Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 437
Aptamer sequence: CAGGCAUGCCUAGCUAAGCAGCCCAUGGCUUAUGCGCGGAAUAUUGGCUUCCGUUC
Target unique ID: Q04609
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_431 | A10-3 | Protein | FOLH1_HUMAN | 20.5 nM | HEPES buffered saline (pH 7.4), 1 mM MgCl2, 1 mM CaCl2, 0.01% I-block (Tropix Inc. Bedford, MA), and 0.05% Tween 20 | 12124337 |
Structure information of aptamer
| Aptamer Sequence: | CAGGCAUGCCUAGCUAAGCAGCCCAUGGCUUAUGCGCGGAAUAUUGGCUUCCGUUC |
| 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_431 | Description | A10-3 |
| Aptamer chemistry | RNA | Length | 56 nt |
| GC content | 55.4% | Molecular weight | 17,906.61 Da |
| Molarity of 1 μg/μl solution | 55.85 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Targeted therapy |
| Sequence | CAGGCAUGCCUAGCUAAGCAGCCCAUGGCUUAUGCGCGGAAUAUUGGCUUCCGUUC | ||
| Applications | Be used clinically as NAALADase inhibitors or be modified to carry imaging agents and therapeutic agents directed to prostate cancer cells | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Uniprot ID | Q04609 | Protein name | Glutamate carboxypeptidase 2 (EC 3.4.17.21) (Cell growth-inhibiting gene 27 protein) (Folate hydrolase 1) (Folylpoly-gamma-glutamate carboxypeptidase) (FGCP) (Glutamate carboxypeptidase II) (GCPII) (Membrane glutamate carboxypeptidase) (mGCP) (N-acetylated-alpha-linked acidic dipeptidase I) (NAALADase I) (Prostate-specific membrane antigen) (PSM) (PSMA) (Pteroylpoly-gamma-glutamate carboxypeptidase) |
| Gene name(s) | FOLH1 FOLH NAALAD1 PSM PSMA GIG27 | Organism | Glutamate carboxypeptidase 2 (EC 3.4.17.21) (Cell growth-inhibiting gene 27 protein) (Folate hydrolase 1) (Folylpoly-gamma-glutamate carboxypeptidase) (FGCP) (Glutamate carboxypeptidase II) (GCPII) (Membrane glutamate carboxypeptidase) (mGCP) (N-acetylated-alpha-linked acidic dipeptidase I) (NAALADase I) (Prostate-specific membrane antigen) (PSM) (PSMA) (Pteroylpoly-gamma-glutamate carboxypeptidase) |
| Status | reviewed in uniprot database | Length | 750 |
| Mass | 84,331 | Activity regulation | The NAALADase activity is inhibited by beta-NAAG, quisqualic acid, 2-(phosphonomethyl) pentanedioic acid (PMPA) and EDTA |
| Involvement in disease | N/A | Catalytic activity | Reaction=Release of an unsubstituted, C-terminal glutamyl residue, typically from Ac-Asp-Glu or folylpoly-gamma-glutamates |
| PDB ID(s) | 1Z8L;2C6C;2C6G;2C6P;2CIJ;2JBJ;2JBK;2OOT;2OR4;2PVV;2PVW;2XEF;2XEG;2XEI;2XEJ;3BHX;3BI0;3BI1;3BXM;3D7D;3D7F;3D7G;3D7H;3IWW;3RBU;3SJE;3SJF;3SJG;3SJX;4JYW;4JZ0;4LQG;4MCP;4MCQ;4MCR;4MCS;4NGM;4NGN;4NGP;4NGQ;4NGR;4NGS;4NGT;4OC0;4OC1;4OC2;4OC3;4OC4;4OC5;4OME;4P44;4P45;4P4B;4P4D;4P4E;4P4F;4P4I;4P4J;4W9Y;4X3R;5D29;5ELY;5F09;5O5R;5O5T;5O5U;5OF0;6ETY;6EZ9;6F5L;6FE5;6H7Y;6H7Z;6HKJ;6HKZ;6RBC;6RTI;6S1X;6SGP;6SKH;7BFZ; |
 |
Function | Has both folate hydrolase and N-acetylated-alpha-linked-acidic dipeptidase (NAALADase) activity. |
Activity data
|
No relevant experimental diagram |
Interaction ID | 437 |
| Target type | Protein | |
| Target unique ID | Q04609 | |
| Activity | 20.5 nM | |
| Binding Conditions/Buffer | HEPES buffered saline (pH 7.4), 1 mM MgCl2, 1 mM CaCl2, 0.01% I-block (Tropix Inc. Bedford, MA), and 0.05% Tween 20 |
|
| Assay | N/A |
|
| PubMed ID | 12124337 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_256 | RNA | GGGCGCUAAGUCCUCGCUCAUGCGCGUCCCAUGGGGUAUAGAGGGGUCGAAGUGGACGCGCGACUCGGAUCCU | |
| Apta_305 | RNA | GGGAGGACGAUGCGGAUCGCCCUGAACCGGCCCAGCAGACUGCUGACGGCACGAUCCGCAUCGUCCUCCC | |
| Apta_170 | RNA | GGGAGACAAGACUAGACGCUCAAUGUGGGCCACGCCCGAUUUUACGCUUUUACCCGCACGCGAUUGGUUUGUUUCCC | |
| Apta_353 | RNA | GAAUUCCGCGUGUGCCAGCGAAAGUUGCGUAUGGGUCACAUCGCAGGCACAUGUCAUCUGGGCGGUCCGUUCGGGAUCC | |
| Apta_1 | RNA | ACGAAGCUUGAUCCCGUUUGCCGGUCGAUCGCUUCGA | |
| Apta_243 | RNA | GCUUGAAGCUAGCAGUAAGACUAGCGCUACGGAUGGGUGUGCG | |
| Apta_244 | RNA | GCUUCCGGAGAGAAGGGUCAAAGUUGUGCGGGAGUGUGUUGUGG | |
| Apta_632 | RNA | GACGAGAAGGAGUGCUGGUUAUACUAGCGGUUAGGUCACUCGUC | |
| Apta_703 | RNA | GGGCGGAUGAGACGCUUGGCGUGUGCUGUGGAGAGUCAUCCG | |
| Apta_52 | RNA | ACUGUCCUCCCUUCAGAGAGCGCGGGACCCUUAACUUGGGGCCCACGAACAGCUUCAGUUCCGUCUCGGCGU | |
| Apta_1057 | RNA | UCUGAGGGGUUGGGGCCGCAGUCUCGUCGCCAUGGCUAACGAGGCCGGAACUAGUUUUAGCCGAAAUGAUCGAUGC | |
| Apta_55 | RNA | GACAUCUGUAAGUAAGAUUCUAUCUGCAAAGCGGUUAGGAGGGCUCGGACUCUGAUUGCCUCCCCGCACC | |
| Apta_304 | RNA | CGGCCGAUAGAAAGACUACUUGAGCCCUUAAAUGAGGUUAUGUGCGGCCG | |
| Apta_365 | RNA | GGACCUAUGCAGUAGCCAGUGUGGACUGGGCUGCCCCCCC | |
| Apta_367 | RNA | CGAGCGUAGAAUGUCUUCCCACUAGACGUCGUUCGGCCCC | |
| Apta_575 | RNA | AGAGCUUGACGGUCCCGAGAGUCGAGCCCAAGCUGACACUGGACCUUUGCGGACCACGUGUUGAUCGUCG | |
| Apta_647 | RNA | GGAUCCCGACUGGCGAGAGCCAGGUAACGAAUGGAUCC | |
| Apta_816 | RNA | GGGUUCACUGCAGACUUGACGAAGCUUGAGAGAUGCCCCCUGAUGUGCAUUCUUGUUGUGUUGCGGCAAUGGAUCCACAUCUACGAAUUC | |
| Apta_849 | RNA | UCCCGAUUACUGUACAUACCUUAGCCCAUAGCUGGCUGC | |
| Apta_859 | RNA | GGGAGUCUGAAGUCGGACUUGUUAUCAAUUCACUUCAGACU |
DEV TOOL
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