Contacts of the helix formed by residues 42 - 71 (chain E) in PDB entry 3A68
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 42 (chain E).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38E ARG* 3.5 3.8 + - - +
40E LYS* 4.0 4.2 + - - -
41E TYR* 1.3 80.5 - - - +
43E ASP* 1.3 66.8 + - - +
44E GLU* 3.8 5.2 - - + +
45E SER* 3.0 29.5 + - - +
46E GLU 3.0 9.9 + - - -
157E ASN* 3.4 40.8 - - + +
159E ASP* 5.0 0.4 + - - -
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Residues in contact with ASP 43 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38E ARG* 2.9 25.8 + - - +
42E VAL* 1.3 74.7 - - - +
44E GLU* 1.3 56.2 + - - +
46E GLU* 3.6 13.1 - - - +
47E SER* 2.8 36.4 + - - +
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Residues in contact with GLU 44 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42E VAL* 3.1 7.0 - - + +
43E ASP* 1.3 77.4 - - - +
45E SER* 1.3 58.9 + - - +
47E SER* 3.4 6.6 + - - -
48E ALA* 3.0 28.4 + - - +
153E VAL* 3.7 8.9 - - - +
156E LYS* 3.2 32.5 + - - +
157E ASN* 3.0 30.5 + - - +
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Residues in contact with SER 45 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41E TYR* 4.0 17.9 - - - -
42E VAL* 3.0 23.4 + - - +
44E GLU* 1.3 76.5 - - - +
46E GLU* 1.3 65.9 + - - +
48E ALA* 3.2 2.9 + - - +
49E VAL* 3.0 27.4 + - - +
153E VAL* 4.2 11.4 + - - +
157E ASN* 4.0 14.6 + - - +
159E ASP* 4.1 8.8 + - - +
162E LEU* 3.8 23.6 - - - +
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Residues in contact with GLU 46 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38E ARG* 3.7 22.4 + - - +
41E TYR* 3.8 12.6 - - + -
42E VAL 3.0 11.2 + - - +
43E ASP* 3.6 17.9 - - - +
45E SER* 1.3 77.5 - - - +
47E SER* 1.3 63.1 + - - +
49E VAL 3.3 0.3 + - - -
50E ASN* 3.1 12.8 + - - +
102E GLN* 3.0 45.8 + - - +
107E GLY* 3.4 6.7 - - - -
108E LYS* 2.7 38.2 + - - +
110E LYS* 5.5 2.2 + - - -
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Residues in contact with SER 47 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43E ASP* 2.8 25.1 + - - +
44E GLU* 3.7 6.5 - - - -
46E GLU* 1.3 74.7 + - - +
48E ALA* 1.3 59.0 + - - +
50E ASN* 3.3 11.2 + - - +
51E GLU* 2.9 37.7 + - - +
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Residues in contact with ALA 48 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44E GLU 3.0 17.0 + - - +
45E SER 3.2 3.6 + - - +
47E SER* 1.3 73.1 - - - +
49E VAL* 1.3 61.3 + - - +
51E GLU* 3.2 13.7 + - - +
52E GLN* 3.0 28.1 + - - +
150E LEU* 3.6 24.3 - - + +
153E VAL* 3.7 26.2 - - + -
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Residues in contact with VAL 49 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41E TYR* 3.3 21.5 - - - +
45E SER 3.0 15.8 + - - +
46E GLU 3.7 4.5 - - - +
48E ALA* 1.3 75.5 - - - +
50E ASN* 1.3 56.7 + - - +
52E GLN* 3.1 5.7 + - - +
53E ILE* 2.9 30.9 + - + +
98E LEU* 3.8 34.3 - - + +
101E TYR* 4.7 4.0 - - + -
102E GLN* 3.8 18.8 - - + +
150E LEU* 4.1 12.1 - - + -
162E LEU* 3.9 26.7 - - + -
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Residues in contact with ASN 50 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46E GLU* 3.1 16.6 + - - +
47E SER* 3.5 11.8 - - - +
49E VAL* 1.3 76.9 - - - +
51E GLU* 1.3 61.6 + - - +
53E ILE* 3.3 14.9 + - - +
54E ASN* 3.2 20.3 + - - +
102E GLN* 3.1 18.6 + - - +
108E LYS 3.1 20.4 + - - -
109E VAL* 3.5 4.2 - - - -
110E LYS* 3.0 46.9 + - + +
112E GLN* 3.9 12.2 + - - +
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Residues in contact with GLU 51 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47E SER* 2.9 23.6 + - - +
48E ALA* 3.5 13.7 - - - +
49E VAL 3.2 0.4 - - - -
50E ASN* 1.3 75.0 - - - +
52E GLN* 1.3 59.2 + - - +
54E ASN* 3.1 7.5 + - - +
55E VAL* 2.9 31.3 + - + +
112E GLN* 4.3 15.0 - - - +
149E ASN* 5.2 6.8 + - - -
14V ILE* 4.7 20.9 - - + +
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Residues in contact with GLN 52 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48E ALA 3.0 16.6 + - - +
49E VAL* 3.1 4.2 + - - +
51E GLU* 1.3 72.7 - - - +
53E ILE* 1.3 66.3 + - - +
55E VAL* 3.1 18.4 + - - +
56E GLU* 2.8 49.1 + - - +
98E LEU* 3.6 21.1 - - + -
143E THR* 4.0 4.8 + - - +
146E LYS* 3.3 29.1 - - - +
147E LEU* 3.4 29.4 - - + +
150E LEU* 3.9 18.6 - - + +
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Residues in contact with ILE 53 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49E VAL* 2.9 24.7 + - + +
50E ASN* 3.5 25.8 - - - +
51E GLU 3.2 0.4 - - - -
52E GLN* 1.3 76.2 - - - +
54E ASN* 1.3 57.9 + - - +
56E GLU* 3.4 3.6 + - - +
57E TYR* 3.0 29.8 + - + +
95E ALA* 3.9 9.1 - - + +
98E LEU* 3.5 29.1 - - + +
99E MET* 3.7 39.7 - - + +
109E VAL* 4.4 8.5 - - + -
110E LYS 6.0 1.1 - - - +
111E LEU* 3.8 27.6 - - + -
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Residues in contact with ASN 54 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50E ASN 3.2 6.9 + - - +
51E GLU 3.1 9.9 + - - +
53E ILE* 1.3 79.7 - - - +
55E VAL* 1.3 63.7 + - - +
57E TYR* 4.5 3.1 - - - -
58E ASN* 2.9 50.8 + - - +
112E GLN* 3.4 39.2 + - + +
113E SER 3.0 26.6 + - - +
114E ILE* 4.2 2.8 - - - +
61I TYR* 4.2 6.4 + - - -
14V ILE* 3.0 23.3 + - + +
15V PHE* 4.0 4.7 + - - +
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Residues in contact with VAL 55 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51E GLU* 2.9 21.4 + - + +
52E GLN* 3.1 32.3 + - - +
54E ASN* 1.3 76.5 - - - +
56E GLU* 1.3 63.2 + - - +
58E ASN* 3.2 4.0 + - - +
59E VAL* 3.0 23.8 + - + +
142E LEU* 5.9 0.9 - - + -
143E THR* 4.3 18.6 - - + +
146E LYS* 4.1 29.8 - - + -
14V ILE* 6.1 0.7 - - + -
15V PHE* 3.7 32.5 - - + -
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Residues in contact with GLU 56 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52E GLN* 2.8 43.8 + - - +
53E ILE 3.9 0.2 - - - +
55E VAL* 1.3 74.8 - - - +
57E TYR* 1.3 58.1 + - - +
59E VAL* 3.3 5.0 + - - +
60E SER* 2.9 27.4 + - - -
91E GLU* 3.1 16.9 - - - +
94E HIS* 3.4 13.9 - - + +
95E ALA* 3.8 22.0 - - + +
98E LEU* 3.9 17.7 - - + -
143E THR* 3.6 12.1 - - - +
147E LEU* 3.9 9.5 - - - +
170E TYR* 4.2 7.8 - - - -
214E CA 2.5 27.6 - - - -
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Residues in contact with TYR 57 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53E ILE* 3.0 22.7 + - + +
54E ASN* 4.0 6.5 - - - +
56E GLU* 1.3 74.3 - - - +
58E ASN* 1.3 66.0 + - - +
60E SER* 3.3 12.7 + - - -
61E TYR* 3.0 22.4 + + + +
92E ARG* 3.7 25.1 + - + -
95E ALA* 3.7 22.6 - - + +
99E MET* 4.5 6.1 - - - -
111E LEU* 4.6 2.2 - - + -
114E ILE* 3.6 26.9 - - + +
57I TYR* 5.3 13.2 - + - -
60I SER* 5.0 2.3 + - - -
61I TYR* 3.6 37.1 - + - +
64I HIS* 2.7 41.4 + + - +
88I SER* 4.6 1.2 + - - -
114I ILE* 6.3 0.2 - - + -
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Residues in contact with ASN 58 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54E ASN* 2.9 51.2 + - - +
55E VAL 3.2 0.6 + - - +
57E TYR* 1.3 76.5 - - - +
59E VAL* 1.3 62.5 + - - +
61E TYR* 3.1 4.0 + - - +
62E VAL* 3.0 27.5 + - - +
113E SER 4.2 6.3 + - - -
114E ILE* 3.5 24.8 - - - +
115E VAL* 3.8 12.5 + - - +
15V PHE* 3.5 30.1 + - + -
17V PRO* 3.6 20.1 - - + +
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Residues in contact with VAL 59 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55E VAL* 3.0 22.1 + - + +
56E GLU* 3.7 2.2 - - - +
58E ASN* 1.3 75.1 - - + +
60E SER* 1.3 63.9 + - - +
62E VAL* 3.2 6.5 + - - +
63E TYR* 3.0 54.7 + - + +
91E GLU* 3.6 21.3 - - - +
139E LEU* 4.9 21.8 - - + +
140E GLU* 4.5 3.1 - - - +
143E THR* 3.5 24.2 - - - +
15V PHE* 5.2 4.9 - - + -
17V PRO* 5.9 0.9 - - + -
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Residues in contact with SER 60 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56E GLU 2.9 10.6 + - - -
57E TYR* 3.4 15.8 - - - -
58E ASN 3.2 0.2 - - - -
59E VAL* 1.3 78.0 - - - +
61E TYR* 1.3 61.7 + - - +
63E TYR 3.4 0.5 + - - -
64E HIS* 3.0 10.4 + - - +
88E SER* 2.7 51.8 + - - +
91E GLU* 3.5 18.5 - - - +
92E ARG* 3.7 18.2 - - - +
57I TYR* 4.9 3.0 + - - -
92I ARG* 4.5 4.0 + - - -
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Residues in contact with TYR 61 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57E TYR* 3.0 14.1 + + + +
58E ASN 3.1 8.3 + - - +
60E SER* 1.3 78.3 - - - +
62E VAL* 1.3 56.6 + - + +
64E HIS* 3.1 5.6 + - - +
65E ALA* 3.0 26.7 + - - +
114E ILE* 3.6 29.2 - - + -
115E VAL 3.9 4.7 - - - -
117E PRO* 3.6 32.5 - - + -
54I ASN* 4.1 4.9 + - - -
57I TYR* 3.6 45.6 - + - +
111I LEU* 3.6 21.6 - - + +
112I GLN 2.7 37.0 + - - -
114I ILE* 3.7 21.1 - - + +
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Residues in contact with VAL 62 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58E ASN* 3.0 18.1 + - - +
59E VAL* 3.7 8.3 - - - +
61E TYR* 1.3 77.6 - - + +
63E TYR* 1.3 57.7 + - - +
65E ALA* 3.1 4.9 + - - +
66E MET* 2.9 36.6 + - + +
117E PRO* 4.1 12.6 - - + -
121E PHE* 5.1 0.4 - - + -
139E LEU* 3.6 29.2 - - + -
17V PRO* 4.0 21.3 - - + -
18V PHE* 3.7 39.0 - - + -
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Residues in contact with TYR 63 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59E VAL* 3.0 30.5 + - + +
60E SER 3.8 4.0 - - - +
62E VAL* 1.3 76.3 - - - +
64E HIS* 1.3 57.6 + - - +
66E MET* 3.2 12.0 + - + +
67E PHE* 2.8 25.3 + - - +
83E PHE* 5.8 1.8 - + - -
84E PHE* 3.5 40.2 - + - +
87E SER* 3.6 24.7 - - - -
88E SER 3.8 4.3 - - - +
91E GLU* 3.6 22.4 - - + -
136E ALA* 3.7 29.9 + - + +
139E LEU* 4.3 14.4 - - + +
140E GLU* 2.5 41.5 + - - +
181E ILE* 4.2 3.8 - - + +
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Residues in contact with HIS 64 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60E SER 3.0 8.2 + - - +
61E TYR 3.1 9.4 + - - +
63E TYR* 1.3 73.4 - - - +
65E ALA* 1.3 60.4 + - - +
67E PHE* 3.3 15.8 + + + +
68E ALA* 3.0 27.7 + - - +
85E LYS* 5.0 2.7 - - - -
88E SER* 3.5 22.1 + - - +
57I TYR* 2.7 36.6 + + - +
92I ARG* 3.7 17.8 + - + -
96I GLU* 2.7 39.9 + - + +
99I MET* 3.7 31.3 - - + +
111I LEU* 4.1 7.6 - - + -
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Residues in contact with ALA 65 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61E TYR 3.0 12.4 + - - +
62E VAL* 3.1 8.7 + - - +
64E HIS* 1.3 76.0 - - - +
66E MET* 1.3 61.6 + - - +
68E ALA* 3.2 7.6 + - - +
69E TYR* 3.1 21.7 + - - +
117E PRO* 3.9 17.3 - - + -
118E LEU 3.5 24.5 - - - +
119E SER* 4.5 5.1 - - - +
121E PHE* 3.9 6.4 - - + -
111I LEU* 3.7 13.3 - - + +
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Residues in contact with MET 66 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62E VAL* 2.9 17.7 + - + +
63E TYR* 3.4 16.2 - - - +
65E ALA* 1.3 74.3 - - - +
67E PHE* 1.3 65.4 + - - +
69E TYR* 3.2 1.4 + - - +
70E PHE* 3.1 32.2 + - + -
84E PHE* 3.3 46.7 - - + -
121E PHE* 3.8 26.7 - - + -
132E ALA* 3.9 10.5 - - + +
135E LEU* 3.4 45.5 - - + -
136E ALA* 4.2 2.9 - - - +
139E LEU* 4.1 17.0 - - + -
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Residues in contact with PHE 67 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63E TYR 2.8 13.9 + - - +
64E HIS* 3.5 24.9 - + - +
66E MET* 1.3 77.7 - - - +
68E ALA* 1.3 69.8 + - - +
69E TYR 3.2 0.2 + - - -
70E PHE* 3.3 1.2 + - - +
71E ASP* 2.9 48.0 + - + +
81E ALA* 3.3 28.0 - - + +
82E LYS* 5.8 0.2 - - - -
84E PHE* 3.7 6.6 - - - +
85E LYS* 3.6 52.9 - - + +
96I GLU* 4.4 9.4 - - + -
99I MET* 4.1 17.0 - - + -
100I GLU* 3.9 21.3 - - + -
103I ASN* 5.5 0.2 - - - -
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Residues in contact with ALA 68 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64E HIS 3.0 13.8 + - - +
65E ALA* 3.2 11.6 + - - +
67E PHE* 1.3 82.6 - - + +
69E TYR* 1.3 62.5 + - - +
71E ASP 3.7 0.7 + - - -
72E ARG* 3.7 5.3 + - - +
99I MET* 4.0 9.2 - - + -
103I ASN* 2.9 30.8 + - - +
109I VAL* 3.8 38.1 - - + +
----------------------------------------------------------
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Residues in contact with TYR 69 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65E ALA 3.1 6.9 + - - +
66E MET 3.6 6.3 - - - +
67E PHE 3.1 0.4 - - - -
68E ALA* 1.3 77.6 - - - +
70E PHE* 1.3 77.0 + + - +
72E ARG* 3.1 64.7 + - - +
75E VAL* 3.6 34.9 - - + +
119E SER 3.7 9.4 - - - +
120E ASP* 3.9 4.5 - - + -
121E PHE* 3.5 40.8 - + + -
122E ASP* 3.4 31.5 + - - +
128E ASP* 4.1 20.3 + - + +
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Residues in contact with PHE 70 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66E MET* 3.1 27.2 + - + +
67E PHE 3.8 0.2 - - - -
69E TYR* 1.3 90.3 - + - +
71E ASP* 1.3 57.8 + - - +
72E ARG 3.2 2.0 + - - +
75E VAL* 3.7 17.3 - - + -
76E ALA* 3.8 4.9 + - - -
77E LEU* 3.5 53.1 + - + +
78E ARG* 5.3 0.3 - - - -
80E LEU* 4.0 7.6 - - + -
81E ALA* 3.9 24.6 - - - +
84E PHE* 3.8 19.5 - + - -
121E PHE* 4.6 5.4 - - + -
128E ASP* 3.6 28.0 - - + -
129E ALA* 4.1 3.8 - - - -
132E ALA* 3.4 35.4 - - + -
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Residues in contact with ASP 71 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67E PHE* 2.9 46.1 + - + +
69E TYR 3.1 0.2 - - - -
70E PHE* 1.3 74.0 - - - +
72E ARG* 1.3 64.3 + - - +
76E ALA* 5.7 0.2 - - - -
81E ALA* 4.0 6.8 - - + +
100I GLU* 4.1 13.5 - - - +
103I ASN* 3.0 33.2 + - - +
179W LYS* 3.0 31.3 + - - -
183W GLU* 4.6 2.4 - - - +
----------------------------------------------------------
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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