Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 97
Aptamer sequence: UCGCUAAUUAUAGGCGGAGUGCGACGUUAUAAAUA
Target unique ID: P00749
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_96 upanap-88 Protein UROK_HUMAN 85.4 nM HBS, 2 mM MgCl2, 0.1% BSA, and 0.025% Tween20 20962041
Structure information of aptamer
Aptamer Sequence: UCGCUAAUUAUAGGCGGAGUGCGACGUUAUAAAUA
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_96 Description upanap-88
Aptamer chemistry RNA Length 35 nt
GC content 40.0% Molecular weight 11,493.66 Da
Molarity of 1 μg/μl solution 87.00 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Targeted binding
Sequence UCGCUAAUUAUAGGCGGAGUGCGACGUUAUAAAUA
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 97
Target type Protein
Target unique ID P00749
Activity 85.4 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_85 RNA UGCGACUGUUAUAACCUAACAGCGACGUAAAGAUA 62.86%
Apta_87 RNA UACCGACUAGCAAAACCUGCUGGCGACGUUUAGAU 54.29%
Apta_716 RNA GGCGCUUCAUGCCGAAAGGCCCGUUGUAACGUC 54.29%
Apta_91 RNA GAUAACCUCGAUGCGACGUUCGGCCUCAAAAUCAA 51.43%
Apta_855 RNA UCACUGUUAUCCGAUAGCAGCGCGGGAUGA 51.43%
Apta_927 RNA UUACAAUGAGGUGGGACGCGGGUUGUGGUG 51.43%
Apta_98 RNA CGAUGCGGUCUCAUGCGUCGAGUGUGAGUUUACCUUCG 50.00%
Apta_402 RNA GCCUGUAAGGUGGUCGGUGUGGCGAGUGUGUUAGGAGAGAUUGC 50.00%
Apta_1140 RNA UAGUGUGAGAGCCGUGAGUGAAAGGCCGCGACAAAGAUCGGA 50.00%
Apta_1249 RNA AAUCGGCCCAAUUUUACCUUCGGACUUCAGUAUCUAGUGUGGCUUUAAAUCAUAGC 50.00%
Apta_424 RNA UGCUAGUAUAUCGCACGGAUUUAAUCGCCGUAGAAAAGCAUGUCAAAGCCG 49.02%
Apta_381 RNA AUUCUGUUGGCGAACUGUACGCAAGUACUGGAUGACAGCCUAUCUAU 48.94%
Apta_93 RNA CUCCGCUAUCUAACGUAUGAUAGAAUGGAUGACUA 48.57%
Apta_269 RNA AACGCUCAACGUCAGAAGGCAACGUAUAGGCAAGCACACUUCGACAUGAGGC 48.08%
Apta_703 RNA GGGCGGAUGAGACGCUUGGCGUGUGCUGUGGAGAGUCAUCCG 47.62%
Apta_426 RNA UGCCGCUAUAAUGCACGGAUUUAAUCGCCGUAGAAAAGCAUGUCAAAGCCG 47.06%
Apta_1142 RNA ACGAGUCACACGUUGAUGACUGGAUGGUAGUUAAAGAGGGUGGGGCAACAA 47.06%
Apta_51 RNA GCCUUAGUAACGUGCUUUGAUGUCGAUUCGACAGGAGGC 46.15%
Apta_1047 DNA TAGTCCCAAGGCACATAAGGGCCGGAGGTCTAGCGTCAGGGATACAGAGA 46.00%
Apta_237 RNA UUCAACGCUGUGAAGGGCUUAUACGAGCGGAUUACCC 45.95%

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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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