Contacts of the helix formed by residues 359 - 392 (chain B) in PDB entry 1AM9


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 LYS 359 (chain B).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    335A  TYR*     4.0     3.0    +      -       -      +
    339A  ILE*     3.5    22.9    -      -       +      -
    340B  ASN*     3.1    25.4    +      -       -      +
    343B  ILE*     4.1    35.2    -      -       +      +
    357B  LEU      3.9     0.4    +      -       -      -
    358B  ASN*     1.3    71.8    -      -       -      +
    360B  SER*     1.3    62.1    +      -       -      +
    362B  VAL*     3.1     6.5    +      -       -      +
    363B  LEU*     3.1    25.7    +      -       -      +
     26F    C      3.1    40.1    +      -       -      +
     27F    A      2.4    32.9    +      -       -      -
----------------------------------------------------------
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Residues in contact with SER 360 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    335A  TYR*     5.6     1.4    -      -       -      -
    338A  SER*     3.3    42.2    +      -       -      -
    339A  ILE*     4.2     7.1    -      -       -      +
    342A  LYS*     3.2    13.7    -      -       -      +
    358B  ASN*     3.0    20.5    +      -       -      +
    359B  LYS*     1.3    78.3    -      -       -      +
    361B  ALA*     1.3    56.6    +      -       -      +
    363B  LEU*     3.7     2.9    -      -       -      +
    364B  ARG*     2.8    29.8    +      -       -      +
     25F    T      4.6     5.7    +      -       -      -
     26F    C      4.6     1.1    +      -       -      -
----------------------------------------------------------
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Residues in contact with ALA 361 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    357B  LEU*     3.4    33.0    -      -       +      -
    358B  ASN*     3.0    16.4    +      -       -      +
    360B  SER*     1.3    77.7    +      -       -      +
    362B  VAL*     1.3    61.0    +      -       -      +
    364B  ARG*     3.7     6.6    -      -       -      +
    365B  LYS*     2.9    36.8    +      -       +      +
----------------------------------------------------------
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Residues in contact with VAL 362 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    343B  ILE*     3.4    33.2    -      -       +      +
    346B  LEU*     3.8    10.8    -      -       +      -
    347B  LYS*     3.4    41.7    -      -       +      +
    350B  VAL*     4.1     2.9    -      -       -      +
    357B  LEU*     3.9    20.6    -      -       +      +
    358B  ASN      3.3    15.3    -      -       -      +
    359B  LYS*     3.3    10.3    -      -       -      +
    361B  ALA*     1.3    78.5    -      -       -      +
    363B  LEU*     1.3    57.5    +      -       -      +
    365B  LYS*     3.5     3.9    +      -       -      +
    366B  ALA*     2.9    26.5    +      -       -      +
----------------------------------------------------------
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Residues in contact with LEU 363 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    339A  ILE*     3.8    41.1    -      -       +      +
    342A  LYS*     3.7    15.9    -      -       +      -
    343A  ILE*     3.8    12.6    -      -       +      -
    346A  LEU*     3.8     8.1    -      -       +      -
    363A  LEU*     3.8    17.9    -      -       +      -
    343B  ILE*     4.3    17.9    -      -       +      -
    346B  LEU*     3.7    26.0    -      -       +      -
    359B  LYS      3.1    17.4    +      -       -      +
    360B  SER*     3.8     2.7    -      -       -      +
    362B  VAL*     1.3    75.0    -      -       +      +
    364B  ARG*     1.3    55.5    +      -       -      +
    366B  ALA*     3.2     4.4    +      -       -      +
    367B  ILE*     2.8    41.2    +      -       -      +
----------------------------------------------------------
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Residues in contact with ARG 364 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    342A  LYS*     3.6    29.9    -      -       -      +
    345A  GLU*     3.1    38.8    +      -       -      -
    360B  SER      2.8    21.2    +      -       -      +
    361B  ALA*     3.7     9.0    -      -       -      +
    363B  LEU*     1.3    71.4    -      -       -      +
    365B  LYS*     1.3    59.1    +      -       +      +
    367B  ILE*     3.4    10.6    -      -       -      +
    368B  ASP*     2.9    68.5    +      -       -      +
    371B  ARG*     3.3    10.5    -      -       -      +
----------------------------------------------------------
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Residues in contact with LYS 365 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    350B  VAL*     3.7    18.0    +      -       +      -
    351B  VAL*     3.4    34.9    -      -       +      +
    357B  LEU*     3.6    24.2    -      -       +      -
    361B  ALA*     2.9    15.9    +      -       +      +
    362B  VAL      3.7     4.0    -      -       -      +
    364B  ARG*     1.3    76.5    -      -       +      +
    366B  ALA*     1.3    55.6    +      -       -      +
    368B  ASP*     3.1     7.1    +      -       -      +
    369B  TYR*     2.6    39.0    +      -       +      +
----------------------------------------------------------
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Residues in contact with ALA 366 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    346A  LEU*     4.4     8.3    -      -       +      -
    370A  ILE*     4.3     5.2    -      -       +      -
    346B  LEU*     3.9    33.2    -      -       +      -
    350B  VAL*     4.1    13.7    -      -       +      +
    362B  VAL      2.9    19.8    +      -       -      +
    363B  LEU*     3.5     8.7    -      -       -      +
    365B  LYS*     1.3    74.2    -      -       -      +
    367B  ILE*     1.3    63.3    +      -       -      +
    369B  TYR*     3.1     3.0    +      -       -      +
    370B  ILE*     2.9    31.3    +      -       -      +
----------------------------------------------------------
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Residues in contact with ILE 367 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    342A  LYS*     3.4    25.4    -      -       +      +
    345A  GLU*     3.3    34.5    -      -       +      +
    346A  LEU*     3.6    24.2    -      -       +      -
    349A  LEU*     3.8     9.6    -      -       +      +
    363B  LEU      2.8    25.7    +      -       -      +
    364B  ARG*     3.4    11.7    -      -       -      +
    366B  ALA*     1.3    72.9    -      -       -      +
    368B  ASP*     1.3    62.9    +      -       -      +
    370B  ILE*     3.2     2.4    +      -       -      +
    371B  ARG*     3.0    67.6    +      -       -      +
----------------------------------------------------------
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Residues in contact with ASP 368 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    364B  ARG*     2.9    60.0    +      -       -      +
    365B  LYS*     3.6     6.4    +      -       -      +
    367B  ILE*     1.3    76.0    -      -       -      +
    369B  TYR*     1.3    57.1    +      -       -      +
    371B  ARG*     3.3    13.1    +      -       -      +
    372B  PHE*     2.8    30.6    +      -       -      +
----------------------------------------------------------
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Residues in contact with TYR 369 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    370A  ILE*     3.8    19.7    -      -       +      -
    374A  GLN*     3.0    36.4    +      -       -      +
    349B  LEU      4.8     7.9    -      -       -      -
    350B  VAL*     4.2    17.3    -      -       +      -
    365B  LYS*     2.6    22.3    +      -       +      +
    366B  ALA*     3.4     7.0    -      -       -      +
    368B  ASP*     1.3    75.1    -      -       -      +
    370B  ILE*     1.3    57.7    +      -       -      +
    372B  PHE*     3.4    21.4    +      +       -      -
    373B  LEU*     3.0    50.4    +      -       +      +
----------------------------------------------------------
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Residues in contact with ILE 370 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    346A  LEU*     3.7    30.1    -      -       +      -
    349A  LEU*     3.7    18.2    -      -       +      -
    350A  VAL*     5.0     0.7    -      -       +      -
    366A  ALA*     4.3    12.6    -      -       +      +
    369A  TYR*     3.8    19.1    -      -       +      -
    370A  ILE*     3.4    30.7    -      -       +      -
    373A  LEU*     3.8    13.1    -      -       +      +
    366B  ALA      2.9    15.0    +      -       -      +
    367B  ILE      3.6     4.5    -      -       -      +
    369B  TYR*     1.3    74.2    -      -       -      +
    371B  ARG*     1.3    56.2    +      -       -      +
    373B  LEU      3.3     1.2    +      -       -      -
    374B  GLN*     2.7    62.1    +      -       -      +
----------------------------------------------------------
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Residues in contact with ARG 371 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    345A  GLU*     2.9    45.7    +      -       -      +
    349A  LEU*     4.2    23.7    -      -       +      +
    364B  ARG*     3.3     9.1    -      -       -      +
    367B  ILE*     3.0    31.6    +      -       -      +
    368B  ASP*     3.6    12.4    +      -       -      +
    370B  ILE*     1.3    76.4    -      -       -      +
    372B  PHE*     1.3    64.2    +      -       -      +
    374B  GLN*     3.3     9.9    +      -       -      +
    375B  HIS*     3.0    42.9    +      -       +      +
----------------------------------------------------------
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Residues in contact with PHE 372 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    368B  ASP      2.8    17.5    +      -       -      +
    369B  TYR*     3.5    29.2    -      +       -      +
    371B  ARG*     1.3    76.7    -      -       -      +
    373B  LEU*     1.3    71.5    +      -       +      +
    375B  HIS*     3.2     7.8    +      -       +      +
    376B  SER*     2.8    48.9    +      -       -      -
----------------------------------------------------------
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Residues in contact with LEU 373 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    370A  ILE*     4.2     2.9    -      -       +      +
    373A  LEU*     3.6    35.7    -      -       +      +
    374A  GLN*     3.8    16.2    -      -       +      +
    377A  ASN*     4.4    27.8    -      -       +      +
    369B  TYR*     3.0    60.7    +      -       +      +
    370B  ILE*     3.9     2.2    -      -       -      +
    372B  PHE*     1.3    82.9    -      -       +      +
    374B  GLN*     1.3    66.9    +      -       -      +
    376B  SER*     4.1     3.1    -      -       -      -
    377B  ASN*     2.9    32.4    +      -       -      +
----------------------------------------------------------
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Residues in contact with GLN 374 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    349A  LEU*     3.3    27.6    +      -       -      +
    369A  TYR*     2.5    46.2    +      -       -      +
    373A  LEU*     4.2    10.8    -      -       +      -
    370B  ILE*     2.7    24.6    +      -       +      +
    371B  ARG*     3.6     9.8    -      -       -      +
    372B  PHE      3.1     0.2    -      -       -      -
    373B  LEU*     1.3    78.4    -      -       -      +
    375B  HIS*     1.3    64.7    +      -       +      +
    377B  ASN*     3.3     3.0    +      -       -      +
    378B  GLN*     2.9    34.7    +      -       +      +
----------------------------------------------------------
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Residues in contact with HIS 375 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    371B  ARG*     3.0    36.3    +      -       +      +
    372B  PHE*     3.7     5.5    -      -       +      +
    374B  GLN*     1.3    77.3    -      -       +      +
    376B  SER*     1.3    56.0    +      -       -      +
    378B  GLN*     3.1    36.2    +      -       -      +
    379B  LYS*     2.9    32.7    +      -       -      +
----------------------------------------------------------
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Residues in contact with SER 376 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    377A  ASN*     3.6    20.2    -      -       -      -
    381A  LYS*     5.5     2.0    -      -       -      -
    372B  PHE*     2.8    41.7    +      -       -      -
    373B  LEU*     3.8     6.3    -      -       -      -
    374B  GLN      3.3     0.2    -      -       -      -
    375B  HIS*     1.3    76.4    -      -       -      +
    377B  ASN*     1.3    59.5    +      -       -      +
    379B  LYS*     3.7     5.1    +      -       -      +
    380B  LEU*     3.0    33.8    +      -       -      +
----------------------------------------------------------
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Residues in contact with ASN 377 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    372A  PHE*     5.8     0.2    -      -       -      -
    373A  LEU*     3.0    40.8    +      -       +      +
    376A  SER*     3.8     8.5    +      -       -      -
    377A  ASN*     2.7    42.5    +      -       -      +
    380A  LEU*     3.4    21.6    -      -       +      +
    373B  LEU      2.9    20.4    +      -       -      +
    374B  GLN*     3.8     3.1    -      -       -      +
    376B  SER*     1.3    74.7    -      -       -      +
    378B  GLN*     1.3    66.5    +      -       -      +
    380B  LEU*     3.3     0.6    +      -       -      -
    381B  LYS*     2.8    39.2    +      -       -      +
----------------------------------------------------------
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Residues in contact with GLN 378 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    374B  GLN*     2.9    31.0    +      -       +      +
    375B  HIS*     3.1    42.3    +      -       -      +
    377B  ASN*     1.3    73.7    -      -       -      +
    379B  LYS*     1.3    56.4    +      -       -      +
    381B  LYS*     2.6    34.5    +      -       -      +
    382B  GLN*     2.8    13.9    +      -       -      +
----------------------------------------------------------
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Residues in contact with LYS 379 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    375B  HIS      2.9    13.8    +      -       -      +
    376B  SER*     3.9     5.8    -      -       -      +
    378B  GLN*     1.3    79.4    -      -       -      +
    380B  LEU*     1.3    57.0    +      -       +      +
    382B  GLN*     3.2     9.3    +      -       +      +
    383B  GLU*     2.9    44.7    +      -       +      +
----------------------------------------------------------
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Residues in contact with LEU 380 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    377A  ASN*     3.8    12.1    -      -       -      +
    380A  LEU*     3.9    24.5    -      -       +      +
    381A  LYS*     3.5    43.3    -      -       +      +
    384A  ASN*     4.0    33.7    -      -       +      +
    376B  SER*     3.0    22.3    +      -       -      +
    377B  ASN*     3.6     4.7    -      -       -      +
    378B  GLN      3.1     0.2    -      -       -      -
    379B  LYS*     1.3    76.3    -      -       +      +
    381B  LYS*     1.3    57.9    -      -       -      +
    383B  GLU*     3.7     9.0    -      -       -      +
    384B  ASN*     2.8    36.9    +      -       -      -
----------------------------------------------------------
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Residues in contact with LYS 381 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    372A  PHE*     5.8     5.3    -      -       -      -
    376A  SER*     4.6     8.4    +      -       -      -
    380A  LEU*     3.4    34.8    -      -       +      -
    377B  ASN*     2.8    22.6    +      -       -      +
    378B  GLN*     2.6    17.2    +      -       -      +
    380B  LEU*     1.3    69.8    -      -       -      +
    382B  GLN*     1.3    60.1    +      -       -      +
    384B  ASN*     3.8     6.9    -      -       -      +
    385B  LEU*     2.9    26.3    +      -       -      +
    388B  ARG*     4.7     3.7    +      -       -      +
----------------------------------------------------------
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Residues in contact with GLN 382 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    378B  GLN      2.8    11.1    +      -       -      +
    379B  LYS*     3.8    13.0    -      -       +      +
    381B  LYS*     1.3    75.9    -      -       -      +
    383B  GLU*     1.3    58.4    +      -       -      +
    385B  LEU*     2.9    33.2    -      -       -      +
    386B  SER*     2.9    38.7    +      -       -      +
----------------------------------------------------------
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Residues in contact with GLU 383 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    384A  ASN*     2.6    28.5    +      -       -      +
    388A  ARG*     2.7    30.1    +      -       -      +
    379B  LYS*     2.9    31.9    +      -       +      +
    380B  LEU*     3.7    11.0    -      -       -      +
    382B  GLN*     1.3    75.1    -      -       -      +
    384B  ASN*     1.3    60.3    +      -       -      +
    386B  SER*     3.4     8.1    +      -       -      -
    387B  LEU*     2.9    38.6    +      -       +      +
----------------------------------------------------------
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Residues in contact with ASN 384 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    380A  LEU*     3.2    21.8    -      -       +      +
    383A  GLU*     2.6    38.8    -      -       -      +
    384A  ASN*     2.7    47.8    +      -       -      +
    387A  LEU*     3.2    14.1    -      -       +      +
    380B  LEU      2.8    21.8    +      -       -      +
    381B  LYS*     3.8     5.2    -      -       -      +
    382B  GLN      3.3     0.2    -      -       -      -
    383B  GLU*     1.3    72.4    -      -       -      +
    385B  LEU*     1.3    61.7    +      -       -      +
    387B  LEU*     3.7     1.3    -      -       -      +
    388B  ARG*     2.8    35.4    +      -       -      +
----------------------------------------------------------
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Residues in contact with LEU 385 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    381B  LYS      2.9    15.1    +      -       -      +
    382B  GLN*     2.9    44.0    -      -       -      +
    384B  ASN*     1.3    75.7    -      -       -      +
    386B  SER*     1.3    50.3    +      -       -      +
    388B  ARG*     2.8    21.7    +      -       +      +
    389B  THR*     2.8    38.6    +      -       -      +
----------------------------------------------------------
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Residues in contact with SER 386 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    382B  GLN*     2.9    28.5    +      -       -      +
    383B  GLU*     3.4     9.0    +      -       -      -
    385B  LEU*     1.3    76.0    -      -       -      +
    387B  LEU*     1.3    57.7    +      -       -      +
    389B  THR*     3.7     7.3    -      -       -      -
    390B  ALA*     2.9    30.0    +      -       -      +
----------------------------------------------------------
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Residues in contact with LEU 387 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    384A  ASN*     3.3    30.7    -      -       -      +
    387A  LEU*     3.7    16.4    -      -       +      -
    388A  ARG*     3.8    36.3    -      -       +      +
    391A  VAL*     4.0    22.0    -      -       +      +
    383B  GLU*     2.9    30.5    +      -       +      +
    384B  ASN*     3.7     5.2    -      -       -      +
    385B  LEU      3.1     0.2    -      -       -      -
    386B  SER*     1.3    74.3    -      -       -      +
    388B  ARG*     1.3    61.5    +      -       -      +
    390B  ALA*     3.6     5.2    -      -       +      +
    391B  VAL*     3.0    34.2    +      -       -      +
----------------------------------------------------------
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Residues in contact with ARG 388 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    383A  GLU*     2.5    41.1    +      -       -      +
    387A  LEU*     3.5    27.4    -      -       +      +
    381B  LYS*     4.7     3.4    +      -       -      +
    384B  ASN*     2.8    27.3    +      -       -      +
    385B  LEU*     2.8    15.1    +      -       +      +
    387B  LEU*     1.3    74.6    -      -       -      +
    389B  THR*     1.3    53.6    +      -       -      +
    391B  VAL*     3.2     7.7    +      -       +      +
    392B  HIS*     2.7    36.2    +      -       -      +
----------------------------------------------------------
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Residues in contact with THR 389 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    385B  LEU*     2.8    23.9    +      -       -      +
    386B  SER*     3.7     9.2    -      -       -      -
    388B  ARG*     1.3    70.3    -      -       -      +
    390B  ALA*     1.3    53.9    +      -       -      +
    392B  HIS*     2.8     9.3    +      -       -      +
    393B  LYS*     2.6    39.4    +      -       -      +
----------------------------------------------------------
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Residues in contact with ALA 390 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    391A  VAL*     4.9    12.8    -      -       +      -
    386B  SER      2.9    19.3    +      -       -      +
    387B  LEU*     3.6     8.5    -      -       +      +
    389B  THR*     1.3    76.8    -      -       -      +
    391B  VAL*     1.3    63.8    +      -       -      +
    393B  LYS*     3.1    24.7    +      -       -      +
    394B  SER*     3.2     8.7    -      -       -      -
----------------------------------------------------------
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Residues in contact with VAL 391 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    387A  LEU*     4.3    10.3    -      -       +      +
    390A  ALA*     4.4    10.1    -      -       +      -
    391A  VAL*     3.3    33.2    -      -       +      +
    394A  SER*     6.0     0.4    -      -       -      -
    387B  LEU      3.0    28.7    +      -       -      +
    388B  ARG*     3.5     8.5    -      -       +      +
    390B  ALA*     1.3    75.5    -      -       -      +
    392B  HIS*     1.3    63.9    +      -       -      +
    394B  SER*     3.3    21.7    +      -       -      +
----------------------------------------------------------
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Residues in contact with HIS 392 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    388B  ARG      2.7    15.7    +      -       -      +
    389B  THR*     2.8    12.2    +      -       -      +
    391B  VAL*     1.3    69.3    -      -       -      +
    393B  LYS*     1.3    52.6    +      -       -      +
    394B  SER      2.7    25.2    +      -       -      +
----------------------------------------------------------
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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