Contacts of the helix formed by residues 3909 - 3933 (chain H) in PDB entry 6X34
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.
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 ASN3909 (chain H).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3898H LEU 3.9 3.7 + - - -
3899H ARG* 3.1 31.6 + - - +
3901H GLN* 3.9 6.5 + - - -
3907H THR* 3.8 6.2 - - - -
3908H ILE* 1.3 81.3 - - - +
3910H ILE* 1.3 58.3 - - - +
3911H ILE* 2.9 22.2 - - - +
3912H ILE* 2.9 55.7 + - + +
3913H CYS* 4.0 2.3 + - - -
3974H SER* 4.4 13.8 + - - -
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Residues in contact with ILE3910 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3824H PHE* 5.5 8.3 - - + -
3827H ILE* 3.9 31.2 - - + -
3828H GLN* 6.1 0.4 - - + -
3831H MET* 5.4 2.5 - - + -
3883H LEU* 3.8 32.3 - - + -
3898H LEU* 3.7 45.7 + - + +
3901H GLN* 5.4 0.2 - - - +
3908H ILE* 3.5 11.2 - - + +
3909H ASN* 1.3 73.2 - - - +
3911H ILE* 1.3 61.0 + - + +
3912H ILE 3.2 0.2 - - - -
3913H CYS* 3.2 20.0 - - - -
3914H THR* 2.4 41.7 + - - +
3963H TYR* 5.5 2.0 - - - +
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Residues in contact with ILE3911 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3898H LEU* 4.4 15.0 - - + +
3899H ARG* 4.7 7.4 - - + -
3909H ASN* 2.9 14.1 + - - +
3910H ILE* 1.3 91.2 - - + +
3912H ILE* 1.3 62.4 + - + +
3914H THR* 3.4 5.3 - - - +
3915H VAL* 3.2 33.2 + - + +
3963H TYR* 3.7 39.9 - - + -
3971H ASN* 4.5 18.4 - - - +
3974H SER* 4.2 27.1 - - - -
3975H LEU* 5.1 5.8 - - + +
3978H SER* 6.2 0.4 - - - -
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Residues in contact with ILE3912 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3908H ILE 5.3 0.9 - - - +
3909H ASN* 2.9 42.0 + - + +
3911H ILE* 1.3 78.8 - - + +
3913H CYS* 1.3 61.9 + - + +
3915H VAL* 3.2 21.9 - - + +
3916H ASP* 3.2 11.0 + - + +
3974H SER* 5.8 2.7 - - - +
3978H SER* 6.0 2.9 - - - -
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Residues in contact with CYS3913 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3827H ILE* 6.2 0.4 - - - -
3828H GLN* 4.1 33.2 - - + -
3831H MET* 3.6 25.3 - - + +
3832H GLN* 5.4 8.8 + - - +
3908H ILE 5.3 0.7 - - - -
3909H ASN 4.3 2.0 - - - -
3910H ILE* 3.2 38.1 - - - -
3912H ILE* 1.3 77.1 - - + +
3914H THR* 1.3 62.6 + - - +
3916H ASP* 3.7 16.1 + - + +
3917H TYR* 3.7 8.5 + - - +
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Residues in contact with THR3914 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3831H MET* 3.7 16.2 - - + +
3880H PHE* 5.0 8.6 - - + -
3883H LEU* 5.6 1.8 - - + +
3910H ILE* 2.4 37.7 + - - +
3911H ILE* 3.4 13.7 - - - +
3912H ILE 3.2 0.6 - - - -
3913H CYS* 1.3 75.8 - - - +
3915H VAL* 1.3 65.4 + - + +
3917H TYR* 3.3 13.9 + - - +
3918H LEU* 3.3 14.3 - - + +
3956H VAL* 5.6 0.9 - - + -
3959H SER* 4.7 11.2 - - - +
3960H LEU* 5.0 10.8 - - + -
3963H TYR* 4.3 24.0 + - + +
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Residues in contact with VAL3915 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3911H ILE* 3.3 18.8 - - + +
3912H ILE* 3.2 20.4 - - + +
3914H THR* 1.3 74.7 - - - +
3916H ASP* 1.3 63.5 + - - +
3917H TYR 3.2 0.7 + - - -
3918H LEU* 3.5 12.9 + - + +
3919H LEU* 3.4 17.3 + - - +
3960H LEU* 3.7 28.0 - - + -
3975H LEU* 5.2 3.6 - - + -
3978H SER* 3.7 36.1 - - - +
3979H ARG* 5.0 7.0 - - + +
3980H LEU* 4.6 13.7 - - + +
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Residues in contact with ASP3916 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3832H GLN* 5.7 6.5 - - - +
3912H ILE* 3.2 18.2 + - + +
3913H CYS* 3.8 13.2 - - + +
3914H THR 3.2 0.8 - - - -
3915H VAL* 1.3 76.9 - - - +
3917H TYR* 1.3 61.8 + - - +
3919H LEU* 3.5 14.4 + - + +
3920H ARG* 3.4 27.0 + - - +
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Residues in contact with TYR3917 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3831H MET* 4.3 11.0 - - + +
3834H CYS* 3.7 26.5 - - + +
3835H SER 5.8 0.5 + - - -
3836H VAL* 4.4 16.3 - - + +
3870H MET* 6.1 0.7 - - - +
3876H THR* 3.9 5.9 - - - +
3880H PHE* 3.6 37.9 - + + -
3913H CYS 3.7 7.9 + - - +
3914H THR 3.3 12.4 + - - +
3915H VAL 3.2 0.6 - - - -
3916H ASP* 1.3 76.2 - - - +
3918H LEU* 1.3 56.3 + - - +
3920H ARG* 3.1 24.7 + - - +
3921H LEU* 2.6 68.3 + - + +
3952H VAL* 3.5 23.7 - - + +
3956H VAL* 4.3 14.4 - - + -
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Residues in contact with LEU3918 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3914H THR* 3.3 20.9 - - + +
3915H VAL* 3.6 15.5 - - + +
3916H ASP 3.5 0.2 - - - -
3917H TYR* 1.3 73.9 - - + +
3919H LEU* 1.3 60.2 + - - +
3921H LEU* 3.8 10.9 - - + +
3922H GLN* 2.8 31.9 + - - +
3956H VAL* 3.8 33.0 - - + -
3957H PHE* 3.9 35.2 - - + -
3960H LEU* 4.1 25.4 - - + -
3983H ALA* 4.7 15.8 - - + +
3987H PHE* 4.5 7.3 - - + -
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Residues in contact with LEU3919 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158F SER* 6.2 0.2 - - - +
160F GLY 5.2 10.8 - - - +
161F GLU* 5.6 9.0 - - + -
3915H VAL 3.4 10.9 + - - +
3916H ASP* 3.5 15.7 - - + +
3917H TYR 3.2 0.8 - - - -
3918H LEU* 1.3 79.2 - - - +
3920H ARG* 1.3 59.7 + - + +
3922H GLN* 3.8 5.4 + - + +
3923H GLU* 3.3 25.6 + - - +
3979H ARG* 4.0 35.2 - - + +
3982H ASP* 5.2 9.0 - - + +
3983H ALA* 5.2 7.2 - - + +
----------------------------------------------------------
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Residues in contact with ARG3920 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158F SER* 5.6 9.6 - - - +
159F GLU 5.7 4.5 - - - +
3831H MET 3.3 25.1 + - - -
3832H GLN* 3.9 32.3 + - - +
3834H CYS 4.6 5.3 + - - -
3836H VAL* 3.8 29.9 - - + +
3916H ASP* 3.4 14.5 + - - +
3917H TYR* 3.1 24.4 + - - +
3919H LEU* 1.3 76.5 - - + +
3921H LEU* 1.3 65.5 + - - +
3922H GLN 3.3 0.2 - - - -
3923H GLU* 3.2 10.5 + - - +
3924H SER* 3.1 19.9 + - - -
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Residues in contact with LEU3921 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3836H VAL* 4.9 10.5 - - + +
3837H LEU* 5.7 0.9 - - + +
3917H TYR* 2.6 57.1 + - + +
3918H LEU* 3.8 9.9 - - + -
3920H ARG* 1.3 71.3 - - - +
3922H GLN* 1.3 64.2 + - - +
3924H SER* 3.1 9.9 + - - +
3925H ILE* 3.1 48.1 + - + +
3949H ALA* 5.4 7.9 - - + +
3952H VAL* 4.9 4.0 - - + +
3953H ALA* 4.1 31.6 - - + +
3956H VAL* 4.3 8.1 - - + -
3957H PHE* 6.3 0.4 - - + -
3987H PHE* 5.1 6.3 - - + -
----------------------------------------------------------
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Residues in contact with GLN3922 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3918H LEU 2.8 21.7 + - - +
3919H LEU* 4.0 7.9 - - + +
3920H ARG 3.3 0.2 - - - -
3921H LEU* 1.3 73.1 - - - +
3923H GLU* 1.3 53.8 + - + +
3925H ILE* 3.7 0.9 + - - +
3926H SER* 2.6 36.6 + - - -
3983H ALA* 5.1 9.6 - - + +
3986H GLY* 5.8 4.3 - - - -
3987H PHE* 3.6 34.1 - - + +
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Residues in contact with GLU3923 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159F GLU 4.7 6.1 - - - +
160F GLY* 3.4 38.7 - - - +
3919H LEU* 3.3 18.1 + - - +
3920H ARG* 3.2 10.7 + - - +
3921H LEU 3.2 0.6 - - - -
3922H GLN* 1.3 79.0 - - - +
3924H SER* 1.3 61.8 + - - +
3926H SER* 3.0 21.7 + - - -
3927H ASP* 3.2 28.8 - - - +
----------------------------------------------------------
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Residues in contact with SER3924 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3836H VAL* 3.8 16.2 - - - -
3837H LEU* 3.3 52.8 - - - +
3920H ARG 3.1 8.6 + - - -
3921H LEU* 3.1 13.6 + - - -
3923H GLU* 1.3 78.0 - - - +
3925H ILE* 1.3 63.8 + - - +
3926H SER 3.6 0.2 + - - -
3927H ASP* 3.9 4.3 + - - +
3928H PHE* 3.8 13.9 + - - +
----------------------------------------------------------
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Residues in contact with ILE3925 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3837H LEU* 5.5 2.7 - - + -
3921H LEU* 3.1 38.6 + - + +
3922H GLN* 4.4 2.9 - - - +
3924H SER* 1.3 76.4 - - - +
3926H SER* 1.3 65.6 + - - +
3928H PHE* 3.3 9.1 + - + +
3929H TYR* 3.3 17.3 + - - +
3946H PHE* 3.7 32.8 - - + -
3949H ALA* 5.1 14.1 - - + +
3950H MET* 6.3 0.2 - - - -
3953H ALA* 4.4 17.5 - - + -
3987H PHE* 4.3 17.9 - - + -
3990H VAL* 5.5 10.4 - - + +
3991H PHE* 5.5 6.5 - - + -
3994H MET* 5.3 4.8 - - + +
4014H LEU* 5.8 4.3 - - + -
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Residues in contact with SER3926 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3922H GLN 2.6 24.1 + - - -
3923H GLU* 3.0 24.4 + - - -
3925H ILE* 1.3 74.6 - - - +
3927H ASP* 1.3 60.4 + - - +
3929H TYR* 2.8 23.2 + - - +
3930H TRP* 3.1 42.3 + - - -
3990H VAL* 4.5 13.2 - - - -
----------------------------------------------------------
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Residues in contact with ASP3927 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76F ARG* 5.3 7.3 - - - +
3837H LEU 6.1 0.4 - - - +
3839H LEU* 4.7 22.0 - - + +
3923H GLU* 3.2 24.1 + - - +
3924H SER* 4.3 4.6 - - - +
3925H ILE 3.4 0.2 - - - -
3926H SER* 1.3 80.7 + - - +
3928H PHE* 1.3 61.1 + - - +
3929H TYR 3.5 0.2 + - - -
3930H TRP* 4.4 8.8 - - - +
3931H TYR* 3.5 22.5 + - - +
----------------------------------------------------------
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Residues in contact with PHE3928 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3837H LEU* 5.8 4.7 - - + -
3839H LEU* 6.0 1.6 - - - -
3842H PHE* 4.7 17.5 - + + -
3924H SER 3.8 11.5 + - - +
3925H ILE* 3.3 12.5 + - + +
3926H SER 3.1 0.4 - - - -
3927H ASP* 1.3 76.8 - - - +
3929H TYR* 1.3 63.9 + - - +
3931H TYR* 3.9 9.1 + + + +
3932H TYR* 3.8 48.7 + + + +
3938H ILE* 5.6 3.6 - - + -
3942H GLY* 3.5 29.6 - - - -
3945H ASN* 5.8 2.7 - - + -
3946H PHE* 3.9 37.2 - + + -
3994H MET* 5.6 5.2 - - + -
----------------------------------------------------------
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Residues in contact with TYR3929 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3925H ILE 3.3 10.0 + - - +
3926H SER* 2.8 15.7 + - - +
3928H PHE* 1.3 77.4 - - - +
3930H TRP* 1.3 61.3 + - + +
3931H TYR 3.1 1.3 - - - -
3932H TYR* 3.2 5.6 + - - +
3933H SER* 2.4 35.6 + - - +
3990H VAL* 4.5 19.5 - - + +
3994H MET* 5.4 13.5 - - + -
----------------------------------------------------------
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Residues in contact with TRP3930 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74F SER* 5.2 14.8 - - - -
76F ARG* 4.0 25.1 - - + +
77F ALA* 3.5 35.3 - - + +
80F GLU* 4.9 13.3 - - + +
3926H SER* 3.1 53.4 + - - +
3927H ASP* 4.0 7.2 + - - +
3929H TYR* 1.3 81.2 - - + +
3931H TYR* 1.3 59.2 + - - +
3932H TYR 3.3 0.2 - - - -
3933H SER* 3.2 23.6 + - - -
3934H GLY 4.6 2.3 + - - -
3989H HIS* 4.1 31.1 + + - -
3990H VAL* 4.5 10.1 - - + -
3993H HIS* 5.7 6.5 + - - -
----------------------------------------------------------
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Residues in contact with TYR3931 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76F ARG* 5.4 2.4 - - - +
3839H LEU* 5.4 16.2 - - + -
3842H PHE* 5.1 14.0 - + - -
3843H GLU* 5.1 12.9 - - + +
3927H ASP 3.5 19.7 + - - +
3928H PHE* 4.1 10.3 - + + +
3929H TYR 3.1 1.0 - - - -
3930H TRP* 1.3 79.4 - - - +
3932H TYR* 1.3 95.7 + + - +
3934H GLY 4.9 2.3 + - - -
3935H LYS* 5.1 3.3 + - - +
----------------------------------------------------------
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Residues in contact with TYR3932 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3842H PHE* 3.7 18.8 - + - -
3846H ASN* 4.8 2.6 + - - -
3928H PHE* 3.8 48.4 + + + +
3929H TYR* 3.2 4.8 + - - +
3931H TYR* 1.3 109.2 - + - +
3933H SER* 1.3 59.5 + - - +
3934H GLY 3.4 2.0 - - - -
3935H LYS* 2.9 36.9 - - + +
3937H VAL 5.0 3.1 - - - -
3938H ILE* 3.9 26.9 - - + +
3939H GLU* 3.5 33.3 - - + +
3942H GLY* 4.6 5.8 - - - -
3997H LYS* 3.4 10.4 - - - -
----------------------------------------------------------
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Residues in contact with SER3933 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3929H TYR* 2.4 33.0 + - - +
3930H TRP* 3.2 19.3 + - - -
3931H TYR 3.6 1.0 - - - -
3932H TYR* 1.3 78.0 - - - +
3934H GLY* 1.3 64.3 + - - +
3935H LYS 3.6 0.3 + - - -
3993H HIS* 6.0 2.7 - - - +
3997H LYS* 3.8 24.8 + - - +
----------------------------------------------------------
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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).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il