Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 94
Aptamer sequence: CUCCGCUAUCUAACGUAUGAUAGAAUGGAUGACUA
Target unique ID: P00749
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_93 upanap-26 Protein UROK_HUMAN 8.0 nM HBS, 2 mM MgCl2, 0.1% BSA, and 0.025% Tween20 20962041
Structure information of aptamer
Aptamer Sequence: CUCCGCUAUCUAACGUAUGAUAGAAUGGAUGACUA
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_93 Description upanap-26
Aptamer chemistry RNA Length 35 nt
GC content 40.0% Molecular weight 11,413.61 Da
Molarity of 1 μg/μl solution 87.61 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Targeted binding
Sequence CUCCGCUAUCUAACGUAUGAUAGAAUGGAUGACUA
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 94
Target type Protein
Target unique ID P00749
Activity 8.0 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_377 RNA CUUCGGGAUUUGAGGGUAGAAUGGGACUA 65.71%
Apta_237 RNA UUCAACGCUGUGAAGGGCUUAUACGAGCGGAUUACCC 56.76%
Apta_381 RNA AUUCUGUUGGCGAACUGUACGCAAGUACUGGAUGACAGCCUAUCUAU 53.19%
Apta_271 RNA CUGUCGAGCAUGCUCAGGGUAACGUAUAGUCAAGACACCUCAAGUGUAACU 52.94%
Apta_303 RNA CCUCCGGCUCAUACCUUUUCGAAGACAAGCUUCGACAGGAGG 52.38%
Apta_85 RNA UGCGACUGUUAUAACCUAACAGCGACGUAAAGAUA 51.43%
Apta_95 RNA CCGCGACAGUCGUAAGUUUUGACUGACUGAACGUU 51.43%
Apta_849 RNA UCCCGAUUACUGUACAUACCUUAGCCCAUAGCUGGCUGC 51.28%
Apta_243 RNA GCUUGAAGCUAGCAGUAAGACUAGCGCUACGGAUGGGUGUGCG 51.16%
Apta_425 RNA UGCCGCCAUAUCACACGGAUUUAAUCGCCGUAGAAAAGCAUGUCAAAGCCG 50.98%
Apta_426 RNA UGCCGCUAUAAUGCACGGAUUUAAUCGCCGUAGAAAAGCAUGUCAAAGCCG 50.98%
Apta_136 RNA CGUGUCGUCCUGGUACGAUUUGGUAUAUAACCGUGGCUUUUCGACA 50.00%
Apta_242 RNA GCUUCCAGGAAGAGAAGUGUCAUGUGAUCAGUCCUGGUGGGUGG 50.00%
Apta_270 RNA CUGUCGAACAUGCUGAGGGUAACGUACUGGCAAGCUCACCUCAGCGUAGCUAa 49.06%
Apta_1142 RNA ACGAGUCACACGUUGAUGACUGGAUGGUAGUUAAAGAGGGUGGGGCAACAA 49.02%
Apta_1122 RNA ACAACCCGGAACAACGUCUAACAGUGUACCAUAACCCGGCAUUCA 48.89%
Apta_96 RNA UCGCUAAUUAUAGGCGGAGUGCGACGUUAUAAAUA 48.57%
Apta_378 RNA UGCUCUUAGAAUGGGACUAAGACACGGGAC 48.57%
Apta_855 RNA UCACUGUUAUCCGAUAGCAGCGCGGGAUGA 48.57%
Apta_925 RNA GCUCGGCCAGGUCGCGGGUGGAUGUGAGGG 48.57%

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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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