AptaDB: Result

Interaction ID: 137

Aptamer sequence: CGUGUCGUCCUGGUACGAUUUGGUAUAUAACCGUGGCUUUUCGACA

Target unique ID: P01730

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_136	7	Protein	CD4_HUMAN	0.5 nM	1 ml PBS containing 2 mM MgCl2	9705498

Aptamer Sequence:	CGUGUCGUCCUGGUACGAUUUGGUAUAUAACCGUGGCUUUUCGACA
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

Type	Detail	Type	Detail
Aptamer ID	Apta_136	Description	7
Aptamer chemistry	RNA	Length	46 nt
GC content	47.8%	Molecular weight	14,904.56 Da
Molarity of 1 μg/μl solution	67.09 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Targeted binding
Sequence	CGUGUCGUCCUGGUACGAUUUGGUAUAUAACCGUGGCUUUUCGACA
Applications	Stained CD4+ T cells in a preparation of human peripheral blood mononuclear cells

Type	Detail	Type	Detail
Uniprot ID	P01730	Protein name	T-cell surface glycoprotein CD4 (T-cell surface antigen T4/Leu-3) (CD antigen CD4)
Gene name(s)	CD4	Organism	T-cell surface glycoprotein CD4 (T-cell surface antigen T4/Leu-3) (CD antigen CD4)
Status	reviewed in uniprot database	Length	458
Mass	51,111	Activity regulation	N/A
Involvement in disease	Immunodeficiency 79 (IMD79)	Catalytic activity	N/A
PDB ID(s)	1CDH;1CDI;1CDJ;1CDU;1CDY;1G9M;1G9N;1GC1;1JL4;1Q68;1RZJ;1RZK;1WBR;1WIO;1WIP;1WIQ;2B4C;2JKR;2JKT;2KLU;2NXY;2NXZ;2NY0;2NY1;2NY2;2NY3;2NY4;2NY5;2NY6;2QAD;3B71;3CD4;3J70;3JCB;3JCC;3JWD;3JWO;3LQA;3O2D;3S4S;3S5L;3T0E;4H8W;4JM2;4P9H;4Q6I;4R2G;4R4H;4RQS;5A7X;5A8H;5CAY;5THR;5U1F;5VN3;6CM3;6EDU;6L1Y;6MEO;6MET;6OPN;6OPO;6OPP;6OPQ;6QH6;6QH7;6U0L;6U0N;6URI;6X5B;6X5C;7T0O;7T0R;
Function	Integral membrane glycoprotein that plays an essential role in the immune response and serves multiple functions in responses against both external and internal offenses.

	Interaction ID	137
	Target type	Protein
	Target unique ID	P01730
	Activity	0.5 nM
	Binding Conditions/Buffer	1 ml PBS containing 2 mM MgCl2
	Assay	Binding analysis of a representative aptamer from each of the four classes. Biotinylated RNA aptamer sequences complexed to SA-PE were incubated with CD4 presented on L200 beads and then analyzed by flow cytometry. The mean fluoresence of beads was plotted against the concentration of Aptamer:SA-PE complex
	PubMed ID	9705498

Aptamer ID	Aptamer chemistry	Sequence	Similarity
Apta_603	RNA	CUUGUCUGAACAAUUUCGUCUGCCUUUGCGUUCCGACGGC	56.52%
Apta_97	RNA	UUGUCGUCUUCUCCAGUUAGUCAACGAACUUGUGU	52.17%
Apta_859	RNA	GGGAGUCUGAAGUCGGACUUGUUAUCAAUUCACUUCAGACU	52.17%
Apta_80	RNA	GCAAUGGUACGGUACUUCCUUUGGAAGAUAGCUGGAGAACUAACCAAAAGUGCACGCUACUUUGCUAA	51.47%
Apta_388	RNA	GCGGAAGCGUGCUGGGCUAGAAUAAUAAUAAGAAAACCAGUACUUUCGU	51.02%
Apta_271	RNA	CUGUCGAGCAUGCUCAGGGUAACGUAUAGUCAAGACACCUCAAGUGUAACU	50.98%
Apta_1142	RNA	ACGAGUCACACGUUGAUGACUGGAUGGUAGUUAAAGAGGGUGGGGCAACAA	50.98%
Apta_1143	RNA	ACGAGUUGUCGCAUGUGCGGUUCAGUCUGGUCCUUCAGCACCGUACAACAA	50.98%
Apta_1144	RNA	ACGAGUCUGGUCCUUCCUCCCUAAUUGCUGUUGAGGUAUCGGCUACAACAA	50.98%
Apta_2	RNA	GGGCUUCUCUGGUUAGACCAGAUUUGAGCCUGGGAGCUCUCUGGCUAACUAGGGAACCC	50.85%
Apta_93	RNA	CUCCGCUAUCUAACGUAUGAUAGAAUGGAUGACUA	50.00%
Apta_98	RNA	CGAUGCGGUCUCAUGCGUCGAGUGUGAGUUUACCUUCG	50.00%
Apta_172	RNA	GGAGACAUCCCUCUUGUUGGUGGUGCCGUGUGGAUGUCUC	50.00%
Apta_379	RNA	UACGACACGAUUGGGACGUGUCUAUGGGAC	50.00%
Apta_560	RNA	GGAAGAGAUGGCGACUAAAACGACUUGUCGC	50.00%
Apta_130	RNA	GGGAGGACGAUGCGGUGGUAGCGCGAUAUAGCGCUGGUAGGGUUGCCGGUGAUCAGACGACUCGCCCGA	49.28%
Apta_270	RNA	CUGUCGAACAUGCUGAGGGUAACGUACUGGCAAGCUCACCUCAGCGUAGCUAa	49.06%
Apta_1288	RNA	GGCGCACUGGCGCUGCGCCUUCGGGCGCCAAUCGUAGCGUGUCGGCGCC	48.98%
Apta_1123	RNA	AUUCGGGCCCAGGAACCAACUAUAUAAAUGUCCCGAAUGCUUCGACG	48.94%
Apta_268	RNA	CUUAUAGGGGAGGCUGUGGUGAGGGAAUAUUAAGAGAAUUAACGGUCUAGUUCACCUCGA	48.33%

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