Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 91
Aptamer sequence: ACAACCUAAAUGCGACGUUGGGUCAAAAACGUGAA
Target unique ID: P00749
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_90 upanap-28 Protein UROK_HUMAN 10.1 nM HBS, 2 mM MgCl2, 0.1% BSA, and 0.025% Tween20 20962041
Structure information of aptamer
Aptamer Sequence: ACAACCUAAAUGCGACGUUGGGUCAAAAACGUGAA
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_90 Description upanap-28
Aptamer chemistry RNA Length 35 nt
GC content 42.9% Molecular weight 11,521.77 Da
Molarity of 1 μg/μl solution 86.79 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Targeted binding
Sequence ACAACCUAAAUGCGACGUUGGGUCAAAAACGUGAA
Applications RNA aptamers specifically targeting human uPA and blocking the interaction to its receptor at low nanomolar concentrations
Target information
Type Detail Type Detail
Uniprot ID P00749 Protein name Urokinase-type plasminogen activator (U-plasminogen activator) (uPA) (EC 3.4.21.73) [Cleaved into: Urokinase-type plasminogen activator long chain A; Urokinase-type plasminogen activator short chain A; Urokinase-type plasminogen activator chain B]
Gene name(s) PLAU Organism Urokinase-type plasminogen activator (U-plasminogen activator) (uPA) (EC 3.4.21.73) [Cleaved into: Urokinase-type plasminogen activator long chain A; Urokinase-type plasminogen activator short chain A; Urokinase-type plasminogen activator chain B]
Status reviewed in uniprot database Length 431
Mass 48,523 Activity regulation Inhibited by SERPINA5
Involvement in disease Quebec platelet disorder (QPD) Catalytic activity Reaction=Specific cleavage of Arg-|-Val bond in plasminogen to form plasmin
PDB ID(s)
1C5W;1C5X;1C5Y;1C5Z;1EJN;1F5K;1F5L;1F92;1FV9;1GI7;1GI8;1GI9;1GJ7;1GJ8;1GJ9;1GJA;1GJB;1GJC;1GJD;1KDU;1LMW;1O3P;1O5A;1O5B;1O5C;1OWD;1OWE;1OWH;1OWI;1OWJ;1OWK;1SC8;1SQA;1SQO;1SQT;1U6Q;1URK;1VJ9;1VJA;1W0Z;1W10;1W11;1W12;1W13;1W14;2FD6;2I9A;2I9B;2NWN;2O8T;2O8U;2O8W;2R2W;2VIN;2VIO;2VIP;2VIQ;2VIV;2VIW;2VNT;3BT1;3BT2;3IG6;3KGP;3KHV;3KID;3M61;3MHW;3MWI;3OX7;3OY5;3OY6;3PB1;3QN7;3U73;4DVA;4DW2;4FU7;4FU8;4FU9;4FUB;4FUC;4FUD;4FUE;4FUF;4FUG;4FUH;4FUI;4FUJ;4GLY;4H42;4JK5;4JK6;4K24;4MNV;4MNW;4MNX;4MNY;4OS1;4OS2;4OS4;4OS5;4OS6;4OS7;4X0W;4X1N;4X1P;4X1Q;4X1R;4X1S;4XSK;4ZHL;4ZHM;4ZKN;4ZKO;4ZKR;4ZKS;5HGG;5WXF;5WXO;5WXP;5WXQ;5WXR;5WXS;5WXT;5XG4;5YC6;5YC7;5Z1C;5ZA7;5ZA8;5ZA9;5ZAE;5ZAF;5ZAG;5ZAH;5ZAJ;5ZC5;6AG2;6AG3;6AG7;6AG9;6JYP;6JYQ;6L04;6L05;6NMB;6XVD;7DZD;
Function Specifically cleaves the zymogen plasminogen to form the active enzyme plasmin.
Activity data

No relevant experimental diagram

 Interaction ID 91
Target type Protein
Target unique ID P00749
Activity 10.1 nM
Binding Conditions/Buffer

HBS, 2 mM MgCl2, 0.1% BSA, and 0.025% Tween20
Assay

N/A
PubMed ID 20962041
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_89 RNA AAUAACCUUAAUGCGACGUUGGUUCGUCAACAUGG 71.43%
Apta_88 RNA AAUAACCUUAAUGCGACGUUGGUUUGUCAACAACG 68.57%
Apta_91 RNA GAUAACCUCGAUGCGACGUUCGGCCUCAAAAUCAA 68.57%
Apta_92 RNA ACAACUUAAUGCGACGUUGGUAAAGCAUAUCAAAC 68.57%
Apta_1 RNA ACGAAGCUUGAUCCCGUUUGCCGGUCGAUCGCUUCGA 54.05%
Apta_269 RNA AACGCUCAACGUCAGAAGGCAACGUAUAGGCAAGCACACUUCGACAUGAGGC 51.92%
Apta_379 RNA UACGACACGAUUGGGACGUGUCUAUGGGAC 51.43%
Apta_1122 RNA ACAACCCGGAACAACGUCUAACAGUGUACCAUAACCCGGCAUUCA 51.11%
Apta_633 RNA GGCAUCGGAAAGUGGGUUGAUGUAAGUAACAGGCGAUGCC 50.00%
Apta_1166 RNA GAUGUAACUGAAUGAAAUGGUGAAGGACGGGUCCAGUAGGCUGC 50.00%
Apta_1142 RNA ACGAGUCACACGUUGAUGACUGGAUGGUAGUUAAAGAGGGUGGGGCAACAA 49.02%
Apta_1121 RNA GACAGCGUGCCUAGAAGUCCAAGCUUAAAUAACCACGCUCGACAAGC 48.94%
Apta_859 RNA GGGAGUCUGAAGUCGGACUUGUUAUCAAUUCACUUCAGACU 48.78%
Apta_323 DNA GGCTATAGCACATGGGTAAAACGAC 48.57%
Apta_323 DNA GGCTATAGCACATGGGTAAAACGAC 48.57%
Apta_323 DNA GGCTATAGCACATGGGTAAAACGAC 48.57%
Apta_371 RNA GGCAGACCAUACGGGAGAGAAACUUGCC 48.57%
Apta_378 RNA UGCUCUUAGAAUGGGACUAAGACACGGGAC 48.57%
Apta_1141 RNA ACGAGUCUGGUCCUUCCUUUGACGACUAUUGUUUGGUAUCGAUCAACAACAA 48.08%
Apta_1140 RNA UAGUGUGAGAGCCGUGAGUGAAAGGCCGCGACAAAGAUCGGA 47.62%

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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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