Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 654
Aptamer sequence: GGTGCGGGTAGGGATGAGGGCGGGTCGGGTTGAGTGTGAGCTTAGGGGtGGCGGATCTAC
Target unique ID: 11103
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_616 20 Molecule Hematoporphyrin 6.3 μM 100 mM Tris-acetate (pH 8.0), 200 mM sodium acetate, 50 mM potassium acetate, 25 mM magnesium acetate, 5% dioxane 11128644
Structure information of aptamer
Aptamer Sequence: GGTGCGGGTAGGGATGAGGGCGGGTCGGGTTGAGTGTGAGCTTAGGGGtGGCGGATCTAC
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_616 Description 20
Aptamer chemistry DNA Length 60 nt
GC content 65.0% Molecular weight 18,957.06 Da
Molarity of 1 μg/μl solution 52.75 μM Number of G-quadruplexes 3
G-Score 62 Function Targeted binding
Sequence GGTGCGGGTAGGGATGAGGGCGGGTCGGGTTGAGTGTGAGCTTAGGGGtGGCGGATCTAC
Applications Binding to fumonisin B1
Target information
Type Detail Type Detail
PubChem ID 11103 Molecular name Hematoporphyrin
Molecular formula C34H38N4O6 Molecular weight 598.7
IUPAC name 3-[18-(2-carboxyethyl)-8,13-bis(1-hydroxyethyl)-3,7,12,17-tetramethyl-22,23-dihydroporphyrin-2-yl]propanoic acid InChIKey KFKRXESVMDBTNQ-UHFFFAOYSA-N
LogP 6.629 Topological polar surface area 172.42
Hydrogen bond acceptor 6 Hydrogen bond donor 6

Synonym(s):
HEMATOPORPHYRIN; Haematoporphyrin; 14459-29-1; Hematoporphyrin IX; Photodyn; Hematoporphyrin I; NSC 59265; NSC59265; 3-[18-(2-carboxyethyl)-8,13-bis(1-hydroxyethyl)-3,7,12,17-tetramethyl-22,23-dihydroporphyrin-2-yl]propanoic acid; HP; NSC 267084; UNII-HBT6M5H379; 21H,23H-Porphine-2,18-dipropanoic acid, 7,12-bis(1-hydroxyethyl)-3,8,13,17-tetramethyl-; HBT6M5H379; CHEBI:36162; Hematoporphyrin_I; C34H38N4O6; MFCD00005077; NSC-59265; 7,12-Bis(1-hydroxyethyl)-3,8,13,17-tetramethyl-21H,23H-porphine-2,18-dipropanoic acid; NSC-267084; 1,3,5,8-Tetramethyl-2,4-bis(alpha-hydroxyethyl)prophine-6,7-dipropionic acid; 2,18-Porphinedipropionic acid, 7,12-bis(1-hydroxyethyl)-3,8,13,17-tetramethyl-; Hematoporphyrins; 7,12-Bis(1-hydroxyethyl)-3,8,13,17-tetramethyl-2,18-porphinedipropionic acid; 7,12-bis(1-hydroxyethyl)-3,8,13,17-tetramethylporphyrin-2,18-dipropanoic acid; HP (VAN); 2, 7,12-bis(1-hydroxyethyl)-3,8,13,17-tetramethyl-; Hamatoporphyrin; Hemoporfin; Photosan 3; 1,5,8-Tetramethyl-2,4-bis(.alpha.-hydroxyethyl)prophine-6,7-dipropionic acid; 21H,18-dipropanoic acid, 7,12-bis(1-hydroxyethyl)-3,8,13,17-tetramethyl-; WLN: T D5 I5 N5-16-5 A D- I- N- AM D-N I-M N-NJ EYQ F J K2VQ O2VQ TYQ U; HpIX; EINECS 238-450-7; HAEMAPORPHYRIN; BRN 0078957; Spectrum_001204; Spectrum2_000436; Spectrum3_001110; Spectrum4_001942; Spectrum5_000763; Hematoporphyrin IX (6CI); SCHEMBL15669; SCHEMBL15670; BSPBio_002820; KBioGR_002346; KBioSS_001684; SPBio_000452; CHEMBL317840; CHEMBL403729; SCHEMBL1649168; KBio2_001684; KBio2_004252; KBio2_006820; KBio3_002040; HY-B0754; 7129AA; NSC267084; 2,4-Bis(1-hydroxyethyl)-1,3,5,8-tetramethyl-5,7-porphindipropionsaeure; CCG-214649; MCULE-4681000542; SDCCGMLS-0066934.P001; VA11042; 7,12-Bis(1-hydroxyethyl)-2,8,13,17-tetramethyl-21H,23H-porphin-2,18-dipropionsaeure; NCGC00185009-01; NCGC00185009-02; AS-78345; FT-0626879; 48285-EP2289483A1; 48285-EP2289879A1; 48285-EP2295428A2; 48285-EP2311494A1; 118367-EP2275420A1; 118367-EP2298764A1; 118367-EP2298765A1; A808241; SR-05000002762; J-007971; SR-05000002762-1; 1,3,5,8-Tetramethyl-2,4-bis( -hydroxyethyl)porphine-6,7-dipropionate; 1,3,5,8-Tetramethyl-2,4-bis( -hydroxyethyl)porphine-6,7-dipropionic acid; 1,3,5,8-Tetramethyl-2,4-bis(a-hydroxyethyl)porphine-6,7-dipropionate; 1,3,5,8-Tetramethyl-2,4-bis(a-hydroxyethyl)porphine-6,7-dipropionic acid; 1,3,5,8-tetramethyl-2,4-bis(alpha-hydroxyethyl)prophine-6,7-dipropionate; 7,12-Bis(1-hydroxyethyl)-3,8,13,17-tetramethyl-2,18-porphinedipropionate; 1,3,5,8-Tetramethyl-2,4-bis(.alpha.-hydroxyethyl)prophine-6,7-dipropionic acid; 21H,23H-Porphine-2,18-dipropanoicacid, 7,12-bis(1-hydroxyethyl)-3,8,13,17-tetramethyl-; 8,13-Bis(1-hydroxyethyl)-3,7,12,17-tetramethyl-21H,23H-porphyrin-2,18-dipropionic acid; 136752-88-0; 2,18-Porphinedipropionic acid, 7,12-bis(1-hydroxyethyl)-3,8,13,17-tetramethyl- (VAN) (8CI); 3-[(1Z,4Z,9Z,15Z)-18-(2-carboxyethyl)-8,13-bis(1-hydroxyethyl)-3,7,12,17-tetramethyl-21,23-dihydroporphyrin-2-yl]propanoic acid

Activity data

No relevant experimental diagram

 Interaction ID 654
Target type Molecule
Target unique ID 11103
Activity 6.3 μM
Binding Conditions/Buffer

100 mM Tris-acetate (pH 8.0), 200 mM sodium acetate, 50 mM potassium acetate, 25 mM magnesium acetate, 5% dioxane
Assay

N/A
PubMed ID 11128644
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_565 DNA GCGGGGTTGGGCGGGTGGGTTCGCTGGGCAGGGGGCGAGTG 58.33%
Apta_940 DNA TGTGCGGGGGAGGGGAGTGGCGCTGTTGGTGCGGGTATAGCGCGTGGTGT 58.33%
Apta_1186 DNA AGGGGGTTTTGGTGGGGGGGGCTGGGTTGTCTTGGGGGTGGGCT 56.67%
Apta_708 DNA CGTACGGAATTCGCTAGCGGGCGGGGGTGCTGGGGGAATGGAGTGCTGCGTGCTGCGGGGATCCGAGCTCCACGTG 55.26%
Apta_263 DNA AGAGGGGAGGGTCGGGTATCGGCGTGTTCGGGGGATCTGC 55.00%
Apta_596 DNA GGTGGCTGTTGGTCGAGGCTTATTAGTGTAGTCAATGGAGGCAGGCGACG 55.00%
Apta_749 DNA GATCGGTGGGTGGGGGGGTTGGAGATCATCCTCAGGGATTACGTC 55.00%
Apta_879 DNA GGGGGGGTGAGACATCGGGCATGTTCATGGGTGGGGGGTA 55.00%
Apta_1082 DNA GGCTGGTCCGCTGGGAACAAGGGCGGGAGGGAGGGTGTGGGTGCGACAAGCGGACCAGCC 55.00%
Apta_1185 DNA CAGGGGGTTTTGGTGGGGGGGGCTGGGTTGTCTTGGGGGTGGGCT 55.00%
Apta_1188 DNA CGGGCGGGGCGTGGGGTGTTGGAGTGGAGGGCGGGGCGGC 55.00%
Apta_1175 DNA ATGAGAGCGTCGGTGTGGTATCCTACTCGTGATATCGGTGTTTATGGTGTCTGTCTTCATGTAGGAGGGTGCGGAAGTA 54.43%
Apta_77 DNA GGTGTGGGCGACATGGGGGTTGGTGGTGTAGGAGCGCCAT 53.33%
Apta_266 DNA TGGATGGTAGCTCGGTCGGGGTGGGTGGGTTGGCAAGTCT 53.33%
Apta_591 DNA CTCTCGGGACGACGGCTGGCACGTTTGGTTCAAGAATGTGGGTGTCGTCCC 53.33%
Apta_609 DNA GCTGCGAGGTGGGTGGGTGGGAGCAATTGGTCCTCGCTTAGCTTCTACGGTGGGCTATCT 53.33%
Apta_611 DNA GCTGCGAGGTGGGTGGGTGGGAGCAATTGGTCCTTGCTTAGCTTCTACGGTGGGCTATCT 53.33%
Apta_650 DNA GCACACCGATGGCGGTCCTGTTTAGGGGGTGTGCGTGGGGAGGTGCGGTTGC 53.33%
Apta_745 DNA GGTTGCATGCCGTGGGGAGGGGGGTGGGTTTTATAGCGTACTCAG 53.33%
Apta_750 DNA ATGCGAACAGGTGGGTGGGTTGGGTGGATTGTTCGGCTTCTTGAT 53.33%

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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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