Contacts of the helix formed by residues 44 - 78 (chain A) in PDB entry 1O9D
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 THR 44 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8A ARG* 4.0 11.4 - - - +
42A GLU 5.2 0.9 - - - +
43A LEU* 1.3 76.8 - - - +
45A VAL* 1.3 64.0 + - - +
46A GLU* 3.5 10.9 + - - +
47A GLU* 2.9 43.5 + - - +
48A ARG* 2.9 22.6 + - - +
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Residues in contact with VAL 45 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A THR* 1.3 72.9 - - - +
46A GLU* 1.3 65.2 + - - +
48A ARG* 3.5 31.2 + - - +
49A ASN* 3.0 45.3 + - - +
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Residues in contact with GLU 46 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12A VAL* 4.3 11.3 - - - +
16A LYS* 2.8 33.9 + - - +
44A THR* 3.2 9.7 + - - +
45A VAL* 1.3 80.0 - - - +
47A GLU* 1.3 59.2 + - - +
49A ASN* 3.2 6.3 + - - +
50A LEU* 2.9 44.8 + - + +
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Residues in contact with GLU 47 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8A ARG* 2.6 49.9 + - - +
12A VAL* 3.6 33.0 - - + +
31A MET* 3.6 20.1 - - + +
34A VAL* 4.0 6.7 - - - -
43A LEU* 3.5 13.8 - - + +
44A THR* 2.9 36.1 + - - +
46A GLU* 1.3 76.8 - - - +
48A ARG* 1.3 64.3 + - - +
50A LEU* 3.2 6.7 + - - +
51A LEU* 3.0 21.8 + - - +
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Residues in contact with ARG 48 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A GLU* 4.9 3.2 + - - -
43A LEU* 4.0 17.4 + - + +
44A THR 2.9 14.2 + - - +
45A VAL* 3.8 33.5 - - - +
47A GLU* 1.3 76.4 - - - +
49A ASN* 1.3 71.0 + - - +
51A LEU* 3.3 4.5 + - - +
52A SER* 3.1 24.8 + - - -
120A SER* 5.6 0.2 + - - -
122A ASP* 4.7 7.7 + - - +
123A SER* 3.6 34.1 - - - +
126A PHE* 3.2 55.7 - - + +
127A TYR* 3.6 25.0 + - + +
175A ILE* 4.2 13.7 - - - +
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Residues in contact with ASN 49 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A VAL* 3.0 44.9 + - - +
46A GLU* 3.8 4.3 - - - +
48A ARG* 1.3 89.3 - - - +
50A LEU* 1.3 59.5 + - + +
52A SER* 3.4 5.0 + - - -
53A VAL* 2.9 40.3 + - + +
126A PHE* 3.6 20.2 - - - -
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Residues in contact with LEU 50 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12A VAL* 4.3 11.9 - - + +
15A ALA* 4.9 2.0 - - + -
16A LYS* 4.0 28.3 - - + -
19A GLU* 3.7 24.9 - - - +
27A MET* 3.4 21.7 - - + +
31A MET* 4.0 19.0 - - + +
46A GLU* 2.9 38.9 + - + +
47A GLU* 3.4 10.1 - - - +
49A ASN* 1.3 79.1 - - + +
51A LEU* 1.3 61.4 + - - +
53A VAL* 3.4 2.2 + - + -
54A ALA* 3.0 21.7 + - - +
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Residues in contact with LEU 51 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A VAL* 4.6 3.4 - - - +
31A MET* 3.6 37.4 - - + +
32A GLU* 4.6 3.1 - - + +
35A SER* 5.2 0.9 - - - +
43A LEU* 4.4 15.7 - - + -
47A GLU 3.0 13.0 + - - +
48A ARG* 3.7 8.5 - - - +
50A LEU* 1.3 74.8 - - - +
52A SER* 1.3 58.3 + - - +
54A ALA* 3.5 2.4 + - - +
55A TYR* 3.1 50.1 + - + +
106A ILE* 4.2 8.3 - - + -
109A LEU* 4.1 14.1 - - + -
114A LEU* 3.7 30.5 - - + -
127A TYR* 5.4 2.5 - - + -
130A MET* 4.7 6.1 - - + -
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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 ARG 3.1 15.6 + - - -
49A ASN* 3.6 5.6 + - - -
51A LEU* 1.3 78.5 - - - +
53A VAL* 1.3 59.9 + - - +
55A TYR* 3.4 2.3 + - - +
56A LYS* 3.0 31.9 + - - +
126A PHE* 3.7 22.4 - - - -
130A MET* 3.8 23.9 - - - +
134A TYR* 4.5 1.6 + - - -
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Residues in contact with VAL 53 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19A GLU* 3.6 24.7 - - + +
24A TYR* 5.1 0.9 - - + -
27A MET* 4.2 10.3 - - + -
49A ASN* 2.9 26.2 + - + +
50A LEU* 4.0 5.2 - - + +
52A SER* 1.3 72.5 - - - +
54A ALA* 1.3 65.3 + - - +
56A LYS* 3.3 6.5 + - - +
57A ASN* 2.9 44.9 + - - +
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Residues in contact with ALA 54 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A TYR* 4.1 4.6 - - - +
27A MET* 3.6 32.5 - - + +
28A VAL* 3.6 26.7 - - + +
50A LEU 3.0 18.1 + - - +
51A LEU* 3.6 6.5 - - - +
53A VAL* 1.3 78.1 - - - +
55A TYR* 1.3 63.8 + - - +
57A ASN* 3.3 1.7 + - - +
58A VAL* 3.0 27.0 + - - +
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Residues in contact with TYR 55 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A VAL* 3.6 29.1 - - + +
32A GLU* 2.7 27.4 + - + -
51A LEU* 3.1 35.5 + - + +
52A SER 4.0 2.5 - - - +
54A ALA* 1.3 77.2 - - - +
56A LYS* 1.3 53.7 + - - +
58A VAL* 3.2 3.3 + - + +
59A ILE* 2.8 37.6 + - - +
102A ILE* 3.5 39.0 - - + -
105A GLY* 3.5 14.4 - - - -
106A ILE* 3.6 41.3 - - + -
109A LEU* 5.2 0.4 - - + -
130A MET* 4.7 4.9 - - + -
134A TYR* 3.4 16.6 + + + +
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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
----------------------------------------------------------
52A SER* 3.0 19.6 + - - +
53A VAL* 3.6 8.1 - - - +
54A ALA 3.3 0.2 - - - -
55A TYR* 1.3 76.2 - - - +
57A ASN* 1.3 60.6 + - - +
59A ILE* 3.6 5.9 - - + +
60A GLY* 2.8 29.1 + - - -
63A ARG* 3.6 9.1 - - - +
134A TYR* 3.4 11.8 + - + +
137A TYR* 3.8 14.8 + - - +
4P TPO 2.7 35.2 + - - -
5P VAL* 4.4 23.3 - - - +
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Residues in contact with ASN 57 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A TYR* 3.4 51.3 + - + -
53A VAL* 2.9 43.6 + - - +
54A ALA 3.9 0.2 - - - +
56A LYS* 1.3 77.1 - - - +
58A VAL* 1.3 68.6 + - - +
60A GLY* 4.5 0.9 - - - +
61A ALA* 3.4 21.1 + - - +
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Residues in contact with VAL 58 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A TYR* 3.5 32.5 - - + +
25A GLU* 3.8 16.4 - - + +
28A VAL* 3.7 12.3 - - + -
54A ALA 3.0 18.7 + - - +
55A TYR* 3.8 6.3 - - + +
57A ASN* 1.3 79.6 - - - +
59A ILE* 1.3 62.4 + - - +
61A ALA 3.8 1.2 + - - -
62A ARG* 3.1 45.5 + - - +
102A ILE* 3.6 26.0 - - + +
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Residues in contact with ILE 59 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A TYR 2.8 20.3 + - - +
56A LYS* 3.6 13.0 - - + +
58A VAL* 1.3 73.5 - - - +
60A GLY* 1.3 64.4 + - - +
62A ARG* 3.0 4.3 + - - -
63A ARG* 2.9 34.7 + - + +
99A LEU* 3.6 26.5 - - + +
102A ILE* 3.6 29.8 - - + +
103A CYS* 3.8 25.1 - - - -
134A TYR* 3.9 19.5 - - + +
137A TYR* 4.0 25.1 - - + -
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Residues in contact with GLY 60 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56A LYS* 2.8 24.9 + - - -
57A ASN* 4.3 1.1 - - - -
58A VAL 3.5 0.2 - - - -
59A ILE* 1.3 73.2 - - - +
61A ALA* 1.3 64.9 + - - +
63A ARG* 3.8 13.7 - - - +
64A ALA* 2.9 27.4 + - - +
67A ARG* 5.2 0.9 + - - -
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Residues in contact with ALA 61 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A ASN 3.4 16.6 + - - +
58A VAL 4.2 4.3 - - - +
59A ILE 3.3 1.0 - - - -
60A GLY* 1.3 76.2 - - - +
62A ARG* 1.3 76.1 + - - +
64A ALA* 3.5 6.4 + - - +
65A SER* 3.1 26.5 + - - -
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Residues in contact with ARG 62 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A GLU* 3.0 32.5 + - - +
58A VAL* 3.1 35.3 + - - +
59A ILE 3.0 4.4 + - - +
61A ALA* 1.3 86.2 - - - +
63A ARG* 1.3 59.6 + - - +
65A SER* 3.4 5.3 + - - +
66A TRP* 2.8 30.0 + - - +
95A ILE* 3.6 13.3 - - + +
98A GLU* 2.8 44.4 + - + +
99A LEU* 3.4 24.7 - - + -
102A ILE* 3.9 11.3 - - + +
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Residues in contact with ARG 63 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56A LYS* 3.6 8.7 - - - +
59A ILE* 2.9 28.1 + - + +
60A GLY* 3.2 9.9 + - - +
62A ARG* 1.3 74.8 - - - +
64A ALA* 1.3 53.3 + - - +
66A TRP* 3.2 7.5 + - - +
67A ARG* 2.9 72.1 + - - +
99A LEU* 3.8 17.7 - - + -
137A TYR* 3.4 33.2 - - - -
140A GLU* 2.7 54.5 + - - -
4P TPO 2.5 43.2 + - - -
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Residues in contact with ALA 64 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A GLY 2.9 17.5 + - - +
61A ALA* 3.7 7.4 - - - +
63A ARG* 1.3 76.3 - - - +
65A SER* 1.3 62.5 + - - +
67A ARG* 3.4 17.7 + - - +
68A ILE* 3.2 27.7 + - + +
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Residues in contact with SER 65 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A ALA 3.1 15.9 + - - -
62A ARG* 3.7 9.5 - - - -
64A ALA* 1.3 72.9 - - - +
66A TRP* 1.3 67.3 + - - +
68A ILE* 3.1 7.7 + - - +
69A ILE* 2.9 29.2 + - - +
95A ILE* 3.8 20.6 - - - -
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Residues in contact with TRP 66 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A ARG 2.8 20.9 + - - +
63A ARG* 3.6 6.3 - - - +
65A SER* 1.3 74.3 - - - +
67A ARG* 1.3 78.6 + - + +
69A ILE* 3.5 3.4 + - - +
70A SER* 2.9 47.8 + - - -
92A ARG* 3.3 30.7 - - + +
95A ILE* 4.1 15.6 - - + +
96A GLU* 2.9 37.8 + - + -
99A LEU* 4.1 17.3 - - + -
140A GLU* 3.9 20.9 - - + -
141A PHE* 3.5 24.5 - - + +
1P GLN* 6.1 0.7 - - - -
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Residues in contact with ARG 67 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A GLY 5.2 0.8 + - - -
63A ARG* 2.9 73.7 + - - +
64A ALA* 3.8 12.5 - - - +
65A SER 3.2 0.4 - - - -
66A TRP* 1.3 91.4 - - + +
68A ILE* 1.3 58.4 + - + +
70A SER* 3.7 1.9 - - - -
71A SER* 2.8 32.2 + - - -
140A GLU* 4.1 7.7 + - - -
1P GLN* 3.2 49.4 - - - +
4P TPO 5.3 0.2 + - - -
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Residues in contact with ILE 68 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A ALA* 3.2 14.5 + - + +
65A SER* 3.1 10.9 + - - +
67A ARG* 1.3 80.9 - - + +
69A ILE* 1.3 69.4 + - + +
71A SER* 3.3 6.1 + - - -
72A ILE* 3.2 39.7 + - + +
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Residues in contact with ILE 69 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A SER* 2.9 19.8 + - - +
66A TRP* 4.1 2.9 - - - +
68A ILE* 1.3 83.3 - - + +
70A SER* 1.3 57.1 + - - +
72A ILE* 3.7 14.9 + - + +
73A GLU* 3.1 21.0 + - - +
88A ILE* 3.3 35.6 - - + +
91A TYR* 3.9 29.8 - - + -
92A ARG* 3.9 22.9 - - + +
95A ILE* 4.0 10.3 - - + -
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Residues in contact with SER 70 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A TRP* 2.9 52.1 + - - -
67A ARG* 3.7 3.6 - - - -
69A ILE* 1.3 79.9 - - - +
71A SER* 1.3 63.9 + - - +
72A ILE 3.2 0.2 - - - -
73A GLU* 3.4 8.2 + - - +
74A GLN* 3.1 23.2 + - - +
92A ARG* 4.4 10.1 + - - +
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Residues in contact with SER 71 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A ARG 2.8 17.7 + - - -
68A ILE* 3.8 6.3 - - - -
70A SER* 1.3 79.5 + - - +
72A ILE* 1.3 61.5 + - - +
74A GLN* 3.5 10.4 + - - +
75A LYS* 3.2 42.1 + - - +
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Residues in contact with ILE 72 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68A ILE* 3.2 33.5 + - + +
69A ILE* 3.9 15.5 - - + +
70A SER 3.2 0.6 - - - -
71A SER* 1.3 76.8 - - - +
73A GLU* 1.3 66.7 + - - +
75A LYS* 3.1 11.6 + - + +
76A GLU* 2.9 25.4 + - + +
88A ILE* 3.6 23.8 - - + -
----------------------------------------------------------
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Residues in contact with GLU 73 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A ILE 3.1 11.9 + - - +
70A SER* 3.4 6.5 + - - +
72A ILE* 1.3 75.7 - - - +
74A GLN* 1.3 61.4 + - + +
76A GLU* 3.8 0.3 - - - +
77A GLU* 2.8 37.7 + - + +
85A VAL* 4.4 5.1 - - + +
88A ILE* 3.2 30.7 - - + +
89A ARG* 2.8 57.1 + - + +
92A ARG* 3.2 30.9 + - - -
----------------------------------------------------------
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Residues in contact with GLN 74 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A SER 3.1 15.9 + - - +
71A SER* 3.8 10.8 - - - +
72A ILE 3.1 0.2 - - - -
73A GLU* 1.3 81.3 - - + +
75A LYS* 1.3 68.0 + - + +
77A GLU* 3.8 16.3 - - - +
78A SER* 3.1 27.8 + - - -
----------------------------------------------------------
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Residues in contact with LYS 75 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A SER* 3.2 29.0 + - - +
72A ILE* 3.1 13.3 + - + +
74A GLN* 1.3 85.6 - - + +
76A GLU* 1.3 62.6 + - - +
78A SER* 3.4 17.5 + - - -
79A ARG* 3.4 39.5 + - - +
----------------------------------------------------------
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Residues in contact with GLU 76 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72A ILE* 2.9 18.6 + - + +
73A GLU 4.0 0.9 - - - +
75A LYS* 1.3 76.5 - - - +
77A GLU* 1.3 64.4 + - - +
78A SER 3.1 1.6 - - - -
79A ARG* 3.3 33.8 + - - -
81A ASN* 3.1 39.9 + - + +
84A HIS* 2.8 48.9 + - + -
85A VAL* 4.0 4.7 - - + -
88A ILE* 3.9 14.1 - - + -
----------------------------------------------------------
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Residues in contact with GLU 77 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A GLU* 2.8 22.1 + - - +
74A GLN* 3.8 19.3 - - - +
76A GLU* 1.3 75.9 - - - +
78A SER* 1.3 61.4 + - - +
80A GLY* 3.0 19.0 + - - +
81A ASN 4.9 0.9 - - - +
85A VAL* 3.6 18.8 - - + +
89A ARG* 2.3 38.4 + - - +
----------------------------------------------------------
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Residues in contact with SER 78 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A GLN* 3.1 23.7 + - - -
75A LYS* 3.4 9.8 + - - -
77A GLU* 1.3 76.5 - - - +
79A ARG* 1.3 57.4 + - - +
80A GLY 3.2 4.7 - - - -
----------------------------------------------------------
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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