Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 77
Aptamer sequence: GGTGTGGGCGACATGGGGGTTGGTGGTGTAGGAGCGCCAT
Target unique ID: P00734
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_77 Tb-L8 Protein THRB_HUMAN 33 nM 50 mM HEPES, 100 mM NaCl, 1 mM MgCl2, 5 mM KCl, 1 mM,CaCl2, pH 7.4 31580650
Structure information of aptamer
Aptamer Sequence: GGTGTGGGCGACATGGGGGTTGGTGGTGTAGGAGCGCCAT
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_77 Description Tb-L8
Aptamer chemistry DNA Length 40 nt
GC content 65.0% Molecular weight 12,840.98 Da
Molarity of 1 μg/μl solution 77.88 μM Number of G-quadruplexes 2
G-Score 20 Function Aptasensor
Sequence GGTGTGGGCGACATGGGGGTTGGTGGTGTAGGAGCGCCAT
Applications Application of the selected SSA in fluorescent detection of HSA in urine with diagnostic required sensitivity and dynamic range
Target information
Type Detail Type Detail
Uniprot ID P00734 Protein name Prothrombin (EC 3.4.21.5) (Coagulation factor II) [Cleaved into: Activation peptide fragment 1; Activation peptide fragment 2; Thrombin light chain; Thrombin heavy chain]
Gene name(s) F2 Organism Prothrombin (EC 3.4.21.5) (Coagulation factor II) [Cleaved into: Activation peptide fragment 1; Activation peptide fragment 2; Thrombin light chain; Thrombin heavy chain]
Status reviewed in uniprot database Length 622
Mass 70,037 Activity regulation Inhibited by SERPINA5
Involvement in disease Factor II deficiency (FA2D) Catalytic activity Reaction=Selective cleavage of Arg-|-Gly bonds in fibrinogen to form fibrin and release fibrinopeptides A and B
PDB ID(s)
1A2C;1A3B;1A3E;1A46;1A4W;1A5G;1A61;1ABI;1ABJ;1AD8;1AE8;1AFE;1AHT;1AI8;1AIX;1AWF;1AWH;1AY6;1B5G;1B7X;1BA8;1BB0;1BCU;1BHX;1BMM;1BMN;1BTH;1C1U;1C1V;1C1W;1C4U;1C4V;1C4Y;1C5L;1C5N;1C5O;1CA8;1D3D;1D3P;1D3Q;1D3T;1D4P;1D6W;1D9I;1DE7;1DIT;1DM4;1DOJ;1DWB;1DWC;1DWD;1DWE;1DX5;1E0F;1EB1;1EOJ;1EOL;1FPC;1FPH;1G30;1G32;1G37;1GHV;1GHW;1GHX;1GHY;1GJ4;1GJ5;1H8D;1H8I;1HAG;1HAH;1HAI;1HAO;1HAP;1HBT;1HDT;1HGT;1HLT;1HUT;1HXE;1HXF;1IHS;1IHT;1JMO;1JOU;1JWT;1K21;1K22;1KTS;1KTT;1LHC;1LHD;1LHE;1LHF;1LHG;1MH0;1MU6;1MU8;1MUE;1NM6;1NO9;1NRN;1NRO;1NRP;1NRQ;1NRR;1NRS;1NT1;1NU7;1NU9;1NY2;1NZQ;1O0D;1O2G;1O5G;1OOK;1OYT;1P8V;1PPB;1QBV;1QHR;1QJ1;1QJ6;1QJ7;1QUR;1RD3;1RIW;1SB1;1SFQ;1SG8;1SGI;1SHH;1SL3;1SR5;1T4U;1T4V;1TA2;1TA6;1TB6;1TBZ;1THP;1THR;1THS;1TMB;1TMT;1TMU;1TOM;1TQ0;1TQ7;1TWX;1UMA;1UVS;1VR1;1VZQ;1W7G;1WAY;1WBG;1XM1;1XMN;1YPE;1YPG;1YPJ;1YPK;1YPL;1YPM;1Z71;1Z8I;1Z8J;1ZGI;1ZGV;1ZRB;2A0Q;2A2X;2A45;2AFQ;2ANK;2ANM;2B5T;2BDY;2BVR;2BVS;2BVX;2BXT;2BXU;2C8W;2C8X;2C8Y;2C8Z;2C90;2C93;2CF8;2CF9;2CN0;2FEQ;2FES;2GDE;2GP9;2H9T;2HGT;2HNT;2HPP;2HPQ;2HWL;2JH0;2JH5;2JH6;2OD3;2PGB;2PGQ;2PKS;2PW8;2R2M;2THF;2UUF;2UUJ;2UUK;2V3H;2V3O;2ZC9;2ZDA;2ZDV;2ZF0;2ZFF;2ZFP;2ZFQ;2ZFR;2ZG0;2ZGB;2ZGX;2ZHE;2ZHF;2ZHQ;2ZHW;2ZI2;2ZIQ;2ZNK;2ZO3;3B23;3B9F;3BEF;3BEI;3BF6;3BIU;3BIV;3BV9;3C1K;3C27;3D49;3DA9;3DD2;3DHK;3DT0;3DUX;3E6P;3EE0;3EGK;3EQ0;3F68;3GIC;3GIS;3HAT;3HKJ;3HTC;3JZ1;3JZ2;3K65;3LDX;3LU9;3NXP;3P17;3P6Z;3P70;3PMH;3PO1;3QDZ;3QGN;3QLP;3QTO;3QTV;3QWC;3QX5;3R3G;3RLW;3RLY;3RM0;3RM2;3RML;3RMM;3RMN;3RMO;3S7H;3S7K;3SHA;3SHC;3SI3;3SI4;3SQE;3SQH;3SV2;3T5F;3TU7;3U69;3U8O;3U8R;3U8T;3U98;3U9A;3UTU;3UWJ;3VXE;3VXF;4AX9;4AYV;4AYY;4AZ2;4BAH;4BAK;4BAM;4BAN;4BAO;4BAQ;4BOH;4CH2;4CH8;4DIH;4DII;4DT7;4DY7;4E05;4E06;4E7R;4H6S;4H6T;4HFP;4HTC;4HZH;4I7Y;4LOY;4LXB;4LZ1;4LZ4;4MLF;4NZQ;4O03;4RKJ;4RKO;4RN6;4THN;4UD9;4UDW;4UE7;4UEH;4UFD;4UFE;4UFF;4UFG;4YES;5A2M;5AF9;5AFY;5AFZ;5AHG;5CMX;5DO4;5E8E;5EDK;5EDM;5EW1;5EW2;5GDS;5GIM;5JDU;5JFD;5JZY;5L6N;5MJT;5MLS;5MM6;5NHU;5TO3;5Z5W;5Z5X;6BJR;6C2W;6EO6;6EO7;6EO8;6EO9;6V5T;7KME;8KME;
Function Thrombin, which cleaves bonds after Arg and Lys, converts fibrinogen to fibrin and activates factors V, VII, VIII, XIII, and, in complex with thrombomodulin, protein C.
Activity data
Interaction ID 77
Target type Protein
Target unique ID P00734
Activity 33 nM
Binding Conditions/Buffer

50 mM HEPES, 100 mM NaCl, 1 mM MgCl2, 5 mM KCl, 1 mM,CaCl2, pH 7.4
Assay

Using a magnetic bead-based qPCR assay.Error bars show standard deviation from three repeat experiments
PubMed ID 31580650
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_46 DNA CGGGTGGGAGTTGTGGGGGGGGGTGGGAGGGTT 62.50%
Apta_782 DNA AGGTGTGACTCGATCTGTGGGGGTTGGGGGGTGGTTTTTCGGAA 59.09%
Apta_940 DNA TGTGCGGGGGAGGGGAGTGGCGCTGTTGGTGCGGGTATAGCGCGTGGTGT 58.00%
Apta_745 DNA GGTTGCATGCCGTGGGGAGGGGGGTGGGTTTTATAGCGTACTCAG 57.78%
Apta_70 DNA AGGTCGTAGGTTGGTGTGGTTGGGGCGACCT 57.50%
Apta_124 DNA GGTGGTGGGGGGGGTTGGTAGGGTGTCTTC 57.50%
Apta_879 DNA GGGGGGGTGAGACATCGGGCATGTTCATGGGTGGGGGGTA 57.50%
Apta_1188 DNA CGGGCGGGGCGTGGGGTGTTGGAGTGGAGGGCGGGGCGGC 57.50%
Apta_1240 DNA GGAGTAGTGGGGATTGTGGTGTATGTTGTC 57.50%
Apta_1247 DNA GGTGGTTGCTGTTGTTTGTGGTTGGTGTGC 57.50%
Apta_565 DNA GCGGGGTTGGGCGGGTGGGTTCGCTGGGCAGGGGGCGAGTG 56.10%
Apta_255 DNA TAGCGATACTGCGTGGGTTGGGGCGGGTAGGGCCAGCAGTCTCGT 55.56%
Apta_17 DNA AGGGGGGGGGGTGGGGGTGGGTCCC 55.00%
Apta_41 DNA CGGTCGCTCCGTGTGGCTTGGGTTGGGTGTGGCAGTGAC 55.00%
Apta_73 DNA GGGGAGTAGGTTGGTGTGGTTGGGGCTCCCC 55.00%
Apta_146 DNA GGTGCGGTTCGTGCGGTTGTAGTACTCGTGGCCG 55.00%
Apta_266 DNA TGGATGGTAGCTCGGTCGGGGTGGGTGGGTTGGCAAGTCT 55.00%
Apta_350 DNA GGTGGTGGTGGTTGTGGTGGTGGTGG 55.00%
Apta_493 DNA GGGGTGGTGGGTTCTTTTTGTGGTATTGGTGTGGGGGGCA 55.00%
Apta_679 DNA CAGGTGGCAGATCGGGTGTGGGTGGCCTGG 55.00%

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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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