Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 68
Aptamer sequence: AGATGCCTGTCGAGCATGCTGTGAATAGGTAGGGTCGGATGGGCTACGGTGTAGCTAAACTGCTTTGTCGACGGG
Target unique ID: P00734
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_68 30-8 Protein THRB_HUMAN 0.4 nM 50 mM Tris-HCl (pH 7.5), 100 mM NaCl, 1 mM MgCl2 9368651
Structure information of aptamer
Aptamer Sequence: AGATGCCTGTCGAGCATGCTGTGAATAGGTAGGGTCGGATGGGCTACGGTGTAGCTAAACTGCTTTGTCGACGGG
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_68 Description 30-8
Aptamer chemistry DNA Length 75 nt
GC content 54.7% Molecular weight 23,632.88 Da
Molarity of 1 μg/μl solution 42.31 μM Number of G-quadruplexes 2
G-Score 20 Function Targeted binding
Sequence AGATGCCTGTCGAGCATGCTGTGAATAGGTAGGGTCGGATGGGCTACGGTGTAGCTAAACTGCTTTGTCGACGGG
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 68
Target type Protein
Target unique ID P00734
Activity 0.4 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_67 DNA AGATGCCTGTCGAGCATGCTGTTGTGGTAGGGTTAGGGATGGTAGCGGTTGTAGCTAAACTGCTTTGTCGACGGG
85.33%
Apta_589 DNA GGGAATTCGAGCTCGGTACCATCTGTGTAAGGGGTAAGGGGTGGGGGTGGGTACGTCTAGCTGCAGGCATGCAAGCTTGG 58.75%
Apta_589 DNA GGGAATTCGAGCTCGGTACCATCTGTGTAAGGGGTAAGGGGTGGGGGTGGGTACGTCTAGCTGCAGGCATGCAAGCTTGG 58.75%
Apta_464 DNA GTCAGATTCCACTATAGTAGGTTGGGTAGGGTGGTCGCAGTGGATGATATGTCGTAGGGG 56.00%
Apta_618 DNA GCGGCAAATCAGCATACGAGTGTACAGGGACGGGACGGGTGGGTAAAAGGTGTCGCCTCAG 56.00%
Apta_988 DNA AAGGATGACTGACGACGATGGGAATGGAGAGGAAGGGGATATAGGTATGTTGGATGTAG 56.00%
Apta_731 DNA AAGGAGCAGCGTGGAGGATACTCTAATTGCCGTATAAGGTCAGGGGGTTGGTTGGTTCCTAGTGCTTAGGGTGTGTCGTCGTGGT 55.29%
Apta_1034 DNA ATGCGGATCCCGCGCGCGACCGTGTCAGCGGGGACTAGCGGTGTAGCGCGAAGCTTGCGC 54.67%
Apta_1071 DNA TTGAAGTGACTCCGCACTGGGTGGGTGGGAGGGTCGTGCGGCTGGTCATAGCAGGGT 54.67%
Apta_732 DNA AAGGAGCAGCGTGGAGGATAGCTGTCATCGGCTTATGTGCTTTCCAGGGTCCGTGCTGTCCGTTGTTAGGGTGTGTCGTCGTGGT 54.12%
Apta_1102 DNA TACGACTCACTATAGGGATCCGTGACTGTACGGGCTCAGTCGTTACTTGAGAGTTGAATTCCCTTTAGTGAGGGTT 53.95%
Apta_832 DNA CCGGAGGTGGGTGAGGTCTGCGGCAGGCTGTGTGGGTGGACCGGAGGGGGGTGAGGTCTGCGGCAGGCTGTGTGGGTGGA 53.75%
Apta_76 DNA CAGCGCTAGGGCTTTTAGCGTAATGGGTAGGGTGGTGCGGTGCAGATATCGGAATTGGTG 53.33%
Apta_223 DNA CATTGAGATAGCTAGTTGTAGCTGCGTCATAGGCTGGGTTGGGTCTAGTGGTTGGGTGTG 53.33%
Apta_653 DNA CCTGCACCTCGTCCAGCATCCGATGGCGGTCCTGTTTTACGGTAGCTTATATGCAGGGGGGTG 53.33%
Apta_1082 DNA GGCTGGTCCGCTGGGAACAAGGGCGGGAGGGAGGGTGTGGGTGCGACAAGCGGACCAGCC 53.33%
Apta_1230 DNA GGCGATAGGCAGTGTTGCGGGGTCGGAGAGCGAGGTAATAGCGTGTATGGGTGCTGTGTG 53.33%
Apta_1031 DNA GGAGACCGCTTAAGCTTAAAGGAGCGGTTACGAATGCGATGACTTAGGTACCATTGCACTACGGTACCTAAACAGTTCCTTTGGATCCGAATTCGCCGC 52.53%
Apta_110 DNA AGCAGCACAGAGGTCAGATGGTTAGGAAGGTGAATAGGTACGACTGCAGGTCTATCGCAGCCTATGCGTGCTACCGTGAA 52.50%
Apta_110 DNA AGCAGCACAGAGGTCAGATGGTTAGGAAGGTGAATAGGTACGACTGCAGGTCTATCGCAGCCTATGCGTGCTACCGTGAA 52.50%

ABOUT

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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