Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 74
Aptamer sequence: GGACAGTAGGTTGGTGTGGTTGGGGCTGTCC
Target unique ID: P00734
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_74 D4-5 Protein THRB_HUMAN N/A Tris-HCl pH 8.0, 5 mM KCl, 100 mM NaCl 17016675
Structure information of aptamer
Aptamer Sequence: GGACAGTAGGTTGGTGTGGTTGGGGCTGTCC
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_74 Description D4-5
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 GGACAGTAGGTTGGTGTGGTTGGGGCTGTCC
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 74
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_71 DNA GGCGAGTAGGTTGGTGTGGTTGGGGCTCGCC
87.10%
Apta_72 DNA AGTCAGTAGGTTGGTGTGGTTGGGGCTGACT
87.10%
Apta_73 DNA GGGGAGTAGGTTGGTGTGGTTGGGGCTCCCC
87.10%
Apta_69 DNA AGCGAGTAGGTTGGTGTGGTTGGGGCTCGCT
80.65%
Apta_70 DNA AGGTCGTAGGTTGGTGTGGTTGGGGCGACCT
80.65%
Apta_75 DNA CACTGGTAGGTTGGTGTGGTTGGGGCCAGTG 74.19%
Apta_62 DNA AGTCCGTGGTAGGGCAGGTTGGGGTGACT 64.52%
Apta_63 DNA GACCCGTGGTAGGGTAGGATGGGGTGGTC 64.52%
Apta_1085 DNA TGGGGTGGTGGTGTGGGTGGGGGTTTGTTC 64.52%
Apta_1094 DNA GGAATCGTGGGTGGTAGGGTAGGGGATGCA 64.52%
Apta_646 DNA TGGAGCTTGGATTGATGTGGTGTGTGAGTGCGGTGCCC 63.16%
Apta_1205 DNA GGCAGGTGGTGTTGGTTGGTTGTGCGTGGAGTTGG 62.86%
Apta_1258 DNA GGCGAAGGAGTCATGTAGGTGTGGTCGAGACCGCTGTGCT 62.50%
Apta_648 DNA GCACACCGATGGCGGTCCTGTTTAGGGGGTGTGC 61.76%
Apta_25 DNA TGTGGGGGTGGTTGGGCGGGGCTGC 61.29%
Apta_65 DNA CTACCGTGGTAGGGAAGGTTGGAGTGTAG 61.29%
Apta_66 DNA TACCGTGGTAGGGAAGGTTGGAGTGTA 61.29%
Apta_350 DNA GGTGGTGGTGGTTGTGGTGGTGGTGG 61.29%
Apta_1236 DNA GGACTGTTGTGGTATTATTTTTGGTTGTGC 61.29%
Apta_1241 DNA GGTGTGGAGTGGTGTGTGTTGTTGTTTGTC 61.29%

ABOUT

AptaDB is an online database we developed to integrate comprehensive information about aptamer.
The detail of this database is described here:

HELP CENTER

>Contact us
>LMMD Group
>School of Pharmacy

DEV TOOL
Page last updated at 2022-05-25 10:01:57 (Asia/Shanghai) | You are visitor No. 43962
Copyright © 2019-2020 Laboratory of Molecular Modeling and Design, School of Pharmacy, East China University of Science and Technology. All rights reserved.