Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 1232
Aptamer sequence: TTTTTTTTTTTATCCAGAGTGACGCAGCATTTCATCGGGTCCAAAAGGGGCTGCTCGGGATTGCGGATATGGACACGT
Target unique ID: P0DTC2
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_1170 Cov2-4C Protein SPIKE_SARS2 19.9 nM PBS, pH=7.4, including 136.8 mM NaCl, 10.1 mM Na2HPO4, 2.7 mM KCl, 1.8 mM KH2PO4, and 0.55 mM MgCl2 35542182
Structure information of aptamer
Aptamer Sequence: TTTTTTTTTTTATCCAGAGTGACGCAGCATTTCATCGGGTCCAAAAGGGGCTGCTCGGGATTGCGGATATGGACACGT
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_1170 Description Cov2-4C
Aptamer chemistry DNA Length 78 nt
GC content 47.4% Molecular weight 24,134.43 Da
Molarity of 1 μg/μl solution 41.43 μM Number of G-quadruplexes 2
G-Score 19 Function Targeted therapy
Sequence TTTTTTTTTTTATCCAGAGTGACGCAGCATTTCATCGGGTCCAAAAGGGGCTGCTCGGGATTGCGGATATGGACACGT
Applications Inhibits SARS-CoV?2 Infection and suppresses mutational escape
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 1232
Target type Protein
Target unique ID P0DTC2
Activity 19.9 nM
Binding Conditions/Buffer

PBS, pH=7.4, including 136.8 mM NaCl, 10.1 mM Na2HPO4, 2.7 mM KCl, 1.8 mM KH2PO4, and 0.55 mM MgCl2
Assay

RBD neutralization efficiency of candidate sequences and aptamer cocktail
PubMed ID 35542182
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_288 DNA ATCCAGAGTGACGCAGCATTTCATCGGGTCCAAAAGGGGCTGCTCGGGATTGCGGATATGGACACGT
85.90%
Apta_1171 DNA TTTTTTTTTTTCGCAGCACCCAAGAACAAGGACTGCTTAGGATTGCGATAGGTTCGG 58.97%
Apta_1169 DNA TTTTTTTTTTTCAGCACCGACCTTGTGCTTTGGGAGTGCTGGTCCAAGGGCGTTAATGGACA 55.13%
Apta_1016 DNA ATACCAGCTTATTCAATTTCTTCGCCAGTGCCAGGATCTCAGTTGGCGGTTCATTAGCTGGGTTGGTCGAAGATAGTAAGTGCAATCT 51.14%
Apta_354 DNA ATACCAGCTTATTCAATTCTATACTCCACTTTGCTATTTCTCGGTTCCTTCACGCGCCGATCGCAGGCTGATGAATTGAGATAGTAAGTGCAATCT 51.04%
Apta_1115 DNA CGTACGGAATTCGCTAGCGGTGACGGACGTGGGGTGCACGAAGGGAGGGGATCCGAGCTCCACGTG 50.00%
Apta_805 DNA ATACCAGCTTATTCAATTAGGCGGTGCATTGTGGTTGGTAGTATACATGAGGTTTGGTTGAGACTAGTCGCAAGATATAGATAGTAAGTGCAATCT 48.96%
Apta_1028 DNA CTTCTGCCCGCCTCCTTCCGGCGTCCCTGCGCACTGTATAACGTACACACGATACGTGGGAGACGAGATAGGCGGACACT 48.75%
Apta_79 DNA ATCTCGAGTCATAGGGGGCGCGAACATACGCGGTTGGTGTGGTTGGCTGACTCGT 48.72%
Apta_247 DNA GGCTTTACACTTTATGCTTCCGTACCAGAACATATCGAGTGATCCTGGGAGGATAACAATTTCACACAGGAAACAG 48.72%
Apta_277 DNA TTTTTTGGTCAGATGAGGCCTGGTGATCGTGCCCAGGCCATATGAGCAAGGAACCCCTATGCGTGCT 48.72%
Apta_600 DNA GTCTCTGTGTGCGCCAGAGAACACTGGGGCAGATATGGGCCAGCACAGAATGAGGCCC 48.72%
Apta_621 DNA AAGCTTGCTTTATAGCCTGCAGCGATTCTTGATCGGAAAAGGCTGAGAGCTACGC 48.72%
Apta_694 DNA ACTCACTATGGAAGAGATGGCGACATCTCTTCTCCGAGCCGGTCGAAATAGTGAGT 48.72%
Apta_923 DNA ATCCAGAGTGACGCAGCATCGACCTCTGTGCGAGCGGGTTGCATATATATTTTGCATGGACACGGTGGCTTAGT 48.72%
Apta_981 DNA TATGGAGAGTCAATGAGTACAGTCTCGTCTCAATAACGGAGCCTCGTCCGTGCCCCCG 48.72%
Apta_1089 DNA ATCCAGAGTGACGCAGCAATTACCGATGGCTTGTTTGTAATGTAGGGTTCCGTCGGATTGGACACGGTGGCTTAGT 48.72%
Apta_600 DNA GTCTCTGTGTGCGCCAGAGAACACTGGGGCAGATATGGGCCAGCACAGAATGAGGCCC 48.72%
Apta_584 DNA GTACCAGCTTATTCAATTACACGGACAGAGGGTAGCGGCTCTGCGCATTGAGTTGCTGCGGGCTGAAGCGCGGTACATGGGAGATAGTATGTTCATCAG 48.48%
Apta_627 DNA ATACCAGCTTATTCAATTATGCGGGGATGAGGCTTGATCTGTGGCTCTGATCCATGATCAGTCGTCTTACGTGCGGTCCAGATAGTAAGTGCAATCT 48.45%

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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