NP-MRD: Showing NP-Card for 2-(Formamido)-N1-(5-phospho-D-ribosyl)acetamidine (NP0136920)

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Record Information

Version

2.0

Created at

2022-05-12 17:05:57 UTC

Updated at

2022-05-12 17:17:56 UTC

NP-MRD ID

NP0136920

Secondary Accession Numbers

None

Natural Product Identification

Common Name

2-(Formamido)-N1-(5-phospho-D-ribosyl)acetamidine

Description

2-(Formamido)-N1-(5-phospho-D-ribosyl)acetamidine, also known as 1-(5'-phosphoribosyl)-N-formylglycinamidine or FGAM, belongs to the class of organic compounds known as pentoses. These are monosaccharides in which the carbohydrate moiety contains five carbon atoms. 2-(Formamido)-N1-(5-phospho-D-ribosyl)acetamidine is a very strong basic compound (based on its pKa). 2-(Formamido)-N1-(5-phospho-D-ribosyl)acetamidine exists in all living species, ranging from bacteria to humans.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 30 30  0  0  0  0  0  0  0  0999 V2000
    4.9369   -0.7670    1.2012 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.0060   -0.6711    0.7871 N   0  0  0  0  0  0  0  0  0  0  0  0
    3.3460    0.1819    0.3638 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.5637    1.1929   -0.1379 N   0  0  0  0  0  0  0  0  0  0  0  0
    3.1768    2.5623   -0.1679 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.3283    2.6454    0.2653 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.1671   -1.0654    0.0699 N   0  0  0  0  0  0  0  0  0  0  0  0
    0.9329   -0.6590   -0.3026 C   0  0  2  0  0  0  0  0  0  0  0  0
    0.2263    0.2060    0.5239 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1038   -0.1612    0.4842 C   0  0  2  0  0  0  0  0  0  0  0  0
   -1.9139    0.3617    1.4323 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2079    1.1455    0.6331 P   0  0  2  0  0  5  0  0  0  0  0  0
   -2.8823    1.2434   -0.8578 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4399    2.6709    1.2519 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.5775    0.1737    0.8831 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0088   -1.7039    0.5692 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.1847   -2.3145    0.1906 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.0002   -1.8622   -0.5385 C   0  0  1  0  0  0  0  0  0  0  0  0
   -0.6722   -1.6593   -1.7170 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.6171    1.2385   -0.5226 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.6126    3.3688   -0.5459 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.6320   -1.9001    0.2288 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.8878   -0.1687   -1.3506 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4559    0.0141   -0.5652 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9257    3.3567    0.7127 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.1272    0.1753    0.0713 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6371   -2.0203    1.5497 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4734   -1.9153   -0.6884 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.5548   -2.8066   -0.4931 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3778   -0.8626   -2.2083 H   0  0  0  0  0  0  0  0  0  0  0  0
 19 18  1  0
 18 16  1  0
 16 17  1  0
 16 10  1  0
 10 11  1  0
 12 11  1  1
 12 14  1  0
 12 15  1  0
 12 13  2  0
 10  9  1  0
  9  8  1  0
  8  7  1  0
  7  3  1  0
  3  2  2  0
  3  4  1  0
  4  5  1  0
  5  6  2  0
  8 18  1  0
 19 30  1  0
 18 29  1  6
 16 27  1  1
 17 28  1  0
 10 24  1  6
 14 25  1  0
 15 26  1  0
  8 23  1  6
  7 22  1  0
  2  1  1  0
  4 20  1  0
  5 21  1  0
M  END


  Mrv0541 02231220332D          

 18 18  0  0  1  0            999 V2000
   19.1661  -12.5824    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   19.9198  -12.2468    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   19.4958  -14.7759    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
   19.9808  -15.4434    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
   19.4958  -16.1108    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
   18.7112  -15.8559    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   18.7112  -15.0309    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
   18.0437  -14.5460    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   18.1300  -13.7255    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   17.4625  -13.2406    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   18.8836  -13.3899    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   19.7507  -13.9913    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   20.8058  -15.4434    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   19.7507  -16.8954    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   18.6467  -18.1217    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   18.5856  -16.9565    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   19.8118  -18.0606    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   19.1987  -17.5085    0.0000 P   0  0  0  0  0  0  0  0  0  0  0  0
  2  1  2  0  0  0  0
  4  3  1  0  0  0  0
  5  4  1  0  0  0  0
  6  5  1  0  0  0  0
  7  6  1  0  0  0  0
  7  3  1  0  0  0  0
  7  8  1  1  0  0  0
  9  8  1  0  0  0  0
 10  9  2  0  0  0  0
 11  9  1  0  0  0  0
  1 11  1  0  0  0  0
  3 12  1  6  0  0  0
  4 13  1  6  0  0  0
  5 14  1  1  0  0  0
 17 18  1  0  0  0  0
 16 18  2  0  0  0  0
 15 18  1  0  0  0  0
 14 18  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0136920

> <DATABASE_NAME>
NP-MRD

> <SMILES>
O[C@@H]1[C@H](O)[C@@H](OP(O)(O)=O)O[C@H]1NC(=N)NC=O

> <INCHI_IDENTIFIER>
InChI=1S/C6H12N3O8P/c7-6(8-1-10)9-4-2(11)3(12)5(16-4)17-18(13,14)15/h1-5,11-12H,(H2,13,14,15)(H3,7,8,9,10)/t2-,3+,4-,5-/m1/s1

> <INCHI_KEY>
OKXISSDNJVDCJE-KKQCNMDGSA-N

> <FORMULA>
C6H12N3O8P

> <MOLECULAR_WEIGHT>
285.1485

> <EXACT_MASS>
285.036200887

> <JCHEM_ACCEPTOR_COUNT>
9

> <JCHEM_AVERAGE_POLARIZABILITY>
22.68962556497434

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
7

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
{[(2R,3S,4R,5R)-3,4-dihydroxy-5-[(formamidomethanimidoyl)amino]oxolan-2-yl]oxy}phosphonic acid

> <ALOGPS_LOGP>
-2.07

> <JCHEM_LOGP>
-3.117339851729372

> <ALOGPS_LOGS>
-1.57

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
1

> <JCHEM_PHYSIOLOGICAL_CHARGE>
-2

> <JCHEM_PKA>
6.265948157804224

> <JCHEM_PKA_STRONGEST_ACIDIC>
1.118556859786445

> <JCHEM_PKA_STRONGEST_BASIC>
5.258678507329495

> <JCHEM_POLAR_SURFACE_AREA>
181.42999999999998

> <JCHEM_REFRACTIVITY>
63.2266

> <JCHEM_ROTATABLE_BOND_COUNT>
3

> <JCHEM_RULE_OF_FIVE>
0

> <ALOGPS_SOLUBILITY>
7.66e+00 g/l

> <JCHEM_TRADITIONAL_IUPAC>
[(2R,3S,4R,5R)-3,4-dihydroxy-5-[(formamidomethanimidoyl)amino]oxolan-2-yl]oxyphosphonic acid

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 23-FEB-12   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   23-FEB-12         0                                  
HETATM    1  C   UNK     0      35.777 -23.487   0.000  0.00  0.00           C+0
HETATM    2  O   UNK     0      37.184 -22.861   0.000  0.00  0.00           O+0
HETATM    3  C   UNK     0      36.392 -27.582   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      37.297 -28.828   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0      36.392 -30.073   0.000  0.00  0.00           C+0
HETATM    6  O   UNK     0      34.928 -29.598   0.000  0.00  0.00           O+0
HETATM    7  C   UNK     0      34.928 -28.058   0.000  0.00  0.00           C+0
HETATM    8  N   UNK     0      33.682 -27.153   0.000  0.00  0.00           N+0
HETATM    9  C   UNK     0      33.843 -25.621   0.000  0.00  0.00           C+0
HETATM   10  N   UNK     0      32.597 -24.716   0.000  0.00  0.00           N+0
HETATM   11  N   UNK     0      35.249 -24.994   0.000  0.00  0.00           N+0
HETATM   12  O   UNK     0      36.868 -26.117   0.000  0.00  0.00           O+0
HETATM   13  O   UNK     0      38.837 -28.828   0.000  0.00  0.00           O+0
HETATM   14  O   UNK     0      36.868 -31.538   0.000  0.00  0.00           O+0
HETATM   15  O   UNK     0      34.807 -33.827   0.000  0.00  0.00           O+0
HETATM   16  O   UNK     0      34.693 -31.652   0.000  0.00  0.00           O+0
HETATM   17  O   UNK     0      36.982 -33.713   0.000  0.00  0.00           O+0
HETATM   18  P   UNK     0      35.838 -32.683   0.000  0.00  0.00           P+0
CONECT    1    2   11                                                       
CONECT    2    1                                                            
CONECT    3    4    7   12                                                  
CONECT    4    3    5   13                                                  
CONECT    5    4    6   14                                                  
CONECT    6    5    7                                                       
CONECT    7    6    3    8                                                  
CONECT    8    7    9                                                       
CONECT    9    8   10   11                                                  
CONECT   10    9                                                            
CONECT   11    9    1                                                       
CONECT   12    3                                                            
CONECT   13    4                                                            
CONECT   14    5   18                                                       
CONECT   15   18                                                            
CONECT   16   18                                                            
CONECT   17   18                                                            
CONECT   18   17   16   15   14                                             
MASTER        0    0    0    0    0    0    0    0   18    0   36    0
END

View in JSmol

Synonyms

Value	Source
1-(5'-Phosphoribosyl)-N-formylglycinamidine	HMDB
1-Deoxy-1-[2-(formamido)acetimidamido]-D-ribofuranose 5-(dihydrogen phosphate)	HMDB
2-(Formamido)-N(1)-(5'-phosphoribosyl)acetamidine	HMDB
2-(Formamido)-N(1)-(5-phospho-D-ribosyl)acetamidine	HMDB
2-(Formamido)-N1-(5'-phosphoribosyl)acetamidine	HMDB
5'-Phosphoribosyl-N-formylglycinamidine	HMDB
5'-Phosphoribosylformylglycinamidine	HMDB
FGAM	HMDB
N-[2-(Formamido)ethanimidoyl]-5-O-phosphono-D-ribofuranosylamine	HMDB
[(2R,3S,4R,5R)-5-[(1-Amino-2-formamido-ethylidene)amino]-3,4-dihydroxy-oxolan-2-yl]methoxyphosphonic acid	HMDB

Chemical Formula

C₆H₁₂N₃O₈P

Average Mass

285.1485 Da

Monoisotopic Mass

285.03620 Da

IUPAC Name

{[(2R,3S,4R,5R)-3,4-dihydroxy-5-[(formamidomethanimidoyl)amino]oxolan-2-yl]oxy}phosphonic acid

Traditional Name

[(2R,3S,4R,5R)-3,4-dihydroxy-5-[(formamidomethanimidoyl)amino]oxolan-2-yl]oxyphosphonic acid

CAS Registry Number

Not Available

SMILES

O[C@@H]1[C@H](O)[C@@H](OP(O)(O)=O)O[C@H]1NC(=N)NC=O

InChI Identifier

InChI=1S/C6H12N3O8P/c7-6(8-1-10)9-4-2(11)3(12)5(16-4)17-18(13,14)15/h1-5,11-12H,(H2,13,14,15)(H3,7,8,9,10)/t2-,3+,4-,5-/m1/s1

InChI Key

OKXISSDNJVDCJE-KKQCNMDGSA-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
Anas platyrhynchos	FooDB	FooDB
Anatidae	FooDB	FooDB
Anser anser	FooDB	FooDB
Bison bison	FooDB	FooDB
Bos taurus	FooDB	FooDB
Bos taurus X Bison bison	FooDB	FooDB
Bubalus bubalis	FooDB	FooDB
Capra aegagrus hircus	FooDB	FooDB
Cervidae	FooDB	FooDB
Cervus canadensis	FooDB	FooDB
Columba	FooDB	FooDB
Columbidae	FooDB	FooDB
Dromaius novaehollandiae	FooDB	FooDB
Equus caballus	FooDB	FooDB
Gallus gallus	FooDB	FooDB
Lagopus muta	FooDB	FooDB
Leporidae	FooDB	FooDB
Lepus timidus	FooDB	FooDB
Melanitta fusca	FooDB	FooDB
Meleagris gallopavo	FooDB	FooDB
Numida meleagris	FooDB	FooDB
Odocoileus	FooDB	FooDB
Oryctolagus	FooDB	FooDB
Ovis aries	FooDB	FooDB
Phasianidae	FooDB	FooDB
Phasianus colchicus	FooDB	FooDB
Struthio camelus	FooDB	FooDB
Sus scrofa	FooDB	FooDB
Sus scrofa domestica	FooDB	FooDB

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as pentoses. These are monosaccharides in which the carbohydrate moiety contains five carbon atoms.

Kingdom

Organic compounds

Super Class

Organic oxygen compounds

Class

Organooxygen compounds

Sub Class

Carbohydrates and carbohydrate conjugates

Direct Parent

Pentoses

Alternative Parents

Substituents

Pentose monosaccharide
Monoalkyl phosphate
Organic phosphoric acid derivative
Phosphoric acid ester
Alkyl phosphate
Tetrahydrofuran
1,2-diol
Guanidine
Secondary alcohol
Oxacycle
Carboximidamide
Carboxylic acid derivative
Organoheterocyclic compound
Propargyl-type 1,3-dipolar organic compound
Organic 1,3-dipolar compound
Hydrocarbon derivative
Organic oxide
Organopnictogen compound
Organonitrogen compound
Organic nitrogen compound
Alcohol
Carbonyl group
Aliphatic heteromonocyclic compound

Molecular Framework

Aliphatic heteromonocyclic compounds

External Descriptors

Not Available

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	-2.1	ALOGPS
logP	-3.1	ChemAxon
logS	-1.6	ALOGPS
pKa (Strongest Acidic)	1.12	ChemAxon
pKa (Strongest Basic)	5.26	ChemAxon
Physiological Charge	-2	ChemAxon
Hydrogen Acceptor Count	9	ChemAxon
Hydrogen Donor Count	7	ChemAxon
Polar Surface Area	181.43 Å²	ChemAxon
Rotatable Bond Count	3	ChemAxon
Refractivity	63.23 m³·mol⁻¹	ChemAxon
Polarizability	22.69 Å³	ChemAxon
Number of Rings	1	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	No	ChemAxon
Ghose Filter	No	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	No	ChemAxon