Contacts of the helix formed by residues 34 - 63 (chain D) in PDB entry 1JI5
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 GLN 34 (chain D).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30D VAL* 5.4 0.7 - - - -
31D LYS 5.3 1.3 - - - +
32D GLY 3.0 1.2 - - - -
33D PRO* 1.3 96.5 - - + +
35D PHE* 1.3 56.0 + - - +
36D PHE 3.5 1.3 - - - -
37D THR* 3.4 23.8 + - - +
38D LEU* 2.7 52.0 + - + +
89D ALA* 5.2 9.6 - - + -
90D GLU* 5.4 8.7 - - - +
143D PHE* 3.5 32.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 35 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27D HIS 5.0 1.1 - - - -
28D TRP 5.4 3.8 - - - -
30D VAL* 3.4 45.7 - - + +
31D LYS* 4.4 4.0 - - - -
32D GLY* 3.1 21.2 + - - +
33D PRO 3.3 1.4 - - - -
34D GLN* 1.3 77.4 - - - +
36D PHE* 1.3 104.0 + + + +
38D LEU* 3.8 0.2 - - - +
39D HIS* 2.5 65.5 + + + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 36 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33D PRO 5.4 1.3 + - - -
34D GLN 3.5 0.2 - - - -
35D PHE* 1.3 107.8 - + + +
37D THR* 1.3 66.5 + - + +
39D HIS* 3.7 7.0 - + - +
40D GLU* 3.1 27.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 37 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33D PRO 4.8 3.6 - - - +
34D GLN* 3.9 28.6 + - - +
35D PHE 3.3 0.2 - - - -
36D PHE* 1.3 80.0 - - + +
38D LEU* 1.3 70.1 + - - +
40D GLU* 3.5 7.5 - - - +
41D LYS* 3.0 26.5 + - - +
143D PHE* 5.1 2.4 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 38 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30D VAL* 4.0 19.3 - - + -
34D GLN* 2.7 53.9 + - + +
35D PHE 3.8 0.9 - - - +
37D THR* 1.3 77.4 + - - +
39D HIS* 1.3 64.4 + - - +
40D GLU 3.0 1.6 - - - -
41D LYS* 3.9 13.4 - - + +
42D PHE* 3.0 43.8 + - + -
89D ALA* 5.2 4.3 - - + +
93D VAL* 3.9 28.3 - - + -
140D LEU* 5.9 3.8 - - + -
143D PHE* 3.6 23.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 39 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58C GLU* 3.2 22.2 + - - -
61C LEU* 6.2 1.8 - - + -
154C FE 4.2 0.8 - - - -
27D HIS* 2.7 77.6 + + - -
28D TRP* 5.4 1.3 - - - -
30D VAL* 4.1 8.4 - - - +
35D PHE* 2.5 54.8 + + + +
36D PHE* 3.7 9.9 - + - +
38D LEU* 1.3 73.5 - - - +
40D GLU* 1.3 64.1 - - + +
42D PHE* 4.2 1.5 - - - +
43D GLU* 3.6 5.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 40 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36D PHE 3.1 16.1 + - - +
37D THR* 3.5 7.4 - - - +
39D HIS* 1.3 82.7 - - + +
41D LYS* 1.3 67.3 + - - +
43D GLU* 2.9 22.1 + - - +
44D GLU* 3.1 13.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 41 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37D THR 3.0 14.4 + - - +
38D LEU* 3.9 18.2 - - + +
40D GLU* 1.3 78.8 - - - +
42D PHE* 1.3 64.5 + - + +
44D GLU* 3.0 45.2 + - - +
45D LEU* 2.9 34.7 + - + +
136D HIS* 4.3 11.1 - - - -
139D MET* 3.3 32.3 - - - +
140D LEU* 5.1 15.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 42 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23D LEU* 3.7 31.7 - - + +
26D PHE* 3.6 42.8 - + + -
27D HIS* 3.9 9.0 - - - -
30D VAL* 4.2 11.2 - - + -
38D LEU* 3.0 43.8 + - + +
39D HIS 4.2 0.7 - - - +
41D LYS* 1.3 77.4 - - + +
43D GLU* 1.3 57.6 + - - +
45D LEU* 3.1 14.5 + - + +
46D TYR* 2.8 32.2 + - - +
89D ALA 4.8 0.2 - - - -
92D MET* 3.7 22.4 - - + -
93D VAL* 4.4 16.6 - - + -
96D ILE* 4.4 17.9 - - + -
140D LEU* 6.3 1.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 43 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54C ASP* 4.6 5.0 - - - +
154C FE 4.6 0.7 - - - -
27D HIS* 3.7 20.1 + - + -
39D HIS* 3.6 4.6 + - - +
40D GLU* 2.9 14.4 + - - +
42D PHE* 1.3 75.6 - - - +
44D GLU* 1.3 60.0 + - - +
46D TYR* 3.2 40.4 + - + +
47D THR* 2.6 39.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 44 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40D GLU* 3.1 13.2 + - + +
41D LYS* 3.0 54.0 + - - +
43D GLU* 1.3 77.2 - - - +
45D LEU* 1.3 61.5 + - + +
47D THR* 3.4 7.7 + - - -
48D GLU* 3.1 37.8 + - + +
136D HIS* 4.1 9.5 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 45 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16D TRP* 5.5 0.5 - - - -
23D LEU* 3.5 16.4 - - + +
41D LYS* 2.9 36.1 + - + +
42D PHE* 3.4 22.2 - - + +
44D GLU* 1.3 81.1 - - + +
46D TYR* 1.3 60.3 + - - +
48D GLU* 3.2 9.8 + - - +
49D SER* 2.8 25.8 + - - -
96D ILE* 4.9 7.0 - - + -
100D TYR* 3.0 31.3 + - + +
136D HIS* 3.5 37.2 - - + +
140D LEU* 5.1 8.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 46 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54C ASP* 3.9 10.6 + - - +
154C FE 3.9 0.3 - - - -
20D PHE* 3.6 16.0 - + + +
23D LEU* 3.4 33.6 - - + +
24D HIS* 3.5 35.7 - + + +
27D HIS* 3.5 32.9 + + + -
42D PHE 2.8 25.7 + - - -
43D GLU* 3.2 49.3 + - + -
45D LEU* 1.3 70.1 - - - +
47D THR* 1.3 74.6 + - - +
49D SER* 2.7 20.9 + - - +
50D ALA* 3.0 10.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 47 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20D PHE* 5.9 0.2 - - - -
43D GLU* 2.6 27.9 + - - +
44D GLU* 3.5 8.4 - - - -
45D LEU 3.1 0.2 - - - -
46D TYR* 1.3 89.0 - - - +
48D GLU* 1.3 62.8 + - + +
50D ALA* 3.2 9.9 + - + +
51D THR* 3.1 22.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 48 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16D TRP* 6.2 0.2 - - + -
44D GLU* 3.1 26.0 + - + +
45D LEU* 3.4 13.6 - - - +
47D THR* 1.3 76.6 - - + +
49D SER* 1.3 66.7 + - - +
51D THR* 2.9 20.8 + - - -
52D HIS* 3.1 25.8 + - + +
100D TYR* 5.1 1.6 + - - -
132D GLU* 3.6 24.9 - - - +
136D HIS* 2.8 36.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 49 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16D TRP* 3.6 39.3 - - - +
20D PHE* 3.5 22.2 - - - +
23D LEU* 4.2 8.5 - - - -
45D LEU 2.8 16.0 + - - -
46D TYR* 2.7 14.6 + - - -
48D GLU* 1.3 76.9 - - - +
50D ALA* 1.3 71.8 + - - +
52D HIS* 3.0 7.0 + - - +
53D ILE* 3.0 25.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 50 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20C PHE* 4.7 9.2 - - + -
24C HIS* 5.1 4.5 + - - +
20D PHE* 4.0 16.6 - - + -
46D TYR 3.0 8.6 + - - +
47D THR* 3.2 12.1 + - + +
49D SER* 1.3 82.6 + - - +
51D THR* 1.3 63.4 + - - +
53D ILE* 3.4 15.5 + - - +
54D ASP* 3.3 19.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 51 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47D THR* 3.1 14.6 + - - +
48D GLU* 2.9 15.0 + - - -
50D ALA* 1.3 76.7 - - - +
52D HIS* 1.3 68.0 + - + +
54D ASP* 3.1 7.0 + - - +
55D GLU* 3.0 52.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 52 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16D TRP* 3.6 48.8 - + + +
48D GLU* 3.1 26.3 + - + -
49D SER* 3.0 4.8 + - - +
51D THR* 1.3 78.9 - - + +
53D ILE* 1.3 63.0 - - - +
54D ASP 3.1 0.2 + - - -
55D GLU* 3.2 18.9 + - - -
56D ILE* 2.9 36.2 + - + +
129D ILE* 3.9 25.4 - - + +
132D GLU* 2.7 41.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 53 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20C PHE* 4.7 12.3 - - + -
24C HIS* 4.2 10.3 - - + +
28C TRP* 3.6 24.2 - - + -
13D VAL* 4.4 10.7 - - + +
16D TRP* 3.6 22.2 - - + +
17D SER* 3.7 37.2 - - - +
20D PHE* 4.2 13.2 - - + -
49D SER 3.0 20.1 + - - +
50D ALA* 3.5 16.6 - - - +
52D HIS* 1.3 76.1 - - - +
54D ASP* 1.3 58.3 + - - +
56D ILE* 4.4 2.9 - - - +
57D ALA* 3.2 26.0 + - - +
74D TYR* 5.1 0.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 54 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C HIS* 4.5 5.3 - - + +
27C HIS* 3.2 5.9 - - - -
28C TRP* 2.7 31.9 + - + -
43C GLU* 4.5 3.8 - - - +
46C TYR* 3.7 13.4 + - - +
50D ALA 3.3 6.7 + - - +
51D THR* 3.1 9.1 + - - +
53D ILE* 1.3 79.1 - - - +
55D GLU* 1.3 64.2 + - + +
57D ALA* 3.8 0.3 - - - +
58D GLU* 2.8 37.4 + - - +
153D FE 1.9 32.6 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 55 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51D THR* 3.0 35.6 + - + +
52D HIS* 3.8 23.8 + - - +
54D ASP* 1.3 75.4 - - + +
56D ILE* 1.3 53.9 + - + +
58D GLU* 3.2 7.6 + - - +
59D ARG* 2.7 36.2 + - - +
125D LEU* 4.2 24.8 - - + +
129D ILE* 5.4 1.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 56 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9D LEU* 3.4 44.9 - - + +
12D GLN* 3.6 18.6 - - + +
13D VAL* 3.7 10.1 - - + -
16D TRP* 3.5 33.4 - - + +
52D HIS* 2.9 22.5 + - + +
53D ILE* 4.8 1.1 - - - -
55D GLU* 1.3 76.8 - - + +
57D ALA* 1.3 55.1 + - - +
59D ARG* 2.7 26.3 + - - +
60D ILE* 2.9 17.4 + - + +
125D LEU* 4.3 10.8 - - + -
126D LEU* 5.7 1.8 - - + -
129D ILE* 4.1 15.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 57 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C TRP* 3.2 44.0 - - + +
13D VAL* 4.1 8.7 - - + +
53D ILE 3.2 15.1 + - - +
54D ASP 3.8 0.4 - - - +
56D ILE* 1.3 78.9 - - - +
58D GLU* 1.3 58.9 + - - +
59D ARG 3.1 0.2 + - - -
60D ILE* 3.3 7.2 + - - +
61D LEU* 2.8 30.4 + - - +
67D PRO* 4.0 16.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 58 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27C HIS* 3.2 2.6 + - - -
28C TRP* 3.9 9.3 - - + +
39C HIS* 3.2 27.0 + - - -
54D ASP* 2.8 35.6 + - - +
55D GLU* 3.4 5.5 - - - +
57D ALA* 1.3 74.2 - - - +
59D ARG* 1.3 57.5 + - - +
61D LEU* 3.5 13.9 - - + +
62D ALA* 3.0 26.2 + - - +
153D FE 2.5 27.7 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 59 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9D LEU* 4.0 16.4 - - + -
55D GLU 2.7 13.3 + - - +
56D ILE* 2.7 11.3 + - - +
58D GLU* 1.3 76.0 - - - +
60D ILE* 1.3 61.9 + - - +
61D LEU 3.0 1.1 - - - -
62D ALA* 2.7 30.4 + - - +
63D ILE* 3.0 32.3 + - + +
119D ASP* 3.1 14.1 + - - -
121D MET* 2.9 38.9 - - - +
122D THR* 3.1 18.6 + - + +
125D LEU* 3.7 27.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 60 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6D ILE* 4.2 8.3 - - + -
9D LEU* 3.2 36.8 - - + -
10D ASN* 3.5 20.4 - - - +
13D VAL* 5.3 0.9 - - + -
56D ILE* 3.1 17.0 - - + +
57D ALA* 3.3 6.7 - - - +
59D ARG* 1.3 74.7 - - - +
61D LEU* 1.3 61.3 + - - +
63D ILE* 3.1 21.8 + - + +
65D GLY 2.7 33.2 + - - -
66D LYS 3.5 5.4 - - - +
67D PRO* 3.0 48.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 61 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C TRP* 3.2 55.0 - - + +
29C TYR* 4.8 8.1 - - + -
31C LYS* 5.7 5.4 - - - +
39C HIS* 6.2 1.3 - - + -
57D ALA 2.8 14.5 + - - +
58D GLU* 3.5 14.6 - - + +
60D ILE* 1.3 80.6 - - - +
62D ALA* 1.3 57.9 + - - +
63D ILE 3.6 0.3 + - - -
64D GLY* 3.7 8.8 + - - -
65D GLY 3.7 10.2 - - - +
66D LYS* 6.0 1.1 - - + -
67D PRO* 3.4 25.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 62 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58D GLU 3.0 14.2 + - - +
59D ARG* 2.7 28.0 + - - +
61D LEU* 1.3 78.1 - - - +
63D ILE* 1.3 58.2 + - - +
64D GLY 3.3 2.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 63 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4D GLN* 5.9 2.3 + - - +
5D VAL* 4.7 8.3 - - + -
6D ILE* 4.0 22.5 - - + +
9D LEU* 4.0 17.5 - - + -
59D ARG* 3.0 39.5 + - - +
60D ILE* 3.1 26.7 + - + +
62D ALA* 1.3 81.1 - - - +
64D GLY* 1.3 58.2 + - - -
65D GLY* 3.4 2.3 + - - +
119D ASP* 4.4 15.5 - - - +
122D THR* 4.5 0.9 - - - +
----------------------------------------------------------
Back to top of page
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