Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 604
Aptamer sequence: ACCTGCGATAGGTAGTTTGTTTCTGTTGCCCTAGCGTCCGTCGTAACAAGTCA
Target unique ID: 6857375
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_571 Chi No. 35 (52) Molecule N-[(2R)-2,4,5-trihydroxy-6-(hydroxymethyl)oxan-3-yl]acetamide N/A 100 mM NaCl, 100 mM KCl, 5 mM MgCl2, 50 mM Tris-acetate (pH 8.0) 10743940
Structure information of aptamer
Aptamer Sequence: ACCTGCGATAGGTAGTTTGTTTCTGTTGCCCTAGCGTCCGTCGTAACAAGTCA
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_571 Description Chi No. 35 (52)
Aptamer chemistry DNA Length 53 nt
GC content 49.1% Molecular weight 16,280.43 Da
Molarity of 1 μg/μl solution 61.42 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Aptasensor
Sequence ACCTGCGATAGGTAGTTTGTTTCTGTTGCCCTAGCGTCCGTCGTAACAAGTCA
Applications Recognition of chitin
Target information
Type Detail Type Detail
PubChem ID 6857375 Molecular name N-[(2R)-2,4,5-trihydroxy-6-(hydroxymethyl)oxan-3-yl]acetamide
Molecular formula C8H15NO6 Molecular weight 221.21
IUPAC name N-[(2R)-2,4,5-trihydroxy-6-(hydroxymethyl)oxan-3-yl]acetamide InChIKey OVRNDRQMDRJTHS-WTZNIHQSSA-N
LogP -3.078 Topological polar surface area 119.25
Hydrogen bond acceptor 6 Hydrogen bond donor 5

Synonym(s):
Chitin, Practical Grade; N-[(2R)-2,4,5-trihydroxy-6-(hydroxymethyl)oxan-3-yl]acetamide; 1398-61-4; Chitin from shrimp shells; SCHEMBL8656145; Chitin from shrimp shells, practical grade, powder; Chitin from shrimp shells, Vetec(TM) reagent grade; Chitin from shrimp shells, practical grade, coarse flakes; Chitin from shrimp shells, BioReagent, suitable for analysis of chitinase, purified powder

Activity data

No relevant experimental diagram

 Interaction ID 604
Target type Molecule
Target unique ID 6857375
Activity N/A
Binding Conditions/Buffer

100 mM NaCl, 100 mM KCl, 5 mM MgCl2, 50 mM Tris-acetate (pH 8.0)
Assay

N/A
PubMed ID 10743940
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_181 DNA CCGTGTAAGGTTTCAGTGGCTTATCCGAAGTAACCCGAGA 56.60%
Apta_391 DNA ACCGTGGAGGATAGTTCGGTGGCTGTTCAGGGTCTCCTCCACGGT 56.60%
Apta_1191 DNA TAATACTACCAACTTCTTTGCCTGGCGTAAGTAACAGTCA 56.60%
Apta_266 DNA TGGATGGTAGCTCGGTCGGGGTGGGTGGGTTGGCAAGTCT 54.72%
Apta_820 DNA TCCCACGATCTCATTAGTCTGTGGATAAGCGTGGGACGTCTATGA 54.72%
Apta_928 DNA GATTGAGTAGATAGTGGTTCTGTACGTAGTGAAAGAGTGG 54.72%
Apta_965 DNA CACGGCATGTGTGGCCGGATGCCTATATCGGTCGACTGCA 54.72%
Apta_1066 DNA CCTACGTTGGAGTGGGGTTTGCGCAGGCCGTTCTTTCCAA 54.72%
Apta_553 DNA TGTACCGTCTGAGCGATTCGTACGAACGGCTTTGTACTGTTTGCACTGGCGGATTTAGCCAGTCAGTGTTAAGGAGTGC 53.16%
Apta_57 DNA GCGGGTCGGTTGCTCGCTTCGCCCGATCGGTCTAAGGGTG 52.83%
Apta_283 DNA ACTCCGTCATCTTTAGTGGCCCCAATGTCGTTATCACCGA 52.83%
Apta_477 DNA CGCGGAAGAATTGCTATGTGTGCCCCGGTTGGTCTGTATA 52.83%
Apta_729 DNA AACACCGTGGAGGATAGTTCGGTGGCTGTTCAGGGTCTCCTCCCGGTG 52.83%
Apta_846 DNA GTGCAGACAGCTAGTAGTGGTGACTTTCTGTCCAAATCAAGATAA 52.83%
Apta_912 DNA TAGTATGGACTTGTCTTCTTGTCAGAGTCTGGCAGCACGT 52.83%
Apta_947 DNA CATGGCTAGGTGTTTATTAATCCTGTAGGATTTGCGGAAT 52.83%
Apta_959 DNA GGACCGCTAGGTTCGTGGCTGAGATCACGCGATATCAGTA 52.83%
Apta_987 DNA GTACTGTCAATTGGAAGTGGTGTTACGTTGTGTAGTCAAATCAGTGC 52.83%
Apta_1176 DNA AGTATGATATCGGTGTTTATGGTGTCTGTCTTCATACT 52.83%
Apta_349 DNA ATACCAGCTTATTCAATTAGACGAGTTTTATTCATTTTCCATGTCGTAGCTTACCGTGAGATAGTAAGTGCAATCT 52.63%

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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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