Contacts of the helix formed by residues 150 - 172 (chain D) in PDB entry 3M0V


Residue contacts within the protein are derived with the CSU software (Sobolev V., Sorokine A., Prilusky J., Abola E.E. and Edelman M. (1999) Automated analysis of interatomic contacts in proteins. Bioinformatics, 15, 327-332). A short description of the analytical approach is given at the end of the page.
For CSU analysis of other PDB entry

Note:
Non-standard 3 letter residue codes indicate a heterogroup. To identify and analyse, use LPC software

Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB   - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC   - hydrophobic-hydrophilic contact (destabilizing contact)
+/-  - indicates presence/absence of a specific contacts
*    - indicates residues forming contacts  by their side chain
       (including CA atoms)
Residues in contact with ASN 150 (chain D).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    139D  HIS*     4.1     9.7    +      -       -      -
    148D  HIS*     2.9    22.6    +      -       +      +
    149D  THR*     1.3    78.3    +      -       -      +
    151D  ALA*     1.3    67.3    +      -       -      +
    152D  ALA*     3.6    15.2    +      -       -      +
    153D  THR*     3.0    39.9    +      -       -      +
    154D  ARG*     3.1    14.5    +      -       -      +
----------------------------------------------------------
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Residues in contact with ALA 151 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    149D  THR      3.6     2.0    +      -       -      -
    150D  ASN*     1.3    73.5    +      -       -      +
    152D  ALA*     1.3    57.2    +      -       -      +
    154D  ARG*     3.2    32.3    +      -       -      +
    155D  ALA*     2.9    29.7    +      -       -      +
----------------------------------------------------------
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Residues in contact with ALA 152 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    139D  HIS*     3.5    29.2    -      -       +      +
    150D  ASN*     3.3    13.2    +      -       -      +
    151D  ALA*     1.3    77.8    -      -       -      +
    153D  THR*     1.3    58.1    +      -       -      +
    155D  ALA*     3.4     8.3    +      -       -      +
    156D  GLN*     3.0    27.7    +      -       -      +
----------------------------------------------------------
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Residues in contact with THR 153 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    139D  HIS*     3.4    21.5    +      -       +      +
    140D  SER      3.8    13.9    +      -       -      +
    141D  TYR*     3.9    19.1    -      -       +      -
    144D  GLY      4.0     0.2    -      -       -      +
    145D  SER      4.4     0.9    -      -       -      +
    148D  HIS*     3.7    36.1    +      -       +      -
    150D  ASN*     3.0    28.6    +      -       -      +
    152D  ALA*     1.3    76.2    -      -       -      +
    154D  ARG*     1.3    65.3    +      -       -      +
    156D  GLN*     3.3     3.3    +      -       -      +
    157D  ALA*     3.1    22.5    +      -       -      +
----------------------------------------------------------
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Residues in contact with ARG 154 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    145D  SER      3.4    20.2    -      -       -      +
    146D  LEU*     3.3    20.9    -      -       -      +
    148D  HIS      2.9    36.1    +      -       -      +
    149D  THR      3.2    20.6    +      -       -      -
    150D  ASN      3.1     4.1    +      -       -      +
    151D  ALA*     3.2    32.8    +      -       -      +
    153D  THR*     1.3    74.8    -      -       -      +
    155D  ALA*     1.3    58.3    +      -       -      +
    157D  ALA*     3.2     3.3    +      -       -      +
    158D  VAL*     2.9    34.6    +      -       +      +
    198D  ARG*     3.8    29.9    +      -       -      +
    201D  SER*     6.1     1.8    -      -       -      -
    202D  ALA*     4.9     6.1    -      -       +      +
----------------------------------------------------------
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Residues in contact with ALA 155 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    151D  ALA      2.9    16.4    +      -       -      +
    152D  ALA*     3.6     9.0    -      -       -      +
    153D  THR      3.2     0.2    -      -       -      -
    154D  ARG*     1.3    78.4    -      -       -      +
    156D  GLN*     1.3    56.4    +      -       -      +
    158D  VAL*     3.3     8.4    +      -       -      +
    159D  GLU*     2.9    29.7    +      -       -      +
    205D  GLU*     5.7     3.8    -      -       -      +
----------------------------------------------------------
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Residues in contact with GLN 156 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    137D  GLN*     3.4    12.7    -      -       -      +
    138D  ALA*     3.6    10.4    +      -       -      +
    139D  HIS*     2.7    59.7    +      -       +      +
    141D  TYR*     3.1    27.4    +      -       -      +
    152D  ALA      3.0    16.8    +      -       -      +
    153D  THR*     3.6     4.5    -      -       -      +
    154D  ARG      3.2     0.2    -      -       -      -
    155D  ALA*     1.3    75.2    -      -       -      +
    157D  ALA*     1.3    58.8    +      -       -      +
    159D  GLU*     3.3     7.0    +      -       -      +
    160D  HIS*     3.0    27.6    +      -       +      +
----------------------------------------------------------
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Residues in contact with ALA 157 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    130D  THR*     3.9    14.5    -      -       +      +
    141D  TYR*     3.5    14.5    +      -       +      +
    145D  SER*     3.9    18.4    -      -       -      -
    146D  LEU*     3.7    16.8    -      -       +      -
    153D  THR      3.1    13.2    +      -       -      +
    154D  ARG      3.2     7.8    +      -       -      +
    156D  GLN*     1.3    75.6    -      -       -      +
    158D  VAL*     1.3    64.7    +      -       -      +
    160D  HIS*     3.3     2.9    +      -       -      +
    161D  ASN*     2.8    30.7    +      -       -      -
----------------------------------------------------------
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Residues in contact with VAL 158 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    146D  LEU*     3.8    13.0    -      -       +      -
    154D  ARG*     2.9    21.6    +      -       +      +
    155D  ALA*     3.6     7.4    -      -       -      +
    157D  ALA*     1.3    76.8    -      -       -      +
    159D  GLU*     1.3    63.4    +      -       -      +
    161D  ASN      3.1     2.4    +      -       -      -
    162D  LEU*     3.1    31.4    +      -       +      +
    202D  ALA*     3.8    29.4    -      -       +      +
    205D  GLU*     4.0    31.0    -      -       +      +
    206D  ILE*     3.2    24.4    -      -       +      +
----------------------------------------------------------
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Residues in contact with GLU 159 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    155D  ALA      2.9    17.0    +      -       -      +
    156D  GLN*     3.6     8.3    -      -       -      +
    158D  VAL*     1.3    78.0    -      -       -      +
    160D  HIS*     1.3    62.1    +      -       -      +
    162D  LEU*     3.1    25.8    +      -       -      +
    163D  GLU*     3.0    37.5    +      -       +      +
----------------------------------------------------------
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Residues in contact with HIS 160 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    102D  ILE*     3.3    23.7    +      -       +      +
    103D  PRO*     3.9     9.1    -      -       +      +
    128D  SER*     3.7     4.9    -      -       -      -
    129D  ASN      3.0    37.9    +      -       -      -
    130D  THR*     3.8    16.7    -      -       +      +
    141D  TYR*     4.6     4.3    -      +       -      +
    156D  GLN*     3.0    15.0    +      -       +      +
    157D  ALA*     3.6    10.3    -      -       -      +
    158D  VAL      3.2     0.4    -      -       -      -
    159D  GLU*     1.3    75.6    -      -       -      +
    161D  ASN*     1.3    62.9    +      -       -      +
    163D  GLU*     3.1    23.3    +      -       +      +
    164D  CYS*     3.1    41.6    +      -       -      -
----------------------------------------------------------
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Residues in contact with ASN 161 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    128D  SER*     2.9    32.9    +      -       -      -
    130D  THR*     4.3    10.5    +      -       -      +
    146D  LEU*     4.2    17.6    -      -       -      +
    157D  ALA      2.8    24.5    +      -       -      -
    158D  VAL      3.1     1.4    +      -       -      -
    160D  HIS*     1.3    80.4    -      -       -      +
    162D  LEU*     1.3    63.8    +      -       -      +
    164D  CYS*     3.2     9.4    +      -       -      +
    165D  ILE*     3.1    25.2    +      -       -      +
    176D  LEU*     3.6    11.2    -      -       +      +
    178D  VAL*     3.6    18.3    -      -       -      +
    180D  ILE*     6.2     0.2    -      -       -      +
    206D  ILE*     3.4    26.2    -      -       +      -
----------------------------------------------------------
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Residues in contact with LEU 162 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    158D  VAL*     3.1    27.8    +      -       +      +
    159D  GLU*     3.1    26.4    +      -       -      +
    161D  ASN*     1.3    77.6    -      -       -      +
    163D  GLU*     1.3    62.3    +      -       +      +
    165D  ILE*     3.2    17.0    +      -       +      +
    166D  GLU*     3.0    27.1    +      -       +      +
    205D  GLU      4.6     3.1    -      -       -      +
    206D  ILE*     4.4    19.5    -      -       +      +
    209D  GLY*     4.2    26.0    -      -       -      +
----------------------------------------------------------
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Residues in contact with GLU 163 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    102D  ILE*     6.0     3.4    -      -       +      -
    106D  LYS*     6.0     0.5    +      -       -      -
    159D  GLU*     3.0    32.6    +      -       -      +
    160D  HIS*     3.1    27.1    +      -       +      +
    162D  LEU*     1.3    75.3    -      -       -      +
    164D  CYS*     1.3    65.6    +      -       -      +
    166D  GLU*     3.2     9.8    +      -       -      +
    167D  ILE*     3.0    29.7    +      -       +      +
----------------------------------------------------------
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Residues in contact with CYS 164 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    102D  ILE*     3.7    25.1    -      -       +      -
    126D  MET*     3.6    18.7    -      -       +      +
    127D  ASN      4.2     0.9    -      -       -      -
    128D  SER*     3.8    15.5    -      -       -      -
    160D  HIS*     3.1    43.3    +      -       -      -
    161D  ASN      3.2     8.2    +      -       -      +
    163D  GLU*     1.3    76.9    -      -       -      +
    165D  ILE*     1.3    58.1    +      -       -      +
    167D  ILE*     3.3     9.2    +      -       -      +
    168D  GLY      2.9    22.9    +      -       -      -
    176D  LEU*     4.0    16.2    -      -       +      -
----------------------------------------------------------
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Residues in contact with ILE 165 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    161D  ASN      3.1    14.8    +      -       -      +
    162D  LEU*     3.4    20.9    -      -       +      +
    163D  GLU      3.2     0.2    -      -       -      -
    164D  CYS*     1.3    77.6    -      -       -      +
    166D  GLU*     1.3    59.4    +      -       -      +
    169D  LYS*     2.9    35.7    +      -       +      +
    176D  LEU*     3.9    16.6    -      -       +      -
    206D  ILE*     4.6     5.4    -      -       +      -
    209D  GLY      4.1    17.0    -      -       -      +
    210D  LEU*     4.0    24.7    -      -       +      -
    211D  PRO*     3.6    29.2    -      -       +      -
    214D  TRP*     3.5    23.4    -      -       +      -
----------------------------------------------------------
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Residues in contact with GLU 166 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    162D  LEU      3.0    16.6    +      -       -      +
    163D  GLU*     3.2    11.4    +      -       -      +
    165D  ILE*     1.3    77.9    -      -       -      +
    167D  ILE*     1.3    66.7    +      -       +      +
    169D  LYS*     3.0    37.5    +      -       -      +
    170D  ALA*     3.4    19.8    +      -       -      +
----------------------------------------------------------
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Residues in contact with ILE 167 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    100D  LEU*     5.4     0.4    -      -       +      -
    102D  ILE*     4.6    18.4    -      -       +      -
    106D  LYS*     6.2     4.7    -      -       +      -
    107D  ALA      4.9     3.4    -      -       -      +
    109D  PRO*     3.3    35.7    -      -       +      -
    112D  LEU*     4.8    10.1    -      -       +      -
    126D  MET*     3.8    18.8    -      -       +      -
    163D  GLU*     3.0    22.4    +      -       +      +
    164D  CYS*     3.6     7.9    -      -       -      +
    166D  GLU*     1.3    79.4    -      -       +      +
    168D  GLY*     1.3    64.1    +      -       -      +
    170D  ALA*     3.1    13.7    +      -       -      +
    171D  ILE*     3.3    20.5    +      -       +      +
----------------------------------------------------------
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Residues in contact with GLY 168 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    126D  MET*     3.7    29.8    -      -       -      -
    164D  CYS      2.9    10.9    +      -       -      -
    165D  ILE      3.6     3.4    -      -       -      -
    167D  ILE*     1.3    78.7    -      -       -      +
    169D  LYS*     1.3    61.2    +      -       -      +
    171D  ILE*     3.2     2.9    +      -       -      -
    172D  GLY      3.0     5.9    +      -       -      -
    173D  SER*     2.9    25.9    +      -       -      -
    214D  TRP*     3.6     9.9    -      -       -      -
----------------------------------------------------------
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Residues in contact with LYS 169 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    165D  ILE*     2.9    21.1    +      -       +      +
    166D  GLU*     3.0    38.6    +      -       -      +
    167D  ILE      3.3     0.4    -      -       -      -
    168D  GLY*     1.3    77.4    -      -       -      +
    170D  ALA*     1.3    59.3    +      -       -      +
    171D  ILE      3.6     0.3    +      -       -      -
    172D  GLY*     4.1     5.8    +      -       -      +
    173D  SER      4.7     2.7    -      -       -      -
    174D  LYS*     5.8     3.9    +      -       -      +
    211D  PRO*     3.6    27.1    -      -       +      +
    213D  ASP*     5.7     0.2    -      -       -      +
    214D  TRP*     3.7    19.5    -      -       +      +
----------------------------------------------------------
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Residues in contact with ALA 170 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    109D  PRO*     3.6    25.8    -      -       +      +
    110D  LYS*     5.3     5.5    -      -       +      +
    113D  LYS*     4.2    12.5    -      -       -      +
    166D  GLU      3.4     9.7    +      -       -      +
    167D  ILE      3.1    10.6    +      -       -      +
    169D  LYS*     1.3    80.5    -      -       -      +
    171D  ILE*     1.3    59.6    +      -       -      +
    172D  GLY      3.7     0.2    -      -       -      -
----------------------------------------------------------
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Residues in contact with ILE 171 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    100D  LEU*     3.5    30.5    -      -       +      -
    109D  PRO*     3.4    34.1    -      -       +      +
    112D  LEU*     4.2     6.7    -      -       +      -
    113D  LYS*     3.3    35.4    -      -       +      +
    123D  PHE*     3.5    36.0    +      -       +      -
    126D  MET*     3.9    19.1    -      -       -      -
    167D  ILE*     3.6    14.4    -      -       +      +
    168D  GLY*     3.5    11.2    -      -       -      +
    170D  ALA*     1.3    80.2    -      -       -      +
    172D  GLY*     1.3    57.6    +      -       -      +
    173D  SER*     4.1     4.3    -      -       -      +
----------------------------------------------------------
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Residues in contact with GLY 172 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    113D  LYS*     5.3     2.5    -      -       -      -
    123D  PHE*     4.0    10.0    +      -       -      +
    168D  GLY      3.0     4.0    +      -       -      -
    169D  LYS*     4.1     5.1    +      -       -      -
    170D  ALA      3.7     2.2    -      -       -      -
    171D  ILE*     1.3    79.7    -      -       -      +
    173D  SER*     1.3    66.2    +      -       -      +
    174D  LYS*     3.8    20.8    +      -       -      +
----------------------------------------------------------
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A short description of the analytical approach
The contact analysis used in this page is based upon the approach developed in: Sobolev V., Wade R.C., Vriend G. and Edelman M. PROTEINS (1996) 25, 120-129. Contact legitimacy depends on the hydrophobic-hydrophilic properties of the contacting atoms. In order to define it, for each inter-atomic contact, eight atom classes have been introduced:


   I  Hydrophilic      - N and O that can donate and accept hydrogen bonds
                         (e.g., oxygen of hydroxyl group of Ser. or Thr)
  II  Acceptor         - N or O that can only accept a hydrogen bond
 III  Donor            - N that can only donate a hydrogen bond
  IV  Hydrophobic      - Cl, Br, I and all C atoms that are not in
                         aromatic rings and do not have a covalent bond to
                         a N or O atom
   V  Aromatic         - C in aromatic rings irrespective of any other 
                         bonds formed by the atom
  VI  Neutral          - C atoms that have a covalent bond to at least one
                         atom of class I or two or more atoms from class II
                         or III; atoms; S, F, P, and metal atoms in all cases
 VII  Neutral-donor    - C atoms that have a covalent bond with only one
                         atom of class III
VIII  Neutral-acceptor - C atoms that have a covalent bond with only 
                         one atom of class II
For each pair of contacts the state of legitimacy is shown below:

Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
  Atomic class           I  II  III   IV   V   VI  VII  VIII
------------------------------------------------------------
   I  (Hydrophilic)      +   +    +    -   +   +    +    +
  II  (Acceptor)         +   -    +    -   +   +    +    -
 III  (Donor)            +   +    -    -   +   +    -    +
  IV  (Hydrophobic)      -   -    -    +   +   +    +    +
   V  (Aromatic)         +   +    +    +   +   +    +    +
  VI  (Neutral)          +   +    +    +   +   +    +    +
 VII  (Neutral-donor)    +   +    -    +   +   +    -    +
VIII  (Neutral-acceptor) +   -    +    +   +   +    +    -
------------------------------------------------------------
Warning!
Atom classes for heterogroups are automatically assigned based on the atomic coordinates. However, in three cases (see below) the automatic assignment is currently ambiguous. In these cases, the user is advised to manually analyse the full list of contacts using LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are 
   considered "aromatic" (Class V) if the ring is approximately
   planar, and "hydrophobic" (Class IV) or "neutral" (Classes
   VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
   "hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
   "carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).

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