Contacts of the helix formed by residues 8 - 38 (chain B) in PDB entry 2CHP
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 THR 8 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7B LYS* 1.3 78.1 - - + +
9B ASN* 1.3 59.7 + - - +
10B GLN* 3.3 8.9 + - - +
11B THR* 2.7 38.9 + - - +
12B LEU* 2.8 30.1 + - - +
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Residues in contact with ASN 9 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7B LYS 5.4 0.2 - - - +
8B THR* 1.3 74.2 - - - +
10B GLN* 1.3 61.5 + - - +
12B LEU* 3.8 14.6 - - - +
13B VAL* 3.4 26.5 + - - +
121B LEU* 4.7 1.1 - - - +
124B GLU* 4.1 33.6 + - + +
125B ASN* 3.5 26.2 - - + +
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Residues in contact with GLN 10 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8B THR* 3.1 7.0 + - - +
9B ASN* 1.3 77.8 - - - +
11B THR* 1.3 62.1 + - - +
13B VAL* 3.2 7.2 + - - +
14B GLU* 2.7 64.8 + - - +
71B ILE* 3.0 37.2 + - - +
125B ASN* 3.0 27.4 + - - +
127B ASP* 5.6 1.2 - - - +
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Residues in contact with THR 11 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7B LYS 3.6 19.1 - - - +
8B THR* 2.7 31.6 + - - +
10B GLN* 1.3 74.8 - - - +
12B LEU* 1.3 56.3 + - - +
14B GLU* 3.8 14.4 + - - +
15B ASN* 3.0 44.7 + - - +
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Residues in contact with LEU 12 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7B LYS* 3.8 28.9 - - + +
8B THR 2.8 25.6 + - - +
9B ASN* 3.8 15.0 - - - +
11B THR* 1.3 74.7 - - - +
13B VAL* 1.3 64.3 + - - +
15B ASN* 3.6 7.9 + - + +
16B SER* 3.1 25.1 + - - -
121B LEU* 3.9 30.5 - - + +
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Residues in contact with VAL 13 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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9B ASN 3.4 14.8 + - - +
10B GLN* 3.2 9.9 + - - +
12B LEU* 1.3 77.7 - - - +
14B GLU* 1.3 63.2 + - - +
16B SER* 2.8 22.4 + - - +
17B LEU* 2.9 22.5 + - + +
71B ILE* 4.0 22.2 - - + -
118B VAL* 5.5 1.1 - - + -
121B LEU* 3.4 35.9 - - + +
122B ALA* 3.8 7.9 - - + +
125B ASN* 4.1 10.5 - - + +
127B ASP* 4.4 5.6 - - - +
130B THR* 4.1 12.8 - - + -
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Residues in contact with GLU 14 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10B GLN* 2.7 51.2 + - - +
11B THR* 3.4 16.0 + - - +
13B VAL* 1.3 75.2 - - - +
15B ASN* 1.3 62.0 + - - +
17B LEU* 3.2 5.3 + - - +
18B ASN* 3.0 30.0 + - - +
68B LEU* 3.6 28.2 - - + +
71B ILE* 4.3 4.0 - - + -
72B GLY 4.1 6.1 - - - +
73B GLY* 3.7 21.8 - - - -
74B GLN 4.7 1.5 + - - +
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Residues in contact with ASN 15 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7B LYS 4.5 7.9 - - - +
11B THR* 3.0 39.5 + - - +
12B LEU* 4.0 7.3 - - + +
14B GLU* 1.3 79.1 - - - +
16B SER* 1.3 58.2 + - - +
18B ASN* 3.3 11.3 + - - +
19B THR* 3.1 28.9 + - - -
85B HIS* 5.4 1.4 + - - -
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Residues in contact with SER 16 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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12B LEU 3.1 15.9 + - - -
13B VAL* 2.8 21.5 + - - -
15B ASN* 1.3 74.7 - - - +
17B LEU* 1.3 66.6 + - - +
19B THR* 3.5 8.1 + - - -
20B GLN* 3.2 30.4 + - - +
117B PHE* 5.9 2.0 - - - -
118B VAL* 3.8 26.3 - - - +
121B LEU* 4.0 15.6 - - - +
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Residues in contact with LEU 17 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13B VAL* 2.9 20.3 + - + +
14B GLU 3.6 8.1 - - - +
16B SER* 1.3 84.4 + - - +
18B ASN* 1.3 57.0 + - - +
20B GLN* 3.3 3.8 + - - -
21B LEU* 2.8 31.2 + - - +
64B ILE* 3.5 15.1 - - + +
67B ARG* 4.3 8.3 - - + -
68B LEU* 4.0 39.3 - - + +
71B ILE* 4.3 11.2 - - + -
118B VAL* 3.9 5.4 - - + -
130B THR* 3.7 25.8 - - + -
134B PHE* 3.7 30.5 - - + -
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Residues in contact with ASN 18 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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14B GLU* 3.0 13.0 + - - +
15B ASN* 3.3 13.1 + - - +
17B LEU* 1.3 73.5 - - - +
19B THR* 1.3 62.7 + - - +
21B LEU* 3.8 7.3 - - - +
22B SER* 2.7 31.1 + - - -
68B LEU* 3.3 21.1 - - - +
74B GLN 3.0 17.5 - - - +
75B PRO* 3.3 1.6 - - - +
76B VAL* 2.9 42.0 + - + +
85B HIS* 4.3 18.4 - - + +
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Residues in contact with THR 19 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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15B ASN 3.1 14.5 + - - -
16B SER* 3.7 10.8 - - - -
17B LEU 3.4 0.2 - - - -
18B ASN* 1.3 76.1 - - - +
20B GLN* 1.3 74.0 + - - +
22B SER* 3.3 4.2 + - - -
23B ASN* 2.9 28.8 + - - +
85B HIS* 3.3 29.4 + - - +
87B SER* 4.1 21.3 - - - +
114B GLU* 4.5 1.1 - - - +
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Residues in contact with GLN 20 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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16B SER* 3.2 16.9 + - - +
17B LEU 3.3 3.3 + - - +
19B THR* 1.3 84.0 - - - +
21B LEU* 1.3 66.6 + - - +
23B ASN* 3.1 22.0 + - - +
24B TRP* 2.9 34.9 + - + -
64B ILE* 4.2 4.3 - - + -
111B ILE* 4.2 21.0 - - - +
114B GLU* 2.9 40.6 + - - +
115B SER* 4.4 4.4 + - - +
118B VAL* 4.1 11.0 - - + +
134B PHE* 4.0 31.4 - - + -
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Residues in contact with LEU 21 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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36A TRP* 4.3 4.3 - - + -
17B LEU 2.8 17.5 + - - +
18B ASN* 3.8 14.8 - - - +
20B GLN* 1.3 76.6 - - - +
22B SER* 1.3 62.8 + - - +
24B TRP* 3.4 3.0 + - - +
25B PHE* 3.1 21.4 + - + +
61B VAL* 3.5 43.5 - - + +
64B ILE* 3.9 15.8 - - + +
65B ALA* 4.1 13.5 - - + +
68B LEU* 5.2 1.1 - - + -
75B PRO* 3.6 22.0 - - + -
76B VAL* 3.3 27.1 - - + +
82B TYR* 4.2 10.3 - - + -
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Residues in contact with SER 22 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18B ASN 2.7 23.2 + - - -
19B THR 3.4 4.7 - - - -
21B LEU* 1.3 73.6 - - - +
23B ASN* 1.3 65.2 + - - +
25B PHE* 3.3 2.4 + - - +
26B LEU* 3.0 27.7 + - - +
76B VAL* 3.4 19.6 - - - +
82B TYR* 3.4 35.3 - - - +
85B HIS* 3.4 8.1 - - - +
86B ALA* 3.6 12.6 - - - -
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Residues in contact with ASN 23 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19B THR* 2.9 13.3 + - - +
20B GLN* 3.1 35.2 + - - +
22B SER* 1.3 76.0 - - - +
24B TRP* 1.3 58.6 + - + +
26B LEU 3.4 0.9 + - - -
27B LEU* 2.9 29.2 + - - +
86B ALA* 3.2 6.4 - - - +
87B SER* 2.8 46.9 + - - -
88B ILE* 3.3 28.3 + - + +
110B GLN* 6.1 0.2 - - - +
111B ILE* 4.5 14.7 - - + +
114B GLU* 3.4 5.7 + - - -
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Residues in contact with TRP 24 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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20B GLN* 2.9 32.8 + - + +
21B LEU 3.9 2.2 - - - +
22B SER 3.3 0.2 - - - -
23B ASN* 1.3 78.7 - - + +
25B PHE* 1.3 60.4 + - - +
27B LEU* 3.7 21.6 - - + +
28B TYR* 3.0 27.2 + - - +
56B HIS* 3.6 35.2 - + - -
57B ALA* 3.7 30.9 - - + +
60B THR* 3.5 21.8 - - + +
61B VAL* 3.7 18.7 - - + +
64B ILE* 3.6 16.4 - - + +
108B TYR* 4.0 12.1 - + - -
111B ILE* 3.8 28.0 - - + +
115B SER* 5.4 0.4 + - - -
134B PHE* 5.6 0.4 - - - -
137B LEU* 4.0 14.5 - - + +
141B VAL* 3.6 28.0 - - + -
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Residues in contact with PHE 25 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25A PHE* 3.6 34.1 - + - -
28A TYR* 3.9 31.0 - + - -
29A SER* 4.3 15.0 - - - -
32A HIS* 5.1 6.7 - + - -
79A VAL* 4.6 6.7 - - + -
21B LEU 3.1 16.9 + - - +
22B SER 3.8 2.9 - - - +
24B TRP* 1.3 76.0 - - - +
26B LEU* 1.3 64.8 + - + +
28B TYR* 3.3 9.6 - + + +
29B SER* 3.1 17.7 + - - -
61B VAL* 3.5 24.8 - - + +
79B VAL* 4.2 8.1 - - + -
82B TYR* 3.4 52.5 - + + -
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Residues in contact with LEU 26 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A VAL* 4.0 33.9 - - + -
22B SER 3.0 18.4 + - - +
23B ASN 3.9 3.6 - - - +
25B PHE* 1.3 77.6 - - + +
27B LEU* 1.3 57.1 + - - +
29B SER* 3.2 6.5 + - - -
30B LYS* 2.9 24.9 + - - +
82B TYR* 4.0 21.5 - - + +
83B THR* 4.3 11.2 - - + +
86B ALA* 3.6 14.4 - - + -
88B ILE* 3.4 31.6 - - + +
89B THR* 4.0 12.1 - - - +
90B ASP* 3.4 24.4 - - - +
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Residues in contact with LEU 27 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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23B ASN 2.9 18.5 + - - +
24B TRP* 3.7 24.7 - - + +
25B PHE 3.2 0.2 - - - -
26B LEU* 1.3 73.6 - - - +
28B TYR* 1.3 58.2 - - - +
30B LYS* 3.2 7.8 + - + +
31B LEU* 2.9 45.1 + - + +
57B ALA* 4.9 0.2 - - + -
88B ILE* 4.3 6.2 - - + +
104B LEU* 3.9 23.6 - - + -
107B ASP* 3.8 32.3 - - + +
108B TYR* 3.5 36.8 - - + +
111B ILE* 4.1 10.3 - - + -
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Residues in contact with TYR 28 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25A PHE* 3.9 23.3 - + - -
28A TYR* 3.4 49.2 + + - -
58A ALA* 3.7 15.2 - - - +
24B TRP 3.0 14.3 + - - +
25B PHE* 3.3 18.8 - + - +
27B LEU* 1.3 73.9 - - - +
29B SER* 1.3 58.7 + - - +
31B LEU* 3.6 2.4 + - - +
32B HIS* 2.8 61.0 + + - -
54B TYR* 3.3 40.1 - + + +
55B ASP* 5.5 0.4 - - - -
57B ALA* 4.0 11.7 - - + +
58B ALA* 3.7 16.6 - - + +
61B VAL* 5.3 1.8 - - + -
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Residues in contact with SER 29 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A PHE* 4.3 10.8 - - - -
77A ALA 3.8 13.3 + - - +
78A THR* 4.1 2.3 - - - -
79A VAL* 3.9 15.7 - - - +
82A TYR* 4.4 7.0 + - - -
25B PHE 3.1 9.6 + - - -
26B LEU* 3.3 9.4 - - - -
27B LEU 3.2 0.2 - - - -
28B TYR* 1.3 80.9 - - - +
30B LYS* 1.3 65.1 + - - +
32B HIS* 3.1 17.3 + - - +
33B ARG 3.2 9.7 + - - -
90B ASP* 2.6 28.0 + - - +
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Residues in contact with LYS 30 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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77A ALA 5.3 0.2 - - - -
26B LEU 2.9 17.5 + - - +
27B LEU* 3.2 8.9 + - + +
29B SER* 1.3 71.5 - - - +
31B LEU* 1.3 59.1 + - - +
33B ARG* 3.0 20.1 + - - +
34B PHE* 3.0 61.0 + - + -
88B ILE* 5.5 0.9 - - - -
89B THR* 3.0 32.3 + - - +
90B ASP* 3.9 13.0 - - + +
91B GLY 4.2 11.2 + - - -
94B GLU* 5.0 5.8 + - - +
103B ALA* 4.8 6.2 - - + +
104B LEU* 4.7 6.1 - - + -
107B ASP* 2.6 36.1 + - - +
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Residues in contact with LEU 31 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27B LEU* 2.9 37.7 + - + +
28B TYR 3.8 0.2 - - - +
30B LYS* 1.3 77.6 - - - +
32B HIS* 1.3 55.4 + - - +
34B PHE* 4.5 3.4 - - + -
35B HIS* 2.9 30.5 + - - +
50B PHE* 3.9 20.2 - - + +
53B LEU* 3.7 28.0 - - + +
54B TYR* 3.7 39.0 - - + +
57B ALA* 4.4 2.0 - - + -
104B LEU* 3.6 42.4 - - + -
108B TYR* 4.1 5.2 - - - +
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Residues in contact with HIS 32 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25A PHE* 5.1 3.8 - + + -
58A ALA* 5.3 4.6 + - - +
61A VAL* 4.3 12.3 - - + +
62A ASP* 5.4 3.0 - - + +
82A TYR* 5.0 3.1 - - - +
28B TYR* 2.8 62.4 + + - -
29B SER* 3.1 11.4 + - - +
31B LEU* 1.3 74.6 - - - +
33B ARG* 1.3 65.5 + - - +
35B HIS* 3.3 5.7 + - - +
36B TRP* 3.0 67.9 + + + -
54B TYR* 3.5 43.0 + + - -
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Residues in contact with ARG 33 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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77A ALA* 3.6 40.3 - - + +
78A THR* 4.2 10.3 - - - +
29B SER 3.2 6.3 + - - +
30B LYS* 3.0 24.0 + - - +
32B HIS* 1.3 75.6 - - - +
34B PHE* 1.3 70.3 + - + +
36B TRP* 3.3 2.3 + - - -
37B TYR* 3.0 46.0 + - + +
90B ASP 2.9 28.0 + - - -
91B GLY 3.4 13.1 + - - -
92B GLY 3.5 16.9 + - - -
93B ASN* 4.8 0.2 - - - +
94B GLU* 3.0 40.4 + - - +
100B MET* 5.9 0.7 - - + -
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Residues in contact with PHE 34 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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30B LYS* 3.0 43.9 + - + +
31B LEU* 3.9 4.5 - - - +
33B ARG* 1.3 105.0 - - + +
35B HIS* 1.3 64.3 + - - +
38B VAL* 3.0 31.9 + - - +
50B PHE* 3.6 21.1 - - + -
94B GLU* 3.8 19.5 - - + -
100B MET* 3.4 48.0 - - + -
103B ALA* 3.9 15.3 - - + -
104B LEU* 3.9 28.0 - - + -
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Residues in contact with HIS 35 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A ASP* 3.5 22.1 + - - -
66A GLU* 3.3 13.7 + - - -
31B LEU 2.9 19.8 + - - +
32B HIS* 3.3 4.7 + + - +
34B PHE* 1.3 75.9 - - - +
36B TRP* 1.3 76.4 + + - +
37B TYR 3.8 0.2 + - - -
38B VAL* 3.9 6.9 - - - +
43B PHE* 4.7 1.4 - - - -
47B HIS* 2.8 75.4 + + - -
50B PHE* 3.6 12.5 - - + -
51B GLU* 3.7 27.7 + - + +
54B TYR* 3.4 25.5 + + + -
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Residues in contact with TRP 36 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21A LEU* 4.2 3.6 - - + -
61A VAL* 3.8 22.9 - - + -
62A ASP* 3.0 22.6 + - - -
65A ALA* 3.3 28.4 - - + +
66A GLU* 3.9 15.5 - - + +
69A LEU* 3.8 33.4 - - + +
75A PRO* 4.5 6.3 - - + -
76A VAL 3.7 13.7 - - - -
77A ALA* 3.9 19.7 - - + -
82A TYR* 3.5 26.5 - - - -
32B HIS* 3.0 46.1 + + + +
33B ARG 3.8 3.4 - - - +
35B HIS* 1.3 95.0 - + - +
37B TYR* 1.3 68.2 + - + +
38B VAL 3.7 1.7 - - - +
43B PHE* 5.6 2.5 - - - -
47B HIS* 5.5 0.4 - - - -
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Residues in contact with TYR 37 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A LEU* 4.6 6.5 - - + -
74A GLN* 3.2 23.5 - - + +
75A PRO* 2.7 58.9 + - + -
77A ALA* 4.3 11.7 - - + -
33B ARG* 3.0 36.3 + - + +
36B TRP* 1.3 83.3 - - + +
38B VAL* 1.3 69.7 + - - +
39B LYS* 3.4 12.5 + - - +
94B GLU 5.9 0.4 - - - +
95B THR 4.8 1.7 - - - +
100B MET* 3.9 16.9 - - + +
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Residues in contact with VAL 38 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34B PHE 3.0 21.9 + - - +
35B HIS 3.9 11.9 - - - +
36B TRP 3.7 1.2 - - - +
37B TYR* 1.3 80.6 - - - +
39B LYS* 1.3 70.5 + - - +
43B PHE* 3.3 34.8 - - + +
46B LEU* 3.9 32.8 - - + -
47B HIS* 4.1 18.8 - - - +
50B PHE* 4.0 7.6 - - + -
95B THR 5.5 0.4 - - - -
97B ALA* 4.4 6.1 - - + -
100B MET* 3.8 17.9 - - - +
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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
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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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