Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 98
Aptamer sequence: UUGUCGUCUUCUCCAGUUAGUCAACGAACUUGUGU
Target unique ID: P00749
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_97 upanap-27 Protein UROK_HUMAN 11.4 nM HBS, 2 mM MgCl2, 0.1% BSA, and 0.025% Tween20 20962041
Structure information of aptamer
Aptamer Sequence: UUGUCGUCUUCUCCAGUUAGUCAACGAACUUGUGU
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_97 Description upanap-27
Aptamer chemistry RNA Length 35 nt
GC content 42.9% Molecular weight 11,297.43 Da
Molarity of 1 μg/μl solution 88.52 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Targeted binding
Sequence UUGUCGUCUUCUCCAGUUAGUCAACGAACUUGUGU
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 98
Target type Protein
Target unique ID P00749
Activity 11.4 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_271 RNA CUGUCGAGCAUGCUCAGGGUAACGUAUAGUCAAGACACCUCAAGUGUAACU 54.90%
Apta_855 RNA UCACUGUUAUCCGAUAGCAGCGCGGGAUGA 54.29%
Apta_136 RNA CGUGUCGUCCUGGUACGAUUUGGUAUAUAACCGUGGCUUUUCGACA 52.17%
Apta_381 RNA AUUCUGUUGGCGAACUGUACGCAAGUACUGGAUGACAGCCUAUCUAU 51.06%
Apta_241 RNA GCUUGACGGAGAUCAAGGGCGAGUCUCAUACCAAGUUGAUGGGG 50.00%
Apta_859 RNA GGGAGUCUGAAGUCGGACUUGUUAUCAAUUCACUUCAGACU 48.78%
Apta_849 RNA UCCCGAUUACUGUACAUACCUUAGCCCAUAGCUGGCUGC 48.72%
Apta_1 RNA ACGAAGCUUGAUCCCGUUUGCCGGUCGAUCGCUUCGA 48.65%
Apta_95 RNA CCGCGACAGUCGUAAGUUUUGACUGACUGAACGUU 48.57%
Apta_560 RNA GGAAGAGAUGGCGACUAAAACGACUUGUCGC 48.57%
Apta_374 RNA GUCCCGUGCGCAAAAGUUCUUAGCGCUAGCAGUCCUAGUUGC 47.62%
Apta_660 RNA UGGGAGGAGUGCUGCUCUCCAGGCACUCUUGUUGCUCGGA 47.50%
Apta_98 RNA CGAUGCGGUCUCAUGCGUCGAGUGUGAGUUUACCUUCG 47.37%
Apta_647 RNA GGAUCCCGACUGGCGAGAGCCAGGUAACGAAUGGAUCC 47.37%
Apta_647 RNA GGAUCCCGACUGGCGAGAGCCAGGUAACGAAUGGAUCC 47.37%
Apta_313 RNA UGCCCUGCCCUCACCCGUUAGCCUGAGCGCCCCGCA 47.22%
Apta_270 RNA CUGUCGAACAUGCUGAGGGUAACGUACUGGCAAGCUCACCUCAGCGUAGCUAa 47.17%
Apta_131 RNA GGGAGGACGAUGCGGUCCUGUCGUCUGUUCGUCCCCAGACGACUCGCCCGA 47.06%
Apta_132 RNA GGGAGGACGAUGCGGCGUUUCCUCUGGUUCGUCCCCAGACGACUCGCCCGA 47.06%
Apta_424 RNA UGCUAGUAUAUCGCACGGAUUUAAUCGCCGUAGAAAAGCAUGUCAAAGCCG 47.06%

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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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