Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 360
Aptamer sequence: GATGCAGCCACCTACATTGCAGGTTTTATAATACAACTACGCGCCGTTCGCAGGCTAGTT
Target unique ID: P22629
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_355 26 Protein SAV_STRAV 85.2 nM 100 mM NaCl, 20 mM, Tris-HCl (pH 7.6), 2 mM MgCl2, 5 mM KCl, 1 mM CaCl2, 0.02% Tween 20 16052344
Structure information of aptamer
Aptamer Sequence: GATGCAGCCACCTACATTGCAGGTTTTATAATACAACTACGCGCCGTTCGCAGGCTAGTT
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_355 Description 26
Aptamer chemistry DNA Length 60 nt
GC content 48.3% Molecular weight 18,649.76 Da
Molarity of 1 μg/μl solution 53.62 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Targeted binding
Sequence GATGCAGCCACCTACATTGCAGGTTTTATAATACAACTACGCGCCGTTCGCAGGCTAGTT
Applications Check the surface occupancy of streptavidin-coated magnetic beads with biotinylated molecules after immobilization procedures
Target information
Type Detail Type Detail
Uniprot ID P22629 Protein name Streptavidin
Gene name(s) N/A Organism Streptavidin
Status reviewed in uniprot database Length 183
Mass 18,834 Activity regulation N/A
Involvement in disease N/A Catalytic activity N/A
PDB ID(s)
1DF8;1HQQ;1HXL;1HXZ;1HY2;1I9H;1KFF;1KL3;1KL4;1KL5;1LCV;1LCW;1LCZ;1LUQ;1MEP;1MK5;1MM9;1MOY;1N43;1N4J;1N7Y;1N9M;1N9Y;1NBX;1NC9;1NDJ;1NQM;1PTS;1RST;1RSU;1RXH;1RXJ;1RXK;1SLD;1SLE;1SLF;1SLG;1SRE;1SRF;1SRG;1SRH;1SRI;1SRJ;1STP;1STR;1STS;1SWA;1SWB;1SWC;1SWD;1SWE;1SWF;1SWG;1SWH;1SWJ;1SWK;1SWL;1SWN;1SWO;1SWP;1SWQ;1SWR;1SWS;1SWT;1SWU;1VWA;1VWB;1VWC;1VWD;1VWE;1VWF;1VWG;1VWH;1VWI;1VWJ;1VWK;1VWL;1VWM;1VWN;1VWO;1VWP;1VWQ;1VWR;2BC3;2F01;2G5L;2GH7;2IZA;2IZB;2IZC;2IZD;2IZE;2IZF;2IZG;2IZH;2IZI;2IZJ;2IZK;2IZL;2QCB;2RTA;2RTB;2RTC;2RTD;2RTE;2RTF;2RTG;2RTH;2RTI;2RTJ;2RTK;2RTL;2RTM;2RTN;2RTO;2RTP;2RTQ;2RTR;2WPU;2Y3E;2Y3F;3MG5;3PK2;3RDM;3RDO;3RDQ;3RDS;3RDU;3RDX;3RE5;3RE6;3RY1;3RY2;3T6F;3T6L;3WYP;3WYQ;3WZN;3WZO;3WZP;3WZQ;3X00;4BX5;4BX6;4BX7;4CPE;4CPF;4CPH;4CPI;4DNE;4EKV;4GD9;4GDA;4GJS;4GJV;4IRW;4JO6;4OKA;4Y59;4Y5D;4YVB;5B5F;5B5G;5CSE;5F2B;5JD2;5K67;5K68;5L3Y;5N7X;5N89;5N8B;5N8E;5N8J;5N8T;5N8W;5N99;5TO2;5VCQ;5VKX;5VL5;5VL8;5WBA;5WBB;5WBC;5WBD;6ANX;6AUC;6AUE;6AUH;6AUL;6AUO;6AVK;6ESS;6ESU;6FH8;6FRY;6GH7;6J6J;6J6K;6LNG;6M9B;6QBB;6QSY;6QW4;6S4Q;6S50;6SOK;6SOS;6T1E;6T1G;6T1K;6T2L;6T2Y;6T2Z;6T30;6T31;6T32;6TIP;6UC3;6UD1;6UD6;6UDB;6UDC;6UI0;6UIU;6UIY;6UIZ;6US6;6VJK;6VJL;6VO9;6VOB;6VOZ;6VP1;6VP2;6VP3;6Y25;6Y2M;6Y2T;6Y33;6Y34;6Y3Q;7ALX;7B74;7DY0;7EFC;7EFD;7EK8;7EK9;7KBY;7KBZ;7KNL;7NLV;
Function The biological function of streptavidin is not known.
Activity data
Interaction ID 360
Target type Protein
Target unique ID P22629
Activity 85.2 nM
Binding Conditions/Buffer

100 mM NaCl, 20 mM, Tris-HCl (pH 7.6), 2 mM MgCl2, 5 mM KCl, 1 mM CaCl2, 0.02% Tween 20
Assay

Determination of the dissociation constants (KD) for aptamers 26, 30, 31, and 33
PubMed ID 16052344
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_908 DNA ATACGGGAGCCAACACCAATTCCGCCAAAGTCTGCTAATAAACGGACGCCGGGGAGAGCAGGTGTGACGGAT 55.56%
Apta_144 DNA GGTGCGGTTCGTGCGGTTGTAGTACTCGTGGCCGATAGAGGTAG 55.00%
Apta_527 DNA ATACGGGAGCCAACACCAACAACCTAGATGTTCTGATAACACGAATCGCTTCGAAGAGCAGGTGTGACGGAT 54.17%
Apta_529 DNA ATCCGTCACACCTGCTCTACACTCCGCACGATCTTTTTTAGAACGCGTACCCGTTGGTGTTGGCTCCCGTAT 54.17%
Apta_1048 DNA ATACGGGAGCCAACACCACCTGCGGAAAATCAACAACGACACACGCCACGATTCAGAGCAGGTGTGACGGAT 54.17%
Apta_495 DNA GGGAATGGATCCACATCTACGTATTACTGCTGGTGACGAGGGCTAGACGACGTACCTTCACTGCAGACTTGACGAAGCTT 53.75%
Apta_143 DNA GGTGCGGTTCGTGCGGTTGTAGTACTCGTGGCCGATAGAGGTAGTTTCG 53.33%
Apta_222 DNA AGCGACTGACGATCTTGAGTAAACCGCTCATCCACGTAGT 53.33%
Apta_939 DNA TTGCCCACCGTACTGTGCAGGTCGAACTACAGGCACGTCGTG 53.33%
Apta_1045 DNA GGTGCTCAGGGAACTGTCTGAGGGATCAGGCTTAAGCCTGTCGAGCAGTT 53.33%
Apta_824 DNA ATACGGGAGCCAACACCATCCCTCTTAGGATACAAAGCCAAACTGAGCCCGTGCAGAGCAGGTGTGACGGAT 52.78%
Apta_899 DNA ATCCGTCACACCTGCTCTCGAATAGAGTATTCGATACTGACTTTATTTACCGTCTGGTGTTGGCTCCCGTAT 52.78%
Apta_1089 DNA ATCCAGAGTGACGCAGCAATTACCGATGGCTTGTTTGTAATGTAGGGTTCCGTCGGATTGGACACGGTGGCTTAGT 52.63%
Apta_173 DNA AGCAGCACAGAGGTCAGATGGCAGGTTTCGACGTACAATGCTATGGAGGCTTTATGATCGCCTATGCGTGCTACCGTGAA 52.50%
Apta_1118 DNA GGGAATGGATCCACATCTACGAATTCATCAGGGCTAAAGAGTGCAGAGTTACTTAGTTCACTGCAGACTTGACGAAGCTT 52.50%
Apta_1119 DNA GGGAATGGATCCACATCTACGAATTCGGTTGTGAAGATTGGGAGCGTCGTGGCTACTTCACTGCAGACTTGACGAAGCTT 52.50%
Apta_1120 DNA GGGAATGGATCCACATCTACGAATTCGGAATGAGTGCCCTGCAAGCGAGGGCTAGCTTCACTGCAGACTTGACGAAGCTT 52.50%
Apta_740 DNA ATCGTCTGCTCCGTCCAATAAACCTGCATAATTTATAAGTCTAGACTGCTGCATTTGGTGTGAGGTCGTGC 52.11%
Apta_530 DNA ATCCGTCACACCTGCTCTGTGTACGCCCGTATTTACGTTCCTAGCAATTGCTATGTGGTGTTGGCTCCCGTAT 52.05%
Apta_741 DNA ATCGTCTGCTCCGTCCAATAGCCTCACCCTGCATAATTTATAGACTACACTTAGGAATCGCTGCATTTGGTGTGAGGTCGTGC 51.81%

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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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