Contacts of the helix formed by residues 17 - 53 (chain A) in PDB entry 4ASQ
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 ALA 17 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18A LEU* 1.3 59.9 + - - +
19A VAL* 4.4 4.9 - - + +
20A LYS* 3.9 21.4 - - + +
21A GLU* 3.2 27.1 + - - +
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Residues in contact with LEU 18 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A ALA* 1.3 71.0 - - - +
19A VAL* 1.3 62.4 + - + +
21A GLU* 3.9 6.6 - - - +
22A GLU* 3.0 33.7 + - - +
84A GLN* 3.7 34.8 - - + +
87A SER* 3.9 27.1 - - - +
88A TYR* 4.5 12.5 - - + -
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Residues in contact with VAL 19 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A ALA* 3.3 4.6 - - + +
18A LEU* 1.3 80.8 - - + +
20A LYS* 1.3 61.2 + - - +
22A GLU* 3.6 6.4 + - - +
23A ILE* 3.4 31.3 + - + +
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Residues in contact with LYS 20 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A ALA* 3.6 20.5 + - + +
18A LEU 3.3 0.2 - - - -
19A VAL* 1.3 77.5 - - - +
21A GLU* 1.3 63.8 + - - +
23A ILE* 3.3 14.9 + - + +
24A GLN* 3.2 43.6 + - + +
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Residues in contact with GLU 21 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A ALA 3.2 16.5 + - - +
18A LEU* 3.9 9.2 - - - +
20A LYS* 1.3 77.1 - - - +
22A GLU* 1.3 55.0 + - - +
24A GLN* 3.1 17.0 + - - +
25A ALA* 2.7 33.3 + - - +
82A LYS 4.4 6.7 - - - +
83A PHE* 3.6 15.8 - - + -
84A GLN* 2.8 38.5 + - - +
88A TYR* 2.6 24.0 + - + +
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Residues in contact with GLU 22 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18A LEU* 3.0 18.8 + - - +
19A VAL* 4.0 7.2 - - - +
20A LYS 3.3 0.2 - - - -
21A GLU* 1.3 75.7 - - - +
23A ILE* 1.3 62.3 + - + +
25A ALA* 3.5 1.8 + - - +
26A LYS* 3.1 22.7 + - - +
88A TYR* 3.5 33.4 - - + +
89A GLN* 3.0 31.4 + - - +
90A SER* 2.9 35.9 + - - -
93A LEU* 3.6 13.2 - - + +
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Residues in contact with ILE 23 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19A VAL* 3.4 28.7 + - + +
20A LYS* 3.3 13.2 + - + +
21A GLU 3.2 0.2 - - - -
22A GLU* 1.3 77.4 - - + +
24A GLN* 1.3 63.5 + - + +
26A LYS* 3.3 17.0 + - - +
27A GLU* 3.4 28.7 + - + +
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Residues in contact with GLN 24 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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20A LYS* 3.2 35.8 + - + +
21A GLU* 3.1 23.9 + - - +
23A ILE* 1.3 78.7 - - + +
25A ALA* 1.3 58.2 + - - +
27A GLU* 3.3 15.0 + - - +
28A TYR* 2.9 28.1 + - - +
83A PHE* 4.5 8.6 - - + -
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Residues in contact with ALA 25 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21A GLU 2.7 19.7 + - - +
22A GLU 3.6 4.9 - - - +
24A GLN* 1.3 70.7 - - - +
26A LYS* 1.3 59.4 + - - +
28A TYR* 3.2 3.0 + - - +
29A LEU* 2.9 35.5 + - - +
83A PHE* 3.8 15.5 - - + -
88A TYR* 3.5 34.3 - - + +
93A LEU* 5.0 1.8 - - + -
97A PHE* 3.8 12.8 - - + -
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Residues in contact with LYS 26 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A GLU 3.1 13.4 + - - +
23A ILE* 3.5 12.8 - - - +
24A GLN 3.3 0.2 - - - -
25A ALA* 1.3 76.8 - - - +
27A GLU* 1.3 58.1 + - + +
29A LEU* 3.4 5.2 + - - +
30A GLU* 3.1 30.1 + - - +
93A LEU* 4.1 32.5 - - + +
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Residues in contact with GLU 27 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A ILE* 3.4 30.3 + - + +
24A GLN* 3.3 13.2 + - - +
25A ALA 3.3 0.4 - - - -
26A LYS* 1.3 75.0 - - + +
28A TYR* 1.3 65.2 + - - +
30A GLU* 3.5 6.9 + - - +
31A ASN* 3.3 34.7 + - - +
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Residues in contact with TYR 28 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24A GLN 2.9 14.7 + - - +
25A ALA 3.4 6.3 - - - +
27A GLU* 1.3 78.6 - - - +
29A LEU* 1.3 62.3 + - + +
31A ASN* 3.5 4.4 + - - +
32A LEU* 3.0 64.1 + - + +
76A VAL* 4.3 6.6 + - - +
79A ASP* 3.4 32.0 + - + +
80A THR* 4.8 1.5 + - + -
83A PHE* 3.6 39.7 - + + -
97A PHE* 3.9 22.9 - + - -
100A LEU* 4.7 1.3 - - + -
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Residues in contact with LEU 29 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25A ALA 2.9 18.5 + - - +
26A LYS* 3.8 4.5 - - - +
28A TYR* 1.3 77.2 - - + +
30A GLU* 1.3 60.1 + - - +
32A LEU* 3.9 2.4 - - - +
33A ASN* 2.8 40.2 + - - +
93A LEU* 3.9 25.8 - - + +
96A GLN* 3.9 39.3 - - + +
97A PHE* 3.7 36.3 - - + -
100A LEU* 3.5 32.1 - - + -
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Residues in contact with GLU 30 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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26A LYS* 3.1 19.4 + - - +
27A GLU* 4.1 6.3 - - - +
28A TYR 3.4 0.4 - - - -
29A LEU* 1.3 76.2 - - - +
31A ASN* 1.3 63.7 + - - +
33A ASN* 4.0 4.8 - - - +
34A LYS* 3.2 50.6 + - + +
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Residues in contact with ASN 31 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A GLU* 3.3 23.9 + - - +
28A TYR* 3.9 4.6 - - - +
29A LEU 3.3 0.4 - - - -
30A GLU* 1.3 79.0 - - - +
32A LEU* 1.3 57.2 + - - +
34A LYS* 3.4 21.8 + - - +
35A GLU* 3.0 28.0 + - - +
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Residues in contact with LEU 32 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28A TYR* 3.0 56.3 + - + +
29A LEU* 3.9 3.6 - - + +
31A ASN* 1.3 75.1 - - - +
33A ASN* 1.3 55.4 + - - +
35A GLU* 3.1 10.5 + - - +
36A LEU* 2.8 41.7 + - + +
72A PHE* 3.9 19.7 - - + -
76A VAL* 3.7 32.8 - - + -
100A LEU* 3.7 25.6 - - + -
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Residues in contact with ASN 33 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29A LEU* 2.8 29.8 + - - +
30A GLU* 4.0 6.0 - - - +
32A LEU* 1.3 71.9 - - - +
34A LYS* 1.3 58.3 + - + +
36A LEU* 3.4 4.3 + - - +
37A ALA* 3.0 25.5 + - - +
96A GLN* 2.9 24.4 - - - +
100A LEU* 5.3 2.3 - - - +
382A PRO* 3.8 9.5 - - + +
383A PHE* 3.2 28.6 - - - +
384A VAL* 3.1 47.1 - - - +
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Residues in contact with LYS 34 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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30A GLU* 3.2 45.3 + - + +
31A ASN* 3.4 20.6 + - - +
32A LEU 3.2 0.4 - - - -
33A ASN* 1.3 76.8 - - + +
35A GLU* 1.3 62.8 + - - +
37A ALA* 3.5 6.8 + - - +
38A LYS* 3.2 22.5 + - - +
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Residues in contact with GLU 35 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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31A ASN 3.0 14.7 + - - +
32A LEU* 3.5 14.8 - - - +
34A LYS* 1.3 74.5 - - - +
36A LEU* 1.3 59.4 + - - +
38A LYS* 3.3 6.3 + - - +
39A ARG* 3.0 66.1 + - + +
72A PHE* 3.5 23.9 - - + -
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Residues in contact with LEU 36 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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32A LEU* 2.8 35.0 + - + +
33A ASN* 3.7 4.3 - - - +
35A GLU* 1.3 69.7 - - - +
37A ALA* 1.3 57.8 + - - +
39A ARG* 3.5 4.0 + - - +
40A THR* 2.6 39.3 + - - +
69A LEU* 4.8 4.3 - - + -
72A PHE* 3.7 21.5 - - + -
73A MET* 3.4 34.5 - - + -
76A VAL* 4.6 2.7 - - + -
100A LEU* 3.6 31.6 - - + -
383A PHE* 3.5 31.2 - - + -
384A VAL* 4.7 2.0 - - + -
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Residues in contact with ALA 37 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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33A ASN 3.0 17.7 + - - +
34A LYS* 3.7 8.3 - - - +
36A LEU* 1.3 74.7 - - - +
38A LYS* 1.3 58.3 + - - +
40A THR* 3.8 0.3 - - - -
41A ASN* 3.0 27.4 + - - +
344A TYR* 3.7 28.9 - - + +
383A PHE* 3.6 24.8 - - + -
386A ARG* 4.7 6.3 - - - +
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Residues in contact with LYS 38 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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34A LYS 3.2 14.9 + - - +
35A GLU* 3.7 6.5 - - - +
36A LEU 3.3 0.2 - - - -
37A ALA* 1.3 80.7 - - - +
39A ARG* 1.3 61.5 + - + +
41A ASN* 3.3 24.3 - - + +
42A VAL* 3.5 14.0 + - + +
345A LEU* 4.4 25.7 - - + +
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Residues in contact with ARG 39 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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35A GLU* 3.0 48.9 + - + +
36A LEU* 3.9 2.9 - - - +
38A LYS* 1.3 75.2 - - + +
40A THR* 1.3 64.4 + - - +
42A VAL* 3.4 11.7 + - - +
43A GLU* 3.4 18.4 + - - +
65A ILE* 5.3 1.2 - - - +
68A GLU* 5.1 15.0 + - - +
69A LEU* 3.8 22.2 - - + +
72A PHE* 3.5 55.2 - - - +
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Residues in contact with THR 40 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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36A LEU* 2.6 23.5 + - - +
37A ALA 3.8 3.6 - - - -
39A ARG* 1.3 74.3 - - - +
41A ASN* 1.3 55.1 + - - +
43A GLU* 3.2 14.3 + - - +
44A THR* 2.7 46.1 + - - +
69A LEU* 4.2 17.6 - - + +
344A TYR* 3.7 27.6 - - + -
383A PHE* 3.3 23.0 - - + -
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Residues in contact with ASN 41 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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37A ALA 3.0 12.0 + - - +
38A LYS* 3.3 20.7 + - - +
40A THR* 1.3 77.0 - - - +
42A VAL* 1.3 63.8 + - - +
44A THR* 3.6 5.3 - - - -
45A GLU* 2.9 40.0 + - - +
343A PHE* 2.9 40.5 + - - +
344A TYR* 4.9 0.4 - - - +
345A LEU* 3.6 31.0 - - + +
348A ASP* 4.8 0.2 - - - +
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Residues in contact with VAL 42 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A LYS* 3.6 15.9 - - + +
39A ARG* 3.4 10.2 + - - +
40A THR 3.2 0.4 - - - -
41A ASN* 1.3 80.8 - - - +
43A GLU* 1.3 66.5 + - - +
45A GLU* 3.4 7.4 + - - +
46A ALA* 3.2 21.1 + - - +
65A ILE* 3.8 25.7 - - + +
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Residues in contact with GLU 43 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A ARG 3.4 9.1 + - - +
40A THR* 3.2 16.8 + - - +
42A VAL* 1.3 77.4 - - - +
44A THR* 1.3 58.8 + - - +
46A ALA* 3.3 4.4 + - - +
47A ALA* 2.9 29.5 + - + +
62A LYS* 5.1 2.8 - - + +
65A ILE* 3.7 16.1 - - + +
66A SER* 2.9 42.3 + - - +
69A LEU* 3.3 28.7 - - + +
113A TYR* 4.7 4.2 + - - -
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Residues in contact with THR 44 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40A THR* 2.7 40.2 + - - +
41A ASN* 3.6 6.2 - - - -
43A GLU* 1.3 75.1 + - - +
45A GLU* 1.3 56.6 + - - +
47A ALA* 3.3 6.3 + - - +
48A TRP* 2.8 28.8 + - - +
341A TRP* 3.7 20.1 - - + -
342A ASP 3.5 25.6 + - - +
343A PHE* 3.7 20.4 - - + -
344A TYR* 4.4 2.1 - - - -
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Residues in contact with GLU 45 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A ASN* 2.9 32.1 + - - +
42A VAL* 3.7 7.4 - - - +
43A GLU 3.3 0.4 - - - -
44A THR* 1.3 77.4 - - - +
46A ALA* 1.3 57.3 + - - +
48A TRP* 3.4 6.8 + - - +
49A ALA* 3.0 28.5 + - - +
322A LYS* 4.8 1.7 + - - -
343A PHE* 3.6 14.3 - - + -
348A ASP* 4.2 4.9 - - - +
350A ARG* 2.8 40.7 + - - -
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Residues in contact with ALA 46 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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42A VAL 3.2 4.8 + - - +
43A GLU 3.3 8.0 + - - +
45A GLU* 1.3 76.2 - - - +
47A ALA* 1.3 64.9 + - - +
49A ALA* 3.4 7.7 + - - +
50A TYR* 3.1 23.0 + - - +
58A ASN 4.6 2.1 - - - +
61A LYS* 4.5 3.6 - - + -
62A LYS* 3.8 24.3 - - - +
65A ILE* 3.7 31.9 - - + -
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Residues in contact with ALA 47 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A GLU* 2.9 20.1 + - + +
44A THR* 3.6 7.4 - - - +
46A ALA* 1.3 72.1 - - - +
48A TRP* 1.3 61.3 + - - +
50A TYR* 3.4 3.6 + - - +
51A GLY* 3.0 23.9 + - - -
62A LYS* 4.2 29.9 + - + +
341A TRP* 3.6 22.7 - - + -
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Residues in contact with TRP 48 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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44A THR 2.8 17.2 + - - +
45A GLU* 3.5 9.6 - - - +
47A ALA* 1.3 77.2 - - - +
49A ALA* 1.3 64.7 + - - +
51A GLY* 3.4 0.9 + - - -
52A SER* 2.9 35.2 + - - -
322A LYS 3.3 26.0 + - - -
324A ILE* 3.7 24.4 - - + +
341A TRP* 3.4 52.4 - + + -
343A PHE* 3.8 13.7 - + + -
350A ARG* 3.3 40.6 - - + +
351A ILE 3.9 16.4 - - - -
352A LYS* 3.8 20.1 - - + -
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Residues in contact with ALA 49 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A GLU 3.0 17.4 + - - +
46A ALA* 3.7 9.0 - - - +
47A ALA 3.3 0.2 - - - -
48A TRP* 1.3 79.9 - - + +
50A TYR* 1.3 61.1 + - - +
52A SER* 3.3 8.0 + - - -
53A ASN* 3.2 26.5 + - - +
58A ASN* 3.5 15.1 + - + +
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Residues in contact with TYR 50 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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46A ALA 3.1 16.8 + - - +
47A ALA 3.8 4.3 - - - +
48A TRP 3.2 0.4 - - - -
49A ALA* 1.3 75.9 - - - +
51A GLY* 1.3 68.1 + - - +
53A ASN 3.1 22.0 - - - -
54A ILE* 3.2 36.8 + - + +
55A THR 3.8 5.8 - - - -
58A ASN* 3.8 12.3 - - + +
59A GLU* 3.5 44.5 + - + +
62A LYS* 3.6 31.6 - - + -
121A SER* 3.6 16.6 + - - -
124A GLU* 4.5 18.8 - - + -
125A SER* 3.3 28.9 - - - -
335A VAL* 5.6 1.1 - - + -
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Residues in contact with GLY 51 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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47A ALA 3.0 15.4 + - - -
48A TRP* 3.4 1.8 + - - -
50A TYR* 1.3 80.5 - - - +
52A SER* 1.3 57.0 + - - +
334A LEU* 3.4 3.1 - - - +
335A VAL* 2.9 42.2 + - - -
341A TRP* 5.4 3.1 - - - -
352A LYS* 3.3 22.1 + - - -
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Residues in contact with SER 52 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A TRP* 2.9 29.4 + - - -
49A ALA* 3.3 11.6 + - - -
51A GLY* 1.3 76.9 - - - +
53A ASN* 1.3 58.8 + - - +
324A ILE* 3.6 30.5 - - - +
332A ARG* 3.0 29.6 + - - -
334A LEU* 3.7 12.8 - - - +
352A LYS* 3.8 11.8 - - - +
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Residues in contact with ASN 53 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A ALA 3.2 10.4 + - - +
50A TYR 3.1 7.6 + - - +
51A GLY 3.4 0.2 - - - -
52A SER* 1.3 84.7 - - - +
54A ILE* 1.3 64.0 + - - +
55A THR* 3.2 7.8 + - - +
58A ASN* 2.9 27.9 + - - +
332A ARG* 4.1 19.7 - - - +
333A ASP 3.6 4.0 - - - -
1623A NAG 1.4 70.3 + - - +
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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