Contacts of the helix formed by residues 36 - 64 (chain K) 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 K).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1433 PHE* 5.8 6.7 - - + -
31K PHE* 3.0 34.6 + - + +
32K GLU* 4.6 1.1 + - - -
34K LEU* 4.1 26.7 - - + +
35K GLY* 1.3 80.6 - - - +
37K GLU* 1.3 58.3 + - - +
38K GLY 3.2 3.1 - - - -
39K PHE* 3.3 17.3 + - + +
40K ALA* 2.9 27.0 + - - +
83K PRO* 4.2 12.8 - - + -
151K LEU* 4.5 26.7 - - + +
152K PHE* 5.6 2.2 - - + -
155K ASP* 3.3 28.0 - - + +
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Residues in contact with GLU 37 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1363 LYS* 3.2 47.7 + - - +
1403 LYS* 6.0 1.1 - - - -
32K GLU* 3.4 21.5 - - - +
35K GLY* 3.6 11.0 + - - +
36K LEU* 1.3 72.4 - - - +
38K GLY* 1.3 60.0 + - - +
40K ALA* 3.5 8.4 - - - +
41K ASN* 2.8 43.5 + - - +
155K ASP* 3.6 4.8 + - - +
159K SER* 5.3 0.2 - - - -
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Residues in contact with GLY 38 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37K GLU* 1.3 76.4 - - - +
39K PHE* 1.3 58.2 + - - +
41K ASN* 4.0 1.1 - - - +
42K TRP* 3.1 24.3 + - - +
155K ASP* 3.0 33.5 + - - -
158K LEU* 3.4 15.8 - - - +
159K SER* 3.7 18.3 - - - -
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Residues in contact with PHE 39 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31K PHE* 3.5 40.2 - + + -
36K LEU* 3.3 13.4 + - + +
38K GLY* 1.3 75.7 - - - +
40K ALA* 1.3 63.3 + - - +
42K TRP* 3.5 6.3 + - - +
43K MET* 3.1 29.3 + - - +
83K PRO* 5.1 0.9 - - + -
87K PHE* 3.7 25.0 - + - -
137K ILE* 4.4 4.0 - - + -
141K LEU* 4.1 27.1 - - + -
151K LEU* 4.1 17.7 - - + -
154K LEU* 4.1 12.3 - - + -
155K ASP* 3.2 46.8 + - + -
158K LEU* 3.6 22.9 - - + -
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Residues in contact with ALA 40 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28K ALA* 3.5 26.0 - - - +
31K PHE* 3.8 3.5 - - - +
32K GLU* 3.4 35.0 - - - +
36K LEU 2.9 17.3 + - - +
37K GLU* 3.5 5.6 - - - +
38K GLY 3.3 0.2 - - - -
39K PHE* 1.3 76.3 - - - +
41K ASN* 1.3 57.7 + - - +
43K MET 3.3 1.7 + - - -
44K LYS* 3.0 34.1 + - - +
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Residues in contact with ASN 41 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37K GLU* 2.8 32.4 + - - +
38K GLY* 4.1 4.3 - - - +
40K ALA* 1.3 71.2 - - - +
42K TRP* 1.3 60.7 + - - +
44K LYS* 3.2 23.6 + - - +
45K ALA* 2.8 27.4 + - - +
158K LEU 5.2 0.2 - - - +
159K SER* 5.2 9.1 + - - +
161K ARG 3.7 14.8 - - - +
162K ALA* 4.3 5.7 - - + +
163K PRO* 3.4 25.4 - - + +
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Residues in contact with TRP 42 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24K TYR* 6.0 0.9 - + - -
38K GLY 3.1 19.5 + - - +
39K PHE* 3.6 6.5 - - - +
40K ALA 3.3 0.2 - - - -
41K ASN* 1.3 76.4 - - - +
43K MET* 1.3 84.1 + - + +
45K ALA* 3.3 6.4 + - - +
46K GLN* 3.0 48.9 + - + -
87K PHE* 4.5 8.7 - + + -
133K SER* 3.5 23.8 - - - -
134K VAL* 4.5 16.8 - - + -
137K ILE* 3.6 21.9 - - + +
158K LEU* 3.6 34.8 - - + +
161K ARG* 3.3 49.5 + - + +
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Residues in contact with MET 43 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24K TYR* 3.3 51.6 - - + +
27K MET* 3.7 31.9 - - + -
28K ALA* 3.8 6.1 - - + -
31K PHE* 4.1 10.8 - - + -
39K PHE 3.1 17.6 + - - +
40K ALA 3.6 4.7 - - - +
41K ASN 3.2 0.2 - - - -
42K TRP* 1.3 90.2 - - + +
44K LYS* 1.3 61.1 + - - +
46K GLN* 3.3 1.2 + - - +
47K ALA* 2.9 28.4 + - - +
87K PHE* 3.6 42.4 - - + -
90K ALA* 4.8 4.5 - - + -
134K VAL* 6.4 0.4 - - + -
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Residues in contact with LYS 44 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
552 LEU* 4.9 13.8 - - + +
582 TYR* 3.4 30.7 - - - -
592 ASN* 4.4 7.9 + - - -
25K PHE* 4.9 11.2 - - + -
28K ALA* 3.8 10.3 - - + -
32K GLU* 2.9 28.9 + - - -
40K ALA 3.0 19.5 + - - +
41K ASN* 3.2 28.2 + - - +
43K MET* 1.3 75.1 - - - +
45K ALA* 1.3 62.3 + - - +
47K ALA* 3.5 7.6 + - - +
48K GLU* 3.3 26.9 + - - +
163K PRO* 3.9 20.0 - - + -
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Residues in contact with ALA 45 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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41K ASN 2.8 16.2 + - - +
42K TRP 3.5 5.8 - - - +
43K MET 3.3 0.2 - - - -
44K LYS* 1.3 77.6 - - - +
46K GLN* 1.3 60.2 + - - +
48K GLU* 3.5 7.4 + - - +
49K GLU* 3.4 24.1 + - - +
161K ARG* 3.5 27.1 + - + +
162K ALA 3.8 22.4 - - - +
163K PRO* 4.2 9.1 - - + +
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Residues in contact with GLN 46 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24K TYR* 3.7 27.4 - - + -
42K TRP* 3.0 40.5 + - + +
43K MET* 3.7 7.2 - - - +
44K LYS 3.3 0.2 - - - -
45K ALA* 1.3 75.8 - - - +
47K ALA* 1.3 64.2 + - - +
49K GLU* 3.2 21.3 + - - +
50K GLU* 3.2 24.4 + - - +
94K GLU* 5.7 0.2 - - - -
130K GLU* 2.8 39.6 + - - +
133K SER* 4.9 4.0 + - - -
134K VAL* 5.4 3.6 - - - +
161K ARG* 2.9 27.7 + - - +
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Residues in contact with ALA 47 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21K ALA* 3.3 43.6 - - + +
24K TYR* 4.2 7.5 - - + +
25K PHE* 4.2 10.8 - - + +
43K MET 2.9 16.4 + - - +
44K LYS* 3.6 9.9 - - - +
45K ALA 3.3 0.2 - - - -
46K GLN* 1.3 77.0 - - - +
48K GLU* 1.3 60.4 + - + +
50K GLU* 3.4 1.5 + - - -
51K ILE* 3.3 22.2 + - + +
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Residues in contact with GLU 48 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
552 LEU* 5.5 2.6 - - - +
1652 LEU* 3.8 21.2 - - + +
1692 LEU* 4.1 13.4 - - + +
44K LYS 3.3 10.6 + - - +
45K ALA* 3.6 8.2 - - - +
46K GLN 3.2 0.6 - - - -
47K ALA* 1.3 73.0 - - + +
49K GLU* 1.3 64.5 + - + +
51K ILE* 3.3 17.0 + - + +
52K GLY* 3.1 17.7 + - - -
163K PRO* 3.3 21.3 - - - +
164K LYS* 2.9 26.9 + - - +
165K LEU* 3.1 37.2 + - + +
166K PRO* 3.6 1.9 - - - +
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Residues in contact with GLU 49 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1692 LEU* 3.3 34.1 - - + +
1702 MET* 3.4 18.4 + - - +
45K ALA 3.4 6.9 + - - +
46K GLN* 3.2 20.5 + - - +
48K GLU* 1.3 77.3 - - + +
50K GLU* 1.3 57.1 + - - +
52K GLY* 3.1 3.3 + - - +
53K HIS* 3.0 39.0 + - + -
130K GLU* 4.6 1.3 - - - +
161K ARG* 3.4 26.6 + - - +
164K LYS* 5.2 5.7 + - - -
1172K AG 3.1 18.5 - - - -
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Residues in contact with GLU 50 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17K GLU* 2.8 45.4 - - - +
20K SER* 3.8 13.8 - - - -
21K ALA* 3.6 9.9 - - - +
24K TYR* 3.4 29.8 - - + -
46K GLN* 3.2 17.8 + - - +
47K ALA 3.6 4.0 - - - +
48K GLU 3.2 0.2 - - - -
49K GLU* 1.3 74.7 - - - +
51K ILE* 1.3 59.7 + - - +
53K HIS* 3.2 14.5 + - - +
54K ALA* 2.9 27.4 + - - +
94K GLU* 3.8 3.5 - - - +
97K ILE* 5.9 0.7 - - - +
126K GLU* 5.0 0.7 - - - +
127K GLN* 5.0 2.6 + - - -
130K GLU* 2.9 24.9 - - - +
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Residues in contact with ILE 51 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
512 ILE* 4.8 26.0 - - + -
1652 LEU* 4.3 19.1 - - + -
18K LEU* 4.8 15.5 - - + -
21K ALA* 3.7 15.0 - - + -
47K ALA* 3.3 18.6 + - + +
48K GLU* 3.3 19.0 + - + +
50K GLU* 1.3 75.8 - - - +
52K GLY* 1.3 58.1 + - - +
54K ALA* 3.2 8.0 + - + +
55K LEU* 2.9 39.8 + - + +
165K LEU* 6.3 1.1 - - + -
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Residues in contact with GLY 52 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1652 LEU* 5.3 1.1 - - - +
1662 PRO* 6.1 0.2 - - - -
1692 LEU* 4.0 25.4 - - - -
48K GLU 3.1 10.1 + - - -
49K GLU 3.1 5.6 + - - -
51K ILE* 1.3 78.4 - - - +
53K HIS* 1.3 62.6 + - - +
55K LEU* 3.4 12.1 + - - +
56K ARG* 3.3 29.0 + - - +
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Residues in contact with HIS 53 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1702 MET* 5.6 0.4 - - + -
17K GLU* 3.7 12.9 + - - +
49K GLU* 3.0 24.2 + - + -
50K GLU* 3.2 24.5 + - - +
52K GLY* 1.3 76.1 - - - +
54K ALA* 1.3 63.7 + - - +
56K ARG* 3.3 13.7 + - - +
57K PHE* 3.2 21.2 - - - -
122K TRP* 3.7 23.1 - + - -
123K PHE* 3.6 17.0 - + + -
126K GLU* 3.0 25.3 + - - -
130K GLU* 3.5 15.3 - - - -
1172K AG 2.2 30.3 - - - -
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Residues in contact with ALA 54 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
252 PHE* 5.2 4.0 - - + -
14K LEU* 3.6 19.2 - - + +
17K GLU* 3.9 15.0 - - + +
18K LEU* 3.8 35.2 - - + -
50K GLU 2.9 14.3 + - - +
51K ILE 3.2 9.1 + - - +
53K HIS* 1.3 78.1 - - - +
55K LEU* 1.3 59.8 + - + +
57K PHE* 3.5 4.4 + - - +
58K TYR* 3.3 18.0 + - - +
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Residues in contact with LEU 55 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
252 PHE* 3.8 30.5 - - + -
442 LYS* 5.0 15.0 - - + +
482 GLU* 5.5 2.5 - - - +
1632 PRO* 6.3 0.4 - - + -
1652 LEU* 5.4 4.7 - - + -
1662 PRO* 4.2 29.8 - - + -
1692 LEU* 6.2 0.2 - - + -
51K ILE* 2.9 35.2 + - + +
52K GLY* 3.7 10.5 - - - +
53K HIS 3.3 0.2 - - - -
54K ALA* 1.3 74.7 - - + +
56K ARG* 1.3 59.8 + - + +
58K TYR* 3.3 13.4 - - + +
59K ASN* 2.9 40.3 + - - +
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Residues in contact with ARG 56 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1692 LEU 4.9 3.0 + - - -
1702 MET* 3.8 20.4 + - - +
1712 GLN 5.0 3.0 + - - -
52K GLY 3.3 16.8 + - - +
53K HIS* 3.5 10.3 - - - +
54K ALA 3.2 0.6 - - - -
55K LEU* 1.3 76.0 - - - +
57K PHE* 1.3 58.3 + - - +
59K ASN* 3.4 9.9 + - - +
60K TYR* 3.0 22.7 + - - +
119K PHE* 3.6 15.0 - - + -
122K TRP* 3.3 66.3 - - - +
123K PHE* 3.7 15.5 - - + -
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Residues in contact with PHE 57 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10K LEU* 4.0 33.2 - - + +
13K GLN* 3.4 34.3 - - + -
14K LEU* 4.0 22.2 - - + -
17K GLU* 4.1 12.1 - - + -
53K HIS 3.2 20.9 - - - -
54K ALA 3.5 7.1 + - - +
55K LEU 3.4 0.2 - - - -
56K ARG* 1.3 73.5 - - - +
58K TYR* 1.3 65.7 + - - +
60K TYR* 3.4 1.0 + - - +
61K ILE* 3.0 31.0 + - + +
101K ILE* 4.2 11.4 - - + -
104K LEU* 4.4 0.7 - - + -
119K PHE* 3.4 26.9 - + - -
120K LEU* 4.3 7.0 - - + -
123K PHE* 3.4 35.7 - + - -
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Residues in contact with TYR 58 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
252 PHE* 3.7 31.2 - + + -
282 ALA* 2.9 28.6 + - + -
292 ALA* 3.8 22.4 - - + -
322 GLU* 3.0 19.9 + - - +
442 LYS* 3.4 31.4 - - - -
14K LEU* 3.6 10.7 - - + +
54K ALA 3.3 11.7 + - - +
55K LEU* 3.3 16.2 - - + +
57K PHE* 1.3 81.4 - - - +
59K ASN* 1.3 73.1 + - - +
61K ILE* 3.6 1.0 + - - +
62K TYR* 3.2 46.2 + + + -
68K VAL* 4.1 17.9 - - + -
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Residues in contact with ASN 59 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
322 GLU* 6.0 0.2 - - - -
442 LYS* 4.4 7.6 + - - -
55K LEU* 2.9 29.2 + - - +
56K ARG* 3.7 11.0 - - - +
57K PHE 3.3 0.2 - - - -
58K TYR* 1.3 90.1 - - - +
60K TYR* 1.3 64.5 + - - +
62K TYR* 3.4 5.0 + - - +
63K ASP* 3.0 35.0 + - - +
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Residues in contact with TYR 60 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128H VAL* 4.3 18.4 - - + -
2K LEU* 4.8 1.3 - - + -
10K LEU* 4.1 22.4 - - + -
56K ARG 3.0 17.1 + - - +
57K PHE 3.4 3.3 + - - +
59K ASN* 1.3 75.4 - - - +
61K ILE* 1.3 66.6 + - + +
63K ASP* 3.1 9.0 + - - +
64K ARG* 3.1 52.6 + - + +
115K SER* 3.1 14.2 - - - -
116K THR* 2.8 49.9 + - + -
119K PHE* 3.6 48.2 - + + -
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Residues in contact with ILE 61 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2K LEU* 4.6 5.1 - - + +
7K LEU* 3.8 12.8 - - + -
10K LEU* 3.9 34.5 - - + +
11K ASN* 3.8 20.4 - - - +
14K LEU* 4.2 8.7 - - + -
57K PHE* 3.0 25.3 + - + +
58K TYR 3.9 4.3 - - - +
59K ASN 3.3 0.2 - - - -
60K TYR* 1.3 77.9 - - + +
62K TYR* 1.3 57.5 + - + +
64K ARG* 3.2 11.8 + - - +
66K GLY* 2.8 25.1 + - - -
67K ARG 3.6 25.1 - - - +
68K VAL* 3.7 28.3 - - + -
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Residues in contact with TYR 62 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
292 ALA* 2.6 32.0 + - - +
322 GLU* 3.7 30.3 - - + -
332 ASP* 3.7 26.2 - - + -
132H ALA* 5.5 0.2 - - - +
58K TYR* 3.2 42.1 + + + +
59K ASN* 4.1 4.0 - - - +
60K TYR 3.3 0.4 - - - -
61K ILE* 1.3 73.1 - - + +
63K ASP* 1.3 65.0 + - - +
64K ARG 3.2 1.1 + - - -
65K ASN* 3.6 9.9 + - - -
66K GLY 3.5 21.8 - - - +
67K ARG* 3.5 7.2 + - - -
68K VAL* 3.3 39.8 + - + -
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Residues in contact with ASP 63 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128H VAL* 4.3 20.4 - - + +
129H GLU* 6.3 0.7 - - - -
131H GLU* 5.2 2.3 - - - +
132H ALA* 3.5 38.0 + - + +
59K ASN* 3.0 29.2 + - - +
60K TYR* 3.1 13.7 + - - +
62K TYR* 1.3 80.1 - - - +
64K ARG* 1.3 61.4 + - - +
65K ASN 3.3 2.9 + - - -
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Residues in contact with ARG 64 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102H TYR* 3.6 10.7 + - - -
128H VAL* 4.1 23.7 - - - +
131H GLU* 4.0 28.4 + - - +
1K MET 4.1 27.1 + - - +
2K LEU* 3.8 33.5 + - + +
60K TYR* 3.1 56.5 + - + +
61K ILE 3.2 1.1 + - - +
63K ASP* 1.3 79.4 + - - +
65K ASN* 1.3 68.7 + - - +
66K GLY* 3.2 3.3 + - - -
113K ASP* 4.2 8.7 + - - -
115K SER* 3.5 27.7 + - - -
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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