Contacts of the helix formed by residues 4 - 35 (chain B) in PDB entry 2FL0
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 ASP 4 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3B GLY* 1.3 69.4 - - - -
5B LYS* 1.3 66.2 + - - +
6B ILE* 4.3 2.7 - - + +
7B VAL* 3.0 27.1 + - + +
8B ILE* 3.0 25.8 + - - +
107B TYR* 5.1 3.6 + - + +
111B VAL* 3.7 35.9 - - + +
113B ASP* 5.1 6.5 + - - +
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Residues in contact with LYS 5 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2B LYS* 4.7 10.7 - - - +
3B GLY 3.4 4.9 + - - -
4B ASP* 1.3 72.5 - - - +
6B ILE* 1.3 62.7 + - + +
8B ILE* 3.4 7.0 + - - +
9B GLN* 2.9 53.5 + - + +
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Residues in contact with ILE 6 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4B ASP* 3.2 2.3 - - + +
5B LYS* 1.3 80.5 - - + +
7B VAL* 1.3 64.7 + - - +
9B GLN* 3.1 22.5 + - + +
10B HIS* 3.0 32.4 + - + +
107B TYR* 3.1 45.5 - - + +
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Residues in contact with VAL 7 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4B ASP* 3.0 21.3 + - + +
6B ILE* 1.3 76.6 - - - +
8B ILE* 1.3 58.6 + - - +
10B HIS* 3.1 6.6 + - - +
11B LEU* 2.9 42.4 + - + +
65B LEU* 4.5 3.4 - - + -
107B TYR* 3.6 16.6 - - + -
108B CYS* 4.2 16.8 - - - -
111B VAL* 3.5 32.8 - - + -
113B ASP* 3.6 26.0 - - + +
116B SER* 4.1 4.0 - - - +
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Residues in contact with ILE 8 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2B LYS* 3.5 21.8 - - - +
3B GLY 4.4 2.5 - - - +
4B ASP 3.0 17.2 + - - +
5B LYS* 3.7 7.4 - - - +
7B VAL* 1.3 72.5 - - - +
9B GLN* 1.3 62.0 + - + +
11B LEU* 3.4 8.4 - - + +
12B ASN* 2.8 44.5 + - - +
62B ILE* 4.0 19.5 - - + +
65B LEU* 3.4 47.6 - - + +
67B GLY* 3.9 16.6 - - - -
68B LEU 4.8 0.4 - - - +
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Residues in contact with GLN 9 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5B LYS* 2.9 42.2 + - + +
6B ILE* 3.1 35.7 + - + +
8B ILE* 1.3 79.2 - - + +
10B HIS* 1.3 62.6 + - + +
12B ASN* 3.4 8.8 + - - +
13B LYS* 3.0 21.0 + - - +
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Residues in contact with HIS 10 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6B ILE* 3.0 30.1 + - + +
7B VAL* 3.1 6.9 + - + +
9B GLN* 1.3 73.9 - - + +
11B LEU* 1.3 58.7 + - + +
13B LYS* 2.8 17.7 + - + +
14B ILE* 2.7 37.9 + - + +
100B ASP 5.2 1.6 + - - -
103B ALA* 4.6 17.7 - - + -
104B ALA* 4.1 23.7 + - + +
107B TYR* 3.6 42.1 - + + +
108B CYS* 6.1 2.0 - - - -
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Residues in contact with LEU 11 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7B VAL* 2.9 26.8 + - + +
8B ILE* 3.4 11.7 - - - +
10B HIS* 1.3 78.5 - - + +
12B ASN* 1.3 62.6 + - - +
14B ILE* 3.3 6.8 + - + +
15B LEU* 2.9 23.2 + - - +
58B LEU* 4.2 12.6 - - + +
61B ARG* 3.9 17.3 - - + -
62B ILE* 3.6 26.2 - - + +
65B LEU* 3.7 30.1 - - + -
108B CYS* 5.2 1.3 - - - -
116B SER* 4.3 7.2 - - - +
119B LEU* 6.1 0.9 - - + -
120B LEU* 4.1 32.1 - - + -
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Residues in contact with ASN 12 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8B ILE* 2.8 36.7 + - - +
9B GLN* 3.5 8.7 - - - +
11B LEU* 1.3 71.8 - - - +
13B LYS* 1.3 64.9 + - - +
15B LEU* 3.1 7.7 + - - +
16B GLY* 3.1 18.4 + - - -
62B ILE* 3.8 10.4 - - - +
68B LEU 3.4 18.2 + - - +
69B PRO* 3.6 3.6 - - - +
70B ASN* 3.0 41.7 + - + +
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Residues in contact with LYS 13 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9B GLN 3.0 12.6 + - - +
10B HIS* 2.8 27.9 + - + +
12B ASN* 1.3 68.6 - - - +
14B ILE* 1.3 68.6 + - + +
16B GLY* 3.0 12.7 + - - -
17B ASN* 3.4 14.2 + - - +
100B ASP* 3.3 33.9 + - + +
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Residues in contact with ILE 14 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10B HIS* 2.7 23.9 + - + +
11B LEU* 3.6 8.3 - - - +
13B LYS* 1.3 71.8 - - + +
15B LEU* 1.3 62.6 + - - +
17B ASN* 3.1 24.6 + - + +
18B GLU* 3.3 16.7 + - - +
58B LEU* 3.3 25.4 - - + -
97B GLY 5.3 0.2 - - - +
100B ASP* 3.6 21.1 - - + +
101B LEU* 3.6 50.0 - - + +
104B ALA* 4.4 11.2 - - + -
120B LEU* 4.4 8.5 - - + -
123B ILE* 5.1 2.0 - - + -
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Residues in contact with LEU 15 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11B LEU 2.9 13.4 + - - +
12B ASN* 3.2 10.1 - - - +
13B LYS 3.1 0.2 - - - -
14B ILE* 1.3 73.8 - - - +
16B GLY* 1.3 66.4 + - - +
18B GLU* 3.1 2.9 + - - +
19B LEU* 3.1 34.6 + - + +
55B ALA* 3.7 39.7 - - + +
58B LEU* 3.5 12.9 - - + +
59B ILE* 4.1 18.4 - - + +
62B ILE* 4.1 19.1 - - + -
69B PRO* 4.4 4.9 - - + -
70B ASN 4.1 24.9 - - - +
71B LEU* 4.4 4.7 - - + -
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Residues in contact with GLY 16 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12B ASN 3.1 8.7 + - - -
13B LYS* 3.0 8.7 + - - -
15B LEU* 1.3 76.6 - - - +
17B ASN* 1.3 63.5 + - - +
19B LEU* 3.3 15.3 + - - +
20B ILE* 3.1 27.7 + - - +
70B ASN 5.2 2.7 + - - -
73B GLU 4.7 9.7 - - - +
74B LEU* 4.5 1.2 - - - +
75B GLY 5.9 0.4 - - - -
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Residues in contact with ASN 17 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13B LYS* 3.4 12.2 + - - +
14B ILE* 3.1 13.6 + - + +
16B GLY* 1.3 73.5 - - - +
18B GLU* 1.3 63.7 + - + +
20B ILE* 3.1 22.5 + - - +
21B ALA* 2.9 27.1 + - - +
93B LEU* 4.9 6.6 - - + +
96B ALA 5.1 0.7 - - - +
97B GLY* 4.4 13.8 - - - -
100B ASP* 3.3 28.8 + - - +
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Residues in contact with GLU 18 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14B ILE* 3.6 21.0 - - - +
15B LEU 3.1 6.0 + - - +
17B ASN* 1.3 78.9 - - - +
19B LEU* 1.3 54.2 + - - +
21B ALA* 2.9 7.3 + - - +
22B ILE* 2.8 38.7 + - - +
51B GLU* 2.6 13.7 - - - +
54B HIS* 3.1 18.4 - - + +
55B ALA* 3.9 18.6 - - + +
58B LEU* 3.9 19.1 - - + -
101B LEU* 5.3 2.3 - - - +
123B ILE* 3.9 9.0 - - - +
127B GLU* 3.5 5.2 - - - +
1606B FE2 2.2 31.0 - - - -
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Residues in contact with LEU 19 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A ASN* 4.7 6.7 - - - +
3001A HEM 3.5 33.6 - - + +
15B LEU* 3.1 28.2 + - + +
16B GLY* 3.5 11.9 - - - +
18B GLU* 1.3 76.6 - - - +
20B ILE* 1.3 60.5 + - - +
22B ILE* 3.6 11.1 - - + +
23B ASN* 3.3 28.9 + - - +
55B ALA* 4.4 0.9 - - + -
70B ASN 3.9 8.7 - - - +
71B LEU* 3.9 47.3 - - + +
73B GLU 4.5 5.4 - - - +
74B LEU* 3.7 13.8 - - + +
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Residues in contact with ILE 20 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16B GLY 3.1 17.9 + - - +
17B ASN* 3.2 24.2 - - - +
18B GLU 3.0 0.6 - - - -
19B LEU* 1.3 75.6 - - - +
21B ALA* 1.3 66.4 + - - +
22B ILE 3.3 0.2 + - - -
23B ASN 3.3 1.6 + - - -
24B GLN* 2.9 22.2 + - - +
74B LEU* 3.8 8.5 - - + -
75B GLY* 3.6 35.9 - - - +
76B LYS 3.1 23.1 - - - +
77B LEU* 3.5 16.7 - - + +
93B LEU* 3.9 19.1 - - + -
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Residues in contact with ALA 21 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17B ASN 2.9 11.5 + - - +
18B GLU* 2.9 11.6 + - - +
20B ILE* 1.3 77.6 - - - +
22B ILE* 1.3 62.8 + - - +
25B TYR* 2.9 37.1 + - + -
51B GLU* 3.7 26.7 - - + -
93B LEU* 4.0 28.5 - - + +
94B GLU* 6.1 0.2 - - - +
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Residues in contact with ILE 22 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3001A HEM 3.7 43.7 - - + -
18B GLU 2.8 24.0 + - - +
19B LEU* 3.6 18.2 - - + +
21B ALA* 1.3 71.2 - - - +
23B ASN* 1.3 61.1 - - - +
25B TYR* 4.1 0.2 - - - -
26B PHE* 3.0 29.8 + - - +
48B SER* 3.3 9.2 + - - +
51B GLU* 3.8 32.8 - - + +
52B MET* 3.5 42.6 - - + -
55B ALA* 4.2 4.3 - - + -
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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
----------------------------------------------------------
19A LEU* 5.0 3.0 - - - +
71A LEU* 3.6 41.7 + - + +
74A LEU* 5.4 5.3 - - - +
3001A HEM 3.3 36.6 - - - +
19B LEU 3.3 15.3 + - - +
20B ILE 3.3 4.6 + - - +
22B ILE* 1.3 76.1 - - - +
24B GLN* 1.3 66.7 + - - +
26B PHE* 3.2 6.0 + - - +
27B LEU* 3.0 25.1 + - - +
74B LEU* 4.2 16.6 - - - +
77B LEU* 4.2 9.9 - - + -
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Residues in contact with GLN 24 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20B ILE 2.9 16.7 + - - +
21B ALA 3.8 2.2 - - - +
23B ASN* 1.3 76.6 - - - +
25B TYR* 1.3 60.5 + - + +
27B LEU* 3.3 4.4 + - - +
28B HIS* 3.0 35.3 + - + +
77B LEU* 3.8 16.0 - - + +
78B LEU* 3.0 46.9 + - - +
79B ILE* 4.6 5.2 - - + -
89B CYS* 3.4 18.9 - - - +
90B ASP* 2.9 28.0 - - - +
93B LEU* 3.3 23.8 - - + +
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Residues in contact with TYR 25 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21B ALA* 2.9 27.8 + - + +
24B GLN* 1.3 84.5 - - + +
26B PHE* 1.3 60.2 + - - +
28B HIS* 3.9 0.9 - - - +
29B ALA* 2.8 30.8 + - - +
44B GLU* 4.0 28.1 - - - +
47B GLU* 4.0 20.6 - - + -
48B SER* 4.0 8.7 - - - -
51B GLU* 3.7 29.4 - - + -
90B ASP* 3.3 46.0 + - + -
93B LEU* 3.4 18.2 - - + +
94B GLU* 2.5 29.9 + - - -
130B HIS* 5.0 1.1 - + + -
134B LEU* 5.6 1.1 - - + -
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Residues in contact with PHE 26 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56A ASP* 3.1 28.9 - - + -
59A ILE* 3.4 26.7 - - + -
71A LEU* 5.1 1.6 - - + -
3001A HEM 3.2 55.4 - + + -
22B ILE 3.0 19.0 + - - +
23B ASN* 3.6 7.0 - - - +
24B GLN 3.2 0.2 - - - -
25B TYR* 1.3 78.4 - - - +
27B LEU* 1.3 61.8 + - - +
29B ALA* 3.4 4.3 + - + +
30B ARG* 3.1 64.2 + - - +
45B TYR* 3.9 11.7 - + - -
48B SER* 3.5 19.0 + - - -
52B MET* 4.2 0.7 - - + -
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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
----------------------------------------------------------
59A ILE* 4.5 7.9 - - + -
63A LEU* 4.9 0.4 - - + -
69A PRO* 3.8 43.7 - - + +
71A LEU* 4.0 23.1 - - + +
23B ASN 3.0 17.5 + - - +
24B GLN 3.6 4.0 - - - +
26B PHE* 1.3 76.5 - - - +
28B HIS* 1.3 63.3 + - - +
30B ARG* 3.4 3.5 + - - +
31B MET* 3.0 46.7 + - + +
77B LEU* 5.3 0.4 - - + -
79B ILE* 3.5 43.1 - - + -
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Residues in contact with HIS 28 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24B GLN* 3.0 28.3 + - + +
25B TYR 3.9 0.2 - - - +
27B LEU* 1.3 76.5 - - - +
29B ALA* 1.3 58.1 + - - +
31B MET* 3.2 5.8 + - - +
32B TYR* 2.8 41.3 + - + -
44B GLU* 3.6 15.3 - - - +
78B LEU 3.7 5.8 + - - -
79B ILE* 3.9 13.6 - - + +
80B GLY 3.4 28.9 - - - -
86B MET* 3.4 41.7 + - + +
89B CYS* 4.5 0.4 - - - +
90B ASP* 2.8 38.9 + - - -
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Residues in contact with ALA 29 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25B TYR 2.8 18.6 + - - +
26B PHE* 3.5 8.3 - - - +
27B LEU 3.2 0.2 - - - -
28B HIS* 1.3 78.0 - - - +
30B ARG* 1.3 66.2 + - - +
32B TYR* 3.4 3.6 + - - +
33B GLU* 3.0 36.4 + - - +
41B GLY 3.8 4.9 - - - +
44B GLU* 3.7 10.7 - - + +
45B TYR* 3.6 33.2 - - + +
----------------------------------------------------------
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Residues in contact with ARG 30 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56A ASP* 2.7 30.0 + - - +
59A ILE* 3.8 21.8 - - + -
60A LYS* 3.8 27.4 - - + +
63A LEU* 3.6 19.3 - - + +
3001A HEM 4.4 1.0 - - - +
26B PHE* 3.1 38.8 + - + +
27B LEU 4.0 1.8 - - - +
29B ALA* 1.3 74.2 - - - +
31B MET* 1.3 61.0 + - - +
33B GLU* 2.6 35.1 + - - +
34B ASP* 2.8 30.1 + - - +
45B TYR* 2.9 43.7 - - - -
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Residues in contact with MET 31 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A LEU* 3.9 26.0 - - + -
68A LEU* 6.3 3.4 - - + -
69A PRO* 6.4 0.2 - - - -
27B LEU* 3.0 43.5 + - + +
28B HIS* 3.2 10.5 + - - +
30B ARG* 1.3 76.5 - - - +
32B TYR* 1.3 64.3 + - - +
34B ASP* 2.9 16.0 + - - +
35B TRP* 3.0 51.5 + - + -
79B ILE* 4.5 6.7 - - + -
80B GLY 3.7 20.6 - - - +
81B GLU* 4.7 2.5 - - - +
86B MET* 3.7 15.3 - - + -
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Residues in contact with TYR 32 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28B HIS* 2.8 33.8 + - + +
29B ALA* 3.6 5.2 - - - +
31B MET* 1.3 71.8 - - - +
33B GLU* 1.3 56.9 + - - +
35B TRP* 3.0 22.1 + + - +
37B LEU* 2.9 35.3 + - + +
40B LEU* 3.7 35.2 - - + -
41B GLY 3.7 13.5 - - - +
44B GLU* 3.2 35.0 - - + -
83B THR* 3.8 21.3 + - + +
86B MET* 3.4 36.0 - - + +
87B LEU* 3.2 25.8 - - + +
90B ASP* 4.7 0.9 + - - -
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Residues in contact with GLU 33 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A LYS* 5.0 2.9 - - - -
29B ALA* 3.0 20.7 + - - +
30B ARG* 2.6 39.9 + - - +
32B TYR* 1.3 74.8 - - - +
34B ASP* 1.3 60.8 + - - +
36B GLY* 3.2 13.0 + - - +
37B LEU 4.4 7.0 - - - +
38B GLU* 4.8 8.2 - - + +
41B GLY* 3.4 30.8 - - - +
42B LYS* 3.8 11.3 + - - +
45B TYR* 5.0 3.1 - - - +
----------------------------------------------------------
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Residues in contact with ASP 34 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A LYS 5.4 0.3 - - - +
63A LEU* 4.0 27.6 - - + +
64A PHE* 4.1 18.9 + - - +
1701A MG 3.9 17.2 - - - -
30B ARG 2.8 18.6 + - - +
31B MET* 2.9 10.6 + - - +
33B GLU* 1.3 76.7 - - - +
35B TRP* 1.3 72.3 + - - +
36B GLY 3.3 0.2 - - - -
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Residues in contact with TRP 35 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31B MET* 3.0 37.2 + - + -
32B TYR* 3.0 20.2 + + - +
34B ASP* 1.3 93.6 + - - +
36B GLY* 1.3 59.7 + - - +
37B LEU* 3.5 21.4 - - + +
81B GLU 3.3 27.1 - - - -
82B HIS* 4.1 2.5 - - - -
83B THR* 4.2 10.5 - - - -
86B MET* 3.3 35.2 - - + -
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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