Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 1171
Aptamer sequence: CGTACGGAATTCGCTAGCGGTGACGGACGTGGGGTGCACGAAGGGAGGGGATCCGAGCTCCACGTG
Target unique ID: P43490
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_1115 | G35 | Protein | NAMPT_HUMAN | 117.4 nM | Tris-HCl 20 mM, pH 7.4 | 22143382 |
Structure information of aptamer
| Aptamer Sequence: | CGTACGGAATTCGCTAGCGGTGACGGACGTGGGGTGCACGAAGGGAGGGGATCCGAGCTCCACGTG |
| 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_1115 | Description | G35 |
| Aptamer chemistry | DNA | Length | 66 nt |
| GC content | 65.2% | Molecular weight | 20,607.15 Da |
| Molarity of 1 μg/μl solution | 48.53 μM | Number of G-quadruplexes | 2 |
| G-Score | 18 | Function | Targeted binding |
| Sequence | CGTACGGAATTCGCTAGCGGTGACGGACGTGGGGTGCACGAAGGGAGGGGATCCGAGCTCCACGTG | ||
| 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 | 1171 |
| Target type | Protein | |
| Target unique ID | P43490 | |
| Activity | 117.4 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_1116 | DNA | CGTACGGAATTCGCTAGCCGGGGTGGGAACCAGTCTTGCGCGGGTGACGGATCCGAGCTCCACGTG | |
| Apta_1117 | DNA | CGTACGGAATTCGCTAGCGGACTGGAGTCTAGACCGGGTAGCTGTGGTGGATCCGAGCTCCACGTG | |
| Apta_708 | DNA | CGTACGGAATTCGCTAGCGGGCGGGGGTGCTGGGGGAATGGAGTGCTGCGTGCTGCGGGGATCCGAGCTCCACGTG | |
| Apta_1291 | DNA | CGTACGGAATTCGCTAGCCCCCCGGCAGGCCACGGCTTGGGTTGGTCCCACTGCGCGTGGATCCGAGCTCCACGTG | |
| Apta_105 | DNA | AGCAGCACAGAGGTCAGATGATGCTCTAGGCGAAAGACTTGGCGTAGAACGACGGGAGGCCCTATGCGTGCTACCGTGAA | |
| Apta_105 | DNA | AGCAGCACAGAGGTCAGATGATGCTCTAGGCGAAAGACTTGGCGTAGAACGACGGGAGGCCCTATGCGTGCTACCGTGAA | |
| Apta_236 | DNA | AGCAGCACAGAGGTCAGATGAGATGGTTGACCGGTTGATGTGATTAAGGAGACGTCGATTCCTATGCGTGCTACCGTGAA | |
| Apta_33 | DNA | GCGGTAAACTGCGTCCGAAGGGGCTGCAGTGACCCGAATGGGTCCGCCGCGAAGCG | |
| Apta_143 | DNA | GGTGCGGTTCGTGCGGTTGTAGTACTCGTGGCCGATAGAGGTAGTTTCG | |
| Apta_591 | DNA | CTCTCGGGACGACGGCTGGCACGTTTGGTTCAAGAATGTGGGTGTCGTCCC | |
| Apta_1035 | DNA | ATGCGGATCCCGCGCGGGTCTGAGGAGTGCGCGGTGCCAGTGAGTGCGCGAAGCTTGCGC | |
| Apta_109 | DNA | AGCAGCACAGAGGTCAGATGTGCGACCACCTGGATAGACGAGGGTAGTAAGGAGTGTGTTCCTATGCGTGCTACCGTGA | |
| Apta_109 | DNA | AGCAGCACAGAGGTCAGATGTGCGACCACCTGGATAGACGAGGGTAGTAAGGAGTGTGTTCCTATGCGTGCTACCGTGA | |
| Apta_490 | DNA | GGGAGACAAGAATAAACGCTCAAGGGCGTGGTGGGTGGGGTACTAATAATGTGCGTTTGTTCGACAGGAGGCTCACAACAGGC | |
| Apta_173 | DNA | AGCAGCACAGAGGTCAGATGGCAGGTTTCGACGTACAATGCTATGGAGGCTTTATGATCGCCTATGCGTGCTACCGTGAA | |
| Apta_832 | DNA | CCGGAGGTGGGTGAGGTCTGCGGCAGGCTGTGTGGGTGGACCGGAGGGGGGTGAGGTCTGCGGCAGGCTGTGTGGGTGGA | |
| Apta_148 | DNA | CCGTAGGTTCGGGGTCGGAGTGGTCCGGAAGGTGGCGTGG | |
| Apta_149 | DNA | CCGTAGGTTCGGGGTCGGAGTGGTCCGGAAGATGGCGTGG | |
| Apta_255 | DNA | TAGCGATACTGCGTGGGTTGGGGCGGGTAGGGCCAGCAGTCTCGT | |
| Apta_282 | DNA | ATCCATGGGGCGGAGATGAGGGGGAGGAGGGCGGGTACCCGGTTGAT |
DEV TOOL
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