Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 1172
Aptamer sequence: CGTACGGAATTCGCTAGCCGGGGTGGGAACCAGTCTTGCGCGGGTGACGGATCCGAGCTCCACGTG
Target unique ID: P43490
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_1116 G40 Protein NAMPT_HUMAN 114.4 nM Tris-HCl 20 mM, pH 7.4 22143382
Structure information of aptamer
Aptamer Sequence: CGTACGGAATTCGCTAGCCGGGGTGGGAACCAGTCTTGCGCGGGTGACGGATCCGAGCTCCACGTG
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_1116 Description G40
Aptamer chemistry DNA Length 66 nt
GC content 65.2% Molecular weight 20,469.05 Da
Molarity of 1 μg/μl solution 48.85 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Targeted binding
Sequence CGTACGGAATTCGCTAGCCGGGGTGGGAACCAGTCTTGCGCGGGTGACGGATCCGAGCTCCACGTG
Applications Binding to nampt
Target information
Type Detail Type Detail
Uniprot ID P43490 Protein name Nicotinamide phosphoribosyltransferase (NAmPRTase) (Nampt) (EC 2.4.2.12) (Pre-B-cell colony-enhancing factor 1) (Pre-B cell-enhancing factor) (Visfatin)
Gene name(s) NAMPT PBEF PBEF1 Organism Nicotinamide phosphoribosyltransferase (NAmPRTase) (Nampt) (EC 2.4.2.12) (Pre-B-cell colony-enhancing factor 1) (Pre-B cell-enhancing factor) (Visfatin)
Status reviewed in uniprot database Length 491
Mass 55,521 Activity regulation Inhibited by FK866. FK866 competes for the same binding site as nicotinamide, but due to its very low dissociation rate, it is essentially an irreversible inhibitor
Involvement in disease N/A Catalytic activity Reaction=beta-nicotinamide D-ribonucleotide + diphosphate = 5-phospho-alpha-D-ribose 1-diphosphate + H(+) + nicotinamide
PDB ID(s)
2E5B;2E5C;2E5D;2GVG;2GVJ;3DGR;3DHD;3DHF;3DKJ;3DKL;4JNM;4JR5;4KFN;4KFO;4KFP;4L4L;4L4M;4LTS;4LV9;4LVA;4LVB;4LVD;4LVF;4LVG;4LWW;4M6P;4M6Q;4N9B;4N9C;4N9D;4N9E;4O0Z;4O10;4O12;4O13;4O14;4O15;4O16;4O17;4O18;4O19;4O1A;4O1B;4O1C;4O1D;4O28;4WQ6;5KIT;5LX3;5LX5;5NSD;5U2M;5U2N;5UPE;5UPF;5WI0;5WI1;6ATB;6AZJ;6B75;6B76;6E68;6PEB;6TA0;6TA2;6TAC;
Function Catalyzes the condensation of nicotinamide with 5-phosphoribosyl-1-pyrophosphate to yield nicotinamide mononucleotide, an intermediate in the biosynthesis of NAD.
Activity data
Interaction ID 1172
Target type Protein
Target unique ID P43490
Activity 114.4 nM
Binding Conditions/Buffer

Tris-HCl 20 mM, pH 7.4
Assay

The dose dependent saturation plots for Nampt binding to aptamer sequences G35, G40 and G55 obtained by SPR assay
PubMed ID 22143382
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_1115 DNA CGTACGGAATTCGCTAGCGGTGACGGACGTGGGGTGCACGAAGGGAGGGGATCCGAGCTCCACGTG 75.76%
Apta_1117 DNA CGTACGGAATTCGCTAGCGGACTGGAGTCTAGACCGGGTAGCTGTGGTGGATCCGAGCTCCACGTG 74.24%
Apta_708 DNA CGTACGGAATTCGCTAGCGGGCGGGGGTGCTGGGGGAATGGAGTGCTGCGTGCTGCGGGGATCCGAGCTCCACGTG 73.68%
Apta_1291 DNA CGTACGGAATTCGCTAGCCCCCCGGCAGGCCACGGCTTGGGTTGGTCCCACTGCGCGTGGATCCGAGCTCCACGTG 69.74%
Apta_310 DNA GCGCCAGCTTTGCTGATGGGTGGCCACCCTTGCCCTGGGTTTGAATTTCGATCCTATCG 54.55%
Apta_486 DNA GGGAGGGATTGGGTGGGCACAGCTCGCTGATAGGTCCTGGTCTCAC 54.55%
Apta_1080 DNA CTTACGACCCAGGGGGGTGGACAGGCGGGGGTTAGGGGGGTCGTAAG 54.55%
Apta_490 DNA GGGAGACAAGAATAAACGCTCAAGGGCGTGGTGGGTGGGGTACTAATAATGTGCGTTTGTTCGACAGGAGGCTCACAACAGGC 54.22%
Apta_99 DNA AGCAGCACAGAGGTCAGATGTCGGGCGGTTCGGGACCTTGCTGCGACATATGCGTATTATCCTATGCGTGCTACCGTGAA 53.75%
Apta_105 DNA AGCAGCACAGAGGTCAGATGATGCTCTAGGCGAAAGACTTGGCGTAGAACGACGGGAGGCCCTATGCGTGCTACCGTGAA 53.75%
Apta_99 DNA AGCAGCACAGAGGTCAGATGTCGGGCGGTTCGGGACCTTGCTGCGACATATGCGTATTATCCTATGCGTGCTACCGTGAA 53.75%
Apta_105 DNA AGCAGCACAGAGGTCAGATGATGCTCTAGGCGAAAGACTTGGCGTAGAACGACGGGAGGCCCTATGCGTGCTACCGTGAA 53.75%
Apta_177 DNA AGCAGCACAGAGGTCAGATGCCATAGGTGCCTGAATTGTCCCAAACATTCGCATGATCGACCTATGCGTGCTACCGTGAA 53.75%
Apta_278 DNA AGCAGCACAGAGGTCAGATGAGGCCTGGTGATCGTGCCCAGGCCATATGAGCAAGGAACCCCTATGCGTGCTACCGTGAA 53.75%
Apta_79 DNA ATCTCGAGTCATAGGGGGCGCGAACATACGCGGTTGGTGTGGTTGGCTGACTCGT 53.03%
Apta_143 DNA GGTGCGGTTCGTGCGGTTGTAGTACTCGTGGCCGATAGAGGTAGTTTCG 53.03%
Apta_405 DNA TCTAGCCCACTGCATAGAGGTAGCCACGTATGTGGGTGTTACCCATTCGTAGCTACCGGTG 53.03%
Apta_509 DNA TCGCGCGAGTCGTCTGGGGGACTAGAGGACTTGTGCGGCCCCGCATCGTCCTCCC 53.03%
Apta_910 DNA TCACGTGCATGATAGACGGCGAAGCCGTCGAGTTGCTGTGTGCCGATGCACGTGA 53.03%
Apta_1035 DNA ATGCGGATCCCGCGCGGGTCTGAGGAGTGCGCGGTGCCAGTGAGTGCGCGAAGCTTGCGC 53.03%

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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