Overview Specifications Names and Identifiers Documentation Advanced Data Taxonomic Classification 3D Structure Associated Targets(Human) Associated Targets(non-human) Mechanisms of Action Certificates（CoA,COO,BSE/TSE and Analysis Chart) Chemical and Physical Properties Documents & Articles Citations of This Product References Solution Calculators Reviews

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Why this grade

≥95% for sensitive chromatographic and analytical workflows requiring minimal baseline interference.

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Storage & shipping

Store at -20°C,Argon charged Ships Ice chest + Ice pads Check lot-specific COA for exact specifications.

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Quality documents

SDS, COA, datasheet, and spec sheet available for download. Lot-specific COA accessible via lot number lookup.

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Literature proof

Cited in 33 peer-reviewed publications across chromatography, organic synthesis, and cross-coupling reactions.

Overview

Bafilomycin A1 is a potent and selective inhibitor of V-ATPase (vacuolar-type (v-type) H+ ATPase) and belongs to a class of membrane ATPase inhibitors. The compound can inhibit E1E2 ATPases from sarcoplasmic reticulum, Escherichia coli, and ox brain versus F1F0 ATPases found in bacteria and mitochondria. Some of the more bafilomycin A1 affected ATPases include Neurospora and plant vacuoles, as well as chromaffin granules. Additionally, Bafilomycin A1 prevents lysosomal cholesterol trafficking in macrophages and can be used to distinguish different types of ATPases. Research shows that Bafilomycin A1 can inhibit macroautophagy and promote apoptosis in colon cancer cells.
A macrolide antibiotic and potent and selective inhibitor of vacuolar-type (v-type) H+ ATPase

Specifications

Synonyms

MFCD06795130 | (3Z, 5E, 7R, 8S, 9S, 11E, 13E, 15S, 16R)-8-Hydroxy-16-[(1S, 2R, 3S)-2-hydroxy-1-methyl-3-[(2R, 4R, 5S, 6R)-tetrahydro-2, 4-dihydroxy-5-methyl-6-(1-methylethyl)-2H-pyran-2-yl]butyl]-3, 15-dimethoxy-5, 7, 9, 11-tetramethyloxacyclohexadeca-3, 5, 11, 13-tetraen-2-o

Specifications & Purity

≥95%

Biochemical and Physiological Mechanisms

A specific inhibitor of vacuolar type H+-ATPase (V-ATPase) in animal cells, plant cells and microorganisms.Highly potent, selective vacuolar (V)-ATPase inhibitor (IC 50 = 500 pM in chromaffin granule membranes). Induces vacuolar deacidification and promot

Storage

Store at -20°C, Argon charged

Shipped In

Ice chest + Ice pads

This product requires cold chain shipping. Ground and other economy services are not available.

Note

This product is supplied in one (or more) pack size which is freeze dried. Therefore the contents may not be readily visible, as they can coat the bottom or walls of the vial. Please see our FAQs and information page for more details on handling. Wherever possible, you should prepare and use solutions on the same day. However, if you need to make up stock solutions in advance, we recommend that you store the solution as aliquots in tightly sealed vials at -20°C. Generally, these will be useable for up to one month. Before use, and prior to opening the vial we recommend that you allow your product to equilibrate to room temperature for at least 1 hour. Need more advice on solubility, usage and handling? Please visit our frequently asked questions (FAQ) page for more details.

Purity

≥95%

Names and Identifiers

Pubchem Sid	504764163
Pubchem Sid Url	https://pubchem.ncbi.nlm.nih.gov/substance/504764163
Canonical Smiles	CC1CC(=CC=CC(C(OC(=O)C(=CC(=CC(C1O)C)C)OC)C(C)C(C(C)C2(CC(C(C(O2)C(C)C)C)O)O)O)OC)C
IUPAC Name	(3Z,5E,7R,8S,9S,11E,13E,15S,16R)-16-[(2S,3R,4S)-4-[(2R,4R,5S,6R)-2,4-dihydroxy-5-methyl-6-propan-2-yloxan-2-yl]-3-hydroxypentan-2-yl]-8-hydroxy-3,15-dimethoxy-5,7,9,11-tetramethyl-1-oxacyclohexadeca-3,5,11,13-tetraen-2-one
InChIKey	XDHNQDDQEHDUTM-JQWOJBOSSA-N
INCHI	1S/C35H58O9/c1-19(2)32-24(7)27(36)18-35(40,44-32)26(9)31(38)25(8)33-28(41-10)14-12-13-20(3)15-22(5)30(37)23(6)16-21(4)17-29(42-11)34(39)43-33/h12-14,16-17,19,22-28,30-33,36-38,40H,15,18H2,1-11H3/b14-12+,20-13+,21-16+,29-17-/t22-,23+,24-,25-,26-,27+,28-,30-,31+,32+,33+,35+/m0/s1
Isomeric SMILES	C[C@H]1C/C(=C/C=C/[C@@H]([C@H](OC(=O)/C(=C/C(=C/[C@H]([C@H]1O)C)/C)/OC)[C@@H](C)[C@H]([C@H](C)[C@]2(C[C@H]([C@@H]([C@H](O2)C(C)C)C)O)O)O)OC)/C
WGK Germany	3
Molecular Weight	622.83
Beilstein	4730700
Reaxy-Rn	28187964
Reaxys-RN_link_address	https://www.reaxys.com/reaxys/secured/hopinto.do?context=S&query=IDE.XRN=28187964&ln=

Documentation

📋 Safety Data Sheet (SDS)

Comprehensive hazard, handling, storage, and regulatory compliance document.

Download SDS →

✅ Certificate of Analysis (COA)

Lot-specific quality data. Enter your lot number to retrieve the exact COA.

Look up COA →

📊 Datasheet

Quick-reference summary of product specifications and applications.

View datasheet →

🔬 Specification Sheet

Full quality attributes and acceptance criteria for this grade.

View spec sheet →

Advanced Data

Taxonomic Classification

Taxonomy Tree

Kingdom Organic compounds
- Superclass Phenylpropanoids and polyketides
  - Class Macrolides and analogues

Kingdom	Organic compounds
Superclass	Phenylpropanoids and polyketides
Class	Macrolides and analogues
Subclass	Not available
Intermediate Tree Nodes	Not available
Direct Parent	Macrolides and analogues
Alternative Parents	Oxanes Enoate esters Secondary alcohols Lactones Hemiacetals Oxacyclic compounds Monocarboxylic acids and derivatives Dialkyl ethers Organic oxides Hydrocarbon derivatives Carbonyl compounds
Molecular Framework	Aliphatic heteromonocyclic compounds
Substituents	Macrolide - Oxane - Alpha,beta-unsaturated carboxylic ester - Enoate ester - Carboxylic acid ester - Hemiacetal - Lactone - Secondary alcohol - Carboxylic acid derivative - Dialkyl ether - Ether - Oxacycle - Monocarboxylic acid or derivatives - Organoheterocyclic compound - Carbonyl group - Organic oxide - Hydrocarbon derivative - Alcohol - Organic oxygen compound - Organooxygen compound - Aliphatic heteromonocyclic compound
Description	This compound belongs to the class of organic compounds known as macrolides and analogues. These are organic compounds containing a lactone ring of at least twelve members.
External Descriptors	macrolide antibiotic - cyclic hemiketal - oxanes
1. Djoumbou Feunang Y, Eisner R, Knox C, Chepelev L, Hastings J, Owen G, Fahy E, Steinbeck C, Subramanian S, Bolton E, Greiner R, and Wishart DS. ClassyFire: Automated Chemical Classification With A Comprehensive, Computable Taxonomy. Journal of Cheminformatics, 2016, 8:61. DOI: 10.1186/s13321-016-0174-y

3D Structure

Associated Targets(Human)

ATP6AP1 Tchem V-type proton ATPase subunit S1 (1 Activities)

Discover Target: ATP6AP1

Activity Type	Activity Value -log(M)	Mechanism of Action	Activity Reference	Publications (PubMed IDs)

P2RX3 Tclin P2X purinoceptor 3 (1 Activities)

Discover Target: P2RX3

Activity Type	Activity Value -log(M)	Mechanism of Action	Activity Reference	Publications (PubMed IDs)

ELANE Tclin Leukocyte elastase (8173 Activities)

Discover Target: ELANE

Activity Type	Relation	Activity value	Units	Action Type	Journal	PubMed Id	doi	Assay Aladdin ID

ADORA3 Tchem Adenosine A3 receptor (15931 Activities)

Discover Target: ADORA3

Activity Type	Relation	Activity value	Units	Action Type	Journal	PubMed Id	doi	Assay Aladdin ID

CTSB Tchem Cathepsin B (3822 Activities)

Discover Target: CTSB

Activity Type	Relation	Activity value	Units	Action Type	Journal	PubMed Id	doi	Assay Aladdin ID

ATP6AP1 Tchem Vacuolar ATP synthase subunit S1 (39 Activities)

Discover Target: ATP6AP1

Activity Type	Relation	Activity value	Units	Action Type	Journal	PubMed Id	doi	Assay Aladdin ID

BGC-823 (3035 Activities)

Lot Number	Certificate Type	Date	Item
J2510014	Certificate of Analysis	Oct 23, 2025	B101389
G2115132	Certificate of Analysis	Apr 03, 2025	B101389
G2115133	Certificate of Analysis	Apr 03, 2025	B101389
E2614019	Certificate of Analysis	Oct 11, 2022	B101389
I2419038	Certificate of Analysis	Oct 11, 2022	B101389
K2230658	Certificate of Analysis	Oct 11, 2022	B101389
K2230698	Certificate of Analysis	Oct 11, 2022	B101389
I2419049	Certificate of Analysis	Mar 20, 2021	B101389

Solubility	Soluble in methanol, ethanol (0.1 mg/ml), DMSO (0.1 mg/ml), acetone, and chloroform. Insoluble in water.,
Sensitivity	Light & Heat sensitive
Molecular Weight	622.800 g/mol
XLogP3	6.000
Hydrogen Bond Donor Count	4
Hydrogen Bond Acceptor Count	9
Rotatable Bond Count	7
Exact Mass	622.408 Da
Monoisotopic Mass	622.408 Da
Topological Polar Surface Area	135.000 Å²
Heavy Atom Count	44
Formal Charge	0
Complexity	1060.000
Isotope Atom Count	0
Defined Atom Stereocenter Count	12
Undefined Atom Stereocenter Count	0
Defined Bond Stereocenter Count	4
Undefined Bond Stereocenter Count	0
The total count of all stereochemical bonds	4
Covalently-Bonded Unit Count	1

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2. Yaru Zou, Wei Gao, Huizhen Jin, Chenmei Mao, Yi Zhang, Xiaoling Wang, Dong Mei, Libo Zhao. (2023) Cellular Uptake and Transport Mechanism of 6-Mercaptopurine Nanomedicines for Enhanced Oral Bioavailability. International Journal of Nanomedicine, [PMID:36636639] [10.2147/IJN.S394819]
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Bafilomycin A1 - ≥95% , CAS No.88899-55-2