Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 1142
Aptamer sequence: ATCCAGAGTGACGCAGCATCGAGTGGCTTGTTTGTAATGTAGGGTTCCGGTCGTGGGTTGGACACGGTGGCTTAGT
Target unique ID: P0DTC2
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_1088 aptamer-1 Protein SPIKE_SARS2 6.05 nM N/A 33684258
Structure information of aptamer
Aptamer Sequence: ATCCAGAGTGACGCAGCATCGAGTGGCTTGTTTGTAATGTAGGGTTCCGGTCGTGGGTTGGACACGGTGGCTTAGT
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_1088 Description aptamer-1
Aptamer chemistry DNA Length 76 nt
GC content 53.9% Molecular weight 23,679.11 Da
Molarity of 1 μg/μl solution 42.23 μM Number of G-quadruplexes 2
G-Score 20 Function Targeted therapy
Sequence ATCCAGAGTGACGCAGCATCGAGTGGCTTGTTTGTAATGTAGGGTTCCGGTCGTGGGTTGGACACGGTGGCTTAGT
Applications Block S/RBD-ACE2 interactions and prevent host cell Infection
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 1142
Target type Protein
Target unique ID P0DTC2
Activity 6.05 nM
Binding Conditions/Buffer

N/A
Assay

Binding assays of selected aptamers to S/RBD-virus mimics
PubMed ID 33684258
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_1089 DNA ATCCAGAGTGACGCAGCAATTACCGATGGCTTGTTTGTAATGTAGGGTTCCGTCGGATTGGACACGGTGGCTTAGT
88.16%
Apta_787 DNA ATCCAGAGTGACGCAGCATTTGTTTAATATGTTTTTTAATTCCCCTTGTGGTGTGTTGTGGACACGGTGGCTTAGT 72.37%
Apta_785 DNA ATCCAGAGTGACGCAGCATGAATCTTTTCTTTTGGTTTTGATATTTATAGTTGGTGAATGGACACGGTGGCTTAGT 71.05%
Apta_786 DNA ATCCAGAGTGACGCAGCATTTGTATCCTATTTTGTTTATGTAATTGTCGTTGATCATGTGGACACGGTGGCTTAGT 71.05%
Apta_922 DNA ATCCAGAGTGACGCAGCACACCGTTTGTATTCTGCATTGTTTTGCATTCTACATGGACACGGTGGCTTAGT 71.05%
Apta_1090 DNA ATCCAGAGTGACGCAGCAGGGCTTGGGTTGGGAATAAGGATGTGGGAGGCGGCGAACATGGACACGGTGGCTTAGT 71.05%
Apta_401 DNA ATCCAGAGTGACGCAGCAGATAAGTAGGTATCCGTTTGAAAAACTTTTCTGACCGTCCGACTATGGACACGGTGGCTTAGT 70.37%
Apta_784 DNA ATCCAGAGTGACGCAGCATTTTGACGCTTTATCCTTTTCTTATGGCGGGATAGTTTCGTGGACACGGTGGCTTAGT 69.74%
Apta_725 DNA ATCCAGAGTGACGCAGCATGCTCATCCACGATTCTGGCGAATTTAGTGCCTGTCTTTTTCTCTTGGACACGGTGGCTTAGT 69.14%
Apta_794 DNA ATCCAGAGTGACGCAGCAAGGAGATTCGAGGGGGAAGGTTTGTTATAGGGGTTAATGGACACGGTGGCTTAGT 68.42%
Apta_923 DNA ATCCAGAGTGACGCAGCATCGACCTCTGTGCGAGCGGGTTGCATATATATTTTGCATGGACACGGTGGCTTAGT 68.42%
Apta_1293 DNA ATCCAGAGTGACGCAGCATGCCCTAGTTACTACTACTCTTTTTAGCAAACGCCCTCGCTTTGGACACGGTGGCTTAGT 67.95%
Apta_921 DNA ATCCAGAGTGACGCAGCACGAGCCAGACATCTCACACCTGTTGCATATACATTTTGCATGGACACGGTGGCTTAGT 67.11%
Apta_920 DNA ATCCAGAGTGACGCAGCACGGCACTCACTCTTTGTTAAGTGGTCTGCTTCTTAACCTTCATCGACACGGTGGCTTA 65.79%
Apta_288 DNA ATCCAGAGTGACGCAGCATTTCATCGGGTCCAAAAGGGGCTGCTCGGGATTGCGGATATGGACACGT 59.21%
Apta_732 DNA AAGGAGCAGCGTGGAGGATAGCTGTCATCGGCTTATGTGCTTTCCAGGGTCCGTGCTGTCCGTTGTTAGGGTGTGTCGTCGTGGT 55.29%
Apta_78 DNA ATCTCGACTAGTCATAGGGGGCGCGAACATACGCGGTTGGTGTGGTTGGCTGACAATACTCGT 55.26%
Apta_79 DNA ATCTCGAGTCATAGGGGGCGCGAACATACGCGGTTGGTGTGGTTGGCTGACTCGT 55.26%
Apta_1071 DNA TTGAAGTGACTCCGCACTGGGTGGGTGGGAGGGTCGTGCGGCTGGTCATAGCAGGGT 55.26%
Apta_1099 DNA ATCCATTGCCACTGACTACCAGCCGGGTGGGTGGGGGGGTTTGCTGGTATCGCATTGTGCGAAGTCAGTCGGTCGTTAGT 55.00%

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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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