Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 282
Aptamer sequence: ATACGACTCACTATTAGGGACCACATAAACATGCATCGCTCAATAACGGGATATTGTTGTGCTAGACTACTGACTACAA
Target unique ID: P0AEX9
| Aptamer ID | Aptamer descriptor | Target chemistry | Target name | Affinity | Binding Conditions/Buffer | PubMed ID |
|---|---|---|---|---|---|---|
| Apta_931 | M1 | Protein | MALE_ECOLI | 86 nM | 20 mM Tris-HCl, 100 mM NaCl, 5 mM MgCl2, and 0.1% bovine serum albumin with 10µg/mL yeast tRNA and 10µg/mL salmon sperm DNA | 33195056 |
Structure information of aptamer
| Aptamer Sequence: | ATACGACTCACTATTAGGGACCACATAAACATGCATCGCTCAATAACGGGATATTGTTGTGCTAGACTACTGACTACAA |
| 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_931 | Description | M1 |
| Aptamer chemistry | DNA | Length | 79 nt |
| GC content | 40.5% | Molecular weight | 24,292.64 Da |
| Molarity of 1 μg/μl solution | 41.16 μM | Number of G-quadruplexes | No QGRS found |
| G-Score | N/A | Function | Targeted binding |
| Sequence | ATACGACTCACTATTAGGGACCACATAAACATGCATCGCTCAATAACGGGATATTGTTGTGCTAGACTACTGACTACAA | ||
| Applications | M1 specifically bound to cognate target protein | ||
Target information
| Type | Detail | Type | Detail |
|---|---|---|---|
| Uniprot ID | P0AEX9 | Protein name | Maltose/maltodextrin-binding periplasmic protein (MMBP) (Maltodextrin-binding protein) (Maltose-binding protein) (MBP) |
| Gene name(s) | malE b4034 JW3994 | Organism | Maltose/maltodextrin-binding periplasmic protein (MMBP) (Maltodextrin-binding protein) (Maltose-binding protein) (MBP) |
| Status | reviewed in uniprot database | Length | 396 |
| Mass | 43,388 | Activity regulation | N/A |
| Involvement in disease | N/A | Catalytic activity | N/A |
| PDB ID(s) | 1A7L;1ANF;1DMB;1EZ9;1EZO;1EZP;1FQA;1FQB;1FQC;1FQD;1HSJ;1IUD;1JVX;1JVY;1JW4;1JW5;1LAX;1LLS;1MDP;1MDQ;1MG1;1MH3;1MH4;1MPB;1MPC;1MPD;1N3W;1N3X;1NL5;1NMU;1OMP;1PEB;1R6Z;1SVX;1T0K;1Y4C;1YTV;1ZIU;1ZJL;1ZKB;1ZMG;2D21;2H25;2KLF;2MV0;2N44;2N45;2NVU;2OBG;2OK2;2R6G;2V93;2VGQ;2XZ3;2ZXT;3A3C;3C4M;3CSB;3CSG;3D4C;3D4G;3DM0;3EF7;3EHS;3EHT;3EHU;3F5F;3G7V;3G7W;3H3G;3H4Z;3HPI;3HST;3IO4;3IO6;3IOR;3IOT;3IOU;3IOV;3IOW;3J9P;3KJT;3L2J;3LBS;3LC8;3MBP;3MP1;3MP6;3MP8;3MQ9;3N93;3N94;3N95;3N96;3O3U;3OAI;3OB4;3OSQ;3OSR;3PGF;3PUV;3PUW;3PUX;3PUY;3PUZ;3PV0;3PY7;3Q25;3Q26;3Q27;3Q28;3Q29;3RLF;3RUM;3SER;3SES;3SET;3SEU;3SEV;3SEW;3SEX;3SEY;3VFJ;3W15;3WAI;3WOA;4B3N;4BL8;4BL9;4BLA;4BLB;4BLD;4DXB;4DXC;4EDQ;4EGC;4EXK;4FE8;4FEB;4FEC;4FED;4GIZ;4GLI;4IFP;4IKM;4IRL;4JBZ;4JKM;4KEG;4KHZ;4KI0;4KV3;4KYC;4KYD;4KYE;4LOG;4MBP;4N4X;4NDZ;4NUF;4O2X;4OGM;4PE2;4PQK;4QSZ;4QVH;4R0Y;4RG5;4RWF;4RWG;4TSM;4WJV;4WMS;4WMT;4WMU;4WMV;4WMW;4WMX;4WRN;4WTH;4WVH;4XA2;4XAJ;4XHS;4XR8;4XZS;4XZV;5AQ9;5AZ6;5AZ7;5AZ8;5AZ9;5AZA;5B3W;5B3X;5B3Y;5B3Z;5BK1;5BK2;5C7R;5CBN;5CFV;5DFM;5DIS;5E24;5E7U;5EDU;5FIO;5FSG;5GRU;5GS2;5GXT;5GXV;5H7N;5H7Q;5HZ7;5HZV;5HZW;5I04;5I69;5IHJ;5II5;5IIC;5IQZ;5JJ4;5JST;5JTQ;5JTR;5LDF;5M13;5M14;5M15;5MM3;5OSQ;5T03;5T05;5T0A;5TTD;5VAW;5WPZ;5WQ6;5Y2G;5YGP;5YGS;5Z0R;5Z0V;5ZCA;5ZNY;5ZNZ;5ZR0;6APX;6CXS;6D65;6D66;6D67;6DM8;6EQZ;6HD8;6HD9;6HDA;6HDB;6HDC;6I4Y;6K7D;6K7E;6K7F;6KEA;6KI0;6KXG;6LES;6LF3;6M4V;6M4W;6N84;6NDJ;6OB5;6P6W;6QUG;6QYK;6QYL;6QYN;6QYO;6QZ7;6SIV;6SJA;6SLM;6SMV;6SWR;6TZC;6USM;6V2E;6VLS;6WBH;6WBJ;6WGZ;6X91;6XDS;6XRX;6YBJ;6YBK;6YBL;6YSN;6ZHO;7B01;7BG0;7BXT;7BY0;7CY4;7CY5;7CY6;7CY7;7CY8;7DD9;7DDE;7E29;7JHG;7JHH;7JIJ;7JTR;7K48;7KD4;7MN5;7MN6;7MN8;7MQ6;7MQ7;7NZM;7O2W;7P1G;7P1H;7TSZ;7TT0;7TT1;7TT2;7TT3;7TT4;7TT5;7TT6;7TT7;7VGQ;7VH1; |
 |
Function | Part of the ABC transporter complex MalEFGK involved in maltose/maltodextrin import. Binds maltose and higher maltodextrins such as maltotriose. |
Activity data
 |
Interaction ID | 282 |
| Target type | Protein | |
| Target unique ID | P0AEX9 | |
| Activity | 86 nM | |
| Binding Conditions/Buffer | 20 mM Tris-HCl, 100 mM NaCl, 5 mM MgCl2, and 0.1% bovine serum albumin with 10µg/mL yeast tRNA and 10µg/mL salmon sperm DNA |
|
| Assay | Isolated aptamers specifically recognize target proteins in Western blot. Purified proteins and E. coli cell lysates are separated on SDS-PAGE, stained with Coomassie Brilliant Blue (left) and probed with Cy5.5-labeled corresponding aptamers (right). The dissociation constants of aptamer M1 toward their cognate target proteins are determined to be in the nanomolar range by dot blot |
|
| PubMed ID | 33195056 |
Similar aptamers
| Aptamer ID | Aptamer chemistry | Sequence | Similarity |
|---|---|---|---|
| Apta_932 | DNA | ATACGACTCACTATTAGGGATGTCCACCATATAGATCGATTTAAGTCCCTCGTTATTAATGCTAGACTACTGACTACAA | |
| Apta_944 | DNA | ATACGACTCACTATTAGGGACAAAGCTGACAACCCTTTCATAATCTAACTACATTTATGTGCTAGACTACTGACTAC | |
| Apta_812 | DNA | ATAGGAGTCACGACGACCAGAATAGAGATATGACAGCGGGGAAGGTTAAGAGGCGCTAGGAGTATGTGCGTCTACCTCTTGACTAAT | |
| Apta_78 | DNA | ATCTCGACTAGTCATAGGGGGCGCGAACATACGCGGTTGGTGTGGTTGGCTGACAATACTCGT | |
| Apta_811 | DNA | ATAGGAGTCACGACGACCAGAATCTAAAAATGGGCAAAGAAACAGTGACTCGTTGAGATACTTATGTGCGTCTACCTCTTGACTAAT | |
| Apta_883 | DNA | CGTACCGGCCAGTGATTACGACGAGACGAGCTTATGCGTATTGATGCCTAACTATCTACA | |
| Apta_980 | DNA | AACGAGCACGCTTTGTGTACAGCCACTAAATAAGGTATGTAGTCAGCACCCTCGTAAC | |
| Apta_727 | DNA | ATACCAGCTTATTCAATTAGTCACACTTAGAGTTCTAACTGCTGCGCCGCCGGGAAAATACTGTACGGTTAGATAGTAAGTGCAATCT | |
| Apta_550 | DNA | GGTAATACGACTCACTATAGGGAGATACCAGCTTATTCAATTTTACAGAACAACCAACGTCGCTCCGGGTACTTCTTCATCGAGATAGTAAGTGCAATCT | |
| Apta_1103 | DNA | TACGACTCACTATAGGGATCCACCTATGGCAGATTGAGCCCAAGGGCTGTGCAGCGAATTCCCTTTAGTGAGGGTT | |
| Apta_1105 | DNA | TACGACTCACTATAGGGATCCAATGGCACAGCGCCTGGAACGTACTCTGTACCTGGAATTCCCTTTAGTGAGGGTT | |
| Apta_79 | DNA | ATCTCGAGTCATAGGGGGCGCGAACATACGCGGTTGGTGTGGTTGGCTGACTCGT | |
| Apta_954 | DNA | ATACGGGAGCCAACACCAGGACTAACATTATAAGAATTGCGAATAATCATTGGAGAGCAGGTGTGACGGAT | |
| Apta_992 | DNA | TCACTGACAGTAGGCCCATACGCACATTCAACAATCGGTAGTCCATACAACCGCGCCCCGTG | |
| Apta_999 | DNA | ATAGGAGTCGACCGACCAGAGGACCCCGCTATCTAATTTATAGGCAATAAGTGCGTCTACATCTAGACTC | |
| Apta_1000 | DNA | ATAGGAGTCGACCGACCAGAACCGTTCCCATACTTCTCCAGCGATACTTAGTGCGTCTACATCTAGACTC | |
| Apta_1004 | DNA | ATAGGAGTCGACCGACCAGACCCGACCTCTCTTTCACTGTGACACAATGGTGCGTCTACATCTAGACTC | |
| Apta_1007 | DNA | ATAGGAGTCGACCGACCAGACCCGACCTCTCTTTCATGTGACACAATGGTGCGTCTACATCTAGACTC | |
| Apta_1008 | DNA | ATAGGAGTCGACCGACCAGACCATTCCCACGCCAAGACCAATTTTCCCTGTGCGTCTACATCTAGACTC | |
| Apta_1102 | DNA | TACGACTCACTATAGGGATCCGTGACTGTACGGGCTCAGTCGTTACTTGAGAGTTGAATTCCCTTTAGTGAGGGTT |
DEV TOOL
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