Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 602
Aptamer sequence: TGCGCATGTGAAAGGTTGCCTAACTGGACAGGGTTTAGGAGCGACTAGACACAG
Target unique ID: 6857375
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_569 Chi No. 23 (54) 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: TGCGCATGTGAAAGGTTGCCTAACTGGACAGGGTTTAGGAGCGACTAGACACAG
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_569 Description Chi No. 23 (54)
Aptamer chemistry DNA Length 54 nt
GC content 51.9% Molecular weight 16,799.79 Da
Molarity of 1 μg/μl solution 59.52 μM Number of G-quadruplexes 2
G-Score 17 Function Aptasensor
Sequence TGCGCATGTGAAAGGTTGCCTAACTGGACAGGGTTTAGGAGCGACTAGACACAG
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 602
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_858 DNA GGCTTCAGGTTGGTCTGGTTGGGTTTGGCTCCTGTGTACG 55.56%
Apta_1229 DNA CACGGGCAGAGGGATAGGTTGTTGACGGGGCTGGTGGGTGGGTGCGCTCGCGCTATCGTGG 54.10%
Apta_813 DNA TAGAGATATGACAGCGGGGAAGGTTAAGAGGCGCTAGGAG 53.70%
Apta_912 DNA TAGTATGGACTTGTCTTCTTGTCAGAGTCTGGCAGCACGT 53.70%
Apta_1032 DNA TGGCAAGAGGGTGTGCTTAAGGTGGACACGGTGGCTTAG 53.70%
Apta_1091 DNA CCATGGTAGGTATTGCTTGGTAGGGATAGTGGGCTTGATG 53.70%
Apta_1092 DNA CCCATGGTAGGTATTGCTTGGTAGGGATAGTGGGCTTGATG 53.70%
Apta_1108 DNA GTGCTTAGGTGCAGAACGCACACACGCTCGGTATGACGTGTTCGCTACGGTATAATTGCAGGCGCGAGCACAACAG 52.63%
Apta_979 DNA ATGAGTAGTGCGGAGGGATGTGAATACTGACGCGGTCATAGTCGCTGTTGTACCATTGA 52.54%
Apta_618 DNA GCGGCAAATCAGCATACGAGTGTACAGGGACGGGACGGGTGGGTAAAAGGTGTCGCCTCAG 52.46%
Apta_78 DNA ATCTCGACTAGTCATAGGGGGCGCGAACATACGCGGTTGGTGTGGTTGGCTGACAATACTCGT 52.38%
Apta_109 DNA AGCAGCACAGAGGTCAGATGTGCGACCACCTGGATAGACGAGGGTAGTAAGGAGTGTGTTCCTATGCGTGCTACCGTGA 51.90%
Apta_109 DNA AGCAGCACAGAGGTCAGATGTGCGACCACCTGGATAGACGAGGGTAGTAAGGAGTGTGTTCCTATGCGTGCTACCGTGA 51.90%
Apta_144 DNA GGTGCGGTTCGTGCGGTTGTAGTACTCGTGGCCGATAGAGGTAG 51.85%
Apta_163 DNA GCGCATGACCATTGATGTCTGCACCATCAGAGGCAGAG 51.85%
Apta_179 DNA TCGGTTGAGTGAGATTAGTCAAATGTTTAGAAGACAACCTC 51.85%
Apta_375 DNA TTGGGGAGGGGCACTGGGCAGTGTAATTTACGAAAGCGAG 51.85%
Apta_485 DNA TGTCGTTGGGGGGGTAGGGAAGGGTGAAACGACAAGCCAGAAGTT 51.85%
Apta_644 DNA TCAATCTAACCATGCATGCAGTTTAGGCAGGATTCGTTATCGCAA 51.85%
Apta_779 DNA TACGGGCTGGATCCACTGTTACGGCGTGTATCCGCTATCAA 51.85%

ABOUT

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

HELP CENTER

>Contact us
>LMMD Group
>School of Pharmacy

DEV TOOL
Page last updated at 2022-05-25 10:01:57 (Asia/Shanghai) | You are visitor No. 43972
Copyright © 2019-2020 Laboratory of Molecular Modeling and Design, School of Pharmacy, East China University of Science and Technology. All rights reserved.