Contacts of the helix formed by residues 37 - 66 (chain Q) in PDB entry 3J9X
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 VAL 37 (chain Q).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2447 T 3.9 22.7 - - - +
2457 A 3.9 4.5 - - - +
16P LYS* 4.7 11.2 - - + -
19P ALA* 3.7 19.1 - - + -
20P LYS* 3.6 30.3 - - + -
33Q ILE 3.0 20.2 + - - +
34Q LEU* 3.5 15.3 - - + +
36Q ASN* 1.3 76.0 - - - +
38Q SER* 1.3 69.2 + - - +
39Q PRO* 3.5 1.6 - - - -
40Q VAL* 3.9 7.6 - - + -
41Q ALA* 2.9 20.5 + - + +
21R PHE* 4.5 8.7 - - + -
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Residues in contact with SER 38 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34Q LEU 2.6 23.2 + - - -
35Q SER* 3.3 16.4 - - - -
37Q VAL* 1.3 80.5 - - - +
39Q PRO* 1.4 71.8 - - - +
41Q ALA* 2.9 10.6 + - - +
42Q GLN* 2.9 27.1 + - - +
21R PHE* 3.5 21.9 - - - -
22R ASN* 5.5 2.2 + - - -
25R SER* 4.7 5.0 + - - -
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Residues in contact with PRO 39 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35Q SER 4.0 3.4 - - - +
36Q ASN 3.6 12.3 - - - +
37Q VAL 3.5 2.0 - - - -
38Q SER* 1.4 98.5 - - - +
40Q VAL* 1.3 68.4 + - + +
42Q GLN* 3.5 19.2 - - - +
43Q GLN* 3.1 21.3 + - - +
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Residues in contact with VAL 40 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2447 T 4.8 1.6 - - - +
12P GLN* 5.0 1.8 - - - +
15P ALA* 4.1 30.5 - - + +
16P LYS* 3.9 32.1 - - + +
19P ALA* 4.5 3.8 - - + -
36Q ASN 4.3 13.7 - - - +
37Q VAL* 3.5 13.2 - - + +
38Q SER 3.0 1.0 + - - -
39Q PRO* 1.3 78.6 - - + +
41Q ALA* 1.3 67.3 + - - +
43Q GLN* 3.1 9.2 + - - +
44Q ASN* 3.1 32.2 + - - +
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Residues in contact with ALA 41 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2437 A 3.9 5.0 - - - +
2447 T 3.5 39.5 - - - +
37Q VAL 2.9 18.1 + - - +
38Q SER 3.4 4.0 - - - +
40Q VAL* 1.3 76.1 - - - +
42Q GLN* 1.3 58.8 + - - +
44Q ASN* 3.1 2.4 + - - +
45Q PHE* 2.8 30.7 + - - +
17R TRP* 4.1 15.2 - - + -
21R PHE* 4.5 9.0 - - + -
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Residues in contact with GLN 42 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38Q SER* 2.9 21.0 + - - +
39Q PRO* 3.5 29.8 - - - +
40Q VAL 3.1 0.2 - - - -
41Q ALA* 1.3 76.2 - - - +
43Q GLN* 1.3 62.9 + - - +
45Q PHE* 3.7 1.0 - - - +
46Q GLN* 2.9 35.0 + - - +
14R TYR* 3.9 8.9 + - - +
17R TRP* 4.2 12.6 - - + -
18R GLN* 3.2 43.5 - - - +
21R PHE* 5.8 1.1 - - + -
22R ASN* 4.6 2.0 + - - -
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Residues in contact with GLN 43 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12P GLN* 5.3 7.6 - - + +
39Q PRO 3.1 10.0 + - - +
40Q VAL* 3.1 11.6 + - - +
42Q GLN* 1.3 80.9 - - - +
44Q ASN* 1.3 60.1 + - - +
46Q GLN* 3.7 11.2 + - - +
47Q THR* 2.6 61.6 + - - +
43t GLN* 3.1 41.7 - - - +
11u SER* 5.1 9.7 - - - -
12u GLN* 6.1 2.8 - - - +
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Residues in contact with ASN 44 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2437 A 3.6 23.6 - - - +
2447 T 2.9 20.2 + - - -
8P ARG* 3.7 24.6 - - - +
12P GLN* 2.9 34.6 + - - +
16P LYS* 5.5 4.0 - - - +
40Q VAL* 3.1 20.9 + - - +
41Q ALA 3.1 7.9 + - - +
43Q GLN* 1.3 76.3 - - - +
45Q PHE* 1.3 64.9 + - - +
47Q THR* 3.4 4.0 + - - -
48Q ASN* 3.1 25.4 + - - +
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Residues in contact with PHE 45 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2427 T 4.5 10.5 - - - -
2437 A 3.5 28.4 - - - -
1088 T 5.3 6.1 - - + -
41Q ALA 2.8 16.1 + - - +
42Q GLN 3.7 4.0 - - - +
44Q ASN* 1.3 77.2 - - - +
46Q GLN* 1.3 58.5 + - - +
49Q VAL* 2.9 69.8 + - + +
10R TYR* 5.1 1.1 - + - -
13R ARG* 4.4 5.6 - - + -
14R TYR* 3.5 43.7 - + + -
17R TRP* 3.5 55.9 - + + -
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Residues in contact with GLN 46 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42Q GLN* 2.9 27.6 + - - +
43Q GLN* 3.8 11.9 + - - +
45Q PHE* 1.3 79.1 - - - +
47Q THR* 1.3 63.8 - - - +
50Q PRO* 3.1 22.2 - - - +
10R TYR* 5.2 9.6 + - - +
14R TYR* 3.4 47.6 + - + -
11u SER* 2.8 29.9 + - - +
14u TYR* 6.2 1.8 - - - -
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Residues in contact with THR 47 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12P GLN* 4.9 12.6 + - - +
43Q GLN* 2.6 46.8 + - - +
44Q ASN* 3.7 7.0 - - - -
45Q PHE 3.2 0.2 - - - -
46Q GLN* 1.3 80.4 - - - +
48Q ASN* 1.3 71.1 + - - +
50Q PRO* 4.3 2.4 - - - +
51Q LYS* 3.4 24.3 - - - +
9u SER* 5.5 11.9 - - - +
11u SER* 4.1 6.8 - - - -
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Residues in contact with ASN 48 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2427 T 3.8 17.0 + - - +
2437 A 3.0 21.0 + - - -
7P SER* 4.5 8.1 + - - -
8P ARG* 3.8 13.3 - - - +
12P GLN* 5.5 4.0 - - - +
44Q ASN* 3.1 10.1 + - - +
47Q THR* 1.3 87.0 - - - +
49Q VAL* 1.3 67.7 + - - +
50Q PRO* 3.4 1.8 - - - -
51Q LYS* 2.9 49.8 + - + +
52Q PHE* 3.4 12.5 - - + -
88Q ASN* 4.9 5.5 + - - -
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Residues in contact with VAL 49 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2427 T 3.6 34.5 - - + +
45Q PHE* 2.9 56.8 + - + +
48Q ASN* 1.3 74.8 - - - +
50Q PRO* 1.3 65.0 - - + +
52Q PHE* 2.9 26.4 + - + +
53Q THR* 3.0 12.8 + - - +
10R TYR* 4.6 6.3 - - + -
13R ARG* 3.8 29.8 - - + +
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Residues in contact with PRO 50 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45Q PHE 3.8 0.9 - - - +
46Q GLN 3.1 25.4 - - - +
47Q THR 4.2 2.7 - - - +
48Q ASN 3.4 3.4 - - - +
49Q VAL* 1.3 96.8 - - + +
51Q LYS* 1.3 60.3 + - + +
53Q THR* 3.7 1.9 - - - +
54Q SER* 3.2 23.9 + - - -
10R TYR* 3.7 48.2 - - + -
10u TYR* 4.9 13.5 - - + -
11u SER* 4.8 2.2 - - - +
50v PRO* 5.8 1.8 - - + -
54v SER* 5.3 1.4 - - - -
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Residues in contact with LYS 51 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47Q THR* 3.4 23.9 + - - +
48Q ASN* 2.9 37.2 + - - +
49Q VAL 3.0 0.6 - - - -
50Q PRO* 1.3 77.6 - - + +
52Q PHE* 1.3 64.2 + - + +
54Q SER* 2.9 19.4 + - - -
55Q VAL* 3.3 12.3 - - - +
84Q ALA* 5.5 1.1 - - - +
88Q ASN* 3.9 27.0 + - - +
9u SER* 6.0 5.4 - - - -
57v GLU* 4.2 26.5 - - - +
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Residues in contact with PHE 52 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2417 A 3.7 17.3 - - + +
2427 T 3.4 40.6 - - - +
48Q ASN* 3.4 20.0 - - + -
49Q VAL* 2.9 7.6 + - - +
51Q LYS* 1.3 77.2 - - + +
53Q THR* 1.3 66.8 + - - +
54Q SER 3.2 1.8 - - - -
55Q VAL* 3.1 6.5 + - - +
56Q ASN* 2.9 27.6 + - - +
81Q LEU* 3.7 28.9 - - + +
84Q ALA* 3.6 26.5 - - + -
85Q ARG* 3.6 14.6 - - - -
88Q ASN* 3.3 30.7 - - - -
13R ARG* 4.5 5.4 - - - +
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Residues in contact with THR 53 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49Q VAL* 3.0 7.9 + - - +
50Q PRO 3.4 5.8 + - - -
52Q PHE* 1.3 77.0 - - - +
54Q SER* 1.3 62.8 + - - +
56Q ASN* 3.1 8.1 + - + +
57Q GLU* 3.0 22.9 + - + +
8R ARG 4.7 4.5 - - - +
9R SER* 4.2 7.0 - - - -
10R TYR* 3.1 46.4 - - + +
13R ARG* 2.7 29.3 + - - +
----------------------------------------------------------
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Residues in contact with SER 54 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50Q PRO 3.2 9.4 + - - -
51Q LYS* 2.9 21.8 + - - -
53Q THR* 1.3 79.3 - - - +
55Q VAL* 1.3 58.1 + - - +
57Q GLU* 3.4 6.4 + - - +
58Q ASN* 3.0 39.1 + - - -
54v SER* 3.3 36.2 - - - -
57v GLU* 5.7 0.7 + - - -
58v ASN* 5.5 4.0 + - - -
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Residues in contact with VAL 55 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51Q LYS 3.3 17.7 - - - +
52Q PHE* 3.1 11.2 + - - +
53Q THR 3.1 0.2 - - - -
54Q SER* 1.3 76.9 + - - +
56Q ASN* 1.3 61.6 + - - +
58Q ASN* 3.3 3.5 + - - +
59Q VAL* 2.8 52.6 + - + +
77Q GLN* 5.2 0.7 - - - +
80Q GLY 4.1 13.0 - - - +
81Q LEU* 4.3 10.3 - - + +
84Q ALA* 4.0 20.6 - - + -
125Q ILE* 3.9 27.1 - - + -
58v ASN* 6.4 0.2 - - - +
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Residues in contact with ASN 56 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1098 A 4.8 4.6 + - - +
1108 T 4.1 35.1 + - - +
52Q PHE* 2.9 16.9 + - - +
53Q THR* 3.4 9.5 - - + +
55Q VAL* 1.3 75.2 - - - +
57Q GLU* 1.3 58.4 + - - +
60Q SER* 2.9 30.5 + - - -
77Q GLN* 3.1 21.0 + - - +
81Q LEU* 3.3 29.7 - - - +
13R ARG* 4.0 22.6 - - - +
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Residues in contact with GLU 57 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53Q THR* 3.0 14.2 + - + +
54Q SER* 3.5 11.9 - - - +
55Q VAL 3.1 0.2 - - - -
56Q ASN* 1.3 76.3 - - - +
58Q ASN* 1.3 73.3 + - - +
60Q SER* 3.2 8.2 + - - -
61Q ALA* 3.0 24.0 + - + +
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Residues in contact with ASN 58 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54Q SER* 3.0 22.3 + - - +
55Q VAL* 4.1 3.8 - - - +
57Q GLU* 1.3 90.1 - - - +
59Q VAL* 1.3 62.1 + - + +
61Q ALA* 3.2 10.7 + - - +
62Q VAL* 3.2 24.9 + - - +
124Q ILE* 3.7 25.1 - - + +
54v SER* 5.3 4.9 + - - -
58v ASN* 4.2 20.6 - - - +
124v ILE* 4.7 8.7 + - - +
125v ILE* 4.8 9.4 - - - +
----------------------------------------------------------
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Residues in contact with VAL 59 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55Q VAL* 2.8 37.1 + - + +
58Q ASN* 1.3 74.7 - - + +
60Q SER* 1.3 66.6 + - - +
62Q VAL* 3.1 8.8 + - - +
63Q LEU* 2.9 34.4 + - + +
76Q TYR 4.3 1.1 - - - +
77Q GLN* 3.3 31.9 - - - +
80Q GLY* 4.7 2.0 - - - -
121Q VAL* 4.0 39.3 - - + +
124Q ILE* 5.5 2.7 - - + -
125Q ILE* 4.4 6.7 - - + -
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Residues in contact with SER 60 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1108 T 4.9 0.2 - - - -
1118 A 3.4 10.2 + - - -
56Q ASN 2.9 21.9 + - - -
57Q GLU* 3.4 9.6 - - - -
59Q VAL* 1.3 77.7 - - - +
61Q ALA* 1.3 62.9 + - - +
63Q LEU* 3.1 2.9 + - - -
64Q THR* 3.0 13.4 + - - -
73Q ARG* 2.7 40.9 + - - +
77Q GLN* 3.4 12.5 - - - +
89S ARG 4.7 2.6 + - - -
90S ILE 4.7 3.5 + - - -
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Residues in contact with ALA 61 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57Q GLU* 3.0 15.3 + - + +
58Q ASN* 3.4 13.2 - - - +
59Q VAL 3.2 0.2 - - - -
60Q SER* 1.3 75.0 - - - +
62Q VAL* 1.3 64.8 + - + +
64Q THR* 3.2 7.9 + - - -
65Q GLN* 3.1 31.7 + - - +
125v ILE 6.1 0.7 - - - +
126v THR 5.7 3.4 - - - +
----------------------------------------------------------
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Residues in contact with VAL 62 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58Q ASN 3.2 12.5 + - - +
59Q VAL* 3.1 12.3 + - + +
61Q ALA* 1.3 78.4 - - + +
63Q LEU* 1.3 68.8 + - + +
65Q GLN* 2.9 23.9 + - - +
66Q TYR* 3.0 39.5 + - + -
117Q VAL* 5.3 0.7 - - + +
120Q ALA* 4.0 17.3 - - + +
121Q VAL* 4.8 5.8 - - + +
124Q ILE* 3.6 32.8 - - + -
126v THR 5.4 5.2 - - - +
127v GLY* 5.7 0.4 - - - -
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Residues in contact with LEU 63 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59Q VAL* 2.9 34.1 + - + +
60Q SER* 3.5 6.7 - - - +
62Q VAL* 1.3 79.2 - - + +
64Q THR* 1.3 61.5 + - - +
66Q TYR* 3.2 3.1 + - + +
67Q GLY 3.0 4.2 + - - -
68Q ILE* 2.9 43.5 + - + -
73Q ARG* 3.5 48.9 - - + +
76Q TYR* 3.6 34.1 - - + -
77Q GLN* 4.0 9.6 - - + +
117Q VAL* 4.1 11.0 - - + -
121Q VAL* 5.1 1.1 - - + -
----------------------------------------------------------
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Residues in contact with THR 64 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60Q SER 3.0 5.3 + - - -
61Q ALA* 3.6 11.1 - - - -
63Q LEU* 1.3 77.4 - - - +
65Q GLN* 1.3 62.7 + - + +
67Q GLY 3.1 9.7 + - - -
73Q ARG* 3.0 21.8 + - - +
90S ILE* 2.6 33.8 + - + +
91S GLY* 3.8 7.0 - - - +
92S SER 3.3 28.3 - - - +
93S GLY* 4.6 1.3 - - - -
94S PRO* 3.3 4.7 - - + +
95S ALA* 3.3 19.5 + - + +
----------------------------------------------------------
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Residues in contact with GLN 65 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61Q ALA* 3.1 18.6 + - - +
62Q VAL* 2.9 16.9 + - - +
64Q THR* 1.3 78.2 - - + +
66Q TYR* 1.3 66.2 + - + +
67Q GLY 3.3 0.4 - - - -
94S PRO* 3.4 24.3 - - + +
92v SER* 5.8 5.3 - - - -
126v THR* 3.9 21.9 + - - +
127v GLY 5.8 0.7 - - - -
128v SER* 4.9 5.0 + - - -
134v SER* 3.7 31.3 + - - +
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Residues in contact with TYR 66 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62Q VAL* 3.0 35.7 + - + -
63Q LEU* 3.2 7.3 + - - +
65Q GLN* 1.3 83.8 - - + +
67Q GLY* 1.3 62.4 + - - +
68Q ILE* 3.2 21.9 + - + +
116Q GLN* 2.9 43.8 + - - -
117Q VAL* 4.1 16.4 - - + -
120Q ALA* 3.5 28.3 - - + +
94S PRO* 4.6 0.9 - - - -
----------------------------------------------------------
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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).
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