MiMeDB: Showing metabocard for Acinetobactin (MMDBc0018759)

Record Information

Version

2.0

Status

Detected and Quantified

Creation Date

2021-05-15 08:55:55 UTC

Update Date

2025-10-07 16:06:53 UTC

Metabolite ID

MMDBc0018759

Metabolite Identification

Common Name

Acinetobactin

Description

Acinetobactin is a catecholate siderophore produced by Acinetobacter baumannii, classified as a small organic molecule. Its chemical structure features a complex arrangement that enables efficient iron chelation, critical for the bacterium's survival in iron-limited environments. Acinetobactin plays a significant role in various biological pathways, particularly in iron acquisition, which is essential for metabolic processes such as respiration and DNA synthesis. The expression of acinetobactin-related genes is modulated in response to environmental cues, as evidenced by studies showing upregulation during iron scarcity and downregulation when iron levels are sufficient (PMID:41005503 ). Additionally, transcriptomic analyses indicate that acinetobactin synthesis is influenced by factors such as nitrogen availability and serum exposure, which can alter the expression of iron uptake genes (PMID:40950600 ). The biosynthetic pathway of acinetobactin involves specific genes responsible for its synthesis and transport, highlighting its importance in the bacterium's virulence and adaptability (PMID:40689617 ). Furthermore, structural studies of the acinetobactin biosynthetic adenylation domain reveal insights into substrate selectivity, underscoring the intricate chemistry underlying its function (PMID:40096888 ).

Structure

MOL SDF PDB SMILES InChI


  Mrv1533004191518422D          

 25 27  0  0  0  0            999 V2000
    0.3743   -5.3007    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2388   -4.7486    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0458   -4.9202    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4583   -4.2057    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9063   -3.5926    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1526   -3.9282    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.5619   -3.5157    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.5619   -2.6907    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.2763   -3.9282    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.2763   -4.7532    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.9908   -3.5157    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.7053   -3.9282    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4197   -3.5157    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5060   -2.6952    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.3130   -2.5237    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    4.7255   -3.2381    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.1734   -3.8512    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2788   -4.1195    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7637   -4.7869    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5842   -4.7007    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9198   -3.9470    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4348   -3.2795    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7704   -2.5259    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6144   -3.3658    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1294   -2.6983    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0  0  0  0
  2  3  1  0  0  0  0
  3  4  1  0  0  0  0
  4  5  2  0  0  0  0
  5  6  1  0  0  0  0
  2  6  1  0  0  0  0
  6  7  1  0  0  0  0
  7  8  2  0  0  0  0
  7  9  1  0  0  0  0
  9 10  1  0  0  0  0
  9 11  1  0  0  0  0
 11 12  1  0  0  0  0
 12 13  1  0  0  0  0
 13 14  2  0  0  0  0
 14 15  1  0  0  0  0
 15 16  1  0  0  0  0
 16 17  2  0  0  0  0
 13 17  1  0  0  0  0
  4 18  1  0  0  0  0
 18 19  2  0  0  0  0
 19 20  1  0  0  0  0
 20 21  2  0  0  0  0
 21 22  1  0  0  0  0
 22 23  1  0  0  0  0
 22 24  2  0  0  0  0
 18 24  1  0  0  0  0
 24 25  1  0  0  0  0
M  END
> <DATABASE_ID>
MMDBc0018759

> <DATABASE_NAME>
MIME

> <SMILES>
CC1OC(=NC1C(=O)N(O)CCC1=CNC=N1)C1=CC=CC(O)=C1O

> <INCHI_IDENTIFIER>
InChI=1S/C16H18N4O5/c1-9-13(16(23)20(24)6-5-10-7-17-8-18-10)19-15(25-9)11-3-2-4-12(21)14(11)22/h2-4,7-9,13,21-22,24H,5-6H2,1H3,(H,17,18)

> <INCHI_KEY>
FCWIGDCVHNNXFS-UHFFFAOYSA-N

> <FORMULA>
C16H18N4O5

> <MOLECULAR_WEIGHT>
346.343

> <EXACT_MASS>
346.127719696

> <JCHEM_ACCEPTOR_COUNT>
6

> <JCHEM_ATOM_COUNT>
43

> <JCHEM_AVERAGE_POLARIZABILITY>
34.90939210704866

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
4

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
2-(2,3-dihydroxyphenyl)-N-hydroxy-N-[2-(1H-imidazol-4-yl)ethyl]-5-methyl-4,5-dihydro-1,3-oxazole-4-carboxamide

> <ALOGPS_LOGP>
1.13

> <JCHEM_LOGP>
1.1451008784616028

> <ALOGPS_LOGS>
-2.82

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
3

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
9.18218898264815

> <JCHEM_PKA_STRONGEST_ACIDIC>
8.125384107305033

> <JCHEM_PKA_STRONGEST_BASIC>
6.535659159930583

> <JCHEM_POLAR_SURFACE_AREA>
131.26999999999998

> <JCHEM_REFRACTIVITY>
87.7756

> <JCHEM_ROTATABLE_BOND_COUNT>
5

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
5.23e-01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
2-(2,3-dihydroxyphenyl)-N-hydroxy-N-[2-(1H-imidazol-4-yl)ethyl]-5-methyl-4,5-dihydro-1,3-oxazole-4-carboxamide

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 19-APR-15   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   19-APR-15         0                                  
HETATM    1  C   UNK     0       0.699  -9.895   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      -0.446  -8.864   0.000  0.00  0.00           C+0
HETATM    3  O   UNK     0      -1.952  -9.184   0.000  0.00  0.00           O+0
HETATM    4  C   UNK     0      -2.722  -7.851   0.000  0.00  0.00           C+0
HETATM    5  N   UNK     0      -1.692  -6.706   0.000  0.00  0.00           N+0
HETATM    6  C   UNK     0      -0.285  -7.333   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       1.049  -6.563   0.000  0.00  0.00           C+0
HETATM    8  O   UNK     0       1.049  -5.023   0.000  0.00  0.00           O+0
HETATM    9  N   UNK     0       2.382  -7.333   0.000  0.00  0.00           N+0
HETATM   10  O   UNK     0       2.382  -8.873   0.000  0.00  0.00           O+0
HETATM   11  C   UNK     0       3.716  -6.563   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       5.050  -7.333   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       6.384  -6.563   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       6.545  -5.031   0.000  0.00  0.00           C+0
HETATM   15  N   UNK     0       8.051  -4.711   0.000  0.00  0.00           N+0
HETATM   16  C   UNK     0       8.821  -6.044   0.000  0.00  0.00           C+0
HETATM   17  N   UNK     0       7.790  -7.189   0.000  0.00  0.00           N+0
HETATM   18  C   UNK     0      -4.254  -7.690   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0      -5.159  -8.936   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0      -6.691  -8.775   0.000  0.00  0.00           C+0
HETATM   21  C   UNK     0      -7.317  -7.368   0.000  0.00  0.00           C+0
HETATM   22  C   UNK     0      -6.412  -6.122   0.000  0.00  0.00           C+0
HETATM   23  O   UNK     0      -7.038  -4.715   0.000  0.00  0.00           O+0
HETATM   24  C   UNK     0      -4.880  -6.283   0.000  0.00  0.00           C+0
HETATM   25  O   UNK     0      -3.975  -5.037   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    1    3    6                                                  
CONECT    3    2    4                                                       
CONECT    4    3    5   18                                                  
CONECT    5    4    6                                                       
CONECT    6    5    2    7                                                  
CONECT    7    6    8    9                                                  
CONECT    8    7                                                            
CONECT    9    7   10   11                                                  
CONECT   10    9                                                            
CONECT   11    9   12                                                       
CONECT   12   11   13                                                       
CONECT   13   12   14   17                                                  
CONECT   14   13   15                                                       
CONECT   15   14   16                                                       
CONECT   16   15   17                                                       
CONECT   17   16   13                                                       
CONECT   18    4   19   24                                                  
CONECT   19   18   20                                                       
CONECT   20   19   21                                                       
CONECT   21   20   22                                                       
CONECT   22   21   23   24                                                  
CONECT   23   22                                                            
CONECT   24   22   18   25                                                  
CONECT   25   24                                                            
MASTER        0    0    0    0    0    0    0    0   25    0   54    0
END

Synonyms

Not Available

Molecular Formula

C₁₆H₁₈N₄O₅

Average Mass

346.343

Monoisotopic Mass

346.127719696

IUPAC Name

2-(2,3-dihydroxyphenyl)-N-hydroxy-N-[2-(1H-imidazol-4-yl)ethyl]-5-methyl-4,5-dihydro-1,3-oxazole-4-carboxamide

Traditional Name

2-(2,3-dihydroxyphenyl)-N-hydroxy-N-[2-(1H-imidazol-4-yl)ethyl]-5-methyl-4,5-dihydro-1,3-oxazole-4-carboxamide

CAS Registry Number

Not Available

SMILES

CC1OC(=NC1C(=O)N(O)CCC1=CNC=N1)C1=CC=CC(O)=C1O

InChI Identifier

InChI=1S/C16H18N4O5/c1-9-13(16(23)20(24)6-5-10-7-17-8-18-10)19-15(25-9)11-3-2-4-12(21)14(11)22/h2-4,7-9,13,21-22,24H,5-6H2,1H3,(H,17,18)

InChI Key

FCWIGDCVHNNXFS-UHFFFAOYSA-N

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as alpha amino acids and derivatives. These are amino acids in which the amino group is attached to the carbon atom immediately adjacent to the carboxylate group (alpha carbon), or a derivative thereof.

Kingdom

Organic compounds

Super Class

Organic acids and derivatives

Class

Carboxylic acids and derivatives

Sub Class

Amino acids, peptides, and analogues

Direct Parent

Alpha amino acids and derivatives

Alternative Parents

Substituents

Alpha-amino acid or derivatives
Catechol
1-hydroxy-4-unsubstituted benzenoid
1-hydroxy-2-unsubstituted benzenoid
Phenol
Monocyclic benzene moiety
Benzenoid
Azole
Heteroaromatic compound
Imidazole
Oxazoline
Hydroxamic acid
Oxacycle
Azacycle
Organoheterocyclic compound
Organic 1,3-dipolar compound
Propargyl-type 1,3-dipolar organic compound
Organonitrogen compound
Organic nitrogen compound
Hydrocarbon derivative
Organic oxide
Organooxygen compound
Organic oxygen compound
Organopnictogen compound
Carbonyl group
Aromatic heteromonocyclic compound

Molecular Framework

Aromatic heteromonocyclic compounds

External Descriptors

Not Available

Functional Ontology

Not Available

Physical Properties

State

Expected Solid

Predicted Properties

Property	Value	Source
Water Solubility	0.52 g/L	ALOGPS
logP	1.13	ALOGPS
logP	1.15	ChemAxon
logS	-2.8	ALOGPS
pKa (Strongest Acidic)	8.13	ChemAxon
pKa (Strongest Basic)	6.54	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	6	ChemAxon
Hydrogen Donor Count	4	ChemAxon
Polar Surface Area	131.27 Å²	ChemAxon
Rotatable Bond Count	5	ChemAxon
Refractivity	87.78 m³·mol⁻¹	ChemAxon
Polarizability	34.91 Å³	ChemAxon
Number of Rings	3	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	Yes	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	No	ChemAxon

Spectra

Not Available

Chromatographic Retention Times and Retention Indices

Retention Times

Chromatography Type	Technique	Column	Deposition Date	Retention Time (s)
Liquid Chromatography	HILIC	Waters Acquity UPLC-BEH Amide column (eluted)	2025-10-23	136.8
Liquid Chromatography	HILIC	Accucore 150 Amide HILIC (eluted)	2025-10-23	103.7
Liquid Chromatography	Reversed-phase	Hypersil Gold 1.9 µm C18 (eluted)	2025-10-23	296.3
Liquid Chromatography	Reversed-phase	Agilent Zorbax Eclipse Plus C18 (2.1 mm x 150 mm, 3.5 um) (eluted)	2025-10-23	407.2
Liquid Chromatography	Reversed-phase	XBridge C18 3.5u 2.1x50 mm (eluted)	2025-10-23	326.8
Liquid Chromatography	Reversed-phase	Ascentis Express C18 (eluted)	2025-10-23	191.4
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC HSS T3 C18 (eluted)	2025-10-23	729.8
Liquid Chromatography	HILIC	Merck SeQuant ZIC-HILIC (void)	2025-10-23	559.5
Liquid Chromatography	HILIC	Merck SeQuant ZIC-pHILIC (eluted)	2025-10-23	293.1
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC HSS T3 C18 (eluted)	2025-10-23	140.9
Liquid Chromatography	HILIC	Merck SeQuant ZIC-HILIC (eluted)	2025-10-23	280.8
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC HSS T3 C18 (eluted)	2025-10-23	142.5
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC BEH C18 (eluted)	2025-10-23	92.9
Liquid Chromatography	HILIC	Merck SeQuant ZIC-pHILIC column (eluted)	2025-10-23	187.6
Liquid Chromatography	HILIC	Merck SeQuant ZIC-pHILIC column (eluted)	2025-10-23	376.0
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC BEH C18 (eluted)	2025-10-23	58.3
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC BEH C18 (eluted)	2025-10-23	215.4
Liquid Chromatography	Reversed-phase	Kinetex Core-Shell C18 2.6 um, 3.0 x 100 mm, Phenomenex (eluted)	2025-10-23	1095.7
Liquid Chromatography	Reversed-phase	Waters Atlantis T3 (2.1 x 150 mm, 5 um) (eluted)	2025-10-23	654.1

Retention Indices

Chromatography Type	Peak Label	SMILES	Stationary Phase	Deposition Date	Retention Index
Gas Chromatography	Acinetobactin_TMS_1	CC1OC(C2=CC=CC(O[Si](C)(C)C)=C2O)=NC1C(=O)N(O)CCC1=C[NH]C=N1	standard non polar	2025-10-23	2024.76
Gas Chromatography	Acinetobactin_TMS_2	CC1OC(C2=CC=CC(O)=C2O[Si](C)(C)C)=NC1C(=O)N(O)CCC1=C[NH]C=N1	standard non polar	2025-10-23	2380.73
Gas Chromatography	Acinetobactin_TMS_3	CC1OC(C2=CC=CC(O)=C2O)=NC1C(=O)N(O)CCC1=CN([Si](C)(C)C)C=N1	standard non polar	2025-10-23	2275.87
Gas Chromatography	Acinetobactin_TMS_4	CC1OC(C2=CC=CC(O[Si](C)(C)C)=C2O[Si](C)(C)C)=NC1C(=O)N(O)CCC1=C[NH]C=N1	standard non polar	2025-10-23	1224.77
Gas Chromatography	Acinetobactin_TMS_5	CC1OC(C2=CC=CC(O[Si](C)(C)C)=C2O)=NC1C(=O)N(O)CCC1=CN([Si](C)(C)C)C=N1	standard non polar	2025-10-23	2654.16
Gas Chromatography	Acinetobactin_TMS_6	CC1OC(C2=CC=CC(O)=C2O[Si](C)(C)C)=NC1C(=O)N(O)CCC1=CN([Si](C)(C)C)C=N1	standard non polar	2025-10-23	2417.6
Gas Chromatography	Acinetobactin_TMS_7	CC1OC(C2=CC=CC(O[Si](C)(C)C)=C2O[Si](C)(C)C)=NC1C(=O)N(O)CCC1=CN([Si](C)(C)C)C=N1	standard non polar	2025-10-23	1570.43
Gas Chromatography	Acinetobactin_TMS_1	CC1OC(C2=CC=CC(O[Si](C)(C)C)=C2O)=NC1C(=O)N(O)CCC1=C[NH]C=N1	standard polar	2025-10-23	2076.18
Gas Chromatography	Acinetobactin_TMS_2	CC1OC(C2=CC=CC(O)=C2O[Si](C)(C)C)=NC1C(=O)N(O)CCC1=C[NH]C=N1	standard polar	2025-10-23	1846.46
Gas Chromatography	Acinetobactin_TMS_3	CC1OC(C2=CC=CC(O)=C2O)=NC1C(=O)N(O)CCC1=CN([Si](C)(C)C)C=N1	standard polar	2025-10-23	2386.61
Gas Chromatography	Acinetobactin_TMS_4	CC1OC(C2=CC=CC(O[Si](C)(C)C)=C2O[Si](C)(C)C)=NC1C(=O)N(O)CCC1=C[NH]C=N1	standard polar	2025-10-23	1510.92
Gas Chromatography	Acinetobactin_TMS_5	CC1OC(C2=CC=CC(O[Si](C)(C)C)=C2O)=NC1C(=O)N(O)CCC1=CN([Si](C)(C)C)C=N1	standard polar	2025-10-23	3063.13
Gas Chromatography	Acinetobactin_TMS_6	CC1OC(C2=CC=CC(O)=C2O[Si](C)(C)C)=NC1C(=O)N(O)CCC1=CN([Si](C)(C)C)C=N1	standard polar	2025-10-23	2761.6
Gas Chromatography	Acinetobactin_TMS_7	CC1OC(C2=CC=CC(O[Si](C)(C)C)=C2O[Si](C)(C)C)=NC1C(=O)N(O)CCC1=CN([Si](C)(C)C)C=N1	standard polar	2025-10-23	1647.45

Biological Properties

Cellular Locations

Not Available

Biospecimen Locations

Not Available

Tissue Locations

Not Available

Associated OMIM IDs

114500 (Colorectal cancer)
610247 (Eosinophilic esophagitis)

Human Proteins and Enzymes

Protein ID	Protein Name	Protein Type	Uniprot ID	Species

Human Pathways

Pathways

Name	SMPDB/PathBank

Microbial Pathways

Pathways

Not Available

Metabolic Reactions

Reactions

This table shows at most 20 reactions. For the full list of associated reactions:

See All Associated Reactions

Reaction ID	Precursor	Product	Enzyme	Reaction Type	Data Source	Reference

Health Effects and Bioactivity

Health Outcome/Bioactivity	Metabolite Response/Effect	Evidence Type	Host and Biospecimen	Data Source	Reference

Microbial Sources

Superkingdom/Kingdom	Phylum	Total species	Hosts and Body Sites	Microbial Links
Bacteria/Eubacteria	Proteobacteria	1	Human ; Human subgingival plaque	Metabolic reconstruction

Exposure Sources

Other Exposures

Source Type	Data Source	Reference

Host Biospecimen and Location

Host and Biospecimen	Status	Mean	Std	Min	Max	Units	Age	Sex	Health Condition	Data Source	Reference

External Links

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FooDB ID

Not Available

KNApSAcK ID

Not Available

Chemspider ID

Not Available

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

Not Available

PDB ID

Not Available

ChEBI ID

Not Available

Food Biomarker Ontology

Not Available

CMMC Knowledgebase

Not Available

General References

van Santen JA, Poynton EF, Iskakova D, McMann E, Alsup TA, Clark TN, Fergusson CH, Fewer DP, Hughes AH, McCadden CA, Parra J, Soldatou S, Rudolf JD, Janssen EM, Duncan KR, Linington RG: The Natural Products Atlas 2.0: a database of microbially-derived natural products. Nucleic Acids Res. 2022 Jan 7;50(D1):D1317-D1323. doi: 10.1093/nar/gkab941. [PubMed:34718710 ]

Showing metabocard for Acinetobactin (MMDBc0018759)

MOL for #<Metabolite:0x00007f8af12efeb8>

3D MOL for #<Metabolite:0x00007f8af12efeb8>

3D SDF for #<Metabolite:0x00007f8af12efeb8>

3D-SDF for #<Metabolite:0x00007f8af12efeb8>

PDB for #<Metabolite:0x00007f8af12efeb8>

3D PDB for #<Metabolite:0x00007f8af12efeb8>

SMILES for #<Metabolite:0x00007f8af12efeb8>

INCHI for #<Metabolite:0x00007f8af12efeb8>

Structure for #<Metabolite:0x00007f8af12efeb8>

3D Structure for #<Metabolite:0x00007f8af12efeb8>