Contacts of the helix formed by residues 46 - 84 (chain A) in PDB entry 1QUU
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 SER 46 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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45A ALA* 1.3 74.6 - - - +
47A LEU* 1.3 66.7 + - - +
48A THR* 3.1 11.6 + - - -
49A GLU* 2.9 37.5 + - - +
50A VAL* 3.0 24.1 + - - +
124A LEU* 3.7 6.7 - - - -
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Residues in contact with LEU 47 (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 SER* 1.3 73.8 - - - +
48A THR* 1.3 61.7 + - - +
50A VAL* 4.1 1.0 - - - +
51A ARG* 2.8 76.8 + - - +
121A GLU* 3.7 28.3 - - + +
124A LEU* 3.7 19.7 - - + +
125A GLU* 3.4 31.6 - - - +
128A ASP* 4.2 19.1 - - + +
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Residues in contact with THR 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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46A SER* 3.5 12.5 + - - -
47A LEU* 1.3 75.3 + - - +
49A GLU* 1.3 70.6 - - - +
51A ARG* 2.7 25.4 + - - +
52A ALA* 3.1 5.2 + - - +
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Residues in contact with GLU 49 (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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41A ASP 5.8 0.2 - - - +
44A SER 4.9 0.9 - - - +
45A ALA* 3.8 16.8 - - + +
46A SER* 2.9 39.9 + - - +
48A THR* 1.3 78.3 - - - +
50A VAL* 1.3 55.9 + - - +
52A ALA* 2.4 42.3 + - - +
53A LEU* 3.0 9.8 + - + +
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Residues in contact with VAL 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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42A TYR* 4.4 6.3 - - + +
45A ALA* 3.6 19.3 - - + -
46A SER 3.0 22.3 + - - +
47A LEU 4.1 3.6 - - - +
49A GLU* 1.3 72.8 - - - +
51A ARG* 1.3 64.2 + - - +
53A LEU* 2.8 22.2 + - - +
54A LEU* 3.1 15.7 + - + +
117A LEU* 3.7 31.6 - - + +
120A MET* 3.7 23.8 - - + -
121A GLU* 3.9 20.6 - - + +
124A LEU* 4.0 7.0 - - + -
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Residues in contact with ARG 51 (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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47A LEU* 2.8 54.8 + - - +
48A THR* 2.7 16.8 + - - +
50A VAL* 1.3 73.4 - - - +
52A ALA* 1.3 61.4 + - - +
54A LEU* 3.8 10.4 + - + +
55A ARG* 3.5 25.5 + - - +
121A GLU* 3.1 35.6 + - + -
125A GLU* 3.1 30.9 + - - +
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Residues in contact with ALA 52 (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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48A THR 3.1 4.3 + - - +
49A GLU* 2.4 39.3 + - - +
51A ARG* 1.3 69.0 - - - +
53A LEU* 1.3 59.9 + - + +
55A ARG* 3.2 9.8 - - - +
56A LYS* 2.9 36.0 + - + +
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Residues in contact with LEU 53 (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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41A ASP* 3.8 29.4 - - - +
42A TYR* 4.2 20.4 - - + -
45A ALA* 5.0 2.7 - - + -
49A GLU* 3.5 11.4 - - + +
50A VAL* 2.8 20.8 + - + +
52A ALA* 1.3 76.6 - - + +
54A LEU* 1.3 56.7 + - - +
55A ARG 3.0 0.9 - - - -
56A LYS* 2.8 16.1 + - + +
57A HIS* 2.5 36.7 + - - +
113A ARG* 4.3 9.4 - - - +
117A LEU* 4.0 20.2 - - + -
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Residues in contact with LEU 54 (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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50A VAL* 3.1 21.0 + - + +
51A ARG* 3.9 13.0 - - + +
52A ALA 3.5 0.2 - - - -
53A LEU* 1.3 74.8 - - - +
55A ARG* 1.3 57.8 + - - +
57A HIS* 3.0 8.7 + - - +
58A GLU* 2.9 39.4 + - - +
114A ARG* 4.5 16.0 + - - +
117A LEU* 3.4 30.5 - - + +
118A GLU* 4.0 24.2 - - + +
121A GLU* 3.0 35.9 - - + +
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Residues in contact with ARG 55 (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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51A ARG 3.5 13.6 + - - +
52A ALA* 3.2 15.0 + - - +
53A LEU 3.0 0.4 - - - -
54A LEU* 1.3 81.2 - - - +
56A LYS* 1.3 60.0 + - + +
58A GLU* 3.5 42.0 + - - +
59A ALA* 3.6 9.4 + - - +
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Residues in contact with LYS 56 (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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52A ALA* 2.9 19.1 + - + +
53A LEU* 2.8 24.0 + - + +
55A ARG* 1.3 72.8 - - + +
57A HIS* 1.3 60.2 + - - +
58A GLU 3.1 0.4 - - - -
59A ALA* 3.0 23.2 + - + +
60A PHE* 3.1 12.8 + - - +
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Residues in contact with HIS 57 (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 LEU* 3.7 15.4 - - + +
53A LEU 2.5 20.5 + - - +
54A LEU* 3.4 11.0 - - - +
56A LYS* 1.3 73.9 - - - +
58A GLU* 1.3 57.3 + - - +
59A ALA 3.2 0.2 - - - -
60A PHE* 3.8 12.4 - + - +
61A GLU* 3.0 25.0 + - - +
110A THR* 3.3 33.2 + - + +
113A ARG* 3.3 43.1 + - + +
114A ARG* 3.1 34.4 + - + +
117A LEU* 4.2 9.9 - - + -
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Residues in contact with GLU 58 (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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54A LEU* 2.9 19.7 + - - +
55A ARG* 3.5 46.9 + - - +
56A LYS 3.1 0.4 - - - -
57A HIS* 1.3 75.6 - - - +
59A ALA* 1.3 66.7 + - - +
61A GLU* 3.3 7.9 + - - +
62A SER* 2.9 25.3 + - - -
114A ARG* 3.9 20.1 + - - +
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Residues in contact with ALA 59 (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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55A ARG 3.6 6.5 + - - +
56A LYS* 3.0 16.4 + - + +
58A GLU* 1.3 79.9 - - - +
60A PHE* 1.3 61.6 + - - +
62A SER* 2.5 25.9 + - - -
63A ASP* 3.0 9.2 + - - +
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Residues in contact with PHE 60 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29A TRP* 5.7 1.1 - + - -
33A LYS* 3.7 50.5 - - + -
36A ILE* 4.8 12.1 - - + -
37A LEU* 3.6 33.2 - - + -
56A LYS 3.1 10.8 + - - +
57A HIS* 3.9 17.5 - + - +
59A ALA* 1.3 80.9 - - - +
61A GLU* 1.3 60.5 + - - +
63A ASP* 3.3 9.2 + - + +
64A LEU* 3.0 39.2 + - + +
106A LEU* 5.8 2.5 - - + -
110A THR* 3.4 24.2 - - + -
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Residues in contact with GLU 61 (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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57A HIS* 3.0 23.6 + - + +
58A GLU* 3.9 7.9 - - - +
59A ALA 3.2 0.4 - - - -
60A PHE* 1.3 76.5 - - - +
62A SER* 1.3 57.1 + - - +
64A LEU* 3.7 9.3 - - + +
65A ALA* 3.3 24.4 + - - +
110A THR* 3.5 31.2 - - + +
111A GLN* 5.1 2.6 - - - -
114A ARG* 2.6 48.5 + - - +
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Residues in contact with SER 62 (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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58A GLU 2.9 12.7 + - - -
59A ALA* 2.5 24.3 + - - -
61A GLU* 1.3 75.4 - - - +
63A ASP* 1.3 66.0 + - - +
64A LEU 3.1 1.3 - - - -
65A ALA* 3.7 5.0 + - - +
66A ALA* 3.4 20.8 + - - +
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Residues in contact with ASP 63 (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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29A TRP* 2.4 35.0 + - - -
33A LYS* 4.0 9.0 + - - -
59A ALA 3.0 11.1 + - - +
60A PHE* 3.7 11.5 - - - +
62A SER* 1.3 77.7 + - - +
64A LEU* 1.3 59.0 + - - +
66A ALA* 3.3 11.2 - - - +
67A HIS* 2.7 47.5 + - - -
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Residues in contact with LEU 64 (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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29A TRP* 3.5 24.0 - - + -
60A PHE* 3.0 27.3 + - + +
61A GLU* 3.7 8.5 - - + +
63A ASP* 1.3 72.6 - - - +
65A ALA* 1.3 56.2 + - - +
66A ALA 2.7 15.9 + - - -
67A HIS 2.8 12.6 + - - -
68A GLN 3.4 0.3 + - - -
103A TRP* 3.3 44.0 - - + -
106A LEU* 4.6 15.9 - - + +
107A GLY* 5.2 4.7 - - - -
110A THR* 3.7 35.2 - - + +
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Residues in contact with ALA 65 (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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61A GLU 3.3 14.5 + - - +
62A SER* 4.1 5.6 - - - +
63A ASP 3.6 0.2 - - - -
64A LEU* 1.3 80.8 - - - +
66A ALA* 1.3 59.5 + - - +
68A GLN* 3.7 18.2 - - - +
69A ASP 4.9 0.3 + - - -
103A TRP* 5.4 0.7 - - - -
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Residues in contact with ALA 66 (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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62A SER 3.4 12.1 + - - +
63A ASP* 3.3 14.8 - - - +
64A LEU 2.7 6.3 + - - -
65A ALA* 1.3 75.7 - - - +
67A HIS* 1.3 66.6 + - + +
68A GLN 3.2 1.4 + - - -
69A ASP* 3.7 16.6 + - - +
70A ARG* 3.9 8.8 + - - +
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Residues in contact with HIS 67 (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 THR* 6.5 0.7 - - + -
26A HIS* 4.6 10.2 + - - +
29A TRP* 2.8 53.4 + + + +
63A ASP* 2.7 37.7 + - - -
64A LEU 2.8 6.0 + - - +
66A ALA* 1.3 76.6 - - + +
68A GLN* 1.3 65.5 + - - +
69A ASP 3.0 2.9 - - - -
70A ARG* 3.0 39.6 + - - +
71A VAL* 3.0 14.4 + - - +
103A TRP* 3.9 15.9 - - + -
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Residues in contact with GLN 68 (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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64A LEU 3.4 4.8 + - - -
65A ALA* 3.7 18.4 - - - +
66A ALA 3.2 0.4 - - - -
67A HIS* 1.3 77.7 - - - +
69A ASP* 1.3 56.3 + - - +
71A VAL* 3.3 5.8 + - - +
72A GLU* 3.0 59.1 + - - +
103A TRP* 2.6 46.2 + - + +
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Residues in contact with ASP 69 (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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65A ALA 4.9 0.2 + - - -
66A ALA 3.7 12.7 + - - +
68A GLN* 1.3 78.1 - - - +
70A ARG* 1.3 72.4 + - - +
72A GLU* 3.0 11.6 + - - +
73A GLN* 2.8 52.0 + - - +
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Residues in contact with ARG 70 (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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22A LYS* 4.8 16.5 - - + +
25A THR* 6.1 5.4 - - + -
26A HIS* 4.7 13.5 - - + +
66A ALA 3.9 7.3 + - - -
67A HIS* 3.0 41.6 + - + +
69A ASP* 1.3 81.1 + - - +
71A VAL* 1.3 58.9 + - - +
73A GLN* 3.3 34.4 + - - +
74A ILE* 3.0 38.4 + - + +
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Residues in contact with VAL 71 (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 HIS* 3.3 36.8 - - + +
67A HIS 3.0 13.4 + - - +
68A GLN* 3.5 10.8 - - - +
69A ASP 3.0 0.4 - - - -
70A ARG* 1.3 77.9 - - - +
72A GLU* 1.3 64.7 + - + +
74A ILE* 3.4 8.8 + - - +
75A ALA* 3.0 21.9 + - + +
99A ILE* 4.6 7.6 - - + -
100A CYS* 4.1 21.5 - - - -
103A TRP* 3.8 36.6 - - + +
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Residues in contact with GLU 72 (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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68A GLN* 3.0 42.9 + - - +
69A ASP* 3.0 12.3 + - - +
71A VAL* 1.3 74.8 - - + +
73A GLN* 1.3 66.5 + - - +
75A ALA* 3.4 6.7 + - - +
76A ALA* 2.9 24.6 + - - +
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Residues in contact with GLN 73 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18A LYS* 5.7 2.8 + - - -
22A LYS* 2.8 39.4 + - + +
69A ASP* 2.8 39.4 + - - +
70A ARG* 3.5 28.5 - - - +
72A GLU* 1.3 76.1 - - + +
74A ILE* 1.3 65.1 + - - +
76A ALA* 2.9 17.9 + - - +
77A ILE* 3.0 22.5 + - + +
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Residues in contact with ILE 74 (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 PHE* 3.5 34.1 - - + +
22A LYS* 3.8 26.7 - - + +
23A ALA* 3.8 25.1 - - + +
26A HIS* 4.0 19.1 - - + -
70A ARG* 3.0 23.7 + - + +
71A VAL* 3.5 6.5 - - - +
73A GLN* 1.3 76.8 - - - +
75A ALA* 1.3 62.4 + - - +
77A ILE* 3.5 5.0 + - - -
78A ALA* 3.2 18.4 + - - +
96A CYS* 3.9 14.1 - - + -
99A ILE* 4.0 22.9 - - + -
100A CYS* 5.7 0.2 - - - -
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Residues in contact with ALA 75 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71A VAL* 3.0 17.3 + - + +
72A GLU* 3.6 8.3 - - - +
73A GLN 3.1 0.2 - - - -
74A ILE* 1.3 74.1 - - - +
76A ALA* 1.3 60.6 + - - +
78A ALA* 3.4 2.1 + - - +
79A GLN* 2.8 31.3 + - - +
96A CYS* 3.5 19.7 - - - -
100A CYS* 4.4 10.5 - - - -
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Residues in contact with ALA 76 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72A GLU 2.9 13.1 + - - +
73A GLN* 2.9 13.1 + - - +
75A ALA* 1.3 77.4 - - - +
77A ILE* 1.3 58.8 + - + +
79A GLN* 3.1 13.2 + - - +
80A GLU* 2.8 28.4 + - - +
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Residues in contact with ILE 77 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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15A LEU* 3.8 40.2 - - + +
18A LYS* 4.0 33.0 - - + +
19A PHE* 4.0 21.3 - - + -
22A LYS* 4.2 18.8 - - + -
73A GLN* 3.0 17.4 + - + +
74A ILE* 3.9 6.5 - - - +
76A ALA* 1.3 74.9 - - + +
78A ALA* 1.3 60.3 + - - +
80A GLU* 3.1 7.6 + - - +
81A LEU* 2.9 33.2 + - + +
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Residues in contact with ALA 78 (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 PHE* 3.9 10.0 - - + -
74A ILE 3.2 14.0 + - - +
75A ALA 3.8 4.0 - - - +
77A ILE* 1.3 79.1 - - - +
79A GLN* 1.3 62.5 + - - +
81A LEU* 4.0 6.6 - - - +
82A ASN* 3.1 31.6 + - - +
92A VAL* 4.4 15.1 - - + +
93A ASN* 4.6 7.0 - - - +
96A CYS* 3.7 27.6 - - + -
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Residues in contact with GLN 79 (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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75A ALA 2.8 15.5 + - - +
76A ALA* 3.2 14.9 - - - +
77A ILE 3.0 0.2 - - - -
78A ALA* 1.3 79.5 - - - +
80A GLU* 1.3 62.2 + - - +
82A ASN* 3.2 9.1 + - + +
83A GLU* 3.1 55.2 + - + +
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Residues in contact with GLU 80 (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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11A ARG* 2.9 26.7 + - - -
15A LEU* 3.1 27.0 - - + +
76A ALA 2.8 12.8 + - - +
77A ILE* 3.1 9.3 + - - +
79A GLN* 1.3 75.8 - - - +
81A LEU* 1.3 55.0 + - - +
83A GLU* 2.8 13.7 + - - +
84A LEU* 2.7 61.4 + - + +
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Residues in contact with LEU 81 (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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12A LEU* 3.6 33.4 - - + +
15A LEU* 4.4 8.5 - - + -
16A ALA* 3.7 30.3 - - + +
19A PHE* 4.7 2.2 - - + -
77A ILE* 2.9 25.8 + - + +
78A ALA* 4.0 4.3 - - - +
80A GLU* 1.3 77.4 - - - +
82A ASN* 1.3 60.3 + - - +
84A LEU* 3.9 3.6 - - - +
85A ASP 3.4 0.5 + - - -
86A TYR* 2.7 66.0 + - + +
89A ALA* 3.9 1.4 - - - +
92A VAL* 4.1 25.8 - - + -
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Residues in contact with ASN 82 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78A ALA 3.1 22.1 + - - +
79A GLN* 3.5 11.4 - - + +
80A GLU 3.0 0.6 - - - -
81A LEU* 1.3 76.8 - - - +
83A GLU* 1.3 62.7 + - + +
85A ASP* 3.1 23.0 + - - +
89A ALA* 3.2 37.6 + - - +
90A VAL* 5.3 0.4 - - - +
92A VAL* 4.8 0.6 - - - +
93A ASN* 3.1 29.8 + - - +
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Residues in contact with GLU 83 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A GLN* 3.1 42.1 + - + +
80A GLU* 2.8 10.9 + - - +
82A ASN* 1.3 79.2 - - + +
84A LEU* 1.3 68.3 + - + +
85A ASP* 3.0 11.6 + - - +
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Residues in contact with LEU 84 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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8A ARG* 4.9 14.5 + - - +
11A ARG* 3.6 9.6 - - - +
12A LEU* 3.4 44.0 - - + +
80A GLU* 2.7 51.3 + - + +
81A LEU 4.6 1.3 - - - +
83A GLU* 1.3 83.3 - - + +
85A ASP* 1.3 71.1 + - - +
86A TYR 3.3 1.0 + - - -
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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
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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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