Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 154
Aptamer sequence: CCGTAGGTTCGGGGCGGAGTGGTCCGGAAGGTGGCGTGG
Target unique ID: P02879
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_150 C5 Protein RICI_RICCO 58 nM 20 mM HEPES pH 7.35, 120 mM NaCl, 5 mM KCl, 1 mM CaCl2,1 mM MgCl2 16518777
Structure information of aptamer
Aptamer Sequence: CCGTAGGTTCGGGGCGGAGTGGTCCGGAAGGTGGCGTGG
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_150 Description C5
Aptamer chemistry DNA Length 39 nt
GC content 71.8% Molecular weight 12,497.75 Da
Molarity of 1 μg/μl solution 80.01 μM Number of G-quadruplexes 2
G-Score 21 Function Targeted binding
Sequence CCGTAGGTTCGGGGCGGAGTGGTCCGGAAGGTGGCGTGG
Applications Specificity to ricin toxin
Target information
Type Detail Type Detail
Uniprot ID P02879 Protein name Ricin [Cleaved into: Ricin A chain (EC 3.2.2.22) (rRNA N-glycosidase); Ricin B chain]
Gene name(s) N/A Organism Ricin [Cleaved into: Ricin A chain (EC 3.2.2.22) (rRNA N-glycosidase); Ricin B chain]
Status reviewed in uniprot database Length 576
Mass 64,091 Activity regulation N/A
Involvement in disease N/A Catalytic activity Reaction=Endohydrolysis of the N-glycosidic bond at one specific adenosine on the 28S rRNA
PDB ID(s)
1BR5;1BR6;1IFS;1IFT;1IFU;1IL3;1IL4;1IL5;1IL9;1J1M;1OBS;1OBT;1RTC;1UQ4;1UQ5;2AAI;2P8N;2PJO;2R2X;2R3D;2VC3;2VC4;3EJ5;3HIO;3LC9;3MK9;3PX8;3PX9;3RTI;3RTJ;3SRP;4ESI;4HUO;4HUP;4HV3;4HV7;4IMV;4KUC;4LGP;4LGR;4LGS;4LHJ;4LHQ;4MX1;4MX5;4Q2V;4Z9K;5BOZ;5DDZ;5E1H;5GU4;5J56;5J57;5SV3;5U4L;5U4M;6CWG;6OBC;6OBE;6OBG;6OBM;6OBO;6OCA;6OCD;6URW;6URX;6URY;7KBI;7KBK;7KC9;7KD0;7KD2;7KDM;7KDU;7MLN;7MLO;7MLP;7MLT;
Function Ricin is highly toxic to animal cells, and to a lesser extent to plant cells.
Activity data

No relevant experimental diagram

 Interaction ID 154
Target type Protein
Target unique ID P02879
Activity 58 nM
Binding Conditions/Buffer

20 mM HEPES pH 7.35, 120 mM NaCl, 5 mM KCl, 1 mM CaCl2,1 mM MgCl2
Assay

N/A
PubMed ID 16518777
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_148 DNA CCGTAGGTTCGGGGTCGGAGTGGTCCGGAAGGTGGCGTGG
97.50%
Apta_149 DNA CCGTAGGTTCGGGGTCGGAGTGGTCCGGAAGATGGCGTGG
95.00%
Apta_565 DNA GCGGGGTTGGGCGGGTGGGTTCGCTGGGCAGGGGGCGAGTG 63.41%
Apta_1195 DNA GGGGTTGGGGGGAGGCGGGGAATGGGGG 61.54%
Apta_679 DNA CAGGTGGCAGATCGGGTGTGGGTGGCCTGG 58.97%
Apta_264 DNA GGCGTTGTCGGGCGCAGGTGTAGGCCTCGTGGTGGTGGGT 57.50%
Apta_693 DNA CGAGTTGAGCCGGGCGCGGTACGGGTACTGGTATGTGTGG 57.50%
Apta_831 DNA CCGCCCAGCGGGGGTAGGGCCGGACGTAGGAGGAGCTGCG 57.50%
Apta_1188 DNA CGGGCGGGGCGTGGGGTGTTGGAGTGGAGGGCGGGGCGGC 57.50%
Apta_1189 DNA GCGGGCGGGGGGAGGGCGGCCGTGGGCTGCGAGTGGGAGG 57.50%
Apta_13 DNA AGGGGGGGGGGAGGGGTCGGGGTGG 56.41%
Apta_15 DNA TGAGGGGGGGGGAGGGCGGGGCTGC 56.41%
Apta_20 DNA AGAGGGGGGGGTGGGGGTGGCCTGC 56.41%
Apta_124 DNA GGTGGTGGGGGGGGTTGGTAGGGTGTCTTC 56.41%
Apta_350 DNA GGTGGTGGTGGTTGTGGTGGTGGTGG 56.41%
Apta_682 DNA CCTTGTAGATCGGGTGTGGTTTGGCGTAGG 56.41%
Apta_683 DNA GCAGTACGATCGGGGGTGGGTGGATGTAGG 56.41%
Apta_595 DNA AGCGAGGGCGGTGTCCAACAGCGGTTTTTTCACGAGGAGGTTGGCGGTGG 56.00%
Apta_32 DNA CGGTAAACTGCGTCCGAAGGGGCTGCAGTGACCCGAATGGGTCCG 55.56%
Apta_748 DNA AGCTTGAGGGTGGGCGGGTGGACGCGGTAGTGGTATATAGGTCGG 55.56%

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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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