Contacts of the helix formed by residues 37 - 65 (chain U) in PDB entry 3ISE
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 37 (chain U).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140S LEU* 4.1 22.2 - - + -
143S LYS* 4.8 7.2 - - + -
144S VAL* 5.1 0.4 - - + -
32U TRP* 2.9 33.0 + - + +
35U TRP* 4.5 14.6 - - + -
36U GLY* 1.3 78.1 - - - +
38U LYS* 1.3 62.0 + - - +
39U ARG 3.1 4.5 + - - -
40U LEU* 3.3 7.7 + - + +
41U GLY 3.1 17.3 + - - -
83U THR* 3.7 22.7 - - - +
150U LEU* 3.6 48.9 - - + +
153U HIS* 3.3 11.4 - - + +
154U MET* 4.2 4.5 - - + -
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Residues in contact with LYS 38 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33U ASN* 3.5 29.3 + - + +
36U GLY* 4.3 12.1 + - - +
37U LEU* 1.3 74.7 - - - +
39U ARG* 1.3 56.9 + - - +
41U GLY 3.9 0.9 - - - -
42U ALA* 3.1 28.1 + - - +
154U MET 3.2 21.8 + - - +
155U HIS* 5.2 9.8 - - - +
156U GLU* 3.8 29.9 - - + +
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Residues in contact with ARG 39 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155C HIS* 3.3 45.3 + - - +
159C FE 4.2 2.4 - - - -
37U LEU 3.2 0.8 - - - -
38U LYS* 1.3 77.9 - - - +
40U LEU* 1.3 64.0 + - - +
42U ALA* 3.7 3.1 + - + +
43U HIS* 3.1 22.2 + - - +
152U SER 3.7 17.8 + - - -
153U HIS* 3.3 26.2 + - + +
154U MET 4.2 1.4 + - - -
155U HIS* 3.2 29.0 + - - +
156U GLU* 4.0 23.5 + - - -
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Residues in contact with LEU 40 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32U TRP* 3.7 52.0 - - + +
37U LEU* 3.3 17.0 + - + +
39U ARG* 1.3 77.8 - - - +
41U GLY* 1.3 55.4 + - - +
43U HIS* 3.0 5.6 + - - +
44U GLU* 2.8 36.2 + - - +
83U THR* 4.1 13.9 - - + -
87U LEU* 4.7 4.7 - - + -
133U TYR* 3.6 21.2 + - - +
149U TYR* 3.8 22.0 - - + +
150U LEU* 4.5 2.2 - - + -
153U HIS* 3.7 32.0 + - + -
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Residues in contact with GLY 41 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29U SER* 2.8 48.4 + - - -
32U TRP* 3.8 5.8 - - - +
33U ASN* 3.5 15.3 - - - -
37U LEU 3.1 8.7 + - - -
39U ARG 3.3 0.2 - - - -
40U LEU* 1.3 79.2 - - - +
42U ALA* 1.3 54.5 + - - +
45U TYR* 2.9 16.5 + - - +
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Residues in contact with ALA 42 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33U ASN* 4.2 2.3 - - - +
38U LYS 3.1 19.6 + - - +
39U ARG* 4.0 4.9 - - - +
41U GLY* 1.3 72.4 - - - +
43U HIS* 1.3 67.6 + - - +
45U TYR* 3.2 9.0 + - - +
46U HIS* 3.1 35.0 + - + +
156U GLU* 3.8 20.0 - - + +
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Residues in contact with HIS 43 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39U ARG 3.1 16.8 + - - +
40U LEU* 3.0 6.2 + - - +
42U ALA* 1.3 76.0 - - - +
44U GLU* 1.3 63.3 + - - +
46U HIS* 3.1 19.5 + - + +
47U GLU* 2.8 37.3 + - + +
133U TYR* 3.3 59.6 - + + +
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Residues in contact with GLU 44 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25U TYR* 3.2 32.4 - - - +
28U HIS* 3.5 11.7 + - + +
29U SER* 3.8 7.0 - - - +
32U TRP* 3.6 25.9 - - + -
40U LEU 2.8 19.9 + - - +
41U GLY 3.9 3.1 - - - +
43U HIS* 1.3 74.0 - - - +
45U TYR* 1.3 60.4 + - - +
47U GLU* 3.1 18.5 + - - +
48U SER* 3.0 27.2 + - - -
87U LEU* 5.9 0.7 - - - +
90U ASP* 2.0 35.4 - - - +
130U HIS* 4.2 6.4 + - - -
133U TYR* 5.0 4.7 + - - -
134U LEU* 5.3 1.0 - - - +
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Residues in contact with TYR 45 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26U PHE* 3.9 22.7 - + - -
29U SER* 3.3 13.3 + - - +
30U ARG* 3.5 32.8 - - - +
41U GLY 2.9 19.0 + - - +
42U ALA* 3.2 7.6 + - - +
44U GLU* 1.3 75.4 - - - +
46U HIS* 1.3 84.9 + + - +
48U SER* 3.4 5.3 + - - -
49U ILE* 3.1 43.3 + - + +
159U HEM 3.4 34.0 - - + +
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Residues in contact with HIS 46 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42U ALA* 3.1 30.1 + - + -
43U HIS* 3.1 12.3 + - + +
45U TYR* 1.3 94.6 - + - +
47U GLU* 1.3 60.9 + - + +
49U ILE* 3.3 11.3 + - + +
50U ASP* 2.9 36.8 + - - +
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Residues in contact with GLU 47 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25U TYR* 4.1 7.6 - - + -
43U HIS* 2.8 44.1 + - + +
44U GLU* 3.1 14.1 + - - +
46U HIS* 1.3 76.5 - - + +
48U SER* 1.3 58.5 + - - +
50U ASP* 3.2 16.8 + - - +
51U GLU* 3.1 34.8 + - - +
130U HIS* 3.1 55.2 + - + +
133U TYR* 4.5 1.6 - - - +
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Residues in contact with SER 48 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22U ILE* 2.9 23.8 + - - +
25U TYR* 3.8 20.8 - - - +
26U PHE* 3.6 17.3 - - - +
44U GLU 3.0 12.4 + - - -
45U TYR* 3.6 9.4 - - - -
46U HIS 3.2 0.2 - - - -
47U GLU* 1.3 77.9 - - - +
49U ILE* 1.3 57.7 + - - +
51U GLU* 3.4 4.6 + - - +
52U MET* 2.9 45.3 + - - +
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Residues in contact with ILE 49 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45U TYR* 3.1 48.7 + - + +
46U HIS* 3.5 14.6 - - + +
47U GLU 3.3 0.2 - - - -
48U SER* 1.3 74.8 - - - +
50U ASP* 1.3 66.2 + - - +
51U GLU 3.1 0.2 - - - -
52U MET* 3.2 13.4 + - + +
53U LYS* 3.0 36.2 + - - +
159U HEM 3.9 53.4 - - + +
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Residues in contact with ASP 50 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46U HIS* 2.9 21.7 + - - +
47U GLU* 3.4 24.5 - - - +
49U ILE* 1.3 77.9 - - - +
51U GLU* 1.3 59.6 + - + +
53U LYS* 3.4 19.5 + - - +
54U HIS* 3.1 45.0 + - + +
126U SER* 5.1 4.7 - - - +
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Residues in contact with GLU 51 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18U GLU* 2.1 38.8 - - - +
21U ALA* 3.9 13.8 - - + +
22U ILE* 3.8 18.3 - - + +
25U TYR* 3.8 15.7 - - + -
47U GLU* 3.1 17.7 + - + +
48U SER* 3.9 5.8 - - - +
49U ILE 3.1 0.4 - - - -
50U ASP* 1.3 79.5 - - + +
52U MET* 1.3 57.7 + - - +
54U HIS* 2.6 18.0 + - - +
55U ALA* 3.0 26.7 + - - +
94U GLU* 2.9 11.8 - - - +
127U GLU* 2.2 42.0 - - - +
130U HIS* 5.8 0.2 - - - +
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Residues in contact with MET 52 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22U ILE* 3.6 20.2 - - + -
26U PHE* 4.2 5.6 - - + -
45U TYR* 5.9 0.2 - - + -
48U SER* 2.9 43.2 + - - +
49U ILE* 3.2 15.9 + - + +
51U GLU* 1.3 74.5 - - - +
53U LYS* 1.3 64.7 + - - +
55U ALA 3.2 1.0 + - - -
56U ASP* 3.1 19.9 + - - +
159U HEM 2.3 112.5 - - + +
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Residues in contact with LYS 53 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49U ILE* 3.0 27.8 + - + +
50U ASP* 3.7 17.8 + - - +
52U MET* 1.3 76.3 - - - +
54U HIS* 1.3 67.1 + - + +
56U ASP* 3.3 8.8 + - - +
57U LYS* 3.1 28.1 + - + +
159U HEM 3.5 43.7 + - + +
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Residues in contact with HIS 54 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18U GLU* 2.9 19.4 + - + +
50U ASP* 3.1 21.6 + - + +
51U GLU* 2.6 32.9 + - - +
53U LYS* 1.3 76.6 - - + +
55U ALA* 1.3 66.1 + - - +
57U LYS* 3.2 9.8 + - + +
58U LEU* 3.0 27.9 + - - +
122U ASP 5.6 0.4 - - - -
123U ILE* 4.0 28.9 - - + +
126U SER* 3.1 35.7 + - - -
127U GLU* 3.7 6.5 - - - -
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Residues in contact with ALA 55 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15U LEU* 4.0 23.1 - - + +
18U GLU* 4.3 7.8 - - + +
19U LEU* 4.7 2.7 - - + -
22U ILE* 4.1 12.8 - - + -
51U GLU 3.0 14.6 + - - +
52U MET 3.2 8.7 + - - +
54U HIS* 1.3 74.8 - - - +
56U ASP* 1.3 58.0 + - - +
58U LEU* 3.1 4.5 + - - +
59U ILE* 2.8 37.3 + - + +
159U HEM 3.7 14.1 - - + -
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Residues in contact with ASP 56 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52U MET 3.1 12.2 + - - +
53U LYS* 3.4 12.6 - - - +
54U HIS 3.2 0.2 - - - -
55U ALA* 1.3 74.3 - - - +
57U LYS* 1.3 72.1 + - - +
58U LEU 3.1 0.2 + - - -
59U ILE* 3.2 2.9 + - - +
60U GLU* 2.8 45.8 + - - +
159U HEM 3.7 15.1 - - + +
26V PHE* 3.5 21.3 - - + -
30V ARG* 2.8 34.7 + - - +
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Residues in contact with LYS 57 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53U LYS* 3.1 18.7 + - + +
54U HIS* 3.2 12.1 + - + +
56U ASP* 1.3 83.7 + - - +
58U LEU* 1.3 61.0 + - - +
60U GLU* 3.4 27.3 + - - +
61U ARG* 3.2 23.2 + - - +
119U LEU* 3.8 30.4 - - + +
123U ILE* 6.3 0.2 - - + -
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Residues in contact with LEU 58 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11U LEU* 4.0 32.1 - - + +
14U ILE* 3.6 26.5 - - + -
15U LEU* 3.8 27.4 - - + +
18U GLU* 4.0 9.4 - - + -
54U HIS 3.0 17.6 + - - +
55U ALA* 3.4 8.7 - - - +
56U ASP 3.1 0.2 - - - -
57U LYS* 1.3 74.1 - - - +
59U ILE* 1.3 65.6 + - - +
61U ARG* 3.2 2.9 + - - +
62U ILE* 3.0 31.6 + - + +
119U LEU* 4.1 15.3 - - + -
120U LEU* 4.4 7.4 - - + -
123U ILE* 3.9 17.7 - - + -
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Residues in contact with ILE 59 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15U LEU* 4.0 21.5 - - + -
19U LEU* 6.1 0.2 - - + -
55U ALA* 2.8 28.0 + - + +
56U ASP* 3.7 4.3 - - - +
58U LEU* 1.3 74.0 - - - +
60U GLU* 1.3 62.4 + - - +
62U ILE* 3.5 4.4 + - - +
63U LEU* 3.2 22.6 + - + +
69U PRO* 3.9 23.1 - - + +
71U LEU* 4.0 30.5 - - + -
159U HEM 4.3 4.7 - - + -
26V PHE* 4.0 22.7 - - + -
27V LEU* 4.3 5.6 - - + -
30V ARG* 3.7 28.5 - - + -
----------------------------------------------------------
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Residues in contact with GLU 60 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56U ASP* 2.8 41.4 + - - +
57U LYS* 3.8 25.0 + - - +
58U LEU 3.2 0.2 - - - -
59U ILE* 1.3 77.6 - - - +
61U ARG* 1.3 58.5 + - - +
63U LEU* 3.3 9.2 + - - +
64U PHE* 2.8 29.6 + - - +
30V ARG* 3.8 20.3 + - + -
33V ASN* 5.7 0.3 - - - +
34V ASP* 5.1 0.3 - - - +
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Residues in contact with ARG 61 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128E GLU* 2.7 31.9 + - - +
11U LEU* 4.0 13.9 - - + -
57U LYS 3.2 14.1 + - - +
58U LEU* 3.6 4.7 - - - +
60U GLU* 1.3 77.2 - - - +
62U ILE* 1.3 60.8 + - - +
64U PHE* 2.9 29.0 + - - +
65U LEU* 2.8 44.5 + - + +
113U ASP* 2.9 30.9 + - - -
115U VAL* 3.6 17.0 - - - +
116U SER* 2.7 29.3 + - - +
119U LEU* 3.9 21.5 - - + -
----------------------------------------------------------
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Residues in contact with ILE 62 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8U ILE* 4.5 8.3 - - + -
11U LEU* 3.7 38.1 - - + +
12U ASN* 3.8 29.6 - - - +
15U LEU* 4.3 11.7 - - + -
58U LEU* 3.0 25.7 + - + +
59U ILE 3.7 4.7 - - - +
61U ARG* 1.3 77.1 - - - +
63U LEU* 1.3 62.8 + - - +
65U LEU* 3.1 8.2 + - - +
66U GLU 3.0 16.3 + - - -
67U GLY* 3.1 26.3 + - - -
68U LEU 3.8 2.2 - - - +
69U PRO* 3.5 28.5 - - + -
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Residues in contact with LEU 63 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59U ILE* 3.2 19.8 + - + +
60U GLU* 3.6 9.0 - - - +
62U ILE* 1.3 76.8 - - - +
64U PHE* 1.3 65.6 + - - +
66U GLU* 3.1 15.4 + - - +
67U GLY 3.7 9.9 - - - +
68U LEU* 6.1 0.9 - - + -
69U PRO* 3.0 38.1 - - + -
27V LEU* 4.6 0.9 - - + -
30V ARG* 3.4 43.3 - - + +
31V MET* 4.1 18.4 - - + +
34V ASP* 3.5 29.8 - - + +
----------------------------------------------------------
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Residues in contact with PHE 64 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128E GLU* 3.6 30.5 - - + -
131E ILE* 4.3 13.0 - - + -
132E ASP* 3.5 49.6 - - + +
135E GLU* 4.7 12.3 - - - +
60U GLU 2.8 14.5 + - - +
61U ARG* 2.9 41.7 + - - +
63U LEU* 1.3 79.0 - - - +
65U LEU* 1.3 74.1 + - + +
66U GLU* 3.1 6.6 + - - +
34V ASP* 3.9 8.0 + - - +
----------------------------------------------------------
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Residues in contact with LEU 65 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3U GLY* 3.6 40.8 + - - +
7U VAL* 4.4 7.4 - - + -
8U ILE* 4.1 13.6 - - + +
11U LEU* 4.0 20.4 - - + -
61U ARG* 2.8 32.5 + - - +
62U ILE* 3.1 5.8 + - - +
64U PHE* 1.3 91.7 - - + +
66U GLU* 1.3 70.1 + - - +
67U GLY 3.3 1.1 + - - -
113U ASP* 3.9 9.0 - - - +
116U SER* 3.7 22.7 - - - +
----------------------------------------------------------
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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