Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 610
Aptamer sequence: ACTTCAGTGAGTTGTCCCACGGTCGGCGAGTCGGTGGTAG
Target unique ID: 5959
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_577 Clone 7 Molecule Chloramphenicol 0.766 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: ACTTCAGTGAGTTGTCCCACGGTCGGCGAGTCGGTGGTAG
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_577 Description Clone 7
Aptamer chemistry DNA Length 40 nt
GC content 60.0% Molecular weight 12,399.93 Da
Molarity of 1 μg/μl solution 80.65 μM Number of G-quadruplexes 2
G-Score 17 Function Target detection
Sequence ACTTCAGTGAGTTGTCCCACGGTCGGCGAGTCGGTGGTAG
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 610
Target type Molecule
Target unique ID 5959
Activity 0.766 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_344 DNA CACTACAGAGGTTGCGTCTGTCCCACGTTGTCATGGGGGGTTGGCCTG 60.42%
Apta_478 DNA CTTCACTTTCGTGGACGGTGGCGTCGGGGCGGTTTGTATG 57.50%
Apta_692 DNA ACGTTGACGCTGGTGCCCGCTTGTGGTGCGAGTGTTGTGT 57.50%
Apta_1024 DNA GTCCAGGGTTCCAAGGTGCTTCGTGGAC 57.50%
Apta_1045 DNA GGTGCTCAGGGAACTGTCTGAGGGATCAGGCTTAAGCCTGTCGAGCAGTT 56.00%
Apta_65 DNA CTACCGTGGTAGGGAAGGTTGGAGTGTAG 55.00%
Apta_476 DNA CCTATCTTATTCGTTGCGGACTCCCCGGTCGGTATGTATG 55.00%
Apta_675 DNA ACTGTCCGTCGGGTTTAGGGTGGCGTTCGG 55.00%
Apta_1149 DNA ATCATGGTGGGTATCGGCACTCGTTGGTTGAT 55.00%
Apta_144 DNA GGTGCGGTTCGTGCGGTTGTAGTACTCGTGGCCGATAGAGGTAG 54.55%
Apta_1087 DNA CTTACGACTCAGGCATTTTGCCGGGTAACGAAGTTACTGTCGTAAG 54.35%
Apta_595 DNA AGCGAGGGCGGTGTCCAACAGCGGTTTTTTCACGAGGAGGTTGGCGGTGG 54.00%
Apta_942 DNA AGTGGGTAAGGTCTGGTGGATTGTGGACGGGGGGCGGGGCAGTGGCTTGA 54.00%
Apta_694 DNA ACTCACTATGGAAGAGATGGCGACATCTCTTCTCCGAGCCGGTCGAAATAGTGAGT 53.57%
Apta_223 DNA CATTGAGATAGCTAGTTGTAGCTGCGTCATAGGCTGGGTTGGGTCTAGTGGTTGGGTGTG 53.33%
Apta_1156 DNA TTCTGGTGTGGTAACTCATGTATCGGTCGTGGGGGTCGTGGCATT 53.33%
Apta_652 DNA CCTGCACCTCGTCCAGCATGCACACCGATGGCGGTCCTGGCAGGGGGTGTGCGTG 52.73%
Apta_62 DNA AGTCCGTGGTAGGGCAGGTTGGGGTGACT 52.50%
Apta_160 DNA CGGTGCAGTGGATACATGCCAGCCGTAGCCATCGTGGATA 52.50%
Apta_245 DNA ACAGGGGTGTGGGGACAGGGGTGTGGGG 52.50%