Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 70
Aptamer sequence: AGGTCGTAGGTTGGTGTGGTTGGGGCGACCT
Target unique ID: P00734
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_70 D3-9 Protein THRB_HUMAN N/A Tris-HCl pH 8.0, 5 mM KCl, 100 mM NaCl 17016675
Structure information of aptamer
Aptamer Sequence: AGGTCGTAGGTTGGTGTGGTTGGGGCGACCT
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_70 Description D3-9
Aptamer chemistry DNA Length 31 nt
GC content 61.3% Molecular weight 9,950.15 Da
Molarity of 1 μg/μl solution 100.50 μM Number of G-quadruplexes 2
G-Score 20 Function Targeted binding
Sequence AGGTCGTAGGTTGGTGTGGTTGGGGCGACCT
Applications Thrombin inhibiting
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

No relevant experimental diagram

 Interaction ID 70
Target type Protein
Target unique ID P00734
Activity N/A
Binding Conditions/Buffer

Tris-HCl pH 8.0, 5 mM KCl, 100 mM NaCl
Assay

N/A
PubMed ID 17016675
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_72 DNA AGTCAGTAGGTTGGTGTGGTTGGGGCTGACT
87.10%
Apta_69 DNA AGCGAGTAGGTTGGTGTGGTTGGGGCTCGCT
80.65%
Apta_73 DNA GGGGAGTAGGTTGGTGTGGTTGGGGCTCCCC
80.65%
Apta_74 DNA GGACAGTAGGTTGGTGTGGTTGGGGCTGTCC
80.65%
Apta_71 DNA GGCGAGTAGGTTGGTGTGGTTGGGGCTCGCC 74.19%
Apta_75 DNA CACTGGTAGGTTGGTGTGGTTGGGGCCAGTG 74.19%
Apta_62 DNA AGTCCGTGGTAGGGCAGGTTGGGGTGACT 70.97%
Apta_861 DNA CAGGTTGGTCTGGTTGGGTTTGGCTCCTGTGTACGCAACCTG 61.90%
Apta_17 DNA AGGGGGGGGGGTGGGGGTGGGTCCC 61.29%
Apta_350 DNA GGTGGTGGTGGTTGTGGTGGTGGTGG 61.29%
Apta_757 DNA GGTGGTGGTGGTTGTGGTGGTGG 61.29%
Apta_1247 DNA GGTGGTTGCTGTTGTTTGTGGTTGGTGTGC 61.29%
Apta_646 DNA TGGAGCTTGGATTGATGTGGTGTGTGAGTGCGGTGCCC 60.53%
Apta_266 DNA TGGATGGTAGCTCGGTCGGGGTGGGTGGGTTGGCAAGTCT 60.00%
Apta_364 DNA TATGGTATGCTGTGTGGTATGGGGTGGCGTGCTCT 60.00%
Apta_393 DNA AGGAGGATAGTTCGGTGGCTGTTCAGGGTCTCCTCCT 59.46%
Apta_41 DNA CGGTCGCTCCGTGTGGCTTGGGTTGGGTGTGGCAGTGAC 58.97%
Apta_22 DNA TGTGGGGGTGGACTGGGTGGGTACC 58.06%
Apta_25 DNA TGTGGGGGTGGTTGGGCGGGGCTGC 58.06%
Apta_27 DNA AGGGGGAGGGGTGGGGCCGGGCAGA 58.06%

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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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