Contacts of the helix formed by residues 9 - 37 (chain C) in PDB entry 2Q7M
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 9 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77B LEU* 5.6 3.4 - - + -
1C MET* 5.0 11.0 - - + -
5C THR 3.0 15.0 - - - +
6C VAL* 2.9 29.8 - - + +
8C ASN* 1.3 76.6 - - - +
10C VAL* 1.3 70.4 + - - +
11C LEU 2.8 5.7 + - - -
12C LEU* 2.8 20.6 + - + -
13C ALA* 2.8 14.0 + - + +
72C TRP* 3.7 32.1 - - + -
76C LEU* 5.2 4.3 - - + -
80C GLN* 2.9 9.0 - - - +
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Residues in contact with VAL 10 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77B LEU* 5.9 1.1 - - + -
130B ILE* 4.4 14.6 - - + +
133B TYR* 3.9 30.3 - - + -
134B TYR* 3.1 32.1 - - + +
6C VAL* 2.9 28.1 + - + +
7C GLY* 3.7 9.0 - - - +
9C VAL* 1.3 76.6 - - - +
11C LEU* 1.3 69.8 + - + +
13C ALA* 3.5 7.8 - - - +
14C ILE* 2.8 42.1 + - + +
80C GLN* 3.2 0.2 - - - +
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Residues in contact with LEU 11 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134B TYR* 4.2 7.4 - - - +
7C GLY 4.9 2.7 - - - +
10C VAL* 1.3 89.1 - - + +
12C LEU* 1.3 60.3 + - - +
13C ALA 3.1 1.3 - - - -
14C ILE* 3.1 10.5 + - + +
15C VAL* 2.8 32.2 + - - +
80C GLN* 2.7 49.8 - - - +
81C VAL* 4.6 14.1 - - + -
84C ALA* 3.4 23.6 - - + +
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Residues in contact with LEU 12 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C VAL* 2.8 19.4 + - + +
11C LEU* 1.3 73.1 - - - +
13C ALA* 1.3 57.8 - - - +
15C VAL* 3.2 8.0 - - - +
16C THR* 2.8 35.3 + - - -
71C LEU* 3.7 24.5 - - + +
72C TRP* 3.4 33.0 - - + -
75C GLY* 3.9 14.4 - - - -
76C LEU* 3.6 31.2 - - + -
80C GLN* 3.8 20.0 - - + +
84C ALA* 4.1 21.3 - - + +
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Residues in contact with ALA 13 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73B SER* 5.2 2.9 - - - +
77B LEU* 3.6 20.9 - - + -
130B ILE* 3.6 15.7 - - + -
9C VAL* 2.8 15.2 + - + +
10C VAL* 3.5 11.9 - - - +
12C LEU* 1.3 78.2 - - - +
14C ILE* 1.3 52.2 + - - +
16C THR* 3.1 5.4 + - - -
17C LEU* 2.7 45.2 + - + +
72C TRP* 3.8 12.0 - - + -
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Residues in contact with ILE 14 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130B ILE* 3.0 34.8 - - + -
134B TYR* 4.5 8.3 - - + +
10C VAL* 2.8 43.5 + - + +
11C LEU* 3.4 11.7 - - + +
13C ALA* 1.3 74.3 - - - +
15C VAL* 1.3 65.2 + - + +
17C LEU* 3.0 9.2 + - + +
18C ILE* 2.7 45.8 + - + +
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Residues in contact with VAL 15 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11C LEU 2.8 13.4 + - - +
12C LEU* 3.2 15.7 - - - +
14C ILE* 1.3 80.9 - - + +
16C THR* 1.3 62.3 + - - +
18C ILE* 3.0 9.9 - - + +
19C SER* 2.9 27.4 + - - -
67C PHE* 5.4 2.2 - - + -
71C LEU* 3.3 30.5 - - + -
84C ALA* 3.5 24.2 - - + +
87C GLY 3.6 6.5 - - - +
88C LEU* 3.5 31.9 - - + +
91C LEU* 3.4 11.2 - - + +
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Residues in contact with THR 16 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69B ALA* 4.8 16.6 - - + -
73B SER* 4.2 9.4 - - - +
12C LEU 2.8 18.3 + - - -
13C ALA 3.3 4.3 - - - +
15C VAL* 1.3 82.4 - - - +
17C LEU* 1.3 64.9 + - + +
19C SER* 2.4 24.8 + - - +
20C VAL* 2.7 21.0 + - - +
64C TYR* 3.6 3.0 + - - +
67C PHE* 6.3 0.2 - - - -
68C LEU* 3.7 15.3 - - + +
71C LEU* 3.9 1.7 - - - +
72C TRP* 3.2 29.3 + - + -
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Residues in contact with LEU 17 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70B VAL* 4.9 10.5 - - + +
73B SER* 3.6 31.6 - - - +
77B LEU* 4.7 0.9 - - + -
123B PHE* 3.3 24.1 - - + +
126B SER* 4.0 21.3 - - - +
127B VAL* 4.9 4.0 - - - +
130B ILE* 3.9 28.0 - - + -
13C ALA* 2.7 36.1 + - + +
14C ILE* 3.6 6.5 - - + +
16C THR* 1.3 78.9 - - + +
18C ILE* 1.3 65.6 - - + +
20C VAL* 3.1 23.3 - - + +
21C VAL* 3.2 3.6 + - - +
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Residues in contact with ILE 18 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14C ILE* 2.7 46.3 + - + +
15C VAL* 3.0 11.2 - - + +
16C THR 3.0 0.2 - - - -
17C LEU* 1.3 78.4 - - + +
19C SER* 1.3 57.7 + - - +
21C VAL* 2.7 30.8 + - - +
22C GLN* 2.9 14.7 + - + +
88C LEU* 5.3 9.4 - - + -
91C LEU* 2.9 27.8 - - + -
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Residues in contact with SER 19 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15C VAL 2.9 2.3 + - - -
16C THR* 2.4 28.9 + - - -
18C ILE* 1.3 82.0 - - - +
20C VAL* 1.3 55.6 + - - +
22C GLN* 3.3 7.6 - - - +
23C ASN* 2.9 31.7 + - - +
64C TYR* 2.8 28.8 + - - -
67C PHE* 4.7 3.9 - - - -
91C LEU* 3.3 37.2 - - - -
94C ARG* 4.4 2.0 - - - -
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Residues in contact with VAL 20 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66B THR* 3.5 31.0 - - + +
69B ALA* 3.5 32.1 - - + -
70B VAL* 3.9 11.9 - - + -
123B PHE* 3.4 26.0 - - + -
16C THR* 2.7 19.0 + - + +
17C LEU* 3.1 16.4 - - - +
18C ILE 3.0 0.4 + - - -
19C SER* 1.3 74.3 + - - +
21C VAL* 1.3 63.3 + - + +
23C ASN* 3.2 17.0 - - - +
24C GLY* 3.3 6.4 + - - -
64C TYR* 3.7 6.1 - - - +
501C 2CS 4.5 7.6 - - + +
----------------------------------------------------------
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Residues in contact with VAL 21 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123B PHE* 3.2 24.2 - - + -
17C LEU 3.6 3.6 - - - +
18C ILE* 2.7 11.9 + - - +
20C VAL* 1.3 78.0 - - - +
22C GLN* 1.3 68.2 + - - +
23C ASN 3.0 1.6 - - - -
24C GLY 3.2 9.2 + - - -
25C PHE* 3.3 8.5 + - - +
501C 2CS 3.1 55.5 - - + +
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Residues in contact with GLN 22 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C ILE* 2.9 14.3 + - + +
19C SER* 3.3 15.0 - - - +
21C VAL* 1.3 79.8 - - + +
23C ASN* 1.3 64.3 + - - +
25C PHE* 2.9 19.0 - - + +
26C PHE* 2.8 39.2 - - + -
91C LEU* 3.6 30.5 + - + +
94C ARG* 2.6 38.6 + - - +
95C GLN* 2.9 26.6 + - - +
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Residues in contact with ASN 23 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66B THR* 2.8 40.7 + - + +
19C SER 2.9 12.9 + - - +
20C VAL 3.2 1.1 - - - +
22C GLN* 1.3 78.9 - - - +
24C GLY* 1.3 59.4 + - - +
25C PHE 2.9 9.2 + - - -
26C PHE* 3.0 21.0 + - - +
27C ALA 3.0 9.5 + - - -
60C CYS* 5.4 1.6 - - - +
61C VAL* 5.2 5.9 - - - +
64C TYR* 3.0 23.6 - - - +
94C ARG* 2.6 32.2 + - - -
501C 2CS 3.2 18.4 - - + -
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Residues in contact with GLY 24 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20C VAL 3.3 6.6 + - - -
21C VAL 3.2 5.3 + - - -
23C ASN* 1.3 77.9 - - - +
25C PHE* 1.3 60.3 + - - +
27C ALA 3.7 3.0 + - - -
28C HIS* 3.3 16.6 + - - +
501C 2CS 3.0 59.7 - - - -
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Residues in contact with PHE 25 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C VAL 3.3 0.4 + - - +
22C GLN* 2.9 15.0 + - - +
23C ASN 2.9 0.4 - - - -
24C GLY* 1.3 75.7 - - - +
26C PHE* 1.3 74.4 + + - +
27C ALA 3.0 1.1 - - - -
28C HIS* 2.6 27.7 + + - +
29C LYS* 2.9 51.5 + - + -
95C GLN* 4.1 24.7 - - - -
98C PHE* 4.2 10.3 - + - -
99C VAL* 6.1 3.4 - - + -
501C 2CS 2.8 33.7 - - + -
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Residues in contact with PHE 26 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22C GLN* 2.8 48.7 - - - -
23C ASN* 3.3 12.3 - - - +
25C PHE* 1.3 80.2 - + - +
27C ALA* 1.3 58.3 + - - +
28C HIS 3.3 3.3 + - - -
29C LYS 3.5 0.9 + - - -
30C VAL* 3.4 19.4 + - - +
57C ASN* 3.1 21.9 + - - +
60C CYS* 3.4 31.4 - - + -
94C ARG* 3.5 20.6 - - - -
95C GLN* 3.1 23.3 - - - -
98C PHE* 3.3 60.9 - + + -
501C 2CS 5.2 0.2 - - + -
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Residues in contact with ALA 27 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112B TYR* 4.3 8.7 - - + -
113B ILE* 3.2 26.0 - - + +
23C ASN 3.0 4.0 + - - +
24C GLY 3.7 4.9 - - - +
25C PHE 3.0 1.0 - - - -
26C PHE* 1.3 74.2 - - - +
28C HIS* 1.3 58.8 + - - +
30C VAL* 3.9 16.9 - - - +
31C GLU 4.0 1.7 + - - -
57C ASN* 4.3 3.4 - - - +
501C 2CS 3.2 52.7 - - + +
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Residues in contact with HIS 28 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113B ILE* 5.3 0.9 - - - -
24C GLY 3.3 13.1 + - - +
25C PHE* 2.6 24.9 + + - +
27C ALA* 1.3 72.3 - - - +
29C LYS* 1.3 90.8 + - + +
30C VAL 2.9 4.0 - - - -
31C GLU* 2.8 24.9 + - - +
32C HIS* 3.1 30.7 + + - +
501C 2CS 4.0 31.6 - + + -
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Residues in contact with LYS 29 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C PHE* 2.9 42.4 + - + +
26C PHE 3.5 4.7 + - - +
28C HIS* 1.3 98.9 + - + +
30C VAL* 1.3 58.7 + - - +
31C GLU 3.4 0.2 - - - -
32C HIS* 4.1 20.7 + - + +
33C GLU* 3.9 13.7 + - - +
53C VAL* 3.2 25.3 - - + +
98C PHE* 4.1 16.2 - - + -
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Residues in contact with VAL 30 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112B TYR* 3.0 43.3 - - + -
26C PHE 3.4 11.0 + - - +
27C ALA* 3.9 6.1 - - - +
28C HIS 2.9 1.0 - - - -
29C LYS* 1.3 79.6 - - - +
31C GLU* 1.3 63.5 + - - +
32C HIS 3.4 0.4 - - - -
33C GLU 3.7 1.1 + - - +
34C SER* 3.3 21.8 + - - -
42C PHE* 5.0 2.5 - - + -
50C PHE* 3.9 5.9 - - + -
53C VAL* 3.0 26.7 - - + +
54C TYR* 3.4 32.8 - - + +
57C ASN* 4.2 9.2 - - + +
----------------------------------------------------------
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Residues in contact with GLU 31 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110B PRO 3.5 6.0 - - - +
111B GLY* 3.3 26.0 - - - -
112B TYR* 3.5 28.1 + - - +
113B ILE* 4.0 21.1 - - + +
116B LYS* 6.0 1.3 - - - +
27C ALA 4.3 7.6 - - - +
28C HIS* 2.8 14.5 + - - +
30C VAL* 1.3 81.1 - - - +
32C HIS* 1.3 65.1 + - + +
33C GLU 3.2 0.4 - - - -
34C SER* 3.3 6.2 + - - +
35C ARG* 3.0 46.5 + - + +
----------------------------------------------------------
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Residues in contact with HIS 32 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C HIS* 3.1 34.9 + + - +
29C LYS* 4.1 19.2 - - + +
31C GLU* 1.3 78.9 - - + +
33C GLU* 1.3 68.8 + - - +
35C ARG* 3.4 4.7 + - + +
36C THR* 3.1 40.1 + - + +
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Residues in contact with GLU 33 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29C LYS* 3.9 16.3 + - - +
30C VAL 3.7 2.4 + - - +
31C GLU 3.2 0.4 - - - -
32C HIS* 1.3 92.3 + - - +
34C SER* 1.3 55.8 + - - +
35C ARG 3.1 4.7 - - - -
36C THR* 3.8 8.2 + - - +
37C GLN* 3.0 41.8 + - - +
49C ALA* 3.3 45.3 - - - +
50C PHE* 3.3 25.7 - - + +
53C VAL* 4.0 8.9 - - + +
102C LEU* 5.9 1.6 - - - -
----------------------------------------------------------
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Residues in contact with SER 34 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110B PRO 4.1 1.7 + - - -
30C VAL 3.3 10.6 + - - -
31C GLU* 3.3 8.4 + - - -
33C GLU* 1.3 78.3 - - - +
35C ARG* 1.3 90.2 + - - +
37C GLN* 4.0 14.9 - - - +
39C GLY* 4.1 3.8 + - - -
42C PHE* 3.1 42.2 - - - +
50C PHE* 3.8 10.5 - - - -
----------------------------------------------------------
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Residues in contact with ARG 35 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107B GLN* 6.1 0.2 - - - +
110B PRO* 2.3 54.5 + - - +
111B GLY* 4.8 0.2 - - - -
31C GLU* 3.0 41.6 + - + +
32C HIS* 3.6 7.4 - - + +
33C GLU 3.1 0.2 - - - -
34C SER* 1.3 101.0 + - - +
36C THR* 1.3 66.7 + - + +
37C GLN 3.1 1.3 - - - -
38C ASN* 3.3 19.9 + - - +
39C GLY* 3.4 19.3 + - - -
41C SER 3.9 3.4 + - - -
----------------------------------------------------------
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Residues in contact with THR 36 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C HIS* 3.1 25.4 + - + +
33C GLU* 3.8 9.3 + - - +
35C ARG* 1.3 71.8 - - + +
37C GLN* 1.3 79.7 + - - +
38C ASN* 2.7 31.7 + - - +
----------------------------------------------------------
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Residues in contact with GLN 37 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33C GLU* 3.0 36.6 + - - +
34C SER* 4.0 6.7 - - - +
35C ARG 3.1 2.6 - - - -
36C THR* 1.3 101.9 + - - +
38C ASN* 1.3 50.9 + - - +
39C GLY* 2.4 24.5 + - - -
46C GLY 3.0 12.8 - - - +
47C THR* 2.7 50.5 - - - +
49C ALA* 3.8 1.4 - - - +
50C PHE* 3.5 12.0 - - + +
----------------------------------------------------------
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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