NP-MRD: Showing NP-Card for Pyracrimycin A (NP0021531)

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Record Information

Version

1.0

Created at

2021-01-06 06:49:30 UTC

Updated at

2021-07-15 17:36:36 UTC

NP-MRD ID

NP0021531

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Pyracrimycin A

Provided By

NPAtlas

Description

Pyracrimycin A is found in Streptomyces. It was first documented in 1971 (PMID: 5092784). Based on a literature review very few articles have been published on (2E)-3-(3,4-dihydro-2H-pyrrol-5-yl)prop-2-enimidic acid.

Structure

MOL 3D MOL SDF 3D SDF PDB SMILES InChI


  Mrv1652306242105163D          

 20 20  0  0  0  0            999 V2000
    3.7857    0.0611   -0.0098 N   0  0  0  0  0  0  0  0  0  0  0  0
    3.0675   -1.0747    0.4041 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7090   -2.0860    0.7671 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.6171   -1.0306    0.3943 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.9272    0.0306    0.0134 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5357    0.0498    0.0127 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3074   -0.9139    0.3645 N   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6925   -0.5825    0.2505 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.7262    0.6625   -0.6455 C   0  0  1  0  0  0  0  0  0  0  0  0
   -1.3442    1.2191   -0.4068 C   0  0  2  0  0  0  0  0  0  0  0  0
    4.1805    0.7144    0.6834 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.9183    0.2418   -1.0169 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.0829   -1.9142    0.7161 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.5066    0.8842   -0.2978 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3197   -1.3923   -0.1599 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1516   -0.2602    1.2149 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9183    0.3904   -1.6863 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4990    1.3745   -0.3112 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.8769    1.6392   -1.3123 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4231    1.9868    0.3746 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0  0  0  0
  2  3  2  0  0  0  0
  2  4  1  0  0  0  0
  4  5  2  0  0  0  0
  5  6  1  0  0  0  0
  6  7  2  0  0  0  0
  7  8  1  0  0  0  0
  8  9  1  0  0  0  0
  9 10  1  0  0  0  0
 10  6  1  0  0  0  0
  1 11  1  0  0  0  0
  1 12  1  0  0  0  0
  4 13  1  0  0  0  0
  5 14  1  0  0  0  0
  8 15  1  0  0  0  0
  8 16  1  0  0  0  0
  9 17  1  0  0  0  0
  9 18  1  0  0  0  0
 10 19  1  0  0  0  0
 10 20  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0021531

> <DATABASE_NAME>
NP-MRD

> <SMILES>
[H]N([H])C(=O)C(\[H])=C(/[H])C1=NC([H])([H])C([H])([H])C1([H])[H]

> <INCHI_IDENTIFIER>
InChI=1S/C7H10N2O/c8-7(10)4-3-6-2-1-5-9-6/h3-4H,1-2,5H2,(H2,8,10)/b4-3+

> <INCHI_KEY>
SJFPWBFXBOZGTB-ONEGZZNKSA-N

> <FORMULA>
C7H10N2O

> <MOLECULAR_WEIGHT>
138.17

> <EXACT_MASS>
138.07931295

> <JCHEM_ACCEPTOR_COUNT>
2

> <JCHEM_ATOM_COUNT>
20

> <JCHEM_AVERAGE_POLARIZABILITY>
14.90946065711912

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(2E)-3-(3,4-dihydro-2H-pyrrol-5-yl)prop-2-enamide

> <ALOGPS_LOGP>
0.33

> <JCHEM_LOGP>
-0.0548908793333335

> <ALOGPS_LOGS>
-1.66

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
1

> <JCHEM_PHYSIOLOGICAL_CHARGE>
1

> <JCHEM_PKA_STRONGEST_ACIDIC>
16.421790195591427

> <JCHEM_PKA_STRONGEST_BASIC>
7.130147276731861

> <JCHEM_POLAR_SURFACE_AREA>
55.45

> <JCHEM_REFRACTIVITY>
39.82939999999999

> <JCHEM_ROTATABLE_BOND_COUNT>
2

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
3.02e+00 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(2E)-3-(4,5-dihydro-3H-pyrrol-2-yl)prop-2-enamide

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 24-JUN-21   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   24-JUN-21         0                                  
HETATM    1  N   UNK     0       3.786   0.061  -0.010  0.00  0.00           N+0
HETATM    2  C   UNK     0       3.067  -1.075   0.404  0.00  0.00           C+0
HETATM    3  O   UNK     0       3.709  -2.086   0.767  0.00  0.00           O+0
HETATM    4  C   UNK     0       1.617  -1.031   0.394  0.00  0.00           C+0
HETATM    5  C   UNK     0       0.927   0.031   0.013  0.00  0.00           C+0
HETATM    6  C   UNK     0      -0.536   0.050   0.013  0.00  0.00           C+0
HETATM    7  N   UNK     0      -1.307  -0.914   0.365  0.00  0.00           N+0
HETATM    8  C   UNK     0      -2.692  -0.583   0.251  0.00  0.00           C+0
HETATM    9  C   UNK     0      -2.726   0.663  -0.646  0.00  0.00           C+0
HETATM   10  C   UNK     0      -1.344   1.219  -0.407  0.00  0.00           C+0
HETATM   11  H   UNK     0       4.181   0.714   0.683  0.00  0.00           H+0
HETATM   12  H   UNK     0       3.918   0.242  -1.017  0.00  0.00           H+0
HETATM   13  H   UNK     0       1.083  -1.914   0.716  0.00  0.00           H+0
HETATM   14  H   UNK     0       1.507   0.884  -0.298  0.00  0.00           H+0
HETATM   15  H   UNK     0      -3.320  -1.392  -0.160  0.00  0.00           H+0
HETATM   16  H   UNK     0      -3.152  -0.260   1.215  0.00  0.00           H+0
HETATM   17  H   UNK     0      -2.918   0.390  -1.686  0.00  0.00           H+0
HETATM   18  H   UNK     0      -3.499   1.375  -0.311  0.00  0.00           H+0
HETATM   19  H   UNK     0      -0.877   1.639  -1.312  0.00  0.00           H+0
HETATM   20  H   UNK     0      -1.423   1.987   0.375  0.00  0.00           H+0
CONECT    1    2   11   12                                                  
CONECT    2    1    3    4                                                  
CONECT    3    2                                                            
CONECT    4    2    5   13                                                  
CONECT    5    4    6   14                                                  
CONECT    6    5    7   10                                                  
CONECT    7    6    8                                                       
CONECT    8    7    9   15   16                                             
CONECT    9    8   10   17   18                                             
CONECT   10    9    6   19   20                                             
CONECT   11    1                                                            
CONECT   12    1                                                            
CONECT   13    4                                                            
CONECT   14    5                                                            
CONECT   15    8                                                            
CONECT   16    8                                                            
CONECT   17    9                                                            
CONECT   18    9                                                            
CONECT   19   10                                                            
CONECT   20   10                                                            
MASTER        0    0    0    0    0    0    0    0   20    0   40    0
END

View in JSmol View NMR Assignments

Synonyms

Value	Source
(2E)-3-(3,4-Dihydro-2H-pyrrol-5-yl)prop-2-enimidate	Generator
Pyracrimycin a	MeSH
Desdanine	MeSH
Pyracrimycin a, (e)-isomer	MeSH
Pyracrimycin b	MeSH
trans 3-(1-Pyrrolin-2-yl)acrylamide	MeSH

Chemical Formula

C₇H₁₀N₂O

Average Mass

138.1700 Da

Monoisotopic Mass

138.07931 Da

IUPAC Name

(2E)-3-(3,4-dihydro-2H-pyrrol-5-yl)prop-2-enamide

Traditional Name

(2E)-3-(4,5-dihydro-3H-pyrrol-2-yl)prop-2-enamide

CAS Registry Number

Not Available

SMILES

NC(=O)\C=C\C1=NCCC1

InChI Identifier

InChI=1S/C7H10N2O/c8-7(10)4-3-6-2-1-5-9-6/h3-4H,1-2,5H2,(H2,8,10)/b4-3+

InChI Key

SJFPWBFXBOZGTB-ONEGZZNKSA-N

Experimental Spectra

Not Available

Predicted Spectra

Spectrum Type	Description	Depositor ID	Depositor Organization	Depositor	Deposition Date	View
1D NMR	¹³C NMR Spectrum (1D, 25 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 252 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 50 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 75 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 101 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 126 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 151 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 176 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 201 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 226 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum

Chemical Shift Submissions

Not Available

Species

Species of Origin

Species Name	Source	Reference
Streptomyces	NPAtlas	5092784

Species Where Detected

Species Name	Source	Reference
Streptomyces eridami n. sp. ATCC 21619	KNApSAcK Database	22123792

Chemical Taxonomy

Classification

Not classified

Physical Properties

State

Not Available

Experimental Properties

Property	Value	Reference
Melting Point	Not Available	Not Available
Boiling Point	Not Available	Not Available
Water Solubility	Not Available	Not Available
LogP	Not Available	Not Available

Predicted Properties

Property	Value	Source
logP	0.33	ALOGPS
logP	-0.055	ChemAxon
logS	-1.7	ALOGPS
pKa (Strongest Acidic)	16.42	ChemAxon
pKa (Strongest Basic)	7.13	ChemAxon
Physiological Charge	1	ChemAxon
Hydrogen Acceptor Count	2	ChemAxon
Hydrogen Donor Count	1	ChemAxon
Polar Surface Area	55.45 Å²	ChemAxon
Rotatable Bond Count	2	ChemAxon
Refractivity	39.83 m³·mol⁻¹	ChemAxon
Polarizability	14.91 Å³	ChemAxon
Number of Rings	1	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	No	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	No	ChemAxon

External Links

NPAtlas ID

NPA015224

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FoodDB ID

Not Available

KNApSAcK ID

C00018814

Chemspider ID

4520069

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

5368895

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Coronelli C, Vigevani A, Cavalleri B, Gallo GG: Structure determination of pyracrimycin A, a new antibiotic substance. J Antibiot (Tokyo). 1971 Aug;24(8):497-502. doi: 10.7164/antibiotics.24.497. [PubMed:5092784 ]

Showing NP-Card for Pyracrimycin A (NP0021531)

MOL for NP0021531 (Pyracrimycin A)

3D MOL for NP0021531 (Pyracrimycin A)

3D SDF for NP0021531 (Pyracrimycin A)

3D-SDF for NP0021531 (Pyracrimycin A)

PDB for NP0021531 (Pyracrimycin A)

3D PDB for NP0021531 (Pyracrimycin A)

SMILES for NP0021531 (Pyracrimycin A)

INCHI for NP0021531 (Pyracrimycin A)

Structure for NP0021531 (Pyracrimycin A)

3D Structure for NP0021531 (Pyracrimycin A)