AptaDB: Result

Interaction ID: 440

Aptamer sequence: ACACGACGGGAATACTGACTCTCCCCCATGT

Target unique ID: Q05655

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_434	PB9	Protein	KPCD_HUMAN	122 nM	N/A	17028752

Aptamer Sequence:	ACACGACGGGAATACTGACTCTCCCCCATGT
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_434	Description	PB9
Aptamer chemistry	DNA	Length	31 nt
GC content	54.8%	Molecular weight	9,425.09 Da
Molarity of 1 μg/μl solution	106.10 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Targeted binding
Sequence	ACACGACGGGAATACTGACTCTCCCCCATGT
Applications	Apply fluorescently labelled probes to study the spatiotemporal dynamics and activation of individual endo genous PKC isoforms during various cell signalling processes

Type	Detail	Type	Detail
Uniprot ID	Q05655	Protein name	Protein kinase C delta type (EC 2.7.11.13) (Tyrosine-protein kinase PRKCD) (EC 2.7.10.2) (nPKC-delta) [Cleaved into: Protein kinase C delta type regulatory subunit; Protein kinase C delta type catalytic subunit (Sphingosine-dependent protein kinase-1) (SDK1)]
Gene name(s)	PRKCD PKCD	Organism	Protein kinase C delta type (EC 2.7.11.13) (Tyrosine-protein kinase PRKCD) (EC 2.7.10.2) (nPKC-delta) [Cleaved into: Protein kinase C delta type regulatory subunit; Protein kinase C delta type catalytic subunit (Sphingosine-dependent protein kinase-1) (SDK1)]
Status	reviewed in uniprot database	Length	676
Mass	77,505	Activity regulation	Novel PKCs (PRKCD, PRKCE, PRKCH and PRKCQ) are calcium-insensitive, but activated by diacylglycerol (DAG) and phosphatidylserine
Involvement in disease	Autoimmune lymphoproliferative syndrome 3 (ALPS3)	Catalytic activity	Reaction=ATP + L-seryl-[protein] = ADP + H(+) + O-phospho-L-seryl-[protein]
PDB ID(s)	1YRK;2YUU;
Function	Calcium-independent, phospholipid- and diacylglycerol (DAG)-dependent serine/threonine-protein kinase that plays contrasting roles in cell death and cell survival by functioning as a pro-apoptotic protein during DNA damage-induced apoptosis.

	Interaction ID	440
	Target type	Protein
	Target unique ID	Q05655
	Activity	122 nM
	Binding Conditions/Buffer	N/A
	Assay	Anisotropy changes of 59-TMR labelled PB9 upon addition of PKCδ
	PubMed ID	17028752

Aptamer ID	Aptamer chemistry	Sequence	Similarity
Apta_222	DNA	AGCGACTGACGATCTTGAGTAAACCGCTCATCCACGTAGT	55.00%
Apta_1063	DNA	AACTTATCGGAGCGTGATTTCCGTCTCGCCGCTTTCCTTT	55.00%
Apta_674	DNA	GCACGATGGGGAAAGGGTCCCCCTGGGTTG	54.84%
Apta_730	DNA	ACCAAACACAGATGCAACCTGACTTCTAACGTCATTTGGTG	53.66%
Apta_391	DNA	ACCGTGGAGGATAGTTCGGTGGCTGTTCAGGGTCTCCTCCACGGT	53.33%
Apta_286	DNA	TACTCCGTCACTTTAGTGGATATAACAACCTCCCTATGGG	52.50%
Apta_290	DNA	GAACTCACCGGGAAGAAGCCCGTTCCGTCACAGACATGTT	52.50%
Apta_339	DNA	CACAGGCTACGGCACGTAGAGCATCACCATGATCCTGTGT	52.50%
Apta_385	DNA	ACAGATACGGAACTACAGAGGTCAATTACGGTGGCCACGC	52.50%
Apta_729	DNA	AACACCGTGGAGGATAGTTCGGTGGCTGTTCAGGGTCTCCTCCCGGTG	52.08%
Apta_185	DNA	ACCAAGGCTTTAGGTCTGAGATCTCCCAAT	51.61%
Apta_206	DNA	AGGAAGGGGTCTGAGATCTCGGAAT	51.61%
Apta_251	DNA	GCCCTACATTCTGTGCGACTCCCCCCCCCGC	51.61%
Apta_1146	DNA	GGGACAGGGAGTGCGCTGCTCCCC	51.61%
Apta_1203	DNA	CCCTGCGGGGCTACCCGATATGTGTCCGAGTGGTG	51.43%
Apta_1204	DNA	GGCACGATGTGGCTACATCGATCGCGGTACTGGTG	51.43%
Apta_1204	DNA	GGCACGATGTGGCTACATCGATCGCGGTACTGGTG	51.43%
Apta_158	DNA	CACAGGCTACGGCACGTAGAGCATCACCATGATCCTGTG	51.28%
Apta_639	DNA	CTAAGCACAGGGAAACCAGCTAATGAGTTAGGCCTGTCCCCCACG	51.11%
Apta_847	DNA	CACTAGGATCTAGGGAAAAATCTCGTAAATACTATACTCCTGAGC	51.11%

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