Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 297
Aptamer sequence: ATCCAGAGTGACGCAGCATTTCATCGGGTCCAAAAGGGGCTGCTCGGGATTGCGGATATGGACACGT
Target unique ID: P0DTC2
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_288 CoV2-RBD-4C aptamer Protein SPIKE_SARS2 19.9 nM PBS 32551560
Structure information of aptamer
Aptamer Sequence: ATCCAGAGTGACGCAGCATTTCATCGGGTCCAAAAGGGGCTGCTCGGGATTGCGGATATGGACACGT
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_288 Description CoV2-RBD-4C aptamer
Aptamer chemistry DNA Length 67 nt
GC content 55.2% Molecular weight 21,028.25 Da
Molarity of 1 μg/μl solution 47.56 μM Number of G-quadruplexes 2
G-Score 19 Function Targeted binding
Sequence ATCCAGAGTGACGCAGCATTTCATCGGGTCCAAAAGGGGCTGCTCGGGATTGCGGATATGGACACGT
Applications Binding to SARS-CoV-2 RBD
Target information
Type Detail Type Detail
Uniprot ID P0DTC2 Protein name Spike glycoprotein (S glycoprotein) (E2) (Peplomer protein) [Cleaved into: Spike protein S1; Spike protein S2; Spike protein S2']
Gene name(s) S 2 Organism Spike glycoprotein (S glycoprotein) (E2) (Peplomer protein) [Cleaved into: Spike protein S1; Spike protein S2; Spike protein S2']
Status reviewed in uniprot database Length 1273
Mass 141,178 Activity regulation N/A
Involvement in disease N/A Catalytic activity N/A
PDB ID(s)
6LVN;6LXT;6LZG;6M0J;6M17;6M1V;6VSB;6VW1;6VXX;6VYB;6W41;6WPS;6WPT;6X29;6X2A;6X2B;6X2C;6X45;6X6P;6X79;6XC2;6XC3;6XC4;6XC7;6XCM;6XCN;6XDG;6XE1;6XEY;6XF5;6XF6;6XKL;6XKP;6XKQ;6XLU;6XM0;6XM3;6XM4;6XM5;6XR8;6XRA;6XS6;6YLA;6YM0;6YOR;6YZ5;6YZ7;6Z2M;6Z43;6Z97;6ZB4;6ZB5;6ZBP;6ZCZ;6ZDG;6ZDH;6ZER;6ZFO;6ZGE;6ZGG;6ZGI;6ZH9;6ZHD;6ZLR;6ZOW;6ZOX;6ZOY;6ZOZ;6ZP0;6ZP1;6ZP2;6ZP5;6ZP7;6ZWV;6ZXN;7A25;7A29;7A4N;7A5R;7A5S;7A91;7A92;7A93;7A94;7A95;7A96;7A97;7A98;7AD1;7AKD;7B14;7B17;7B18;7B3O;7B62;7BEH;7BEI;7BEJ;7BEK;7BEL;7BEM;7BEN;7BEO;7BEP;7BH9;7BNM;7BNN;7BNO;7BWJ;7BYR;7BZ5;7C01;7C2L;7C53;7C8D;7C8J;7C8V;7C8W;7CAB;7CAC;7CAH;7CAI;7CAK;7CAN;7CDI;7CDJ;7CH4;7CH5;7CHB;7CHC;7CHE;7CHF;7CHH;7CHO;7CHP;7CHS;7CJF;7CM4;7CN4;7CN9;7CT5;7CWL;7CWM;7CWN;7CWO;7CWS;7CWT;7CWU;7CYH;7CYP;7CYV;7CZP;7CZQ;7CZR;7CZS;7CZT;7CZU;7CZV;7CZW;7CZX;7CZY;7CZZ;7D00;7D03;7D0B;7D0C;7D0D;7D2Z;7D30;7D4G;7D6I;7DCC;7DCX;7DD2;7DD8;7DDD;7DDN;7DEO;7DET;7DEU;7DF3;7DF4;7DHX;7DJZ;7DK0;7DK2;7DK3;7DK4;7DK5;7DK6;7DK7;7DMU;7DPM;7DQA;7DWX;7DWY;7DWZ;7DX0;7DX1;7DX2;7DX3;7DX4;7DX5;7DX6;7DX7;7DX8;7DX9;7DZW;7DZX;7DZY;7E23;7E39;7E3B;7E3C;7E3J;7E3K;7E3L;7E3O;7E5O;7E5R;7E5S;7E5Y;7E7B;7E7D;7E7X;7E7Y;7E86;7E88;7E8C;7E8F;7E8M;7E9N;7E9O;7E9P;7E9Q;7E9T;7EAM;7EAN;7EAZ;7EB0;7EB3;7EB4;7EB5;7EDF;7EDG;7EDH;7EDI;7EDJ;7EFP;7EFR;7EH5;7EJ4;7EJ5;7EJY;7EJZ;7EK0;7EK6;7EKC;7EKE;7EKF;7EKG;7EKH;7ENF;7ENG;7EU2;7EY0;7EY4;7EY5;7EYA;7EZV;7F46;7F4W;7F62;7F63;7F7E;7FAE;7FAF;7FCD;7FCE;7FDG;7FDH;7FDI;7FDK;7FEM;7FET;7FG2;7FG3;7FG7;7FJO;7JJC;7JJI;7JJJ;7JMO;7JMP;7JMW;7JV2;7JV4;7JV6;7JVA;7JVB;7JVC;7JW0;7JWB;7JWY;7JX3;7JZL;7JZM;7JZN;7JZU;7K43;7K45;7K4N;7K8M;7K8S;7K8T;7K8U;7K8V;7K8W;7K8X;7K8Y;7K8Z;7K90;7K9H;7K9I;7K9J;7K9K;7K9Z;7KDG;7KDH;7KDI;7KDJ;7KDK;7KDL;7KE4;7KE6;7KE7;7KE8;7KE9;7KEA;7KEB;7KEC;7KFV;7KFW;7KFX;7KFY;7KGJ;7KGK;7KJ2;7KJ3;7KJ4;7KJ5;7KKK;7KKL;7KL9;7KLG;7KLH;7KLW;7KM5;7KMB;7KMG;7KMH;7KMI;7KMK;7KML;7KMS;7KMZ;7KN3;7KN4;7KN5;7KN6;7KN7;7KNB;7KNE;7KNH;7KNI;7KQB;7KQE;7KRQ;7KRR;7KRS;7KS9;7KSG;7KXJ;7KXK;7KZB;7L02;7L06;7L09;7L0N;7L2C;7L2D;7L2E;7L2F;7L3N;7L4Z;7L56;7L57;7L58;7L5B;7L7D;7L7E;7L7F;7L7K;7LAA;7LAB;7LC8;7LCN;7LD1;7LDJ;7LJR;7LM8;7LO4;7LOP;7LQ7;7LQV;7LQW;7LRS;7LRT;7LS9;7LSS;7LWI;7LWJ;7LWK;7LWL;7LWM;7LWN;7LWO;7LWP;7LWQ;7LWS;7LWT;7LWU;7LWV;7LWW;7LX5;7LXW;7LXX;7LXY;7LXZ;7LY0;7LY2;7LY3;7LYK;7LYL;7LYM;7LYN;7LYO;7LYP;7LYQ;7M0J;7M3I;7M42;7M53;7M6D;7M6E;7M6F;7M6G;7M6H;7M6I;7M71;7M7B;7M7W;7M8J;7M8K;7M8S;7M8T;7M8U;7MDW;7ME7;7MEJ;7MF1;7MFU;7MJG;7MJH;7MJI;7MJJ;7MJK;7MJL;7MJM;7MJN;7MKB;7MKL;7MKM;7MLZ;7MM0;7MMO;7MSQ;7MTC;7MTD;7MTE;7MW2;7MW3;7MW4;7MW5;7MW6;7MY2;7MY3;7MY8;7MZF;7MZG;7MZH;7MZI;7MZJ;7MZK;7MZL;7MZM;7MZN;7N0G;7N0H;7N1A;7N1B;7N1E;7N1F;7N1Q;7N1T;7N1U;7N1V;7N1W;7N1X;7N1Y;7N3I;7N4I;7N4J;7N4L;7N4M;7N5H;7N62;7N64;7N6D;7N6E;7N8H;7N8I;7N9A;7N9B;7N9C;7N9E;7N9T;7NAB;7ND3;7ND4;7ND5;7ND6;7ND7;7ND8;7ND9;7NDA;7NDB;7NDC;7NDD;7NEG;7NEH;7NKT;7NP1;7NS6;7NT9;7NTA;7NTC;7NX6;7NX7;7NX8;7NX9;7NXA;7NXB;7NXC;7NY5;7OAN;7OAO;7OAP;7OAQ;7OAU;7OAY;7OD3;7ODL;7OLZ;7OR9;7ORA;7ORB;7OWX;7P3D;7P3E;7P77;7P78;7P79;7P7A;7P7B;7PQY;7PQZ;7PR0;7PRY;7PRZ;7PS0;7PS1;7PS2;7PS4;7PS5;7PS6;7PS7;7Q0A;7Q0G;7Q0H;7Q0I;7Q1Z;7Q6E;7Q9F;7Q9G;7Q9I;7Q9J;7Q9K;7Q9M;7Q9P;7QO9;7R0Z;7R10;7R11;7R12;7R13;7R14;7R16;7R17;7R18;7R19;7R1A;7R1B;7R6W;7R6X;7R7N;7R8L;7R8M;7R8N;7R8O;7R95;7RA8;7RAL;7RAQ;7RBY;7RKU;7RKV;7RNJ;7RPV;7RR0;7RTD;7RTR;7RW2;7RXD;7RZQ;7RZR;7RZS;7RZT;7RZU;7RZV;7S0B;7S0C;7S0D;7S0E;7S4S;7S5P;7S5Q;7S5R;7SBK;7SBL;7SBO;7SBP;7SBQ;7SBR;7SBS;7SBT;7SC1;7SJS;7SN2;7SN3;7SO9;7SOA;7SOB;7SOC;7SOD;7SOE;7SOF;7SPO;7SPP;7SXR;7SXS;7SXT;7SXU;7SXV;7SXW;7SXX;7SXY;7SXZ;7SY0;7SY1;7SY2;7SY3;7SY4;7SY5;7SY6;7SY7;7SY8;7T01;7T9J;7T9K;7T9L;7TAS;7TAT;7TB8;7TBF;7TC9;7TCA;7TCC;7TE1;7TEW;7TEX;7TEY;7TEZ;7TF0;7TF1;7TF2;7TF3;7TF4;7TF5;7TGW;7TGX;7TGY;7THE;7THK;7THT;7TIK;7TLA;7TLB;7TLC;7TLD;7TN0;7TOU;7TOV;7TOW;7TOX;7TOY;7TOZ;7TP0;7TP1;7TP2;7TP3;7TP4;7TP7;7TP8;7TP9;7TPA;7TPC;7TPE;7TPF;7TPH;7TPL;7V26;7V2A;7V76;7V77;7V78;7V79;7V7A;7V7D;7V7E;7V7F;7V7G;7V7H;7V7I;7V7J;7V7N;7V7O;7V7P;7V7Q;7V7R;7V7S;7V7T;7V7U;7V7V;7V7Z;7V80;7V81;7V82;7V83;7V84;7V85;7V86;7V87;7V88;7V89;7V8A;7V8B;7V8C;7VMU;7VNB;7VNC;7VND;7VNE;7VX1;7VX4;7VX5;7VX9;7VXA;7VXB;7VXC;7VXD;7VXE;7VXF;7VXI;7VXK;7VXM;7VYR;7W92;7W94;7W98;7W99;7W9B;7W9C;7W9E;7W9F;7W9I;7WBL;7WBP;7WBQ;7WCR;7WCZ;7WD0;7WD7;7WD8;7WD9;7WDF;7WED;7WEV;7WK2;7WK3;7WK8;7WK9;7WKA;7WLC;7WPH;7WUE;7WUH;7WVN;7WVO;7WVP;7WVQ;7X08;7X7D;7Z0Y;7Z1A;7Z1B;7Z1C;7Z1D;7Z1E;
Function Attaches the virion to the cell membrane by interacting with host receptor, initiating the infection.
Activity data
Interaction ID 297
Target type Protein
Target unique ID P0DTC2
Activity 19.9 nM
Binding Conditions/Buffer

PBS
Assay

The binding affinity of the CoV2-RBD-4C aptamer
PubMed ID 32551560
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_1170 DNA TTTTTTTTTTTATCCAGAGTGACGCAGCATTTCATCGGGTCCAAAAGGGGCTGCTCGGGATTGCGGATATGGACACGT
85.90%
Apta_1089 DNA ATCCAGAGTGACGCAGCAATTACCGATGGCTTGTTTGTAATGTAGGGTTCCGTCGGATTGGACACGGTGGCTTAGT 61.84%
Apta_923 DNA ATCCAGAGTGACGCAGCATCGACCTCTGTGCGAGCGGGTTGCATATATATTTTGCATGGACACGGTGGCTTAGT 60.81%
Apta_1090 DNA ATCCAGAGTGACGCAGCAGGGCTTGGGTTGGGAATAAGGATGTGGGAGGCGGCGAACATGGACACGGTGGCTTAGT 60.53%
Apta_725 DNA ATCCAGAGTGACGCAGCATGCTCATCCACGATTCTGGCGAATTTAGTGCCTGTCTTTTTCTCTTGGACACGGTGGCTTAGT 59.26%
Apta_786 DNA ATCCAGAGTGACGCAGCATTTGTATCCTATTTTGTTTATGTAATTGTCGTTGATCATGTGGACACGGTGGCTTAGT 59.21%
Apta_1088 DNA ATCCAGAGTGACGCAGCATCGAGTGGCTTGTTTGTAATGTAGGGTTCCGGTCGTGGGTTGGACACGGTGGCTTAGT 59.21%
Apta_401 DNA ATCCAGAGTGACGCAGCAGATAAGTAGGTATCCGTTTGAAAAACTTTTCTGACCGTCCGACTATGGACACGGTGGCTTAGT 58.02%
Apta_784 DNA ATCCAGAGTGACGCAGCATTTTGACGCTTTATCCTTTTCTTATGGCGGGATAGTTTCGTGGACACGGTGGCTTAGT 57.89%
Apta_787 DNA ATCCAGAGTGACGCAGCATTTGTTTAATATGTTTTTTAATTCCCCTTGTGGTGTGTTGTGGACACGGTGGCTTAGT 57.89%
Apta_920 DNA ATCCAGAGTGACGCAGCACGGCACTCACTCTTTGTTAAGTGGTCTGCTTCTTAACCTTCATCGACACGGTGGCTTA 57.89%
Apta_794 DNA ATCCAGAGTGACGCAGCAAGGAGATTCGAGGGGGAAGGTTTGTTATAGGGGTTAATGGACACGGTGGCTTAGT 57.53%
Apta_770 DNA GAATTCAGTCGGACAGCGGCATTTACATTCCATGGGAAATTTCTCAAGCGGTATTTCATTTCGATGGACGAATATCGTCTCCC 55.42%
Apta_785 DNA ATCCAGAGTGACGCAGCATGAATCTTTTCTTTTGGTTTTGATATTTATAGTTGGTGAATGGACACGGTGGCTTAGT 55.26%
Apta_921 DNA ATCCAGAGTGACGCAGCACGAGCCAGACATCTCACACCTGTTGCATATACATTTTGCATGGACACGGTGGCTTAGT 55.26%
Apta_1171 DNA TTTTTTTTTTTCGCAGCACCCAAGAACAAGGACTGCTTAGGATTGCGATAGGTTCGG 55.22%
Apta_1293 DNA ATCCAGAGTGACGCAGCATGCCCTAGTTACTACTACTCTTTTTAGCAAACGCCCTCGCTTTGGACACGGTGGCTTAGT 55.13%
Apta_922 DNA ATCCAGAGTGACGCAGCACACCGTTTGTATTCTGCATTGTTTTGCATTCTACATGGACACGGTGGCTTAGT 54.93%
Apta_418 DNA TGGCAGGAAGACAAACACATCGTCGCGGCCTTAGGAGGGGCGGACGGGGGGGGGCGTGGTCTGTGGTGCTGT 54.17%
Apta_178 DNA AGCAGCACAGAGGTCAGATGCGGTATGCTGGGTCATCTAACTGGGGATATTCTGATATTGCCTATGCGTGCTACCGTGAA 53.75%

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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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