NP-MRD: Showing NP-Card for Rhodopeptin C1 (NP0003084)

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Record Information

Version

2.0

Created at

2020-12-09 00:10:51 UTC

Updated at

2021-07-15 16:45:28 UTC

NP-MRD ID

NP0003084

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Rhodopeptin C1

Provided By

NPAtlas

Description

Rhodopeptin C1 is found in Rhodococcus. Based on a literature review very few articles have been published on (3S,6S,13R)-6-(3-aminopropyl)-13-(7-methylnonyl)-3-(propan-2-yl)-1,4,7,10-tetraazacyclotrideca-1,4,7,10-tetraene-2,5,8,11-tetrol.

Structure

MOL 3D MOL SDF 3D SDF PDB SMILES InChI


  Mrv1652307012117063D          

 81 81  0  0  0  0            999 V2000
    9.0299    2.5926   -0.5664 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.6593    1.8981   -0.8049 C   0  0  2  0  0  0  0  0  0  0  0  0
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    2.4074   -0.2175    0.2299 C   0  0  1  0  0  0  0  0  0  0  0  0
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M  END

     RDKit          3D

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   -6.4165   -2.0270   -3.5049 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.2227   -0.4766    2.8657 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4136    0.3372    0.6608 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6975    1.1230    3.6583 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9107    2.3560    1.5395 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1442    2.9857    3.1805 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3233    1.3800    2.9868 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.5351    2.0403    2.2241 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3511    2.8278    1.1756 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4885    3.3059    2.9064 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0539   -2.7610    1.6663 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
  3  5  1  0
  5  6  1  0
  6  7  1  0
  7  8  1  0
  8  9  1  0
  9 10  1  0
 10 11  1  0
 11 12  1  0
 12 13  1  0
 13 14  2  0
 13 15  1  0
 15 16  1  0
 16 17  1  0
 17 18  2  0
 17 19  1  0
 19 20  1  0
 20 21  1  0
 21 22  1  0
 22 23  1  0
 23 24  1  0
 20 25  1  0
 25 26  2  0
 25 27  1  0
 27 28  1  0
 28 29  1  0
 29 30  1  0
 29 31  1  0
 28 32  1  0
 32 33  2  0
 32 34  1  0
 34 11  1  0
  1 35  1  0
  1 36  1  0
  1 37  1  0
  2 38  1  0
  2 39  1  0
  3 40  1  1
  4 41  1  0
  4 42  1  0
  4 43  1  0
  5 44  1  0
  5 45  1  0
  6 46  1  0
  6 47  1  0
  7 48  1  0
  7 49  1  0
  8 50  1  0
  8 51  1  0
  9 52  1  0
  9 53  1  0
 10 54  1  0
 10 55  1  0
 11 56  1  6
 12 57  1  0
 12 58  1  0
 15 59  1  0
 16 60  1  0
 16 61  1  0
 19 62  1  0
 20 63  1  1
 21 64  1  0
 21 65  1  0
 22 66  1  0
 22 67  1  0
 23 68  1  0
 23 69  1  0
 24 70  1  0
 24 71  1  0
 27 72  1  0
 28 73  1  6
 29 74  1  1
 30 75  1  0
 30 76  1  0
 30 77  1  0
 31 78  1  0
 31 79  1  0
 31 80  1  0
 34 81  1  0
M  END


  Mrv1652307012117063D          

 81 81  0  0  0  0            999 V2000
    9.0299    2.5926   -0.5664 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.6593    1.8981   -0.8049 C   0  0  2  0  0  0  0  0  0  0  0  0
    7.7459    0.4840   -0.4145 C   0  0  2  0  0  0  0  0  0  0  0  0
    8.9086   -0.1603   -1.2741 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.5928   -0.4008   -0.6032 C   0  0  2  0  0  0  0  0  0  0  0  0
    5.3125   -0.1763    0.0682 C   0  0  2  0  0  0  0  0  0  0  0  0
    4.5109    1.0149   -0.2257 C   0  0  1  0  0  0  0  0  0  0  0  0
    3.2085    0.9995    0.6026 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.4074   -0.2175    0.2299 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.0788   -0.2248    0.9835 C   0  0  2  0  0  0  0  0  0  0  0  0
    0.2762   -1.4448    0.6543 C   0  0  2  0  0  0  0  0  0  0  0  0
   -0.0285   -1.4768   -0.8100 C   0  0  1  0  0  0  0  0  0  0  0  0
   -0.7129   -2.7521   -1.2206 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0191   -3.7984   -1.0661 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0271   -2.8148   -1.7429 N   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1922   -2.1448   -1.1844 C   0  0  2  0  0  0  0  0  0  0  0  0
   -3.5009   -0.8819   -1.8886 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6636   -0.5717   -2.8157 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.5980   -0.0546   -1.6137 N   0  0  0  0  0  0  0  0  0  0  0  0
   -5.1942    0.3203   -0.3607 C   0  0  1  0  0  0  0  0  0  0  0  0
   -6.6250    0.6663   -0.5134 C   0  0  1  0  0  0  0  0  0  0  0  0
   -7.6611   -0.2319   -0.9616 C   0  0  2  0  0  0  0  0  0  0  0  0
   -7.6290   -0.9219   -2.2631 C   0  0  2  0  0  0  0  0  0  0  0  0
   -6.5592   -1.8398   -2.5037 N   0  0  1  0  0  0  0  0  0  0  0  0
   -4.8916   -0.5225    0.7959 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.5480   -1.6124    0.8758 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9866   -0.3068    1.8337 N   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5959    0.1752    1.7044 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.4764    1.3980    2.5934 C   0  0  1  0  0  0  0  0  0  0  0  0
   -1.1168    2.0246    2.5907 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5019    2.4556    2.2299 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6603   -0.8612    2.2356 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6846   -0.9182    3.5289 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.8188   -1.7199    1.5175 N   0  0  0  0  0  0  0  0  0  0  0  0
    8.8409    3.6638   -0.7112 H   0  0  0  0  0  0  0  0  0  0  0  0
    9.7805    2.2469   -1.2775 H   0  0  0  0  0  0  0  0  0  0  0  0
    9.3028    2.4106    0.4802 H   0  0  0  0  0  0  0  0  0  0  0  0
    7.4523    2.0441   -1.8826 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.9409    2.4895   -0.2205 H   0  0  0  0  0  0  0  0  0  0  0  0
    8.1985    0.4033    0.6200 H   0  0  0  0  0  0  0  0  0  0  0  0
    9.8508    0.2574   -0.9237 H   0  0  0  0  0  0  0  0  0  0  0  0
    8.6440    0.0699   -2.3168 H   0  0  0  0  0  0  0  0  0  0  0  0
    8.7976   -1.2328   -1.0786 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.8985   -1.5026   -0.3708 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.3543   -0.4672   -1.7275 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.4130   -0.2394    1.2023 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.6457   -1.0818   -0.1554 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.9553    2.0041   -0.1393 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.2100    0.9429   -1.3390 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.6511    1.9324    0.3751 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.4579    1.0231    1.6825 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.2728   -0.1747   -0.8646 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.9546   -1.1237    0.5832 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.4626    0.6518    0.6133 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.2860   -0.1407    2.0502 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.0176   -2.3055    0.7864 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4830   -0.5851   -1.2043 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.9780   -1.5455   -1.3198 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1902   -3.3910   -2.5914 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0926   -2.0327   -0.0862 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.0875   -2.8255   -1.3341 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.0189    0.3677   -2.5208 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6979    1.3216   -0.1228 H   0  0  0  0  0  0  0  0  0  0  0  0
   -7.0019    1.1354    0.4528 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.6467    1.5743   -1.2010 H   0  0  0  0  0  0  0  0  0  0  0  0
   -8.5925    0.4459   -1.0576 H   0  0  0  0  0  0  0  0  0  0  0  0
   -8.0646   -0.9467   -0.1778 H   0  0  0  0  0  0  0  0  0  0  0  0
   -7.7980   -0.2047   -3.1050 H   0  0  0  0  0  0  0  0  0  0  0  0
   -8.5644   -1.5673   -2.3021 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.6093   -2.6842   -1.8956 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.4165   -2.0270   -3.5049 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.2227   -0.4766    2.8657 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4136    0.3372    0.6608 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6975    1.1230    3.6583 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9107    2.3560    1.5395 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1442    2.9857    3.1805 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3233    1.3800    2.9868 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.5351    2.0403    2.2241 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3511    2.8278    1.1756 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4885    3.3059    2.9064 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0539   -2.7610    1.6663 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
  3  5  1  0  0  0  0
  5  6  1  0  0  0  0
  6  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  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
 13 15  1  0  0  0  0
 15 16  1  0  0  0  0
 16 17  1  0  0  0  0
 17 18  2  0  0  0  0
 17 19  1  0  0  0  0
 19 20  1  0  0  0  0
 20 21  1  0  0  0  0
 21 22  1  0  0  0  0
 22 23  1  0  0  0  0
 23 24  1  0  0  0  0
 20 25  1  0  0  0  0
 25 26  2  0  0  0  0
 25 27  1  0  0  0  0
 27 28  1  0  0  0  0
 28 29  1  0  0  0  0
 29 30  1  0  0  0  0
 29 31  1  0  0  0  0
 28 32  1  0  0  0  0
 32 33  2  0  0  0  0
 32 34  1  0  0  0  0
 34 11  1  0  0  0  0
  1 35  1  0  0  0  0
  1 36  1  0  0  0  0
  1 37  1  0  0  0  0
  2 38  1  0  0  0  0
  2 39  1  0  0  0  0
  3 40  1  1  0  0  0
  4 41  1  0  0  0  0
  4 42  1  0  0  0  0
  4 43  1  0  0  0  0
  5 44  1  0  0  0  0
  5 45  1  0  0  0  0
  6 46  1  0  0  0  0
  6 47  1  0  0  0  0
  7 48  1  0  0  0  0
  7 49  1  0  0  0  0
  8 50  1  0  0  0  0
  8 51  1  0  0  0  0
  9 52  1  0  0  0  0
  9 53  1  0  0  0  0
 10 54  1  0  0  0  0
 10 55  1  0  0  0  0
 11 56  1  6  0  0  0
 12 57  1  0  0  0  0
 12 58  1  0  0  0  0
 15 59  1  0  0  0  0
 16 60  1  0  0  0  0
 16 61  1  0  0  0  0
 19 62  1  0  0  0  0
 20 63  1  1  0  0  0
 21 64  1  0  0  0  0
 21 65  1  0  0  0  0
 22 66  1  0  0  0  0
 22 67  1  0  0  0  0
 23 68  1  0  0  0  0
 23 69  1  0  0  0  0
 24 70  1  0  0  0  0
 24 71  1  0  0  0  0
 27 72  1  0  0  0  0
 28 73  1  6  0  0  0
 29 74  1  1  0  0  0
 30 75  1  0  0  0  0
 30 76  1  0  0  0  0
 30 77  1  0  0  0  0
 31 78  1  0  0  0  0
 31 79  1  0  0  0  0
 31 80  1  0  0  0  0
 34 81  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0003084

> <DATABASE_NAME>
NP-MRD

> <SMILES>
[H]N([H])C([H])([H])C([H])([H])C([H])([H])[C@]1([H])N([H])C(=O)C([H])([H])N([H])C(=O)C([H])([H])[C@]([H])(N([H])C(=O)[C@@]([H])(N([H])C1=O)C([H])(C([H])([H])[H])C([H])([H])[H])C([H])([H])C([H])([H])C([H])([H])C([H])([H])C([H])([H])C([H])([H])[C@@]([H])(C([H])([H])[H])C([H])([H])C([H])([H])[H]

> <INCHI_IDENTIFIER>
InChI=1S/C25H47N5O4/c1-5-18(4)11-8-6-7-9-12-19-15-21(31)27-16-22(32)29-20(13-10-14-26)24(33)30-23(17(2)3)25(34)28-19/h17-20,23H,5-16,26H2,1-4H3,(H,27,31)(H,28,34)(H,29,32)(H,30,33)/t18-,19+,20-,23-/m0/s1

> <INCHI_KEY>
BCORRXOGBNOQQU-KOUBEBKOSA-N

> <FORMULA>
C25H47N5O4

> <MOLECULAR_WEIGHT>
481.682

> <EXACT_MASS>
481.362805013

> <JCHEM_ACCEPTOR_COUNT>
5

> <JCHEM_ATOM_COUNT>
81

> <JCHEM_AVERAGE_POLARIZABILITY>
55.72249325965345

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
5

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(3S,6S,13R)-6-(3-aminopropyl)-13-[(7S)-7-methylnonyl]-3-(propan-2-yl)-1,4,7,10-tetraazacyclotridecane-2,5,8,11-tetrone

> <ALOGPS_LOGP>
2.35

> <JCHEM_LOGP>
1.4212439572623135

> <ALOGPS_LOGS>
-4.15

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
1

> <JCHEM_PHYSIOLOGICAL_CHARGE>
1

> <JCHEM_PKA>
11.95740130438344

> <JCHEM_PKA_STRONGEST_ACIDIC>
11.080468267266431

> <JCHEM_PKA_STRONGEST_BASIC>
9.580075917992419

> <JCHEM_POLAR_SURFACE_AREA>
142.42

> <JCHEM_REFRACTIVITY>
132.30639999999997

> <JCHEM_ROTATABLE_BOND_COUNT>
12

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
3.41e-02 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(3S,6S,13R)-6-(3-aminopropyl)-3-isopropyl-13-[(7S)-7-methylnonyl]-1,4,7,10-tetraazacyclotridecane-2,5,8,11-tetrone

> <JCHEM_VEBER_RULE>
0

$$$$

     RDKit          3D

 81 81  0  0  0  0  0  0  0  0999 V2000
    9.0299    2.5926   -0.5664 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.6593    1.8981   -0.8049 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.7459    0.4840   -0.4145 C   0  0  2  0  0  0  0  0  0  0  0  0
    8.9086   -0.1603   -1.2741 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.5928   -0.4008   -0.6032 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.3125   -0.1763    0.0682 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.5109    1.0149   -0.2257 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.2085    0.9995    0.6026 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4074   -0.2175    0.2299 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.0788   -0.2248    0.9835 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.2762   -1.4448    0.6543 C   0  0  2  0  0  0  0  0  0  0  0  0
   -0.0285   -1.4768   -0.8100 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7129   -2.7521   -1.2206 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0191   -3.7984   -1.0661 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0271   -2.8148   -1.7429 N   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1922   -2.1448   -1.1844 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5009   -0.8819   -1.8886 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6636   -0.5717   -2.8157 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.5980   -0.0546   -1.6137 N   0  0  0  0  0  0  0  0  0  0  0  0
   -5.1942    0.3203   -0.3607 C   0  0  1  0  0  0  0  0  0  0  0  0
   -6.6250    0.6663   -0.5134 C   0  0  0  0  0  0  0  0  0  0  0  0
   -7.6611   -0.2319   -0.9616 C   0  0  0  0  0  0  0  0  0  0  0  0
   -7.6290   -0.9219   -2.2631 C   0  0  0  0  0  0  0  0  0  0  0  0
   -6.5592   -1.8398   -2.5037 N   0  0  0  0  0  0  0  0  0  0  0  0
   -4.8916   -0.5225    0.7959 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.5480   -1.6124    0.8758 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9866   -0.3068    1.8337 N   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5959    0.1752    1.7044 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.4764    1.3980    2.5934 C   0  0  1  0  0  0  0  0  0  0  0  0
   -1.1168    2.0246    2.5907 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5019    2.4556    2.2299 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6603   -0.8612    2.2356 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6846   -0.9182    3.5289 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.8188   -1.7199    1.5175 N   0  0  0  0  0  0  0  0  0  0  0  0
    8.8409    3.6638   -0.7112 H   0  0  0  0  0  0  0  0  0  0  0  0
    9.7805    2.2469   -1.2775 H   0  0  0  0  0  0  0  0  0  0  0  0
    9.3028    2.4106    0.4802 H   0  0  0  0  0  0  0  0  0  0  0  0
    7.4523    2.0441   -1.8826 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.9409    2.4895   -0.2205 H   0  0  0  0  0  0  0  0  0  0  0  0
    8.1985    0.4033    0.6200 H   0  0  0  0  0  0  0  0  0  0  0  0
    9.8508    0.2574   -0.9237 H   0  0  0  0  0  0  0  0  0  0  0  0
    8.6440    0.0699   -2.3168 H   0  0  0  0  0  0  0  0  0  0  0  0
    8.7976   -1.2328   -1.0786 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.8985   -1.5026   -0.3708 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.3543   -0.4672   -1.7275 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.4130   -0.2394    1.2023 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.6457   -1.0818   -0.1554 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.9553    2.0041   -0.1393 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.2100    0.9429   -1.3390 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.6511    1.9324    0.3751 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.4579    1.0231    1.6825 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.2728   -0.1747   -0.8646 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.9546   -1.1237    0.5832 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.4626    0.6518    0.6133 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.2860   -0.1407    2.0502 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.0176   -2.3055    0.7864 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4830   -0.5851   -1.2043 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.9780   -1.5455   -1.3198 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1902   -3.3910   -2.5914 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0926   -2.0327   -0.0862 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.0875   -2.8255   -1.3341 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.0189    0.3677   -2.5208 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6979    1.3216   -0.1228 H   0  0  0  0  0  0  0  0  0  0  0  0
   -7.0019    1.1354    0.4528 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.6467    1.5743   -1.2010 H   0  0  0  0  0  0  0  0  0  0  0  0
   -8.5925    0.4459   -1.0576 H   0  0  0  0  0  0  0  0  0  0  0  0
   -8.0646   -0.9467   -0.1778 H   0  0  0  0  0  0  0  0  0  0  0  0
   -7.7980   -0.2047   -3.1050 H   0  0  0  0  0  0  0  0  0  0  0  0
   -8.5644   -1.5673   -2.3021 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.6093   -2.6842   -1.8956 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.4165   -2.0270   -3.5049 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.2227   -0.4766    2.8657 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4136    0.3372    0.6608 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6975    1.1230    3.6583 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9107    2.3560    1.5395 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1442    2.9857    3.1805 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3233    1.3800    2.9868 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.5351    2.0403    2.2241 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3511    2.8278    1.1756 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4885    3.3059    2.9064 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0539   -2.7610    1.6663 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
  3  5  1  0
  5  6  1  0
  6  7  1  0
  7  8  1  0
  8  9  1  0
  9 10  1  0
 10 11  1  0
 11 12  1  0
 12 13  1  0
 13 14  2  0
 13 15  1  0
 15 16  1  0
 16 17  1  0
 17 18  2  0
 17 19  1  0
 19 20  1  0
 20 21  1  0
 21 22  1  0
 22 23  1  0
 23 24  1  0
 20 25  1  0
 25 26  2  0
 25 27  1  0
 27 28  1  0
 28 29  1  0
 29 30  1  0
 29 31  1  0
 28 32  1  0
 32 33  2  0
 32 34  1  0
 34 11  1  0
  1 35  1  0
  1 36  1  0
  1 37  1  0
  2 38  1  0
  2 39  1  0
  3 40  1  1
  4 41  1  0
  4 42  1  0
  4 43  1  0
  5 44  1  0
  5 45  1  0
  6 46  1  0
  6 47  1  0
  7 48  1  0
  7 49  1  0
  8 50  1  0
  8 51  1  0
  9 52  1  0
  9 53  1  0
 10 54  1  0
 10 55  1  0
 11 56  1  6
 12 57  1  0
 12 58  1  0
 15 59  1  0
 16 60  1  0
 16 61  1  0
 19 62  1  0
 20 63  1  1
 21 64  1  0
 21 65  1  0
 22 66  1  0
 22 67  1  0
 23 68  1  0
 23 69  1  0
 24 70  1  0
 24 71  1  0
 27 72  1  0
 28 73  1  6
 29 74  1  1
 30 75  1  0
 30 76  1  0
 30 77  1  0
 31 78  1  0
 31 79  1  0
 31 80  1  0
 34 81  1  0
M  END

HEADER    PROTEIN                                 01-JUL-21   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   01-JUL-21         0                                  
HETATM    1  C   UNK     0       9.030   2.593  -0.566  0.00  0.00           C+0
HETATM    2  C   UNK     0       7.659   1.898  -0.805  0.00  0.00           C+0
HETATM    3  C   UNK     0       7.746   0.484  -0.415  0.00  0.00           C+0
HETATM    4  C   UNK     0       8.909  -0.160  -1.274  0.00  0.00           C+0
HETATM    5  C   UNK     0       6.593  -0.401  -0.603  0.00  0.00           C+0
HETATM    6  C   UNK     0       5.313  -0.176   0.068  0.00  0.00           C+0
HETATM    7  C   UNK     0       4.511   1.015  -0.226  0.00  0.00           C+0
HETATM    8  C   UNK     0       3.208   1.000   0.603  0.00  0.00           C+0
HETATM    9  C   UNK     0       2.407  -0.218   0.230  0.00  0.00           C+0
HETATM   10  C   UNK     0       1.079  -0.225   0.984  0.00  0.00           C+0
HETATM   11  C   UNK     0       0.276  -1.445   0.654  0.00  0.00           C+0
HETATM   12  C   UNK     0      -0.029  -1.477  -0.810  0.00  0.00           C+0
HETATM   13  C   UNK     0      -0.713  -2.752  -1.221  0.00  0.00           C+0
HETATM   14  O   UNK     0      -0.019  -3.798  -1.066  0.00  0.00           O+0
HETATM   15  N   UNK     0      -2.027  -2.815  -1.743  0.00  0.00           N+0
HETATM   16  C   UNK     0      -3.192  -2.145  -1.184  0.00  0.00           C+0
HETATM   17  C   UNK     0      -3.501  -0.882  -1.889  0.00  0.00           C+0
HETATM   18  O   UNK     0      -2.664  -0.572  -2.816  0.00  0.00           O+0
HETATM   19  N   UNK     0      -4.598  -0.055  -1.614  0.00  0.00           N+0
HETATM   20  C   UNK     0      -5.194   0.320  -0.361  0.00  0.00           C+0
HETATM   21  C   UNK     0      -6.625   0.666  -0.513  0.00  0.00           C+0
HETATM   22  C   UNK     0      -7.661  -0.232  -0.962  0.00  0.00           C+0
HETATM   23  C   UNK     0      -7.629  -0.922  -2.263  0.00  0.00           C+0
HETATM   24  N   UNK     0      -6.559  -1.840  -2.504  0.00  0.00           N+0
HETATM   25  C   UNK     0      -4.892  -0.523   0.796  0.00  0.00           C+0
HETATM   26  O   UNK     0      -5.548  -1.612   0.876  0.00  0.00           O+0
HETATM   27  N   UNK     0      -3.987  -0.307   1.834  0.00  0.00           N+0
HETATM   28  C   UNK     0      -2.596   0.175   1.704  0.00  0.00           C+0
HETATM   29  C   UNK     0      -2.476   1.398   2.593  0.00  0.00           C+0
HETATM   30  C   UNK     0      -1.117   2.025   2.591  0.00  0.00           C+0
HETATM   31  C   UNK     0      -3.502   2.456   2.230  0.00  0.00           C+0
HETATM   32  C   UNK     0      -1.660  -0.861   2.236  0.00  0.00           C+0
HETATM   33  O   UNK     0      -1.685  -0.918   3.529  0.00  0.00           O+0
HETATM   34  N   UNK     0      -0.819  -1.720   1.518  0.00  0.00           N+0
HETATM   35  H   UNK     0       8.841   3.664  -0.711  0.00  0.00           H+0
HETATM   36  H   UNK     0       9.781   2.247  -1.278  0.00  0.00           H+0
HETATM   37  H   UNK     0       9.303   2.411   0.480  0.00  0.00           H+0
HETATM   38  H   UNK     0       7.452   2.044  -1.883  0.00  0.00           H+0
HETATM   39  H   UNK     0       6.941   2.490  -0.221  0.00  0.00           H+0
HETATM   40  H   UNK     0       8.198   0.403   0.620  0.00  0.00           H+0
HETATM   41  H   UNK     0       9.851   0.257  -0.924  0.00  0.00           H+0
HETATM   42  H   UNK     0       8.644   0.070  -2.317  0.00  0.00           H+0
HETATM   43  H   UNK     0       8.798  -1.233  -1.079  0.00  0.00           H+0
HETATM   44  H   UNK     0       6.899  -1.503  -0.371  0.00  0.00           H+0
HETATM   45  H   UNK     0       6.354  -0.467  -1.728  0.00  0.00           H+0
HETATM   46  H   UNK     0       5.413  -0.239   1.202  0.00  0.00           H+0
HETATM   47  H   UNK     0       4.646  -1.082  -0.155  0.00  0.00           H+0
HETATM   48  H   UNK     0       4.955   2.004  -0.139  0.00  0.00           H+0
HETATM   49  H   UNK     0       4.210   0.943  -1.339  0.00  0.00           H+0
HETATM   50  H   UNK     0       2.651   1.932   0.375  0.00  0.00           H+0
HETATM   51  H   UNK     0       3.458   1.023   1.683  0.00  0.00           H+0
HETATM   52  H   UNK     0       2.273  -0.175  -0.865  0.00  0.00           H+0
HETATM   53  H   UNK     0       2.955  -1.124   0.583  0.00  0.00           H+0
HETATM   54  H   UNK     0       0.463   0.652   0.613  0.00  0.00           H+0
HETATM   55  H   UNK     0       1.286  -0.141   2.050  0.00  0.00           H+0
HETATM   56  H   UNK     0       1.018  -2.305   0.786  0.00  0.00           H+0
HETATM   57  H   UNK     0      -0.483  -0.585  -1.204  0.00  0.00           H+0
HETATM   58  H   UNK     0       0.978  -1.546  -1.320  0.00  0.00           H+0
HETATM   59  H   UNK     0      -2.190  -3.391  -2.591  0.00  0.00           H+0
HETATM   60  H   UNK     0      -3.093  -2.033  -0.086  0.00  0.00           H+0
HETATM   61  H   UNK     0      -4.088  -2.825  -1.334  0.00  0.00           H+0
HETATM   62  H   UNK     0      -5.019   0.368  -2.521  0.00  0.00           H+0
HETATM   63  H   UNK     0      -4.698   1.322  -0.123  0.00  0.00           H+0
HETATM   64  H   UNK     0      -7.002   1.135   0.453  0.00  0.00           H+0
HETATM   65  H   UNK     0      -6.647   1.574  -1.201  0.00  0.00           H+0
HETATM   66  H   UNK     0      -8.592   0.446  -1.058  0.00  0.00           H+0
HETATM   67  H   UNK     0      -8.065  -0.947  -0.178  0.00  0.00           H+0
HETATM   68  H   UNK     0      -7.798  -0.205  -3.105  0.00  0.00           H+0
HETATM   69  H   UNK     0      -8.564  -1.567  -2.302  0.00  0.00           H+0
HETATM   70  H   UNK     0      -6.609  -2.684  -1.896  0.00  0.00           H+0
HETATM   71  H   UNK     0      -6.417  -2.027  -3.505  0.00  0.00           H+0
HETATM   72  H   UNK     0      -4.223  -0.477   2.866  0.00  0.00           H+0
HETATM   73  H   UNK     0      -2.414   0.337   0.661  0.00  0.00           H+0
HETATM   74  H   UNK     0      -2.697   1.123   3.658  0.00  0.00           H+0
HETATM   75  H   UNK     0      -0.911   2.356   1.540  0.00  0.00           H+0
HETATM   76  H   UNK     0      -1.144   2.986   3.180  0.00  0.00           H+0
HETATM   77  H   UNK     0      -0.323   1.380   2.987  0.00  0.00           H+0
HETATM   78  H   UNK     0      -4.535   2.040   2.224  0.00  0.00           H+0
HETATM   79  H   UNK     0      -3.351   2.828   1.176  0.00  0.00           H+0
HETATM   80  H   UNK     0      -3.489   3.306   2.906  0.00  0.00           H+0
HETATM   81  H   UNK     0      -1.054  -2.761   1.666  0.00  0.00           H+0
CONECT    1    2   35   36   37                                             
CONECT    2    1    3   38   39                                             
CONECT    3    2    4    5   40                                             
CONECT    4    3   41   42   43                                             
CONECT    5    3    6   44   45                                             
CONECT    6    5    7   46   47                                             
CONECT    7    6    8   48   49                                             
CONECT    8    7    9   50   51                                             
CONECT    9    8   10   52   53                                             
CONECT   10    9   11   54   55                                             
CONECT   11   10   12   34   56                                             
CONECT   12   11   13   57   58                                             
CONECT   13   12   14   15                                                  
CONECT   14   13                                                            
CONECT   15   13   16   59                                                  
CONECT   16   15   17   60   61                                             
CONECT   17   16   18   19                                                  
CONECT   18   17                                                            
CONECT   19   17   20   62                                                  
CONECT   20   19   21   25   63                                             
CONECT   21   20   22   64   65                                             
CONECT   22   21   23   66   67                                             
CONECT   23   22   24   68   69                                             
CONECT   24   23   70   71                                                  
CONECT   25   20   26   27                                                  
CONECT   26   25                                                            
CONECT   27   25   28   72                                                  
CONECT   28   27   29   32   73                                             
CONECT   29   28   30   31   74                                             
CONECT   30   29   75   76   77                                             
CONECT   31   29   78   79   80                                             
CONECT   32   28   33   34                                                  
CONECT   33   32                                                            
CONECT   34   32   11   81                                                  
CONECT   35    1                                                            
CONECT   36    1                                                            
CONECT   37    1                                                            
CONECT   38    2                                                            
CONECT   39    2                                                            
CONECT   40    3                                                            
CONECT   41    4                                                            
CONECT   42    4                                                            
CONECT   43    4                                                            
CONECT   44    5                                                            
CONECT   45    5                                                            
CONECT   46    6                                                            
CONECT   47    6                                                            
CONECT   48    7                                                            
CONECT   49    7                                                            
CONECT   50    8                                                            
CONECT   51    8                                                            
CONECT   52    9                                                            
CONECT   53    9                                                            
CONECT   54   10                                                            
CONECT   55   10                                                            
CONECT   56   11                                                            
CONECT   57   12                                                            
CONECT   58   12                                                            
CONECT   59   15                                                            
CONECT   60   16                                                            
CONECT   61   16                                                            
CONECT   62   19                                                            
CONECT   63   20                                                            
CONECT   64   21                                                            
CONECT   65   21                                                            
CONECT   66   22                                                            
CONECT   67   22                                                            
CONECT   68   23                                                            
CONECT   69   23                                                            
CONECT   70   24                                                            
CONECT   71   24                                                            
CONECT   72   27                                                            
CONECT   73   28                                                            
CONECT   74   29                                                            
CONECT   75   30                                                            
CONECT   76   30                                                            
CONECT   77   30                                                            
CONECT   78   31                                                            
CONECT   79   31                                                            
CONECT   80   31                                                            
CONECT   81   34                                                            
MASTER        0    0    0    0    0    0    0    0   81    0  162    0
END

RDKit          3D

81 81  0  0  0  0  0  0  0  0999 V2000
    9.0299    2.5926   -0.5664 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.6593    1.8981   -0.8049 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.7459    0.4840   -0.4145 C   0  0  2  0  0  0  0  0  0  0  0  0
    8.9086   -0.1603   -1.2741 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.5928   -0.4008   -0.6032 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.3125   -0.1763    0.0682 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.5109    1.0149   -0.2257 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.2085    0.9995    0.6026 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4074   -0.2175    0.2299 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.0788   -0.2248    0.9835 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.2762   -1.4448    0.6543 C   0  0  2  0  0  0  0  0  0  0  0  0
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M  END

View in JSmol View NMR Assignments

Synonyms

Not Available

Chemical Formula

C₂₅H₄₇N₅O₄

Average Mass

481.6820 Da

Monoisotopic Mass

481.36281 Da

IUPAC Name

(3S,6S,13R)-6-(3-aminopropyl)-13-[(7S)-7-methylnonyl]-3-(propan-2-yl)-1,4,7,10-tetraazacyclotridecane-2,5,8,11-tetrone

Traditional Name

(3S,6S,13R)-6-(3-aminopropyl)-3-isopropyl-13-[(7S)-7-methylnonyl]-1,4,7,10-tetraazacyclotridecane-2,5,8,11-tetrone

CAS Registry Number

Not Available

SMILES

CCC(C)CCCCCC[C@@H]1CC(=O)NCC(=O)N[C@@H](CCCN)C(=O)N[C@@H](C(C)C)C(=O)N1

InChI Identifier

InChI=1S/C25H47N5O4/c1-5-18(4)11-8-6-7-9-12-19-15-21(31)27-16-22(32)29-20(13-10-14-26)24(33)30-23(17(2)3)25(34)28-19/h17-20,23H,5-16,26H2,1-4H3,(H,27,31)(H,28,34)(H,29,32)(H,30,33)/t18?,19-,20+,23+/m1/s1

InChI Key

BCORRXOGBNOQQU-KOUBEBKOSA-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
Rhodococcus	NPAtlas	10580383

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	2.35	ALOGPS
logP	1.42	ChemAxon
logS	-4.2	ALOGPS
pKa (Strongest Acidic)	11.08	ChemAxon
pKa (Strongest Basic)	9.58	ChemAxon
Physiological Charge	1	ChemAxon
Hydrogen Acceptor Count	5	ChemAxon
Hydrogen Donor Count	5	ChemAxon
Polar Surface Area	142.42 Å²	ChemAxon
Rotatable Bond Count	12	ChemAxon
Refractivity	132.31 m³·mol⁻¹	ChemAxon
Polarizability	55.72 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

NPA000706

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FoodDB ID

Not Available

KNApSAcK ID

Not Available

Chemspider ID

78436327

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

139583282

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Showing NP-Card for Rhodopeptin C1 (NP0003084)

MOL for NP0003084 (Rhodopeptin C1)

3D MOL for NP0003084 (Rhodopeptin C1)

3D SDF for NP0003084 (Rhodopeptin C1)

3D-SDF for NP0003084 (Rhodopeptin C1)

PDB for NP0003084 (Rhodopeptin C1)

3D PDB for NP0003084 (Rhodopeptin C1)

SMILES for NP0003084 (Rhodopeptin C1)

INCHI for NP0003084 (Rhodopeptin C1)

Structure for NP0003084 (Rhodopeptin C1)

3D Structure for NP0003084 (Rhodopeptin C1)