Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 63
Aptamer sequence: GACCCGTGGTAGGGTAGGATGGGGTGGTC
Target unique ID: P00734
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_63 30-38[29] Protein THRB_HUMAN 0.9 nM 50 mM Tris-HCl (pH 7.5), 100 mM NaCl, 1 mM MgCl2 9368651
Structure information of aptamer
Aptamer Sequence: GACCCGTGGTAGGGTAGGATGGGGTGGTC
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_63 Description 30-38[29]
Aptamer chemistry DNA Length 29 nt
GC content 65.5% Molecular weight 9,110.84 Da
Molarity of 1 μg/μl solution 109.76 μM Number of G-quadruplexes 2
G-Score 20 Function Targeted binding
Sequence GACCCGTGGTAGGGTAGGATGGGGTGGTC
Applications Inhibits thrombin-catalyzed fibrinclot formation in vitro
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 63
Target type Protein
Target unique ID P00734
Activity 0.9 nM
Binding Conditions/Buffer

50 mM Tris-HCl (pH 7.5), 100 mM NaCl, 1 mM MgCl2
Assay

N/A
PubMed ID 9368651
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_66 DNA TACCGTGGTAGGGAAGGTTGGAGTGTA 75.86%
Apta_62 DNA AGTCCGTGGTAGGGCAGGTTGGGGTGACT 72.41%
Apta_65 DNA CTACCGTGGTAGGGAAGGTTGGAGTGTAG 68.97%
Apta_630 DNA GACCAGGGCAAACGGTAGGGAGTGGTC 65.52%
Apta_71 DNA GGCGAGTAGGTTGGTGTGGTTGGGGCTCGCC 64.52%
Apta_74 DNA GGACAGTAGGTTGGTGTGGTTGGGGCTGTCC 64.52%
Apta_12 DNA TGAGGGGGTGGGTGGGACGGGTTGG 62.07%
Apta_320 DNA GCACTCTGTGGGGGTGGACGGGCCGGGT 62.07%
Apta_669 DNA AACGTGGGAGGGCGGTGGTGTTGAA 62.07%
Apta_757 DNA GGTGGTGGTGGTTGTGGTGGTGG 62.07%
Apta_75 DNA CACTGGTAGGTTGGTGTGGTTGGGGCCAGTG 61.29%
Apta_47 DNA GACCTAGCAGTGGACATGTGGCAGGGTGAAGTGGCATCGTC 60.98%
Apta_1094 DNA GGAATCGTGGGTGGTAGGGTAGGGGATGCA 60.00%
Apta_10 DNA GGGGGGGGTGGCTGGGCGGGGTGGG 58.62%
Apta_14 DNA AGCGGGGGGGGCTGGGCTGGGTGGG 58.62%
Apta_350 DNA GGTGGTGGTGGTTGTGGTGGTGGTGG 58.62%
Apta_389 DNA GCCTGTGGTGTTGGGGCGGGTGCG 58.62%
Apta_806 DNA GGTTGGATGTAAGGTTGGAGGGGGG 58.62%
Apta_590 DNA ACCATCTGTGTAAGGGGTAAGGGGTGGGGGTGGGTACGTCT 58.54%
Apta_69 DNA AGCGAGTAGGTTGGTGTGGTTGGGGCTCGCT 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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