Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 612
Aptamer sequence: ACTGAGGGCACGGACAGGAGGGGGAGAGATGGCGTGAGGT
Target unique ID: 5959
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_579 Clone 16 Molecule Chloramphenicol 1.16 μM 100 mM NaCl, 20 mM Tris-HCl, 2 mM MgCl2, 5 mM KCl, 1 mM CaCl2, 0.02 Tween 20, pH 7.6, r.t. 21839787
Structure information of aptamer
Aptamer Sequence: ACTGAGGGCACGGACAGGAGGGGGAGAGATGGCGTGAGGT
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_579 Description Clone 16
Aptamer chemistry DNA Length 40 nt
GC content 65.0% Molecular weight 12,646.11 Da
Molarity of 1 μg/μl solution 79.08 μM Number of G-quadruplexes 2
G-Score 21 Function Target detection
Sequence ACTGAGGGCACGGACAGGAGGGGGAGAGATGGCGTGAGGT
Applications Detection of chloramphenicol
Target information
Type Detail Type Detail
PubChem ID 5959 Molecular name Chloramphenicol
Molecular formula C11H12Cl2N2O5 Molecular weight 323.13
IUPAC name 2,2-dichloro-N-[(1R,2R)-1,3-dihydroxy-1-(4-nitrophenyl)propan-2-yl]acetamide InChIKey WIIZWVCIJKGZOK-RKDXNWHRSA-N
LogP 0.909 Topological polar surface area 112.7
Hydrogen bond acceptor 5 Hydrogen bond donor 3

Synonym(s):
chloramphenicol; 56-75-7; Chloromycetin; Chlornitromycin; Levomycetin; Halomycetin; Levomicetina; Chlorocid; Globenicol; Chloroamphenicol; Alficetyn; Chloramex; Chlorocol; Detreomycin; Oleomycetin; Fenicol; Amphenicol; Aquamycetin; Chloramficin; Chloramfilin; Cloramicol; D-Chloramphenicol; Enteromycetin; Juvamycetin; Leukomycin; Sificetina; Chloronitrin; Ciplamycetin; Detreomycine; Dextromycetin; Intramycetin; Laevomycetinum; Levomitsetin; Mediamycetine; Micochlorine; Novophenicol; Stanomycetin; Amphicol; Amseclor; Anacetin; Austracil; Austracol; Biocetin; Biophenicol; Chemicetin; Chemicetina; Chlomycol; Chloramsaar; Chlorasol; Chloricol; Chlorocaps; Chlorocide; Chloroptic; Chlorovules; Cidocetine; Cloramficin; Cloramidina; Clorocyn; Cloromisan; Clorosintex; Comycetin; Cylphenicol; Doctamicina; Econochlor; Embacetin; Erbaplast; Farmicetina; Hortfenicol; Isicetin; Ismicetina; Isophenicol; Kemicetina; Kemicetine; Leukomyan; Loromisin; Mastiphen; Medichol; Micloretin; Micoclorina; Microcetina; Novomycetin; Ophthochlor; Rivomycin; Ambofen; Catilan; Chlomin; Desphen; Emetren; Enicol; Ertilen; Glorous; Kamaver; Klorita; Mychel; Isopto fenicol; Chlora-tabs; Chlorocidin C; Chloramphenicolum; Chloroject L; Normimycin V; Chlorocid S; Klorocid S; Mychel-Vet; Chloramfenikol; Cloramfenicol; Novochlorocap; Sintomicetina; Synthomycetin; Chloromax; Oftalent; Otachron; Pantovernil; Pentamycetin; Quemicetina; Romphenil; Ronphenil; Septicol; Chloro-25 vetag; Mycinol; Opclor; Otophen; Paraxin; Sintomicetine R; Sno-Phenicol; Chlorocidin C tetran; Cloroamfenicolo; D-(-)-Chloramphenicol; Chloromycetny; Synthomycetine; Treomicetina; Tevcocin; Tifomycine; Unimycetin; Veticol; Viceton; Tiromycetin; Leukamycin; Loromisan; Tifomycin; D-(-)-threo-Chloramphenicol; Tega-Cetin; 2,2-dichloro-N-[(1R,2R)-1,3-dihydroxy-1-(4-nitrophenyl)propan-2-yl]acetamide; I 337A; U-6062; NCI-C55709; NSC 3069; D-threo-Chloramphenicol; 2,2-dichloro-N-[(1R,2R)-2-hydroxy-1-(hydroxymethyl)-2-(4-nitrophenyl)ethyl]acetamide; D(-)-threo-Chloramphenicol; D-(-)-threo-1-p-Nitrophenyl-2-dichloroacetylamino-1,3-propanediol; CAF; Cloramfen; Ak-chlor; UNII-66974FR9Q1; CHEBI:17698; NSC3069; D-(-)-2,2-Dichloro-N-(beta-hydroxy-alpha-(hydroxymethyl)-p-nitrophenylethyl)acetamide; D-(-)-threo-1-p-Nitrophenyl-2-dichloracetamido-1,3-propanediol; Chloramphenicol (Chloromycetin); Chlorofair; Cloramfenicolo; Syntomycin; Optomycin; D-(-)-threo-2-Dichloroacetamido-1-p-nitrophenyl-1,3-propanediol; D-(-)-threo-1-(4-Nitrophenyl)-2-dichloroacetamido-1,3-propanediol; D-threo-(1R,2R)-1-p-Nitrophenyl-2-dichloroacetamido-1,3-propanediol; NSC-3069; Chloramphenicol-[ring-3,5-3H]; MFCD00078159; Acetamide, 2,2-dichloro-N-(2-hydroxy-1-(hydroxymethyl)-2-(4-nitrophenyl)ethyl)-, (R-(R*,R*))-; Acetamide, 2,2-dichloro-N-[2-hydroxy-1-(hydroxymethyl)-2-(4-nitrophenyl)ethyl]-, [R-(R*,R*)]-; 66974FR9Q1; NCGC00091011-05; CAF (pharmaceutical); 125440-98-4; DSSTox_CID_265; Chloramfenikol [Czech]; Chloromycetny [Polish]; Cloramfenicolo [DCIT]; D-threo-N-(1,1'-Dihydroxy-1-p-nitrophenylisopropyl)dichloroacetamide; CAM; 2,2-Dichloro-N-((1R,2R)-1,3-dihydroxy-1-(4-nitrophenyl)propan-2-yl)acetamide; Chlorbiotic (Veterinary); Cloroamfenicolo [Italian]; DSSTox_RID_75473; Chloramphenicol crystalline; DSSTox_GSID_20265; Elase-Chloromycetin; Gloveticol; Mycochlorin; Ocuphenicol; Sintomicetin; Tyfomycine; Chlorocin; Halcetin; Levocin; Levoplast; Levosin; Levovetin; Myclocin; Soluthor; Chloramphenicol, d-; Chloroptic S.O.P.; Cloramfenicol [INN-Spanish]; Chloramphenicolum [INN-Latin]; Ophtochlor; Synthomycine; Tevcosin; Opelor; D(-)-threo-2-Dichloroacetamido-1-p-nitrophenyl-1,3-propanediol; D-(-)-threo-2-Dichloroacetamido-1-(4-nitrophenyl)-1,3-propanediol; (-)-chloramphenicol; Econochlor (TN); Amphicol (TN); Ophthocort (Salt/Mix); SMR000471851; Chloromyxin (Salt/Mix); Chloromycetin (TN); CCRIS 3922; HSDB 3027; SR-01000761450; EINECS 200-287-4; Elase-Chloromycetin (Salt/Mix); BRN 2225532; chioramphenicol; Chloramphenicole; AI3-25003; Acetamide, 2,2-dichloro-N-((1R,2R)-2-hydroxy-1-(hydroxymethyl)-2-(4-nitrophenyl)ethyl)-; CAS-56-75-7; NCGC00094620-01; Thiamphenicol,(S); 2787-09-9; ACETAMIDE, 2,2-DICHLORO-N-[(1R,2R)-2-HYDROXY-1-(HYDROXYMETHYL)-2-(4-NITROPHENYL)ETHYL]-; D-(-)-threo-2,2-Dichloro-N-(.beta.-hydroxy-.alpha.-(hydroxymethyl))-p-nitrophenethylacetamide; D-(-)-threo-2,2-Dichloro-N-[.beta.-hydroxy-.alpha.-(hydroxymethyl)]-p-nitrophenethylacetamide; Chloramphenicol [USP:INN:BAN:JAN]; Chloramphenicol,(S); Prestwick3_000031; CHEMBL130; Epitope ID:114066; SCHEMBL16111; BSPBio_000121; WLN: WNR DYQY1QMVYGG; 4-13-00-02742 (Beilstein Handbook Reference); MLS001055372; MLS001066397; MLS001332385; MLS001332386; MLS002222155; BIDD:GT0145; DivK1c_000544; BPBio1_000135; D-(-)-threo-1-(p-Nitrophenyl)-2-(dichloroacetylamino)-1,3-propanediol; D-(-)-threo-N-Dichloroacetyl-1-p-nitrophenyl-2-amino-1,3-propanediol; DTXSID7020265; BDBM23447; Chloramphenicol, gamma-irradiated; GTPL10901; HMS501L06; KBio1_000544; NINDS_000544; Chloramphenicol (JP17/USP/INN); HMS2090M15; HMS2095G03; HMS2269N06; HMS3712G03; ZINC113382; Chloramphenicol, >=98% (HPLC); Acetamide, 2,2-dichloro-N-(.beta.-hydroxy-.alpha.-(hydroxymethyl)-p-nitrophenethyl)-, D-(-)-threo-; Acetamide, 2,2-dichloro-N-[.beta.-hydroxy-.alpha.-(hydroxymethyl)-p-nitrophenethyl]-, D-threo-(-)-; BCP12150; D-(-)-threo-2,2-Dichloro-N-(.beta.-hydroxy-.alpha.-(hydroxymethyl)-p-nitrophenyl-ethyl)acetamide; D-threo-N-Dichloroacetyl-1-p-nitrophenyl-2-amino-1,3-propanediol; HY-B0239; RKL10087; Tox21_111306; Tox21_400061; s1677; AKOS005111001; CCG-220031; DB00446; MCULE-7778960570; D-threo-(-)-2,2-Dichloro-N-(beta-hydroxy-alpha-(hydroxymethyl)-p-nitrophenethyl)acetamide; IDI1_000544; SMP1_000065; NCGC00091011-01; NCGC00091011-02; NCGC00091011-03; NCGC00091011-04; NCGC00091011-06; NCGC00091011-08; NCGC00091011-09; NCGC00091011-20; Acetamide, 2,2-dichloro-N-(2-hydroxy-1-(hydroxymethyl)-2-(4-nitrophenyl)ethyl)-, (theta-(theta,theta))-; Acetamide, 2,2-dichloro-N-(beta-hydroxy-alpha-(hydroxymethyl)-p-nitrophenethyl)-, D-(-)-threo-; AS-14683; M163; NCI60_002620; AB0015087; Chloramphenicol, puriss., 98.0-102.0%; AB00374860; Chloramphenicol, tested according to Ph.Eur.; SW198497-2; C-3307; C00918; Chloramphenicol 100 microg/mL in Ethyl acetate; D00104; AB00374860-13; AB00374860-14; AB00374860_15; Chloramphenicol, meets USP testing specifications; Q274515; Chloramphenicol, VETRANAL(TM), analytical standard; SR-01000761450-2; SR-01000761450-3; SR-01000761450-5; BRD-K08111712-001-02-7; BRD-K08111712-001-16-7; Chloramphenicol, Antibiotic for Culture Media Use Only; Chloramphenicol, BioReagent, suitable for plant cell culture; Chloramphenicol, certified reference material, TraceCERT(R); Chloramphenicol, British Pharmacopoeia (BP) Reference Standard; Chloramphenicol, European Pharmacopoeia (EP) Reference Standard; Chloramphenicol, United States Pharmacopeia (USP) Reference Standard; D-threo-1-(p-Nitrophenyl)-2-(dichloroacetylamino)-1,3-propanediol; 2,2-Dichloro-N-[(1R,2R)-1,3-dihydroxy-1-(4-nitrophenyl)-2-propyl]acetamide; Acetamide,2,2-dichloro-N-[(1R,2R)-2-hydroxy-1-(hydroxymethyl)-2-(4-nitrophenyl)ethyl]-; Acetamide,2-dichloro-N-[.beta.-hydroxy-.alpha.-(hydroxymethyl)-p-nitrophenethyl]; Chloramphenicol, Biotechnology Performance Certified, suitable for plant cell culture; D-(-)-2,2-Dichloro-N-(.beta.-hydroxy-.alpha.-(hydroxymethyl)-p-nitrophenyl-ethyl)acetamide; D-threo-2,2-Dichloro-N-[beta-hydroxy-alpha-(hydroxymethyl)-4-nitrophenethyl]acetamide; 2,2-Dichloro-N-(2-hydroxy-1-(hydroxymethyl)-2-(4-(hydroxy(oxido)amino)phenyl)ethyl)acetamide, (1R, 2R)-; Acetamide, 2,2-dichloro-N-(2-hydroxy-1-(hydroxymethyl)-2-(4-nitrophenyl)ethyl)-, (R*,R*)-(+-)-; Acetamide, 2,2-dichloro-N-[2-hydroxy-1-(hydroxymethyl)-2-(4- nitrophenyl)ethyl]-, [R-(R*,R*)]-; Acetamide,2-dichloro-N-[.beta.-hydroxy-.alpha.-(hydroxymethyl)-p-nitrophenethyl]-, D-threo-(-)-; Acetamide,2-dichloro-N-[.beta.-hydroxy-.alpha.-(hydroxymethyl)-p-nitrophenethyl]-,D-(-)-threo-; Acetamide,2-dichloro-N-[2-hydroxy-1-(hydroxymethyl)-2-(4-nitrophenyl)ethyl]-, [R-(R*,R*)]-; Chloramphenicol 10 microg/mL in Acetonitrile. Short expiry date due to chemical nature of component(s); D-(-)-threo-2,2-Dichloro-N-[beta-hydroxy-alpha-(hydroxymethyl)-beta-(4-nitrophenyl)ethyl]acetamide; D-(-)-threo-alpha, alpha-Dichloro-N-(beta-hydroxy-alpha-(hydroxymethyl)-p-nitrophenethyl)acetamide

Activity data
Interaction ID 612
Target type Molecule
Target unique ID 5959
Activity 1.16 μM
Binding Conditions/Buffer

100 mM NaCl, 20 mM Tris-HCl, 2 mM MgCl2, 5 mM KCl, 1 mM CaCl2, 0.02 Tween 20, pH 7.6, r.t.

Assay

Saturation curves and determination of dissociation constants (Kd) of the aptamers

PubMed ID 21839787
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_830 DNA GACGGTGGCAGGGAAAGGGGTCGGGCATATGGCGGAGGGG 62.50%
Apta_343 DNA AACAGAGGGACAAACGGGGGAAGATTTGACGTCGACGAC 60.00%
Apta_282 DNA ATCCATGGGGCGGAGATGAGGGGGAGGAGGGCGGGTACCCGGTTGAT 59.57%
Apta_149 DNA CCGTAGGTTCGGGGTCGGAGTGGTCCGGAAGATGGCGTGG 57.50%
Apta_681 DNA CCTGACGATCGGGTGTGGGTTGGCTTGAGG 57.50%
Apta_617 DNA CAATGGGGTCGGGCGGGCCGGGTGTCATGGTGGACGGAGATGGGACGTAGAGGGCGGT 56.90%
Apta_340 DNA TACTCAGGGCACTGCAAGCAATTGTGGTCCCAATGGGCTGAGTA 56.82%
Apta_940 DNA TGTGCGGGGGAGGGGAGTGGCGCTGTTGGTGCGGGTATAGCGCGTGGTGT 56.00%
Apta_484 DNA CAGGGAGGGACAGGGCGGGAATTTGTATGATGGTTCGTTTGCTCG 55.56%
Apta_9 DNA TGAGGGGGCGGCGGGGCCGGGCAGG 55.00%
Apta_20 DNA AGAGGGGGGGGTGGGGGTGGCCTGC 55.00%
Apta_30 DNA AGAGGGGGGGGTGGAGGGGGCTAGA 55.00%
Apta_46 DNA CGGGTGGGAGTTGTGGGGGGGGGTGGGAGGGTT 55.00%
Apta_148 DNA CCGTAGGTTCGGGGTCGGAGTGGTCCGGAAGGTGGCGTGG 55.00%
Apta_150 DNA CCGTAGGTTCGGGGCGGAGTGGTCCGGAAGGTGGCGTGG 55.00%
Apta_245 DNA ACAGGGGTGTGGGGACAGGGGTGTGGGG 55.00%
Apta_258 DNA CACTGCGGGGGTCTATACGTGAGGAAGAAGTGGGCAGGTC 55.00%
Apta_419 DNA ATCAGGGCTAAAGAGTGCAGAGTTACTTAG 55.00%
Apta_492 DNA GCGAGGTGTTCGAGAGTTAGGGGCGACATGACCAAACGTT 55.00%
Apta_498 DNA GAACTCATTGGCTGGAGGCGGCAGTACCGCTTGAGTT 55.00%