Contacts of the strand formed by residues 201 - 226 (chain N) in PDB entry 5D4C


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 GLY 201 (chain N).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    184N  GLU*     3.5     8.4    -      -       -      -
    185N  VAL*     2.7    40.8    +      -       -      +
    199N  LEU      4.4     0.2    +      -       -      -
    200N  ASP*     1.3    76.2    -      -       -      +
    202N  VAL*     1.3    65.2    +      -       -      -
    395N  VAL*     4.4     5.4    -      -       -      +
    396N  VAL      3.2     9.4    -      -       -      -
    397N  LYS*     4.3     4.7    -      -       -      -
    398N  ALA      5.1     1.6    -      -       -      -
----------------------------------------------------------
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Residues in contact with VAL 202 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    182N  GLY*     4.1    15.3    -      -       -      +
    183N  GLU      4.2     2.9    -      -       -      -
    184N  GLU*     3.5    24.0    -      -       -      +
    201N  GLY*     1.3    71.2    -      -       -      -
    203N  ALA*     1.3    73.0    +      -       -      +
    204N  LEU*     4.0    16.6    -      -       +      +
    394N  LEU      3.4     2.4    -      -       -      +
    395N  VAL*     4.4     0.9    -      -       -      -
    396N  VAL*     2.6    40.1    +      -       +      +
    398N  ALA*     3.4    29.8    -      -       +      +
    400N  VAL*     3.9    24.5    -      -       +      +
    445N  ARG*     5.3     2.9    -      -       -      -
----------------------------------------------------------
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Residues in contact with ALA 203 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    179N  VAL*     5.0     3.1    -      -       +      -
    180N  LYS      4.6     9.6    -      -       -      +
    181N  ASP*     5.1     0.9    -      -       -      -
    182N  GLY*     3.0    26.0    +      -       -      -
    183N  GLU      3.4    11.1    +      -       -      +
    185N  VAL*     3.5    23.7    -      -       +      +
    191N  LEU*     4.4     7.4    -      -       +      -
    201N  GLY      3.7     2.0    +      -       -      -
    202N  VAL*     1.3    72.3    -      -       -      +
    204N  LEU*     1.3    66.6    +      -       -      +
    205N  TYR*     6.3     0.7    -      -       +      -
    393N  ILE*     4.0    18.2    -      -       +      -
    394N  LEU      3.6     5.2    -      -       -      -
    395N  VAL*     4.3     5.4    -      -       +      +
----------------------------------------------------------
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Residues in contact with LEU 204 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    181N  ASP*     3.7     4.3    -      -       -      +
    182N  GLY*     4.5     5.4    -      -       -      +
    202N  VAL*     4.0    16.2    -      -       +      +
    203N  ALA*     1.3    84.3    -      -       -      +
    205N  TYR*     1.3    66.4    +      -       -      +
    206N  ARG*     5.3     2.7    -      -       -      +
    393N  ILE*     3.3     7.2    -      -       -      +
    394N  LEU*     2.9    49.6    +      -       +      +
    396N  VAL*     4.4    16.4    -      -       +      -
    436N  GLU*     5.7     0.7    -      -       -      +
    441N  ARG*     3.6    42.2    -      -       -      +
    445N  ARG*     4.1    31.9    -      -       -      +
----------------------------------------------------------
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Residues in contact with TYR 205 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    176N  ASP*     5.7     0.2    +      -       -      -
    177N  ALA*     4.0    16.7    +      -       +      +
    179N  VAL*     2.7    27.8    +      -       +      -
    180N  LYS*     3.3    11.2    -      -       +      +
    181N  ASP*     2.9    48.0    +      -       +      +
    203N  ALA*     6.3     0.4    -      -       +      -
    204N  LEU*     1.3    76.2    -      -       -      +
    206N  ARG*     1.3    69.1    +      -       -      +
    207N  PHE      3.5     7.3    +      -       -      +
    208N  PRO*     5.9     3.4    -      -       +      -
    357N  GLU*     5.1     1.6    -      -       -      -
    387N  LEU*     3.3    37.9    -      -       +      -
    388N  HIS*     4.6     7.6    -      -       -      +
    390N  PRO*     3.8    32.1    -      -       +      -
    392N  SER      4.0     0.9    -      -       -      -
    393N  ILE*     4.3    13.7    -      -       +      -
    441N  ARG*     3.5    14.6    +      -       -      +
----------------------------------------------------------
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Residues in contact with ARG 206 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    168N  THR*     4.7     4.0    +      -       +      +
    204N  LEU*     4.7     3.2    -      -       -      +
    205N  TYR*     1.3    76.7    +      -       -      +
    207N  PHE*     1.3    90.5    +      -       +      +
    391N  ALA*     2.9    24.8    +      -       -      +
    392N  SER*     2.9    40.1    +      -       -      +
    394N  LEU*     3.7    46.2    -      -       +      +
    441N  ARG*     5.7     2.6    -      -       -      +
     98P  GLU*     5.0     4.9    -      -       -      +
    101P  GLU*     2.8    39.8    +      -       -      -
    102P  LEU*     5.8     0.4    -      -       -      +
----------------------------------------------------------
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Residues in contact with PHE 207 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    205N  TYR*     3.5     6.5    +      -       -      -
    206N  ARG*     1.3   116.0    -      -       +      +
    208N  PRO*     1.3    75.2    -      -       +      +
    209N  ARG*     6.0     0.7    -      -       +      -
    351N  MET      5.9     3.1    -      -       -      +
    390N  PRO*     3.0    20.4    -      -       -      +
    391N  ALA*     3.0    16.9    +      -       +      -
    392N  SER*     5.4     0.9    -      -       -      -
     97P  GLU*     3.5    47.1    -      -       +      -
     98P  GLU*     3.9    15.0    -      -       +      -
    101P  GLU*     3.1    45.3    -      -       +      -
----------------------------------------------------------
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Residues in contact with PRO 208 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    205N  TYR*     5.9     4.3    -      -       +      +
    207N  PHE*     1.3    90.4    -      -       +      +
    209N  ARG*     1.3    62.4    +      -       -      +
    210N  ARG      4.0    19.3    -      -       -      +
    211N  VAL*     4.6     1.3    -      -       +      -
    347N  VAL*     3.6    18.6    -      -       +      +
    353N  VAL*     3.5    39.0    -      -       +      +
    387N  LEU*     3.9    25.4    -      -       +      -
    388N  HIS      4.4     4.3    -      -       -      +
    389N  GLU      4.2     2.5    -      -       -      +
    390N  PRO*     4.2     2.7    -      -       +      -
----------------------------------------------------------
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Residues in contact with ARG 209 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    171N  LEU      3.7    19.8    +      -       -      -
    172N  PRO      4.7     2.4    +      -       -      -
    173N  PRO*     4.0    27.1    -      -       -      +
    174N  GLY      4.3     0.4    -      -       -      +
    207N  PHE*     4.0     0.9    +      -       +      -
    208N  PRO*     1.3    76.2    -      -       -      +
    210N  ARG*     1.3    58.5    +      -       -      +
    346N  ARG*     3.0    29.2    +      -       -      +
    347N  VAL*     3.0    34.3    +      -       -      +
    349N  PRO*     6.5     1.1    -      -       -      -
    389N  GLU*     2.8    37.3    +      -       +      +
    390N  PRO      3.7    17.8    +      -       -      -
    391N  ALA*     3.7    25.5    +      -       +      +
     97P  GLU*     5.0     6.9    +      -       -      -
----------------------------------------------------------
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Residues in contact with ARG 210 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    176N  ASP*     3.3    25.7    +      -       -      +
    208N  PRO*     3.5     5.5    -      -       -      +
    209N  ARG*     1.3    82.6    -      -       -      +
    211N  VAL*     1.3    67.9    +      -       -      +
    212N  ARG*     4.1    19.8    +      -       -      +
    344N  ASP*     3.4    28.4    +      -       +      +
    345N  TYR      3.3    17.5    -      -       -      +
    346N  ARG*     4.2    10.6    -      -       -      +
    347N  VAL*     4.6     0.2    -      -       -      -
    387N  LEU*     4.2     0.5    -      -       -      -
    388N  HIS*     3.0    73.9    +      -       -      +
    389N  GLU*     3.8    27.5    +      -       -      +
----------------------------------------------------------
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Residues in contact with VAL 211 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    208N  PRO*     4.6     0.9    -      -       +      -
    210N  ARG*     1.3    77.7    -      -       -      +
    212N  ARG*     1.3    60.5    +      -       -      +
    213N  VAL*     4.0    11.2    -      -       +      -
    343N  LYS      3.4     4.7    -      -       -      +
    345N  TYR*     2.9    46.7    +      -       +      -
    347N  VAL*     3.7    21.1    -      -       +      -
    353N  VAL*     3.9    21.3    -      -       +      -
    367N  ILE*     3.7    25.6    -      -       +      -
    368N  VAL*     4.2     9.0    -      -       +      -
    377N  VAL*     5.9     0.2    -      -       +      -
    385N  VAL*     3.8    17.7    -      -       +      -
    386N  HIS      3.8     2.2    -      -       -      -
    387N  LEU*     3.9     8.7    -      -       +      -
----------------------------------------------------------
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Residues in contact with ARG 212 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    210N  ARG*     4.0    15.4    -      -       -      +
    211N  VAL*     1.3    70.7    -      -       -      +
    213N  VAL*     1.3    61.5    +      -       -      +
    214N  GLU*     3.6    18.2    +      -       -      +
    342N  PRO*     3.4    37.3    -      -       +      +
    343N  LYS      3.4     9.4    -      -       -      +
    344N  ASP*     2.7    34.0    +      -       -      +
    386N  HIS*     2.9    44.1    +      -       +      +
    388N  HIS*     3.2    28.2    +      -       +      +
----------------------------------------------------------
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Residues in contact with VAL 213 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    211N  VAL*     4.0    10.1    -      -       +      -
    212N  ARG*     1.3    75.2    -      -       -      +
    214N  GLU*     1.3    64.7    +      -       -      +
    215N  TYR*     3.4    33.9    -      -       +      +
    341N  GLU      3.4     4.0    -      -       -      +
    342N  PRO*     3.4     1.6    -      -       -      +
    343N  LYS      2.9    33.2    +      -       -      +
    345N  TYR*     3.6    29.4    -      -       +      -
    361N  VAL*     4.8     4.9    -      -       +      -
    367N  ILE*     3.8    24.5    -      -       +      -
    383N  GLY      4.6     3.6    -      -       -      -
    384N  VAL      3.6    18.6    -      -       -      +
    385N  VAL*     4.7     5.8    -      -       +      +
----------------------------------------------------------
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Residues in contact with GLU 214 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    212N  ARG*     3.6    16.7    +      -       +      +
    213N  VAL*     1.3    72.5    -      -       -      +
    215N  TYR*     1.3    60.5    +      -       -      +
    216N  VAL*     3.7     1.2    +      -       -      +
    316N  GLN*     3.4    24.0    +      -       -      +
    340N  THR*     3.6    19.0    -      -       +      +
    341N  GLU      3.8     0.4    -      -       -      -
    342N  PRO*     3.3    38.7    -      -       -      +
    383N  GLY*     3.0     3.1    -      -       -      -
    384N  VAL*     2.9    45.2    +      -       +      +
    386N  HIS*     3.9    27.7    -      -       +      +
----------------------------------------------------------
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Residues in contact with TYR 215 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    213N  VAL*     3.4    40.3    -      -       +      +
    214N  GLU*     1.3    71.3    -      -       -      +
    216N  VAL*     1.3    65.0    +      -       -      +
    217N  LYS*     3.4    15.0    +      -       +      +
    340N  THR*     3.1     4.3    -      -       -      -
    341N  GLU*     2.9    45.1    +      -       +      +
    343N  LYS*     4.0    20.2    -      -       +      -
    345N  TYR*     3.2    23.9    +      -       -      -
    367N  ILE*     4.5     0.3    -      -       -      +
    379N  ALA*     3.8     7.9    -      -       +      -
    380N  GLU*     3.3    20.2    +      -       +      -
    381N  ALA*     3.2    51.4    -      -       +      -
    382N  GLU      3.4     7.4    -      -       -      +
    383N  GLY*     4.0     0.2    -      -       -      -
----------------------------------------------------------
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Residues in contact with VAL 216 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    214N  GLU      4.6     0.7    -      -       -      +
    215N  TYR*     1.3    70.4    -      -       -      +
    217N  LYS*     1.3    65.6    +      -       -      +
    218N  LYS*     3.8    33.4    +      -       +      -
    338N  GLU*     5.8     1.1    -      -       +      -
    339N  TRP      3.4    10.3    -      -       -      +
    340N  THR*     3.9    14.4    -      -       +      -
    360N  ARG*     4.8    12.1    -      -       -      +
    381N  ALA*     5.6     3.5    -      -       -      +
    382N  GLU*     3.1    36.7    +      -       -      +
    383N  GLY*     4.2    14.1    -      -       -      -
    384N  VAL*     5.2     5.2    -      -       +      +
----------------------------------------------------------
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Residues in contact with LYS 217 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    215N  TYR*     3.9    14.6    -      -       +      +
    216N  VAL*     1.3    78.5    -      -       -      +
    218N  LYS*     1.3    62.4    +      -       -      +
    219N  GLU*     4.1     3.6    -      -       +      -
    262N  LYS*     4.0    13.4    -      -       -      +
    338N  GLU*     3.4     0.7    -      -       -      -
    339N  TRP*     2.9    81.9    +      -       +      +
    341N  GLU*     3.3    35.2    -      -       +      -
----------------------------------------------------------
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Residues in contact with LYS 218 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    216N  VAL*     3.8    24.2    +      -       +      -
    217N  LYS*     1.3    76.3    -      -       -      +
    219N  GLU*     1.3    69.1    +      -       -      +
    337N  LEU      3.2     8.3    -      -       -      +
    338N  GLU*     3.6    37.2    +      -       +      +
    382N  GLU*     5.4     4.1    +      -       -      -
----------------------------------------------------------
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Residues in contact with GLU 219 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    217N  LYS*     5.1     2.9    -      -       +      -
    218N  LYS*     1.3    81.6    -      -       -      +
    220N  ARG*     1.3    65.6    +      -       -      +
    221N  ALA*     4.2     0.4    -      -       -      -
    269N  PHE*     4.7     8.3    -      -       +      -
    281N  THR*     5.9     4.5    -      -       +      +
    336N  PHE*     3.6     7.2    -      -       -      +
    337N  LEU*     2.9    32.7    +      -       -      +
    339N  TRP*     3.5    31.0    -      -       +      -
----------------------------------------------------------
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Residues in contact with ARG 220 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    219N  GLU*     1.3    82.5    +      -       -      +
    221N  ALA*     1.3    62.4    +      -       -      +
    281N  THR*     3.8    18.1    -      -       -      +
    323N  GLU*     5.5     1.8    +      -       -      -
    332N  TYR*     5.9     2.0    -      -       -      -
    334N  THR*     3.3    40.4    +      -       +      +
    335N  LEU      3.4     6.3    -      -       -      +
    336N  PHE*     4.2    25.5    -      -       +      -
----------------------------------------------------------
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Residues in contact with ALA 221 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    219N  GLU      4.2     0.4    -      -       -      -
    220N  ARG*     1.3    76.5    -      -       -      +
    222N  GLY*     1.3    60.8    +      -       -      +
    269N  PHE*     3.9    16.4    -      -       +      -
    281N  THR*     3.7    20.4    -      -       +      +
    282N  TYR      4.1     0.2    -      -       -      -
    283N  PHE*     3.6    28.3    -      -       +      +
    334N  THR*     4.8     1.3    -      -       -      -
    335N  LEU*     2.9    39.5    +      -       -      +
    337N  LEU*     4.1     4.4    -      -       +      +
----------------------------------------------------------
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Residues in contact with GLY 222 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    221N  ALA*     1.3    73.9    -      -       -      +
    223N  LEU*     1.3    61.3    +      -       -      +
    281N  THR      3.1    11.8    +      -       -      -
    282N  TYR*     3.4    12.6    -      -       -      +
    283N  PHE*     3.0    23.4    +      -       -      +
    332N  TYR*     3.7    23.1    +      -       -      -
    333N  LEU      3.1    10.3    -      -       -      -
    334N  THR*     4.5     2.2    -      -       -      -
----------------------------------------------------------
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Residues in contact with LEU 223 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    222N  GLY*     1.3    75.4    -      -       -      +
    224N  ARG*     1.3    68.5    +      -       -      +
    225N  LEU*     3.8    24.7    -      -       +      -
    242N  LEU*     3.7    30.5    -      -       +      -
    251N  PHE*     3.7    16.6    -      -       +      -
    283N  PHE*     3.6    19.3    -      -       +      +
    285N  PRO*     4.0    17.0    -      -       +      -
    288N  MET*     3.7    25.6    -      -       +      -
    311N  LEU*     5.0     0.2    -      -       +      -
    331N  VAL      3.9     0.7    -      -       -      +
    332N  TYR*     3.7     6.8    -      -       -      -
    333N  LEU*     2.8    39.2    +      -       +      +
    335N  LEU*     4.8    10.3    -      -       +      -
----------------------------------------------------------
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Residues in contact with ARG 224 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    223N  LEU*     1.3    74.1    -      -       -      +
    225N  LEU*     1.3    70.5    +      -       -      +
    249N  TYR*     3.3    33.3    +      -       -      +
    251N  PHE*     3.4    21.9    -      -       +      -
    252N  ARG      6.0     0.9    -      -       -      +
    254N  GLU*     2.5    44.2    +      -       -      +
    327N  GLU*     3.0    35.9    +      -       -      +
    330N  THR*     2.8    41.0    +      -       -      -
    331N  VAL      3.5     7.6    -      -       -      +
    332N  TYR*     3.8    25.0    -      -       +      +
----------------------------------------------------------
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Residues in contact with LEU 225 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    223N  LEU*     3.8    30.3    -      -       +      -
    224N  ARG*     1.3    84.5    -      -       -      +
    226N  PRO*     1.3    81.4    -      -       +      +
    229N  ALA*     5.9     0.2    -      -       +      -
    230N  TRP*     4.4    10.1    -      -       +      +
    242N  LEU*     4.2     9.9    -      -       +      -
    243N  ALA*     4.4    18.4    -      -       +      -
    245N  LEU*     5.4     1.3    -      -       +      -
    249N  TYR*     4.5     8.5    -      -       +      -
    288N  MET*     5.9     2.0    -      -       +      -
    307N  ALA*     5.6     1.6    -      -       +      -
    311N  LEU*     4.5    19.7    -      -       +      -
    330N  THR*     3.4     6.1    -      -       -      -
    331N  VAL*     2.9    38.6    +      -       +      +
    333N  LEU*     3.8    27.6    -      -       +      -
----------------------------------------------------------
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Residues in contact with PRO 226 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    225N  LEU*     1.3    91.5    -      -       +      +
    227N  LEU*     1.3    64.5    +      -       -      +
    228N  ALA*     3.3     2.9    -      -       +      +
    229N  ALA*     4.1    14.6    -      -       +      +
    230N  TRP*     3.4    20.8    +      -       -      +
    245N  LEU*     3.7    22.4    -      -       +      -
    249N  TYR*     3.6    40.8    -      -       +      -
    329N  GLU      4.0     7.2    -      -       -      +
    330N  THR*     4.4     5.6    -      -       +      -
----------------------------------------------------------
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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).

Please E-mail any questions and/or suggestions concerning this page to Vladimir.Sobolev@weizmann.ac.il