NP-MRD: Showing NP-Card for Rancinamycin II (NP0023932)

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Record Information

Version

1.0

Created at

2021-01-06 08:57:17 UTC

Updated at

2021-07-15 17:43:05 UTC

NP-MRD ID

NP0023932

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Rancinamycin II

Provided By

NPAtlas

Description

Rancinamycin II is found in Streptomyces lincolnensis. It was first documented in 1976 (PMID: 993115). Based on a literature review very few articles have been published on Rancinamycin IIA.

Structure

MOL 3D MOL SDF 3D SDF PDB SMILES InChI


  Mrv1652306242121033D          

 36 36  0  0  0  0            999 V2000
    3.5718    1.5954   -0.6119 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.2614    0.6180    0.2454 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.7946   -0.7683    0.3484 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.4438   -1.0679    0.8584 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.3540   -0.6015   -0.0147 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4626   -0.1811   -1.1779 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.0181   -0.6085    0.4629 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0498   -0.1578   -0.3780 C   0  0  2  0  0  0  0  0  0  0  0  0
   -1.6508    1.0598    0.1767 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7705    2.2067    0.3985 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2360    3.2616    0.8677 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9109    1.1389    0.4671 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.8433    0.0430    0.2744 C   0  0  1  0  0  0  0  0  0  0  0  0
   -4.7087    0.3457   -0.7786 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2227   -1.3145    0.1287 C   0  0  2  0  0  0  0  0  0  0  0  0
   -3.0114   -1.9275    1.3640 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9505   -1.2921   -0.6747 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.2833   -1.3762   -2.0417 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.5023    1.3824   -1.6797 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.2537    2.5319   -0.6005 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.6307    1.9410   -0.1529 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.3717    1.0836    1.2728 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.3510    0.6096   -0.1035 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.5737   -1.3218    0.9678 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.9215   -1.2392   -0.6720 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.2925   -0.7137    1.9213 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.3612   -2.2012    0.9671 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6182    0.1661   -1.3811 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.2665    2.1439    0.1606 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3449    2.0679    0.8857 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.5040   -0.0111    1.1905 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.5828   -0.1032   -0.6147 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9429   -1.9525   -0.4254 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8273   -1.2765    2.0880 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4340   -2.2651   -0.4536 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5390   -1.8160   -2.4980 H   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  1  0  0  0  0
  5  6  2  0  0  0  0
  5  7  1  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 11  2  0  0  0  0
  9 12  2  0  0  0  0
 12 13  1  0  0  0  0
 13 14  1  0  0  0  0
 13 15  1  0  0  0  0
 15 16  1  0  0  0  0
 15 17  1  0  0  0  0
 17 18  1  0  0  0  0
 17  8  1  0  0  0  0
  1 19  1  0  0  0  0
  1 20  1  0  0  0  0
  1 21  1  0  0  0  0
  2 22  1  0  0  0  0
  2 23  1  0  0  0  0
  3 24  1  0  0  0  0
  3 25  1  0  0  0  0
  4 26  1  0  0  0  0
  4 27  1  0  0  0  0
  8 28  1  6  0  0  0
 10 29  1  0  0  0  0
 12 30  1  0  0  0  0
 13 31  1  1  0  0  0
 14 32  1  0  0  0  0
 15 33  1  6  0  0  0
 16 34  1  0  0  0  0
 17 35  1  1  0  0  0
 18 36  1  0  0  0  0
M  END

     RDKit          3D

 36 36  0  0  0  0  0  0  0  0999 V2000
    3.5718    1.5954   -0.6119 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.2614    0.6180    0.2454 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7946   -0.7683    0.3484 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4438   -1.0679    0.8584 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3540   -0.6015   -0.0147 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4626   -0.1811   -1.1779 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.0181   -0.6085    0.4629 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0498   -0.1578   -0.3780 C   0  0  2  0  0  0  0  0  0  0  0  0
   -1.6508    1.0598    0.1767 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7705    2.2067    0.3985 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2360    3.2616    0.8677 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9109    1.1389    0.4671 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.8433    0.0430    0.2744 C   0  0  1  0  0  0  0  0  0  0  0  0
   -4.7087    0.3457   -0.7786 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2227   -1.3145    0.1287 C   0  0  2  0  0  0  0  0  0  0  0  0
   -3.0114   -1.9275    1.3640 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9505   -1.2921   -0.6747 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.2833   -1.3762   -2.0417 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.5023    1.3824   -1.6797 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.2537    2.5319   -0.6005 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.6307    1.9410   -0.1529 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.3717    1.0836    1.2728 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.3510    0.6096   -0.1035 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.5737   -1.3218    0.9678 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.9215   -1.2392   -0.6720 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.2925   -0.7137    1.9213 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.3612   -2.2012    0.9671 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6182    0.1661   -1.3811 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.2665    2.1439    0.1606 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3449    2.0679    0.8857 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.5040   -0.0111    1.1905 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.5828   -0.1032   -0.6147 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9429   -1.9525   -0.4254 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8273   -1.2765    2.0880 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4340   -2.2651   -0.4536 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5390   -1.8160   -2.4980 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  3  4  1  0
  4  5  1  0
  5  6  2  0
  5  7  1  0
  7  8  1  0
  8  9  1  0
  9 10  1  0
 10 11  2  0
  9 12  2  0
 12 13  1  0
 13 14  1  0
 13 15  1  0
 15 16  1  0
 15 17  1  0
 17 18  1  0
 17  8  1  0
  1 19  1  0
  1 20  1  0
  1 21  1  0
  2 22  1  0
  2 23  1  0
  3 24  1  0
  3 25  1  0
  4 26  1  0
  4 27  1  0
  8 28  1  6
 10 29  1  0
 12 30  1  0
 13 31  1  1
 14 32  1  0
 15 33  1  6
 16 34  1  0
 17 35  1  1
 18 36  1  0
M  END


  Mrv1652306242121033D          

 36 36  0  0  0  0            999 V2000
    3.5718    1.5954   -0.6119 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.2614    0.6180    0.2454 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.7946   -0.7683    0.3484 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.4438   -1.0679    0.8584 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.3540   -0.6015   -0.0147 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4626   -0.1811   -1.1779 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.0181   -0.6085    0.4629 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0498   -0.1578   -0.3780 C   0  0  2  0  0  0  0  0  0  0  0  0
   -1.6508    1.0598    0.1767 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7705    2.2067    0.3985 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2360    3.2616    0.8677 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9109    1.1389    0.4671 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.8433    0.0430    0.2744 C   0  0  1  0  0  0  0  0  0  0  0  0
   -4.7087    0.3457   -0.7786 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2227   -1.3145    0.1287 C   0  0  2  0  0  0  0  0  0  0  0  0
   -3.0114   -1.9275    1.3640 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9505   -1.2921   -0.6747 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.2833   -1.3762   -2.0417 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.5023    1.3824   -1.6797 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.2537    2.5319   -0.6005 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.6307    1.9410   -0.1529 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.3717    1.0836    1.2728 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.3510    0.6096   -0.1035 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.5737   -1.3218    0.9678 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.9215   -1.2392   -0.6720 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.2925   -0.7137    1.9213 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.3612   -2.2012    0.9671 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6182    0.1661   -1.3811 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.2665    2.1439    0.1606 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3449    2.0679    0.8857 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.5040   -0.0111    1.1905 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.5828   -0.1032   -0.6147 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9429   -1.9525   -0.4254 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8273   -1.2765    2.0880 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4340   -2.2651   -0.4536 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5390   -1.8160   -2.4980 H   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  1  0  0  0  0
  5  6  2  0  0  0  0
  5  7  1  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 11  2  0  0  0  0
  9 12  2  0  0  0  0
 12 13  1  0  0  0  0
 13 14  1  0  0  0  0
 13 15  1  0  0  0  0
 15 16  1  0  0  0  0
 15 17  1  0  0  0  0
 17 18  1  0  0  0  0
 17  8  1  0  0  0  0
  1 19  1  0  0  0  0
  1 20  1  0  0  0  0
  1 21  1  0  0  0  0
  2 22  1  0  0  0  0
  2 23  1  0  0  0  0
  3 24  1  0  0  0  0
  3 25  1  0  0  0  0
  4 26  1  0  0  0  0
  4 27  1  0  0  0  0
  8 28  1  6  0  0  0
 10 29  1  0  0  0  0
 12 30  1  0  0  0  0
 13 31  1  1  0  0  0
 14 32  1  0  0  0  0
 15 33  1  6  0  0  0
 16 34  1  0  0  0  0
 17 35  1  1  0  0  0
 18 36  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0023932

> <DATABASE_NAME>
NP-MRD

> <SMILES>
[H]O[C@]1([H])C([H])=C(C([H])=O)[C@@]([H])(OC(=O)C([H])([H])C([H])([H])C([H])([H])C([H])([H])[H])[C@]([H])(O[H])[C@@]1([H])O[H]

> <INCHI_IDENTIFIER>
InChI=1S/C12H18O6/c1-2-3-4-9(15)18-12-7(6-13)5-8(14)10(16)11(12)17/h5-6,8,10-12,14,16-17H,2-4H2,1H3/t8-,10+,11-,12-/m1/s1

> <INCHI_KEY>
NSBYSHKEWUPBPX-UHFFFAOYSA-N

> <FORMULA>
C12H18O6

> <MOLECULAR_WEIGHT>
258.27

> <EXACT_MASS>
258.1103383

> <JCHEM_ACCEPTOR_COUNT>
5

> <JCHEM_ATOM_COUNT>
36

> <JCHEM_AVERAGE_POLARIZABILITY>
25.824528039813337

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
3

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(1R,4R,5S,6R)-2-formyl-4,5,6-trihydroxycyclohex-2-en-1-yl pentanoate

> <ALOGPS_LOGP>
-0.05

> <JCHEM_LOGP>
-0.6868878889999995

> <ALOGPS_LOGS>
-1.02

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
1

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
13.820598344281347

> <JCHEM_PKA_STRONGEST_ACIDIC>
12.701860819024994

> <JCHEM_PKA_STRONGEST_BASIC>
-3.375492719070925

> <JCHEM_POLAR_SURFACE_AREA>
104.06000000000002

> <JCHEM_REFRACTIVITY>
62.2228

> <JCHEM_ROTATABLE_BOND_COUNT>
6

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
2.46e+01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(1R,4R,5S,6R)-2-formyl-4,5,6-trihydroxycyclohex-2-en-1-yl pentanoate

> <JCHEM_VEBER_RULE>
0

$$$$

     RDKit          3D

 36 36  0  0  0  0  0  0  0  0999 V2000
    3.5718    1.5954   -0.6119 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.2614    0.6180    0.2454 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7946   -0.7683    0.3484 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4438   -1.0679    0.8584 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3540   -0.6015   -0.0147 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4626   -0.1811   -1.1779 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.0181   -0.6085    0.4629 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0498   -0.1578   -0.3780 C   0  0  2  0  0  0  0  0  0  0  0  0
   -1.6508    1.0598    0.1767 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7705    2.2067    0.3985 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2360    3.2616    0.8677 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9109    1.1389    0.4671 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.8433    0.0430    0.2744 C   0  0  1  0  0  0  0  0  0  0  0  0
   -4.7087    0.3457   -0.7786 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2227   -1.3145    0.1287 C   0  0  2  0  0  0  0  0  0  0  0  0
   -3.0114   -1.9275    1.3640 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9505   -1.2921   -0.6747 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.2833   -1.3762   -2.0417 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.5023    1.3824   -1.6797 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.2537    2.5319   -0.6005 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.6307    1.9410   -0.1529 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.3717    1.0836    1.2728 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.3510    0.6096   -0.1035 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.5737   -1.3218    0.9678 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.9215   -1.2392   -0.6720 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.2925   -0.7137    1.9213 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.3612   -2.2012    0.9671 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6182    0.1661   -1.3811 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.2665    2.1439    0.1606 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3449    2.0679    0.8857 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.5040   -0.0111    1.1905 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.5828   -0.1032   -0.6147 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9429   -1.9525   -0.4254 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8273   -1.2765    2.0880 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4340   -2.2651   -0.4536 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5390   -1.8160   -2.4980 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  3  4  1  0
  4  5  1  0
  5  6  2  0
  5  7  1  0
  7  8  1  0
  8  9  1  0
  9 10  1  0
 10 11  2  0
  9 12  2  0
 12 13  1  0
 13 14  1  0
 13 15  1  0
 15 16  1  0
 15 17  1  0
 17 18  1  0
 17  8  1  0
  1 19  1  0
  1 20  1  0
  1 21  1  0
  2 22  1  0
  2 23  1  0
  3 24  1  0
  3 25  1  0
  4 26  1  0
  4 27  1  0
  8 28  1  6
 10 29  1  0
 12 30  1  0
 13 31  1  1
 14 32  1  0
 15 33  1  6
 16 34  1  0
 17 35  1  1
 18 36  1  0
M  END

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  C   UNK     0       3.572   1.595  -0.612  0.00  0.00           C+0
HETATM    2  C   UNK     0       4.261   0.618   0.245  0.00  0.00           C+0
HETATM    3  C   UNK     0       3.795  -0.768   0.348  0.00  0.00           C+0
HETATM    4  C   UNK     0       2.444  -1.068   0.858  0.00  0.00           C+0
HETATM    5  C   UNK     0       1.354  -0.602  -0.015  0.00  0.00           C+0
HETATM    6  O   UNK     0       1.463  -0.181  -1.178  0.00  0.00           O+0
HETATM    7  O   UNK     0       0.018  -0.609   0.463  0.00  0.00           O+0
HETATM    8  C   UNK     0      -1.050  -0.158  -0.378  0.00  0.00           C+0
HETATM    9  C   UNK     0      -1.651   1.060   0.177  0.00  0.00           C+0
HETATM   10  C   UNK     0      -0.771   2.207   0.399  0.00  0.00           C+0
HETATM   11  O   UNK     0      -1.236   3.262   0.868  0.00  0.00           O+0
HETATM   12  C   UNK     0      -2.911   1.139   0.467  0.00  0.00           C+0
HETATM   13  C   UNK     0      -3.843   0.043   0.274  0.00  0.00           C+0
HETATM   14  O   UNK     0      -4.709   0.346  -0.779  0.00  0.00           O+0
HETATM   15  C   UNK     0      -3.223  -1.315   0.129  0.00  0.00           C+0
HETATM   16  O   UNK     0      -3.011  -1.928   1.364  0.00  0.00           O+0
HETATM   17  C   UNK     0      -1.950  -1.292  -0.675  0.00  0.00           C+0
HETATM   18  O   UNK     0      -2.283  -1.376  -2.042  0.00  0.00           O+0
HETATM   19  H   UNK     0       3.502   1.382  -1.680  0.00  0.00           H+0
HETATM   20  H   UNK     0       4.254   2.532  -0.601  0.00  0.00           H+0
HETATM   21  H   UNK     0       2.631   1.941  -0.153  0.00  0.00           H+0
HETATM   22  H   UNK     0       4.372   1.084   1.273  0.00  0.00           H+0
HETATM   23  H   UNK     0       5.351   0.610  -0.104  0.00  0.00           H+0
HETATM   24  H   UNK     0       4.574  -1.322   0.968  0.00  0.00           H+0
HETATM   25  H   UNK     0       3.922  -1.239  -0.672  0.00  0.00           H+0
HETATM   26  H   UNK     0       2.293  -0.714   1.921  0.00  0.00           H+0
HETATM   27  H   UNK     0       2.361  -2.201   0.967  0.00  0.00           H+0
HETATM   28  H   UNK     0      -0.618   0.166  -1.381  0.00  0.00           H+0
HETATM   29  H   UNK     0       0.267   2.144   0.161  0.00  0.00           H+0
HETATM   30  H   UNK     0      -3.345   2.068   0.886  0.00  0.00           H+0
HETATM   31  H   UNK     0      -4.504  -0.011   1.190  0.00  0.00           H+0
HETATM   32  H   UNK     0      -5.583  -0.103  -0.615  0.00  0.00           H+0
HETATM   33  H   UNK     0      -3.943  -1.952  -0.425  0.00  0.00           H+0
HETATM   34  H   UNK     0      -2.827  -1.276   2.088  0.00  0.00           H+0
HETATM   35  H   UNK     0      -1.434  -2.265  -0.454  0.00  0.00           H+0
HETATM   36  H   UNK     0      -1.539  -1.816  -2.498  0.00  0.00           H+0
CONECT    1    2   19   20   21                                             
CONECT    2    1    3   22   23                                             
CONECT    3    2    4   24   25                                             
CONECT    4    3    5   26   27                                             
CONECT    5    4    6    7                                                  
CONECT    6    5                                                            
CONECT    7    5    8                                                       
CONECT    8    7    9   17   28                                             
CONECT    9    8   10   12                                                  
CONECT   10    9   11   29                                                  
CONECT   11   10                                                            
CONECT   12    9   13   30                                                  
CONECT   13   12   14   15   31                                             
CONECT   14   13   32                                                       
CONECT   15   13   16   17   33                                             
CONECT   16   15   34                                                       
CONECT   17   15   18    8   35                                             
CONECT   18   17   36                                                       
CONECT   19    1                                                            
CONECT   20    1                                                            
CONECT   21    1                                                            
CONECT   22    2                                                            
CONECT   23    2                                                            
CONECT   24    3                                                            
CONECT   25    3                                                            
CONECT   26    4                                                            
CONECT   27    4                                                            
CONECT   28    8                                                            
CONECT   29   10                                                            
CONECT   30   12                                                            
CONECT   31   13                                                            
CONECT   32   14                                                            
CONECT   33   15                                                            
CONECT   34   16                                                            
CONECT   35   17                                                            
CONECT   36   18                                                            
MASTER        0    0    0    0    0    0    0    0   36    0   72    0
END

RDKit          3D

36 36  0  0  0  0  0  0  0  0999 V2000
    3.5718    1.5954   -0.6119 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.2614    0.6180    0.2454 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7946   -0.7683    0.3484 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4438   -1.0679    0.8584 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3540   -0.6015   -0.0147 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4626   -0.1811   -1.1779 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.0181   -0.6085    0.4629 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0498   -0.1578   -0.3780 C   0  0  2  0  0  0  0  0  0  0  0  0
   -1.6508    1.0598    0.1767 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7705    2.2067    0.3985 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2360    3.2616    0.8677 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9109    1.1389    0.4671 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.8433    0.0430    0.2744 C   0  0  1  0  0  0  0  0  0  0  0  0
   -4.7087    0.3457   -0.7786 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2227   -1.3145    0.1287 C   0  0  2  0  0  0  0  0  0  0  0  0
   -3.0114   -1.9275    1.3640 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9505   -1.2921   -0.6747 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.2833   -1.3762   -2.0417 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.5023    1.3824   -1.6797 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.2537    2.5319   -0.6005 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.6307    1.9410   -0.1529 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.3717    1.0836    1.2728 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.3510    0.6096   -0.1035 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.5737   -1.3218    0.9678 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.9215   -1.2392   -0.6720 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.2925   -0.7137    1.9213 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.3612   -2.2012    0.9671 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6182    0.1661   -1.3811 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.2665    2.1439    0.1606 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3449    2.0679    0.8857 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.5040   -0.0111    1.1905 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.5828   -0.1032   -0.6147 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9429   -1.9525   -0.4254 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8273   -1.2765    2.0880 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4340   -2.2651   -0.4536 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5390   -1.8160   -2.4980 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  3  4  1  0
  4  5  1  0
  5  6  2  0
  5  7  1  0
  7  8  1  0
  8  9  1  0
  9 10  1  0
 10 11  2  0
  9 12  2  0
 12 13  1  0
 13 14  1  0
 13 15  1  0
 15 16  1  0
 15 17  1  0
 17 18  1  0
 17  8  1  0
  1 19  1  0
  1 20  1  0
  1 21  1  0
  2 22  1  0
  2 23  1  0
  3 24  1  0
  3 25  1  0
  4 26  1  0
  4 27  1  0
  8 28  1  6
 10 29  1  0
 12 30  1  0
 13 31  1  1
 14 32  1  0
 15 33  1  6
 16 34  1  0
 17 35  1  1
 18 36  1  0
M  END

View in JSmol View NMR Assignments

Synonyms

Value	Source
U-25873Ranimycin	ChEMBL
2-Formyl-4,5,6-trihydroxycyclohex-2-en-1-yl pentanoic acid	Generator

Chemical Formula

C₁₂H₁₈O₆

Average Mass

258.2700 Da

Monoisotopic Mass

258.11034 Da

IUPAC Name

(1R,4R,5S,6R)-2-formyl-4,5,6-trihydroxycyclohex-2-en-1-yl pentanoate

Traditional Name

(1R,4R,5S,6R)-2-formyl-4,5,6-trihydroxycyclohex-2-en-1-yl pentanoate

CAS Registry Number

Not Available

SMILES

CCCCC(=O)OC1C(O)C(O)C(O)C=C1C=O

InChI Identifier

InChI=1S/C12H18O6/c1-2-3-4-9(15)18-12-7(6-13)5-8(14)10(16)11(12)17/h5-6,8,10-12,14,16-17H,2-4H2,1H3

InChI Key

NSBYSHKEWUPBPX-UHFFFAOYSA-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 lincolnensis	NPAtlas	993115

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	-0.05	ALOGPS
logP	-0.69	ChemAxon
logS	-1	ALOGPS
pKa (Strongest Acidic)	12.7	ChemAxon
pKa (Strongest Basic)	-3.4	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	5	ChemAxon
Hydrogen Donor Count	3	ChemAxon
Polar Surface Area	104.06 Å²	ChemAxon
Rotatable Bond Count	6	ChemAxon
Refractivity	62.22 m³·mol⁻¹	ChemAxon
Polarizability	25.82 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

NPA018298

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FoodDB ID

Not Available

KNApSAcK ID

Not Available

Chemspider ID

21203252

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

49825770

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Argoudelis AD, Sprague RW, Mizsak SA: Rancinamycins I, II, III and IV structural studies. J Antibiot (Tokyo). 1976 Aug;29(8):787-96. doi: 10.7164/antibiotics.29.787. [PubMed:993115 ]

Showing NP-Card for Rancinamycin II (NP0023932)

MOL for NP0023932 (Rancinamycin II)

3D MOL for NP0023932 (Rancinamycin II)

3D SDF for NP0023932 (Rancinamycin II)

3D-SDF for NP0023932 (Rancinamycin II)

PDB for NP0023932 (Rancinamycin II)

3D PDB for NP0023932 (Rancinamycin II)

SMILES for NP0023932 (Rancinamycin II)

INCHI for NP0023932 (Rancinamycin II)

Structure for NP0023932 (Rancinamycin II)

3D Structure for NP0023932 (Rancinamycin II)