Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 1145
Aptamer sequence: CCATGGTAGGTATTGCTTGGTAGGGATAGTGGGCTTGATG
Target unique ID: P0DTC2
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_1091 SP5 Protein SPIKE_SARS2 9.2 nM 137 mM NaCl, 2.7 mM KCl, 10 nM NH4PO4, 1.76 mM KH2PO4 pH 7.4 33683787
Structure information of aptamer
Aptamer Sequence: CCATGGTAGGTATTGCTTGGTAGGGATAGTGGGCTTGATG
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_1091 Description SP5
Aptamer chemistry DNA Length 40 nt
GC content 50.0% Molecular weight 12,509.02 Da
Molarity of 1 μg/μl solution 79.94 μM Number of G-quadruplexes 2
G-Score 17 Function Targeted therapy
Sequence CCATGGTAGGTATTGCTTGGTAGGGATAGTGGGCTTGATG
Applications Inhibits pseudovirus 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 1145
Target type Protein
Target unique ID P0DTC2
Activity 9.2 nM
Binding Conditions/Buffer

137 mM NaCl, 2.7 mM KCl, 10 nM NH4PO4, 1.76 mM KH2PO4 pH 7.4
Assay

Interaction analysis of the scrambled sequence SP5sc and aptamers SP5–7 with CoV2-S, RBD, ACE2, and CoV-S
PubMed ID 33683787
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_1092 DNA CCCATGGTAGGTATTGCTTGGTAGGGATAGTGGGCTTGATG
97.56%
Apta_1093 DNA AGGAGGGTAGGTAGTGCTTGGTAGGGAAACTCCGCCGATT 70.00%
Apta_75 DNA CACTGGTAGGTTGGTGTGGTTGGGGCCAGTG 62.50%
Apta_681 DNA CCTGACGATCGGGTGTGGGTTGGCTTGAGG 62.50%
Apta_1205 DNA GGCAGGTGGTGTTGGTTGGTTGTGCGTGGAGTTGG 62.50%
Apta_552 DNA CACCTGGGGGAGTATTGCGGAGGAAGGTTCCAGGTG 60.00%
Apta_1149 DNA ATCATGGTGGGTATCGGCACTCGTTGGTTGAT 60.00%
Apta_640 DNA CAATGGACCTATTCGAGTACTGAATAGAACAGTCGGCGCTCTGGG 57.78%
Apta_752 DNA GCTATCTTATGGAAATTTCGTGTAGGGTTTGGTGTGGCGGGGCTA 57.78%
Apta_41 DNA CGGTCGCTCCGTGTGGCTTGGGTTGGGTGTGGCAGTGAC 57.50%
Apta_69 DNA AGCGAGTAGGTTGGTGTGGTTGGGGCTCGCT 57.50%
Apta_72 DNA AGTCAGTAGGTTGGTGTGGTTGGGGCTGACT 57.50%
Apta_364 DNA TATGGTATGCTGTGTGGTATGGGGTGGCGTGCTCT 57.50%
Apta_682 DNA CCTTGTAGATCGGGTGTGGTTTGGCGTAGG 57.50%
Apta_851 DNA CCATGTTTTGTAGGTGTAATAGGTCATGTTAGGGTTTCTG 57.50%
Apta_911 DNA GGCCATTGTGGACTTCTTTGGGTAATTCAGGGGCTCGATT 57.50%
Apta_1085 DNA TGGGGTGGTGGTGTGGGTGGGGGTTTGTTC 57.50%
Apta_1210 DNA GGGGAGGCAGTGTGTTGTGTCGTGTGTGTGCTTGG 57.50%
Apta_1286 DNA CTATACGTATTCTAACTTGTTACGTATTGGTCTCTTATTG 57.50%
Apta_882 DNA AATAGTCTGGTTCGGTGCTTGGTGCGATGTGTTAGTCAGACTCTTGTGTG 56.00%

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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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