Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 95
Aptamer sequence: AUGACAGGAUGCAGAGCUCCACUGUCUAGUGUUUA
Target unique ID: P00749
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_94 upanap-68 Protein UROK_HUMAN 82 nM HBS, 2 mM MgCl2, 0.1% BSA, and 0.025% Tween20 20962041
Structure information of aptamer
Aptamer Sequence: AUGACAGGAUGCAGAGCUCCACUGUCUAGUGUUUA
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_94 Description upanap-68
Aptamer chemistry RNA Length 35 nt
GC content 45.7% Molecular weight 11,445.61 Da
Molarity of 1 μg/μl solution 87.37 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Targeted binding
Sequence AUGACAGGAUGCAGAGCUCCACUGUCUAGUGUUUA
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 95
Target type Protein
Target unique ID P00749
Activity 82 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_660 RNA UGGGAGGAGUGCUGCUCUCCAGGCACUCUUGUUGCUCGGA 57.50%
Apta_212 RNA AGGAAGGCUUUAGGUCUGAGAUCUCGGAAU 51.43%
Apta_379 RNA UACGACACGAUUGGGACGUGUCUAUGGGAC 51.43%
Apta_560 RNA GGAAGAGAUGGCGACUAAAACGACUUGUCGC 51.43%
Apta_241 RNA GCUUGACGGAGAUCAAGGGCGAGUCUCAUACCAAGUUGAUGGGG 50.00%
Apta_242 RNA GCUUCCAGGAAGAGAAGUGUCAUGUGAUCAGUCCUGGUGGGUGG 50.00%
Apta_293 RNA CGGCCACAGAAUGAAAAACCUCAUCGAUGUUGCAUAGUUG 50.00%
Apta_632 RNA GACGAGAAGGAGUGCUGGUUAUACUAGCGGUUAGGUCACUCGUC 50.00%
Apta_703 RNA GGGCGGAUGAGACGCUUGGCGUGUGCUGUGGAGAGUCAUCCG 50.00%
Apta_1166 RNA GAUGUAACUGAAUGAAAUGGUGAAGGACGGGUCCAGUAGGCUGC 50.00%
Apta_270 RNA CUGUCGAACAUGCUGAGGGUAACGUACUGGCAAGCUCACCUCAGCGUAGCUAa 49.06%
Apta_1122 RNA ACAACCCGGAACAACGUCUAACAGUGUACCAUAACCCGGCAUUCA 48.89%
Apta_243 RNA GCUUGAAGCUAGCAGUAAGACUAGCGCUACGGAUGGGUGUGCG 48.84%
Apta_1 RNA ACGAAGCUUGAUCCCGUUUGCCGGUCGAUCGCUUCGA 48.65%
Apta_87 RNA UACCGACUAGCAAAACCUGCUGGCGACGUUUAGAU 48.57%
Apta_91 RNA GAUAACCUCGAUGCGACGUUCGGCCUCAAAAUCAA 48.57%
Apta_230 RNA GGGAGGACGAUGCGGGCGUGAAUGGUGUUGUGAGG 48.57%
Apta_384 RNA AUGAUCAAUCGCCUCAAUUCGACAGGAGGCUCAC 48.57%
Apta_927 RNA UUACAAUGAGGUGGGACGCGGGUUGUGGUG 48.57%
Apta_244 RNA GCUUCCGGAGAGAAGGGUCAAAGUUGUGCGGGAGUGUGUUGUGG 47.73%

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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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