate comprehensive information about aptamer.
The detail of this database is described here:

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