Contacts of the helix formed by residues 36 - 64 (chain L) in PDB entry 2X17
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 LEU 36 (chain L).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31L PHE* 2.9 36.2 + - + +
32L GLU* 5.1 0.7 - - - -
34L LEU* 4.3 19.3 - - + +
35L GLY* 1.3 78.4 - - - +
37L GLU* 1.3 59.4 + - - +
38L GLY 3.4 0.2 + - - -
39L PHE* 3.5 14.5 + - + +
40L ALA* 3.1 24.0 + - - +
83L PRO* 4.1 19.5 - - + -
151L LEU* 4.4 28.0 - - + +
152L PHE* 5.6 2.2 - - + -
155L ASP* 3.3 30.1 - - + +
143Y PHE* 5.5 8.3 - - + -
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Residues in contact with GLU 37 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32L GLU* 3.7 18.7 - - - +
35L GLY* 3.4 13.1 + - - +
36L LEU* 1.3 70.9 - - - +
38L GLY* 1.3 59.2 + - - +
40L ALA* 3.8 6.5 - - - +
41L ASN* 3.0 39.0 + - - +
155L ASP* 3.5 5.0 + - - +
159L SER* 5.4 0.7 - - - -
136Y LYS* 3.0 45.8 + - + +
140Y LYS* 6.3 0.4 - - - -
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Residues in contact with GLY 38 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37L GLU* 1.3 77.3 - - - +
39L PHE* 1.3 59.2 + - - +
41L ASN* 3.9 1.1 - - - +
42L TRP* 3.0 28.4 + - - +
155L ASP* 2.9 33.1 + - - -
158L LEU* 3.4 11.4 - - - +
159L SER* 3.8 17.6 - - - -
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Residues in contact with PHE 39 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31L PHE* 3.5 39.3 - + + -
36L LEU* 3.8 13.7 - - + +
37L GLU 3.5 0.2 - - - -
38L GLY* 1.3 71.9 - - - +
40L ALA* 1.3 61.3 + - - +
42L TRP* 3.3 7.6 + - - +
43L MET* 3.0 32.1 + - - +
87L PHE* 3.7 23.2 - + - -
137L ILE* 4.4 2.2 - - + -
141L LEU* 4.0 26.9 - - + -
151L LEU* 4.0 19.1 - - + -
154L LEU* 3.9 17.0 - - + -
155L ASP* 3.2 48.0 + - + -
158L LEU* 3.6 23.8 - - + -
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Residues in contact with ALA 40 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
583 TYR* 4.6 0.4 - - - +
28L ALA* 3.5 21.6 - - - +
31L PHE* 3.8 6.7 - - - +
32L GLU* 3.5 33.9 - - - +
36L LEU 3.1 18.8 + - - +
37L GLU 3.8 4.7 - - - +
38L GLY 3.3 0.2 - - - -
39L PHE* 1.3 77.4 - - - +
41L ASN* 1.3 56.7 + - - +
43L MET* 3.2 4.3 + - - +
44L LYS* 3.0 33.8 + - - +
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Residues in contact with ASN 41 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32L GLU* 5.1 0.2 - - - +
37L GLU* 3.0 25.6 + - - +
38L GLY* 4.0 4.2 - - - +
40L ALA* 1.3 73.3 - - - +
42L TRP* 1.3 65.3 + - - +
44L LYS* 3.5 28.5 + - - +
45L ALA* 3.1 20.8 + - - +
159L SER* 5.3 7.0 + - - +
161L ARG 3.7 13.9 - - - +
162L ALA* 4.9 7.2 - - + +
163L PRO* 3.5 22.6 - - + +
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Residues in contact with TRP 42 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24L TYR* 5.8 1.3 - + - -
38L GLY 3.0 19.1 + - - +
39L PHE* 3.4 7.0 - - - +
41L ASN* 1.3 76.6 - - - +
43L MET* 1.3 87.1 + - + +
45L ALA* 3.5 3.5 + - - +
46L GLN* 3.1 41.5 + - + +
87L PHE* 4.2 13.7 - + - -
133L SER* 3.8 16.6 - - - -
134L VAL* 4.3 21.1 - - + -
137L ILE* 3.5 24.7 - - + +
158L LEU* 3.6 34.4 - - + +
161L ARG* 3.3 52.3 + - + +
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Residues in contact with MET 43 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24L TYR* 3.4 48.9 - - + +
27L MET* 3.7 33.2 - - + -
28L ALA* 3.8 6.7 - - + -
31L PHE* 4.1 14.1 - - + -
39L PHE 3.0 16.8 + - - +
40L ALA 3.5 8.1 - - - +
42L TRP* 1.3 87.8 - - + +
44L LYS* 1.3 59.1 + - - +
46L GLN* 3.3 2.6 + - - +
47L ALA* 2.9 28.8 + - - +
87L PHE* 3.7 40.4 - - + -
90L ALA* 4.7 5.2 - - + -
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Residues in contact with LYS 44 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
553 LEU* 5.0 13.3 - - + +
583 TYR* 3.4 30.1 - - - -
593 ASN* 4.1 10.7 + - - -
24L TYR 5.2 0.2 - - - -
25L PHE* 5.0 10.3 - - + -
28L ALA* 3.9 10.1 - - + -
32L GLU* 3.1 28.5 + - - -
40L ALA 3.0 18.5 + - - +
41L ASN* 3.5 28.2 + - - +
42L TRP 3.4 0.2 - - - -
43L MET* 1.3 75.4 - - - +
45L ALA* 1.3 61.3 + - - +
47L ALA* 3.3 8.6 + - - +
48L GLU* 3.3 25.6 + - - +
163L PRO* 3.9 21.0 - - + +
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Residues in contact with ALA 45 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1693 LEU* 5.6 0.2 - - - +
41L ASN 3.1 17.9 + - - +
42L TRP 3.7 2.5 - - - +
43L MET 3.3 0.2 - - - -
44L LYS* 1.3 75.6 - - - +
46L GLN* 1.3 62.5 + - - +
48L GLU* 3.5 8.0 + - - +
49L GLU* 3.4 23.0 + - - +
161L ARG* 3.6 27.7 + - + +
162L ALA 3.7 23.1 - - - +
163L PRO* 4.1 9.1 - - + +
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Residues in contact with GLN 46 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24L TYR* 4.0 24.9 - - + -
42L TRP* 3.1 39.6 + - + +
43L MET* 3.6 6.5 - - - +
45L ALA* 1.3 74.2 - - - +
47L ALA* 1.3 65.4 + - - +
49L GLU* 3.3 18.3 + - - +
50L GLU* 3.1 28.0 + - - +
130L GLU* 2.6 32.4 + - - +
133L SER* 5.1 3.8 + - - -
134L VAL* 5.6 3.7 - - + +
161L ARG* 2.9 31.5 + - - +
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Residues in contact with ALA 47 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21L ALA* 3.3 50.5 - - + +
24L TYR* 4.2 6.9 - - + +
25L PHE* 4.3 11.2 - - + +
43L MET 2.9 17.9 + - - +
44L LYS* 3.4 11.0 - - - +
45L ALA 3.3 0.2 - - - -
46L GLN* 1.3 77.5 - - - +
48L GLU* 1.3 59.7 + - + +
50L GLU* 3.4 1.8 + - - -
51L ILE* 3.3 13.7 + - + +
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Residues in contact with GLU 48 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
553 LEU* 5.6 1.7 - - - +
1653 LEU* 3.9 22.2 - - + +
1693 LEU* 3.9 14.3 - - + +
44L LYS 3.3 9.5 + - - +
45L ALA* 3.7 8.5 - - - +
47L ALA* 1.3 74.5 - - + +
49L GLU* 1.3 66.0 + - - +
51L ILE* 3.3 16.1 + - + +
52L GLY 3.1 17.7 + - - -
163L PRO* 3.2 22.2 - - - +
164L LYS* 2.9 26.5 + - - +
165L LEU* 3.2 35.6 + - + +
166L PRO* 3.4 2.9 - - - +
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Residues in contact with GLU 49 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1693 LEU* 3.6 26.5 - - + +
1703 MET* 3.4 29.0 + - - +
45L ALA 3.4 5.1 + - - +
46L GLN* 3.3 21.0 + - - +
48L GLU* 1.3 78.8 - - - +
50L GLU* 1.3 56.8 + - - +
52L GLY* 3.3 2.8 + - - -
53L HIS* 3.0 38.6 + - + -
130L GLU* 4.9 0.7 - - - +
161L ARG* 3.5 25.8 + - - +
164L LYS* 5.1 6.1 + - - -
1173L AG 2.9 21.5 - - - -
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Residues in contact with GLU 50 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17L GLU* 2.9 44.2 - - - +
20L SER* 3.8 20.3 + - - -
21L ALA* 3.6 13.0 - - - +
24L TYR* 3.7 15.7 - - + -
46L GLN* 3.1 25.2 + - - +
47L ALA 3.7 3.1 - - - +
48L GLU 3.2 0.4 - - - -
49L GLU* 1.3 73.2 - - - +
51L ILE* 1.3 60.4 + - - +
52L GLY 3.2 0.2 - - - -
53L HIS* 3.2 14.9 + - - +
54L ALA* 2.9 27.4 + - - +
94L GLU* 4.0 2.8 - - - +
97L ILE* 5.6 1.9 - - - +
126L GLU* 5.2 0.3 - - - +
127L GLN* 5.3 3.1 + - - -
130L GLU* 3.0 24.6 - - - +
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Residues in contact with ILE 51 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
513 ILE* 4.8 27.6 - - + -
1653 LEU* 4.2 19.7 - - + -
18L LEU* 4.9 15.7 - - + -
21L ALA* 3.7 15.3 - - + -
47L ALA* 3.3 18.4 + - + +
48L GLU* 3.3 19.4 + - + +
50L GLU* 1.3 75.8 - - - +
52L GLY* 1.3 57.0 + - - +
54L ALA* 3.3 8.3 + - - +
55L LEU* 3.0 37.1 + - + +
165L LEU* 6.3 1.3 - - + -
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Residues in contact with GLY 52 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1663 PRO* 6.0 0.4 - - - -
1693 LEU* 4.0 26.2 - - - +
48L GLU 3.1 10.7 + - - -
49L GLU 3.3 4.9 + - - -
50L GLU 3.2 0.2 - - - -
51L ILE* 1.3 74.4 - - - +
53L HIS* 1.3 64.3 + - - +
55L LEU* 3.2 13.0 + - - +
56L ARG* 3.1 28.8 + - - +
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Residues in contact with HIS 53 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17L GLU* 3.4 23.4 + - - +
49L GLU* 3.0 25.4 + - + -
50L GLU* 3.2 28.9 + - - +
52L GLY* 1.3 75.9 - - - +
54L ALA* 1.3 61.4 + - - +
56L ARG* 3.2 15.3 + - - +
57L PHE* 3.2 20.5 + - - -
122L TRP* 3.6 26.7 - + - -
123L PHE* 3.6 10.2 - + + -
126L GLU* 3.2 25.9 + - - -
130L GLU* 4.4 3.8 - - - -
1173L AG 2.2 31.9 - - - -
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Residues in contact with ALA 54 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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253 PHE* 5.4 3.6 - - + -
14L LEU* 3.5 26.2 - - + +
17L GLU* 4.0 9.8 - - + +
18L LEU* 3.8 32.5 - - + -
50L GLU 2.9 13.0 + - - +
51L ILE* 3.4 9.4 - - + +
52L GLY 3.2 0.2 - - - -
53L HIS* 1.3 77.5 - - - +
55L LEU* 1.3 56.8 + - + +
57L PHE* 3.3 3.4 + - - +
58L TYR* 3.0 25.9 + - - +
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Residues in contact with LEU 55 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
253 PHE* 3.7 31.2 - - + -
443 LYS* 4.8 17.3 - - + +
483 GLU* 5.7 1.6 - - - +
1633 PRO* 6.1 0.9 - - + -
1653 LEU* 5.4 4.9 - - + -
1663 PRO* 3.9 33.7 - - + -
51L ILE* 3.0 30.0 + - + +
52L GLY* 3.2 15.2 + - - +
54L ALA* 1.3 74.0 - - + +
56L ARG* 1.3 60.7 + - + +
58L TYR* 3.4 10.6 - - + +
59L ASN* 2.9 42.3 + - - +
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Residues in contact with ARG 56 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1703 MET 3.2 23.6 + - - -
1713 GLN* 3.4 27.7 + - - +
52L GLY 3.1 18.5 + - - +
53L HIS* 3.2 12.0 + - - +
55L LEU* 1.3 75.6 - - + +
57L PHE* 1.3 61.3 - - - +
59L ASN* 3.8 9.3 + - - +
60L TYR 3.3 15.1 + - - -
119L PHE* 3.5 18.1 - - + -
122L TRP* 3.4 56.7 - - - +
123L PHE* 3.7 11.7 - - + -
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Residues in contact with PHE 57 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10L LEU* 3.7 35.9 - - + +
13L GLN* 3.4 34.1 - - + -
14L LEU* 4.0 20.0 - - + -
17L GLU* 4.3 12.8 - - + -
53L HIS 3.2 22.9 + - - -
54L ALA 3.6 7.6 - - - +
55L LEU 3.3 0.2 - - - -
56L ARG* 1.3 75.2 - - - +
58L TYR* 1.3 63.6 + - - +
59L ASN 3.3 0.2 - - - -
60L TYR* 3.4 2.0 + + - +
61L ILE* 3.2 29.5 + - - +
101L ILE* 4.0 11.4 - - + -
104L LEU* 4.4 0.4 - - + -
119L PHE* 3.6 22.9 - + - -
120L LEU* 4.2 10.5 - - + -
123L PHE* 3.4 34.3 - + - -
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Residues in contact with TYR 58 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
253 PHE* 3.7 30.5 - + + -
283 ALA 3.0 26.9 + - - -
293 ALA* 3.9 17.3 - - + -
323 GLU* 3.0 21.4 + - - +
443 LYS* 3.4 29.9 - - - -
14L LEU* 3.6 10.9 - - + +
54L ALA 3.0 15.4 + - - +
55L LEU* 3.4 15.5 - - + +
57L PHE* 1.3 76.9 - - - +
59L ASN* 1.3 75.6 + - - +
61L ILE* 3.6 2.3 + - - +
62L TYR* 3.3 49.8 + + - -
68L VAL* 4.1 19.3 - - + -
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Residues in contact with ASN 59 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
443 LYS* 4.4 7.3 + - - -
55L LEU* 2.9 28.6 + - - +
56L ARG* 4.1 9.5 - - - +
57L PHE 3.3 0.2 - - - -
58L TYR* 1.3 92.3 - - - +
60L TYR* 1.3 58.8 + - - +
62L TYR* 3.6 3.9 + - - +
63L ASP* 3.1 38.9 + - - +
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Residues in contact with TYR 60 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2L LEU* 4.3 1.3 - - + +
10L LEU* 3.9 23.6 - - + -
56L ARG 3.3 6.5 + - - +
57L PHE 3.4 2.9 + - - +
58L TYR 3.4 0.4 - - - -
59L ASN* 1.3 76.0 - - - +
61L ILE* 1.3 68.1 + - + +
63L ASP* 3.2 7.9 + - + +
64L ARG* 3.1 52.7 + - + +
115L SER* 3.0 16.0 - - - -
116L THR* 2.9 43.3 + - + -
119L PHE* 3.5 63.5 - + + -
128Q VAL* 4.1 17.5 - - + -
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Residues in contact with ILE 61 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2L LEU* 4.4 6.6 - - + +
7L LEU* 3.8 10.8 - - + -
10L LEU* 4.1 38.1 - - + -
11L ASN* 4.1 13.0 - - - +
14L LEU* 4.0 13.5 - - + -
57L PHE* 3.2 19.2 + - + +
58L TYR 3.8 4.5 - - - +
59L ASN 3.3 0.2 - - - -
60L TYR* 1.3 76.2 - - + +
62L TYR* 1.3 58.5 + - + +
64L ARG* 3.2 12.5 + - - +
66L GLY* 2.8 24.6 + - - +
67L ARG 3.5 29.2 - - - +
68L VAL* 3.7 27.6 - - + -
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Residues in contact with TYR 62 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
293 ALA* 2.6 32.5 + - - +
323 GLU* 3.7 30.1 - - + -
333 ASP* 3.8 22.9 - - + -
58L TYR* 3.3 45.0 + + - +
59L ASN* 4.2 3.8 - - - +
60L TYR 3.3 0.6 - - - -
61L ILE* 1.3 73.6 - - - +
63L ASP* 1.3 66.0 + - - +
64L ARG 3.2 1.1 - - - -
65L ASN* 3.4 10.6 + - - -
66L GLY 3.3 24.0 - - - +
67L ARG* 3.3 17.7 + - - -
68L VAL* 3.4 27.9 + - + -
132Q ALA* 5.3 0.7 - - - +
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Residues in contact with ASP 63 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59L ASN* 3.1 27.9 + - - +
60L TYR* 3.2 11.0 + - - +
62L TYR* 1.3 78.0 - - - +
64L ARG* 1.3 63.3 + - - +
65L ASN 3.3 2.5 + - - -
128Q VAL* 4.2 20.5 - - + +
129Q GLU* 5.6 6.8 - - - +
131Q GLU* 5.1 1.6 - - - +
132Q ALA* 3.4 38.9 + - + +
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Residues in contact with ARG 64 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1L MET* 3.6 39.3 - - - +
2L LEU* 3.8 26.8 + - + +
60L TYR* 3.1 55.9 + - + +
61L ILE 3.2 3.1 + - - +
62L TYR 3.2 0.4 - - - -
63L ASP* 1.3 78.1 + - - +
65L ASN* 1.3 68.8 + - - +
66L GLY* 3.3 2.2 + - - -
113L ASP* 4.4 6.9 + - - -
115L SER* 3.3 29.8 + - - -
102Q TYR* 3.6 10.7 + - - -
127Q GLN 5.0 0.4 + - - -
128Q VAL* 3.8 28.2 + - - +
131Q GLU* 4.1 23.9 + - - +
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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).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il