Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 1135
Aptamer sequence: CTTACGACTGTGGTCGGGTGGTGGGCCTCTAGAGGGGTGTCGTAAG
Target unique ID: 57501498
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_1081 XA1 Molecule (1-(5-Fluoropentyl)-1H-indol-3-yl)(2,2,3,3-tetramethylcyclopropyl)methanone 310 nM 20 mM Tris-HCl, 0.5 mM MgCl2, 20 mM NaCl, pH 7.4 33528997
Structure information of aptamer
Aptamer Sequence: CTTACGACTGTGGTCGGGTGGTGGGCCTCTAGAGGGGTGTCGTAAG
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_1081 Description XA1
Aptamer chemistry DNA Length 46 nt
GC content 60.9% Molecular weight 14,365.17 Da
Molarity of 1 μg/μl solution 69.61 μM Number of G-quadruplexes 2
G-Score 21 Function Targeted binding
Sequence CTTACGACTGTGGTCGGGTGGTGGGCCTCTAGAGGGGTGTCGTAAG
Applications Binding to cannabinoids
Target information
Type Detail Type Detail
PubChem ID 57501498 Molecular name (1-(5-Fluoropentyl)-1H-indol-3-yl)(2,2,3,3-tetramethylcyclopropyl)methanone
Molecular formula C21H28FNO Molecular weight 329.5
IUPAC name [1-(5-fluoropentyl)indol-3-yl]-(2,2,3,3-tetramethylcyclopropyl)methanone InChIKey PXLDPUUMIHVLEC-UHFFFAOYSA-N
LogP 5.646 Topological polar surface area 22
Hydrogen bond acceptor 2 Hydrogen bond donor 0

Synonym(s):
1364933-54-9; XLR-11; (1-(5-Fluoropentyl)-1H-indol-3-yl)(2,2,3,3-tetramethylcyclopropyl)methanone; XLR11; UNII-L2M8B977ZE; L2M8B977ZE; (1-(5-Fluoropentyl)-1H-indol-3-yl)-(2,2,3,3-tetramethylcyclopropyl)methanone; (1-(5-fluoropentyl)indol-3-yl)-(2,2,3,3-tetramethylcyclopropyl)methanone; [1-(5-fluoropentyl)-1H-indol-3-yl](2,2,3,3-tetramethylcyclopropyl)methanone; 5'-Fluoro-UR-144; XLR 11; [1-(5-fluoropentyl)indol-3-yl]-(2,2,3,3-tetramethylcyclopropyl)methanone; 5-F-UR-144; 5-FLUORO UR-144; DEA No. 7011; SCHEMBL16085972; HSDB 8372; DTXSID00159825; ZINC91297350; 1-(5-Fluoropentyl)-1H-indol-3-yl)(2,2,3,3-tetramethylcyclopropyl)methanone; AKOS016012346; Q8042267; Methanone, [1-(5-fluoropentyl)-1H-indol-3-yl](2,2,3,3-tetramethylcyclopropyl)-; XLR-11 solution, 100 mug/mL in methanol, ampule of 1 mL, certified reference material

Activity data
Interaction ID 1135
Target type Molecule
Target unique ID 57501498
Activity 310 nM
Binding Conditions/Buffer

20 mM Tris-HCl, 0.5 mM MgCl2, 20 mM NaCl, pH 7.4
Assay

Characterization of target-binding affinity of XA1 using ITC.
PubMed ID 33528997
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_1080 DNA CTTACGACCCAGGGGGGTGGACAGGCGGGGGTTAGGGGGGTCGTAAG 65.96%
Apta_478 DNA CTTCACTTTCGTGGACGGTGGCGTCGGGGCGGTTTGTATG 65.22%
Apta_1087 DNA CTTACGACTCAGGCATTTTGCCGGGTAACGAAGTTACTGTCGTAAG 60.87%
Apta_649 DNA GCACACCGATGGCGGTCCTGTTTAGGGGGTGTGCGTG 58.70%
Apta_964 DNA CACGAGAGGGGTGAGGTGTCGTATTAGAGGGAAGCTCCAA 58.70%
Apta_654 DNA GCACACCGATGGCGGTCCTGTTTTACGGTAGCTTATATGCAGGGGGTGTGCGTG 57.41%
Apta_591 DNA CTCTCGGGACGACGGCTGGCACGTTTGGTTCAAGAATGTGGGTGTCGTCCC 56.86%
Apta_464 DNA GTCAGATTCCACTATAGTAGGTTGGGTAGGGTGGTCGCAGTGGATGATATGTCGTAGGGG 56.67%
Apta_148 DNA CCGTAGGTTCGGGGTCGGAGTGGTCCGGAAGGTGGCGTGG 56.52%
Apta_488 DNA CGACCAGGGTGGGAGGGGGACGGGCTGGCGGCGCGCGGTAATG 56.52%
Apta_681 DNA CCTGACGATCGGGTGTGGGTTGGCTTGAGG 56.52%
Apta_850 DNA CACCAGTGTGTTGAGGTTTGAGCACACTGATAGAGTGTCA 56.52%
Apta_915 DNA ACTTCGGCTAGTTAGGGGGTAGTTTAGATCGTCTCTACAT 56.52%
Apta_1273 DNA TCCCTCCTGTTGGTTTGGGATGGTGGCGACTATCTGATTGTTTGACTCCCCGTAGGGG 55.17%
Apta_918 DNA TTTACTTATTCAATTCCCGTGGGAAGGCTATAGAGGGGCCAGTCTATGAATAAGTTT 54.39%
Apta_1071 DNA TTGAAGTGACTCCGCACTGGGTGGGTGGGAGGGTCGTGCGGCTGGTCATAGCAGGGT 54.39%
Apta_41 DNA CGGTCGCTCCGTGTGGCTTGGGTTGGGTGTGGCAGTGAC 54.35%
Apta_65 DNA CTACCGTGGTAGGGAAGGTTGGAGTGTAG 54.35%
Apta_124 DNA GGTGGTGGGGGGGGTTGGTAGGGTGTCTTC 54.35%
Apta_149 DNA CCGTAGGTTCGGGGTCGGAGTGGTCCGGAAGATGGCGTGG 54.35%

ABOUT

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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