Contacts of the helix formed by residues 48 - 80 (chain C) in PDB entry 2OX6
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 PRO 48 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C HIS* 3.5 32.3 - - + +
36C GLU* 5.5 0.9 - - - +
40C TRP* 3.6 22.7 - - + -
46C GLN 3.4 5.8 - - - +
47C ALA* 1.3 86.7 - - + +
49C GLU* 1.3 66.4 + - - +
50C LEU* 4.4 5.2 - - + +
51C ALA* 3.2 8.6 + - + +
52C GLN* 3.1 19.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 49 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C ALA 3.6 1.6 + - - -
48C PRO* 1.3 72.6 - - - +
50C LEU* 1.3 60.2 + - + +
52C GLN* 3.3 14.7 + - + +
53C LYS* 3.0 31.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 50 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C HIS* 6.1 1.3 - - - +
48C PRO* 3.3 4.3 - - + +
49C GLU* 1.3 80.8 - - + +
51C ALA* 1.3 55.7 + - - +
53C LYS* 3.5 17.2 + - + +
54C LYS* 2.9 30.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 51 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12C MET* 4.4 2.0 - - - -
30C THR* 3.8 31.5 + - + +
32C HIS* 4.0 12.9 + - + +
40C TRP* 4.0 24.0 - - + -
47C ALA* 4.8 1.3 - - + -
48C PRO* 3.2 15.2 + - + +
50C LEU* 1.3 75.9 - - - +
52C GLN* 1.3 64.5 + - - +
54C LYS* 3.4 3.1 + - - +
55C LEU* 3.2 27.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 52 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6C GLY* 3.6 11.4 - - - -
7C LEU* 2.8 48.5 + - + +
12C MET* 3.8 17.9 - - - -
15C LEU* 4.6 0.7 - - - +
46C GLN* 5.5 2.2 - - - +
47C ALA* 3.0 36.5 + - + +
48C PRO 3.1 12.8 + - - +
49C GLU* 3.5 12.6 - - + +
51C ALA* 1.3 73.9 - - - +
53C LYS* 1.3 59.1 + - - +
55C LEU* 3.3 4.7 + - - +
56C LEU* 3.0 36.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 53 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49C GLU* 3.0 21.0 + - + +
50C LEU* 3.6 19.5 - - + +
52C GLN* 1.3 74.1 - - - +
54C LYS* 1.3 56.7 + - - +
56C LEU* 3.3 8.8 + - - +
57C ASP* 2.7 74.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 54 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29C LEU* 2.8 48.2 + - + +
30C THR* 3.9 14.6 - - + -
50C LEU 2.9 17.3 + - - +
51C ALA* 3.5 6.3 - - - +
52C GLN 3.3 0.2 - - - -
53C LYS* 1.3 77.0 - - - +
55C LEU* 1.3 62.8 + - + +
57C ASP* 3.5 7.9 + - + +
58C ILE* 3.1 51.2 + - + +
106C SER 6.0 0.9 - - - -
108C PRO* 5.3 5.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 55 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12C MET* 3.7 26.0 - - + +
15C LEU* 3.6 28.4 - - + +
16C ARG* 4.6 12.8 - - + +
19C LEU* 3.9 11.7 - - + +
21C LEU* 4.4 14.1 - - + -
26C VAL* 3.8 40.6 - - + -
29C LEU* 4.7 8.7 - - + -
30C THR* 4.3 8.1 - - + -
51C ALA 3.2 11.8 + - - +
52C GLN 3.9 3.4 - - - +
54C LYS* 1.3 79.2 - - + +
56C LEU* 1.3 65.7 + - - +
58C ILE* 3.3 6.4 + - + +
59C ASP* 3.0 22.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 56 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7C LEU* 4.0 27.1 - - + -
15C LEU* 4.0 17.0 - - + -
52C GLN* 3.0 28.0 + - + +
53C LYS* 3.8 7.0 - - - +
55C LEU* 1.3 76.5 - - - +
57C ASP* 1.3 64.9 + - - +
59C ASP* 3.3 9.0 + - + +
60C ASP* 3.0 30.8 + - - +
118D TRP* 4.6 12.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 57 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53C LYS* 2.7 61.2 + - - +
54C LYS* 3.7 8.2 - - + +
56C LEU* 1.3 73.4 - - - +
58C ILE* 1.3 58.0 - - + +
60C ASP* 3.1 14.8 + - - +
61C ILE* 2.9 39.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 58 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19C LEU* 4.2 8.5 - - + -
29C LEU* 4.0 26.0 - - + -
54C LYS* 3.1 47.9 + - + +
55C LEU* 3.3 10.0 + - + +
57C ASP* 1.3 76.2 - - + +
59C ASP* 1.3 59.0 + - - +
61C ILE* 3.2 11.2 + - + +
62C ILE* 2.9 37.5 + - + +
106C SER 4.3 15.0 - - - +
107C LEU* 4.1 4.7 - - + -
108C PRO* 5.1 0.4 - - + -
112C LEU* 3.9 36.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 59 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15C LEU* 4.1 17.8 - - + +
18C SER* 4.7 2.4 + - - -
19C LEU* 3.7 14.7 - - + +
55C LEU 3.0 13.5 + - - +
56C LEU* 3.5 12.9 - - + +
58C ILE* 1.3 77.6 - - - +
60C ASP* 1.3 57.3 + - - +
62C ILE* 3.4 3.9 + - - +
63C GLU* 2.9 33.1 + - - +
119C ARG* 2.8 39.2 + - - -
118D TRP* 4.7 4.0 + - - -
122D LYS* 3.0 31.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 60 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56C LEU* 3.0 22.5 + - - +
57C ASP* 3.1 15.9 + - - +
59C ASP* 1.3 75.6 - - - +
61C ILE* 1.3 59.5 + - + +
63C GLU* 3.2 9.8 + - - +
64C MET* 2.9 33.6 + - + +
122D LYS* 5.8 3.6 - - - -
126D LEU* 5.4 8.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 61 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57C ASP* 2.9 28.0 + - + +
58C ILE* 3.5 14.8 - - + +
60C ASP* 1.3 69.1 - - + +
62C ILE* 1.3 66.8 + - - +
64C MET* 3.3 8.2 + - - +
65C GLN* 3.0 23.0 + - + +
106C SER* 4.0 35.2 - - - +
107C LEU* 3.9 26.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 62 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19C LEU* 3.7 29.2 - - + -
58C ILE* 2.9 21.9 + - + +
59C ASP 3.6 7.2 - - - +
61C ILE* 1.3 76.1 - - - +
63C GLU* 1.3 56.5 + - - +
65C GLN* 3.2 8.7 + - - +
66C VAL* 2.9 32.2 + - + +
107C LEU* 4.0 15.0 - - + -
112C LEU* 3.7 26.9 - - + +
115C THR* 4.1 9.2 - - + -
116C ALA* 3.8 26.0 - - + +
119C ARG* 3.5 30.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 63 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59C ASP 2.9 22.0 + - - +
60C ASP* 3.2 9.4 + - - +
62C ILE* 1.3 74.8 - - - +
64C MET* 1.3 62.8 + - - +
66C VAL* 3.3 12.3 + - - +
67C LEU* 3.0 40.2 + - + +
119C ARG* 3.0 33.7 + - - +
122D LYS* 3.5 26.0 + - - +
126D LEU* 5.6 5.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 64 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97B THR* 6.4 2.0 - - + -
60C ASP 2.9 16.1 + - - +
61C ILE* 3.3 11.2 + - - +
63C GLU* 1.3 75.4 - - + +
65C GLN* 1.3 58.8 + - - +
67C LEU* 3.5 10.8 + - - +
68C ASN* 2.9 32.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 65 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61C ILE* 3.0 13.8 + - + +
62C ILE* 3.5 8.4 - - - +
64C MET* 1.3 72.7 - - - +
66C VAL* 1.3 60.8 + - - +
68C ASN* 4.4 5.2 - - - +
69C THR* 2.7 45.1 + - - +
87C PHE* 4.5 3.4 - - - -
103C PHE* 6.0 0.4 - - - -
107C LEU* 3.3 28.2 - - - +
113C TYR* 3.4 33.0 + - - -
116C ALA* 3.8 21.2 - - - +
120C ILE* 4.4 10.5 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 66 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62C ILE* 2.9 26.8 + - + +
63C GLU* 3.3 18.4 + - - +
65C GLN* 1.3 77.3 - - - +
67C LEU* 1.3 65.3 + - + +
69C THR* 4.0 0.7 - - - -
70C THR* 2.8 37.2 + - - +
116C ALA* 3.9 13.2 - - - +
119C ARG* 3.5 44.9 - - + +
120C ILE* 3.8 8.5 - - + +
123C GLU* 4.1 20.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 67 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C GLU* 3.0 30.5 + - + +
64C MET* 3.9 11.7 - - - +
66C VAL* 1.3 85.6 - - + +
68C ASN* 1.3 58.3 + - - +
70C THR* 3.8 4.0 - - - -
71C ASP* 2.9 41.2 + - - +
123C GLU* 4.7 14.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 68 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28B GLN* 5.2 11.2 + - - +
31B ASN* 4.9 19.8 + - - +
64C MET 2.9 19.5 + - - +
65C GLN* 3.9 5.9 - - - +
67C LEU* 1.3 76.4 - - - +
69C THR* 1.3 60.9 + - - +
71C ASP* 3.4 10.5 - - - +
72C GLY* 3.0 23.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 69 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31B ASN* 6.3 0.9 - - - +
65C GLN* 2.7 30.6 + - - +
66C VAL 4.0 0.4 - - - -
68C ASN* 1.3 76.5 + - - +
70C THR* 1.3 61.5 + - - +
72C GLY* 3.1 3.5 + - - -
73C ILE* 3.0 46.1 + - + +
87C PHE* 3.9 18.0 - - + -
120C ILE* 3.6 29.5 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 70 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66C VAL* 2.8 23.1 + - - +
67C LEU* 4.0 4.5 - - - -
69C THR* 1.3 72.9 - - - +
71C ASP* 1.3 61.2 + - - +
73C ILE* 3.7 9.0 - - - +
74C GLU* 2.9 30.2 + - + +
120C ILE* 4.3 5.5 + - - +
123C GLU* 3.5 35.0 - - + +
124C CYS* 4.0 12.3 - - - -
127C VAL* 4.2 11.7 - - + -
128C LEU* 4.0 18.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 71 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67C LEU* 2.9 29.2 + - - +
68C ASN* 3.4 11.4 - - - +
70C THR* 1.3 77.9 - - - +
72C GLY* 1.3 62.0 + - - +
74C GLU* 3.4 18.7 + - - +
75C ALA* 3.0 23.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 72 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C ASN 3.0 14.3 + - - -
69C THR* 3.1 4.8 + - - -
71C ASP* 1.3 74.8 - - - +
73C ILE* 1.3 56.5 + - - +
75C ALA* 3.2 8.1 + - - +
76C LEU* 3.0 28.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 73 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69C THR* 3.0 38.0 + - + +
70C THR* 3.7 4.3 - - - +
72C GLY* 1.3 73.0 - - - +
74C GLU* 1.3 59.7 + - - +
76C LEU* 3.3 11.3 + - + +
77C PHE* 2.9 29.6 + - + +
85C LEU* 3.6 33.2 - - + -
87C PHE* 5.6 3.8 - - + -
120C ILE* 4.3 5.6 - - + -
124C CYS* 3.7 24.0 - - - -
128C LEU* 3.9 16.6 - - + -
130C VAL* 4.6 7.0 - - + -
132C VAL* 4.7 5.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 74 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70C THR* 2.9 18.2 + - + +
71C ASP* 3.5 20.7 - - - +
73C ILE* 1.3 78.1 - - - +
75C ALA* 1.3 61.2 + - - +
77C PHE* 3.3 16.8 + - + +
78C LYS* 3.3 31.9 + - - +
128C LEU* 3.9 28.6 - - + +
167C MG 2.5 29.0 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 75 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71C ASP 3.0 14.2 + - - +
72C GLY* 3.2 10.5 + - - +
74C GLU* 1.3 76.0 - - - +
76C LEU* 1.3 64.1 + - - +
78C LYS* 3.4 25.9 + - - +
79C LYS* 4.1 3.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 76 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50B LEU* 5.8 7.9 - - + -
72C GLY 3.0 12.8 + - - +
73C ILE* 3.6 13.7 - - + +
75C ALA* 1.3 73.5 - - - +
77C PHE* 1.3 60.0 + - - +
78C LYS 3.0 3.5 + - - -
79C LYS* 3.1 6.5 + - + +
80C GLU* 3.0 59.9 + - + +
85C LEU* 5.2 17.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 77 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73C ILE* 2.9 21.3 + - + +
74C GLU* 3.4 13.5 - - + +
75C ALA 3.3 0.2 - - - -
76C LEU* 1.3 76.0 - - - +
78C LYS* 1.3 64.7 + - + +
80C GLU 3.6 6.7 - - - -
81C PRO* 3.2 48.1 - - + +
82C LYS 3.5 28.7 - - - -
83C ARG* 3.8 35.0 - - + -
128C LEU* 5.0 9.0 - - + -
130C VAL* 3.9 21.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 78 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74C GLU* 3.3 34.3 + - - +
75C ALA* 3.5 14.6 - - - +
76C LEU 3.0 0.8 + - - -
77C PHE* 1.3 82.1 - - + +
79C LYS* 1.3 59.7 + - - +
81C PRO* 4.9 4.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 79 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75C ALA 4.1 2.5 + - - +
76C LEU* 3.1 7.5 + - + +
78C LYS* 1.3 78.0 - - - +
80C GLU* 1.3 67.1 + - + +
81C PRO* 3.7 8.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 80 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76C LEU* 3.0 41.9 + - + +
77C PHE* 3.4 12.4 + - - -
79C LYS* 1.3 85.5 - - + +
81C PRO* 1.4 55.5 - - - +
82C LYS* 2.8 40.4 + - + +
----------------------------------------------------------
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