AptaDB: Result

Interaction ID: 401

Aptamer sequence: AATCCACGTATCGACTAGCTCAAACCAGCCTGATAGAGCCATTCGCTTTA

Target unique ID: P44514

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_395	clone 7	Protein	DAPE_HAEIN	70 nM	165 ug (5 nmol) purified truncated His-tagged PE immobilized on Ni-NTA agarose (Qiagen) in 1.6 mL PBSM (PBS with 1 mM MgCl2)	24682699

Aptamer Sequence:	AATCCACGTATCGACTAGCTCAAACCAGCCTGATAGAGCCATTCGCTTTA
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_395	Description	clone 7
Aptamer chemistry	DNA	Length	50 nt
GC content	46.0%	Molecular weight	15,257.83 Da
Molarity of 1 μg/μl solution	65.54 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Targeted binding
Sequence	AATCCACGTATCGACTAGCTCAAACCAGCCTGATAGAGCCATTCGCTTTA
Applications	Inhibited the interaction of PE with vitronectin

Type	Detail	Type	Detail
Uniprot ID	P44514	Protein name	Succinyl-diaminopimelate desuccinylase (SDAP desuccinylase) (EC 3.5.1.18) (N-succinyl-LL-2,6-diaminoheptanedioate amidohydrolase)
Gene name(s)	dapE HI_0102	Organism	Succinyl-diaminopimelate desuccinylase (SDAP desuccinylase) (EC 3.5.1.18) (N-succinyl-LL-2,6-diaminoheptanedioate amidohydrolase)
Status	reviewed in uniprot database	Length	377
Mass	41,353	Activity regulation	Competitively inhibited by L,L-DAP, D,L-DAP, 2-carboxyethylphosphonic acid (CEPA) and 5-mercaptopentanoic acid (MSPA)
Involvement in disease	N/A	Catalytic activity	Reaction=H2O + N-succinyl-(2S,6S)-2,6-diaminoheptanedioate = (2S,6S)-2,6-diaminoheptanedioate + succinate
PDB ID(s)	3IC1;3ISZ;4H2K;5VO3;
Function	Catalyzes the hydrolysis of N-succinyl-L,L-diaminopimelic acid (SDAP), forming succinate and LL-2,6-diaminoheptanedioate (DAP).

No relevant experimental diagram	Interaction ID	401
	Target type	Protein
	Target unique ID	P44514
	Activity	70 nM
	Binding Conditions/Buffer	165 ug (5 nmol) purified truncated His-tagged PE immobilized on Ni-NTA agarose (Qiagen) in 1.6 mL PBSM (PBS with 1 mM MgCl2)
	Assay	N/A
	PubMed ID	24682699

Aptamer ID	Aptamer chemistry	Sequence	Similarity
Apta_445	DNA	AGCCATGACGATGTCGTTACGTAGATGTAGAGACTCCTAA	56.00%
Apta_993	DNA	AATCCGACCACGAGAGCAGACCGACCACAGCATTATCTAAACCCATTAGTCTAGTCCTGG	55.00%
Apta_1264	DNA	CAACGATCGTACCACAGTACCCACCCACCAGCCCCAACATCATGCCCATGCGTCGGTGTG	55.00%
Apta_1172	DNA	GACGCCACTGACTACCCCAGTATCTCTTCAACGCGTATTGAAGTCAGTCGGTCGTCA	54.39%
Apta_989	DNA	ATGCGGGTACATCTCTCCAACCAGTCAAACTGCTATGATAAGACCTCATTCAACCCCGGTA	54.10%
Apta_49	DNA	CTTCCATGTTGAGGCGTTTATACCAGTTATCATCGGACTA	54.00%
Apta_160	DNA	CGGTGCAGTGGATACATGCCAGCCGTAGCCATCGTGGATA	54.00%
Apta_166	DNA	ATCGCGCTCTCCTGCTTAAGCAGCTATCAAATAGCCCACT	54.00%
Apta_438	DNA	AGCCATGACGATGTCGTTACGTAGATGCAGAGACTCCTAA	54.00%
Apta_439	DNA	TAACACTCGATTCTCCTAGCCCGCTAGAAATTCCCCTCCC	54.00%
Apta_438	DNA	AGCCATGACGATGTCGTTACGTAGATGCAGAGACTCCTAA	54.00%
Apta_444	DNA	AGCCATTACGATGTCGTTACGTAGATGCAGAGACTCCTAA	54.00%
Apta_446	DNA	AGCCATGACGATGTCGTTACGTAGATGCATAGACTCCTAA	54.00%
Apta_730	DNA	ACCAAACACAGATGCAACCTGACTTCTAACGTCATTTGGTG	54.00%
Apta_850	DNA	CACCAGTGTGTTGAGGTTTGAGCACACTGATAGAGTGTCA	54.00%
Apta_946	DNA	TACCGGGTAATATGCACACATGCTGATAGCAAGCAATGCA	54.00%
Apta_1059	DNA	TCGTGACGCCGTGCAGTTACCGATACGAGCCTCGTTTTG	54.00%
Apta_614	DNA	AATCGCATTACCTTATACCAGCTTATTCAATTACGTCTGCACATACCAGCTTATTCAATT	53.33%
Apta_221	DNA	GTCCTAGCAGACACTCGGCCATCACGCCCATTGGTTTGCA	52.00%
Apta_222	DNA	AGCGACTGACGATCTTGAGTAAACCGCTCATCCACGTAGT	52.00%

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