Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 600
Aptamer sequence: CCTAAGGGGGGACTCAGCATTTTGTGCGGGCGGCGCTAACACAATCAGATAGAGCGGGGTT
Target unique ID: 6857375
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_567 Chi No.52 (61) 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: CCTAAGGGGGGACTCAGCATTTTGTGCGGGCGGCGCTAACACAATCAGATAGAGCGGGGTT
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_567 Description Chi No.52 (61)
Aptamer chemistry DNA Length 61 nt
GC content 57.4% Molecular weight 18,975.14 Da
Molarity of 1 μg/μl solution 52.70 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Aptasensor
Sequence CCTAAGGGGGGACTCAGCATTTTGTGCGGGCGGCGCTAACACAATCAGATAGAGCGGGGTT
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 600
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_495 DNA GGGAATGGATCCACATCTACGTATTACTGCTGGTGACGAGGGCTAGACGACGTACCTTCACTGCAGACTTGACGAAGCTT 55.00%
Apta_923 DNA ATCCAGAGTGACGCAGCATCGACCTCTGTGCGAGCGGGTTGCATATATATTTTGCATGGACACGGTGGCTTAGT 54.05%
Apta_508 DNA GCGGGCGATCGGCGGGGGGTGCGTGCGCTCTGTGCCAGGGGGTGGGACAGATCATATGGGGGTGCT 53.03%
Apta_897 DNA ATACGGGAGCCAACACCACTCTTATTTCCGGAAGTGGTTCTTCAACAGAGGAATAGAGCAGGTGTGACGGAT 52.78%
Apta_901 DNA ATACGGGAGCCAACACCACAAGTTGACTTGGAGGAGGGTCTAACTAGTTCGAGGAGAGCAGGTGTGACGGAT 52.78%
Apta_1101 DNA CCGTAATACGACTCACTATAGGTATGTGACGCGCGTCAATCGCTGTCCTACCAAGCTTTGCAGAGAGGATCCTT 52.70%
Apta_920 DNA ATCCAGAGTGACGCAGCACGGCACTCACTCTTTGTTAAGTGGTCTGCTTCTTAACCTTCATCGACACGGTGGCTTA 52.63%
Apta_1119 DNA GGGAATGGATCCACATCTACGAATTCGGTTGTGAAGATTGGGAGCGTCGTGGCTACTTCACTGCAGACTTGACGAAGCTT 52.50%
Apta_1120 DNA GGGAATGGATCCACATCTACGAATTCGGAATGAGTGCCCTGCAAGCGAGGGCTAGCTTCACTGCAGACTTGACGAAGCTT 52.50%
Apta_756 DNA GGGGGACACGGAGGTGGTGGAAAGGCTAAGATTTGATGATGAGTAGTGTGGT 52.46%
Apta_991 DNA AGCAGTGAAGAGGCGAGAGATTTATGAGGGTAGCGTCCACATATGCCAGGATCGTGTTG 52.46%
Apta_1087 DNA CTTACGACTCAGGCATTTTGCCGGGTAACGAAGTTACTGTCGTAAG 52.46%
Apta_896 DNA ATACGGGAGCCAACACCATAAGTCTAAAAAACTGGGAGTAAACACAATGTGTATAGAGCAGGTGTGACGGAT 51.39%
Apta_406 DNA AAAGCCCACTGCATAGAGGCCGCTCAACATGCGAGCCGGT 50.82%
Apta_641 DNA TTCAAGACGATGCCTGGCGCGAGTTACACACTTGCATGGAGCTGG 50.82%
Apta_747 DNA TGGGGTTATTAATTTTGGGTGGGGGGGAAGATGTAGCATCCGACG 50.82%
Apta_982 DNA ATGACGGGGGTCTAGGCAAGTAATAACGGGGGCAAGCTTTTCTATCTCGTTCTAGGGTA 50.82%
Apta_1071 DNA TTGAAGTGACTCCGCACTGGGTGGGTGGGAGGGTCGTGCGGCTGGTCATAGCAGGGT 50.82%
Apta_1185 DNA CAGGGGGTTTTGGTGGGGGGGGCTGGGTTGTCTTGGGGGTGGGCT 50.82%
Apta_653 DNA CCTGCACCTCGTCCAGCATCCGATGGCGGTCCTGTTTTACGGTAGCTTATATGCAGGGGGGTG 50.79%

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. 43962
Copyright © 2019-2020 Laboratory of Molecular Modeling and Design, School of Pharmacy, East China University of Science and Technology. All rights reserved.