Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 1146
Aptamer sequence: CCCATGGTAGGTATTGCTTGGTAGGGATAGTGGGCTTGATG
Target unique ID: P0DTC2
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_1092 SP6 Protein SPIKE_SARS2 21 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: CCCATGGTAGGTATTGCTTGGTAGGGATAGTGGGCTTGATG
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_1092 Description SP6
Aptamer chemistry DNA Length 41 nt
GC content 51.2% Molecular weight 12,798.20 Da
Molarity of 1 μg/μl solution 78.14 μM Number of G-quadruplexes 2
G-Score 17 Function Targeted therapy
Sequence CCCATGGTAGGTATTGCTTGGTAGGGATAGTGGGCTTGATG
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 1146
Target type Protein
Target unique ID P0DTC2
Activity 21 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_1091 DNA CCATGGTAGGTATTGCTTGGTAGGGATAGTGGGCTTGATG
97.56%
Apta_1093 DNA AGGAGGGTAGGTAGTGCTTGGTAGGGAAACTCCGCCGATT 70.73%
Apta_75 DNA CACTGGTAGGTTGGTGTGGTTGGGGCCAGTG 63.41%
Apta_1205 DNA GGCAGGTGGTGTTGGTTGGTTGTGCGTGGAGTTGG 63.41%
Apta_552 DNA CACCTGGGGGAGTATTGCGGAGGAAGGTTCCAGGTG 60.98%
Apta_681 DNA CCTGACGATCGGGTGTGGGTTGGCTTGAGG 60.98%
Apta_1149 DNA ATCATGGTGGGTATCGGCACTCGTTGGTTGAT 60.98%
Apta_911 DNA GGCCATTGTGGACTTCTTTGGGTAATTCAGGGGCTCGATT 58.54%
Apta_752 DNA GCTATCTTATGGAAATTTCGTGTAGGGTTTGGTGTGGCGGGGCTA 57.78%
Apta_41 DNA CGGTCGCTCCGTGTGGCTTGGGTTGGGTGTGGCAGTGAC 56.10%
Apta_63 DNA GACCCGTGGTAGGGTAGGATGGGGTGGTC 56.10%
Apta_69 DNA AGCGAGTAGGTTGGTGTGGTTGGGGCTCGCT 56.10%
Apta_72 DNA AGTCAGTAGGTTGGTGTGGTTGGGGCTGACT 56.10%
Apta_258 DNA CACTGCGGGGGTCTATACGTGAGGAAGAAGTGGGCAGGTC 56.10%
Apta_364 DNA TATGGTATGCTGTGTGGTATGGGGTGGCGTGCTCT 56.10%
Apta_482 DNA AGCAAGGTTTGGTGTTGGTTGGTTGCTGGTTTTGGTTTC 56.10%
Apta_578 DNA CACCAAGCGCAGGGAATTACATTGAAGTGTGGGATTGGCT 56.10%
Apta_682 DNA CCTTGTAGATCGGGTGTGGTTTGGCGTAGG 56.10%
Apta_851 DNA CCATGTTTTGTAGGTGTAATAGGTCATGTTAGGGTTTCTG 56.10%
Apta_1085 DNA TGGGGTGGTGGTGTGGGTGGGGGTTTGTTC 56.10%

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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