Contacts of the helix formed by residues 48 - 76 (chain B) in PDB entry 6WYG
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 48 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154A ASN* 4.4 10.1 - - - +
205A RFT 6.5 1.1 - - + -
41B PHE* 2.9 38.7 + - + +
46B VAL* 3.4 17.2 - - + +
47B ALA* 1.3 73.5 - - - +
49B LYS* 1.3 65.3 + - - +
50B ASN 3.3 2.2 - - - -
51B PHE* 3.2 14.5 + - + +
52B ALA 3.1 17.8 + - - -
167B GLU* 3.6 35.2 - - + +
168B TYR* 4.0 13.5 - - + +
171B ASP* 3.3 31.0 - - + +
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Residues in contact with LYS 49 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41B PHE 5.0 0.9 - - - -
42B ASP* 6.3 0.4 - - - +
47B ALA 3.7 4.5 + - - +
48B LEU* 1.3 73.6 - - - +
50B ASN* 1.3 66.1 + - - +
52B ALA* 3.3 9.3 - - + +
53B LYS* 3.0 35.0 + - + +
171B ASP* 3.4 5.6 + - - +
172B LYS* 5.8 5.6 - - - +
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Residues in contact with ASN 50 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49B LYS* 1.3 76.9 - - - +
51B PHE* 1.3 57.4 + - - +
53B LYS* 3.7 11.8 - - - +
54B TYR* 2.8 31.2 + - - +
171B ASP* 2.6 52.2 + - - +
172B LYS* 4.1 12.3 - - - +
175B LEU* 3.5 20.7 - - + +
176B GLY* 3.5 20.1 - - - -
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Residues in contact with PHE 51 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41B PHE* 3.5 25.8 - + + -
48B LEU* 3.2 24.2 + - + +
50B ASN* 1.3 75.8 - - - +
52B ALA* 1.3 62.8 + - - +
54B TYR* 3.6 1.0 - - - +
55B PHE* 3.0 48.4 + + - -
96B GLY* 3.6 29.2 - - - -
100B MET* 3.8 17.5 - - + -
155B LEU* 4.4 10.5 - - + -
167B GLU* 3.6 24.5 - - + -
170B PHE* 3.6 19.3 - + - -
171B ASP* 3.0 24.3 + - + -
175B LEU* 3.7 17.2 - - + +
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Residues in contact with ALA 52 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38B SER* 2.8 46.9 + - - +
41B PHE* 3.7 7.1 - - + +
42B ASP* 4.1 14.4 - - + +
48B LEU 3.1 11.6 + - - +
49B LYS* 3.3 13.5 - - + +
50B ASN 3.2 0.2 - - - -
51B PHE* 1.3 76.7 - - - +
53B LYS* 1.3 58.8 + - + +
56B LEU* 2.9 16.9 + - - +
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Residues in contact with LYS 53 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49B LYS* 3.0 25.7 + - + +
50B ASN* 3.2 13.2 + - - +
52B ALA* 1.3 73.2 - - + +
54B TYR* 1.3 66.5 + - - +
56B LEU* 3.3 9.9 + - + +
57B HIS* 2.9 24.8 + - - +
175B LEU 6.0 0.9 - - - +
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Residues in contact with TYR 54 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50B ASN 2.8 17.5 + - - +
51B PHE 3.6 3.6 - - - +
53B LYS* 1.3 76.4 - - - +
55B PHE* 1.3 85.2 + + - +
57B HIS* 3.2 8.5 + + + +
58B GLN* 2.9 50.9 + - + +
100B MET* 3.7 23.1 - - + -
147B GLU* 2.6 30.8 + - - -
148B LEU* 3.7 15.6 - - + +
151B HIS* 3.5 24.6 - + - -
175B LEU* 3.6 22.9 - - + +
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Residues in contact with PHE 55 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34B TYR* 3.3 54.7 - + - +
37B MET* 4.0 18.6 - - + -
38B SER* 3.7 12.8 - - - +
41B PHE* 4.0 17.5 - + - -
51B PHE* 3.0 46.1 + + - +
54B TYR* 1.3 94.4 - + - +
56B LEU* 1.3 57.7 + - - +
58B GLN* 4.2 2.0 - - + -
59B SER* 3.0 23.6 + - - -
99B ALA* 4.1 18.6 - - + -
100B MET* 3.7 26.5 - - + -
103B ALA* 4.2 6.5 - - + -
148B LEU* 5.0 0.2 - - + -
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Residues in contact with LEU 56 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35B LEU* 4.1 26.5 - - + -
38B SER* 3.5 13.6 - - - +
39B TYR* 4.4 17.3 - - + +
52B ALA 2.9 18.7 + - - +
53B LYS* 3.7 9.9 - - + +
54B TYR 3.3 0.2 - - - -
55B PHE* 1.3 74.4 - - - +
57B HIS* 1.3 59.3 + - - +
59B SER* 3.1 6.4 + - - -
60B HIS* 3.0 57.9 + - + +
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Residues in contact with HIS 57 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53B LYS 2.9 13.8 + - - +
54B TYR* 3.6 10.3 - + + +
56B LEU* 1.3 73.9 - - - +
58B GLN* 1.3 81.8 + - - +
60B HIS* 3.4 10.8 + - + +
61B GLU* 3.0 39.4 + - + +
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Residues in contact with GLN 58 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34B TYR* 3.5 41.9 + - + +
54B TYR* 2.9 52.7 + - + +
55B PHE* 3.6 3.6 - - - +
56B LEU 3.3 0.2 - - - -
57B HIS* 1.3 90.6 - - - +
59B SER* 1.3 58.0 + - - +
61B GLU* 2.8 30.4 + - - +
62B GLU* 2.9 33.3 + - - +
107B GLU* 4.7 3.5 - - - +
144B ALA* 5.5 5.0 - - - +
147B GLU* 4.5 5.5 + - - -
148B LEU* 6.3 0.4 - - + -
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Residues in contact with SER 59 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31B SER* 3.0 49.9 + - - +
34B TYR* 3.5 15.2 - - - +
35B LEU* 3.6 21.4 - - - +
55B PHE 3.0 12.2 + - - -
56B LEU* 3.1 8.6 + - - +
58B GLN* 1.3 76.9 - - - +
60B HIS* 1.3 69.3 + - - +
62B GLU 3.3 0.7 + - - -
63B ARG* 3.0 12.5 + - - +
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Residues in contact with HIS 60 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B LEU* 3.0 50.2 + - + +
57B HIS* 3.9 10.4 + - - +
59B SER* 1.3 81.6 - - - +
61B GLU* 1.3 58.2 + - - +
63B ARG* 3.4 16.3 - - + +
64B GLU* 3.0 36.8 + - - +
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Residues in contact with GLU 61 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57B HIS* 3.0 34.8 + - + +
58B GLN* 2.8 34.2 + - - +
60B HIS* 1.3 75.8 - - - +
62B GLU* 1.3 62.8 + - - +
64B GLU* 3.2 14.7 + - - +
65B HIS* 2.9 44.3 + - + +
140B GLU* 4.2 18.7 - - - +
144B ALA* 5.5 2.8 - - - +
202B FE 4.1 11.3 - - - -
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Residues in contact with GLU 62 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27B GLU* 2.6 22.8 - - - +
30B ALA* 3.4 19.8 - - + +
31B SER* 3.6 23.6 - - - +
34B TYR* 3.7 20.6 - - + -
58B GLN 2.9 20.0 + - - +
59B SER 3.3 0.2 + - - -
61B GLU* 1.3 79.2 - - - +
63B ARG* 1.3 58.0 + - - +
65B HIS* 3.2 11.1 + - - +
66B ALA* 2.9 24.4 + - - +
107B GLU* 3.4 4.5 - - - +
110B VAL* 5.1 1.6 - - - +
201B FE 2.3 31.9 - - - -
202B FE 2.3 21.5 - - - -
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Residues in contact with ARG 63 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28B LEU* 4.8 17.7 - - + +
31B SER* 3.5 21.7 - - - +
59B SER 3.0 8.6 + - - +
60B HIS* 3.4 19.7 - - - +
62B GLU* 1.3 74.1 - - - +
64B GLU* 1.3 70.1 + - + +
66B ALA* 3.0 10.4 + - - +
67B GLU* 2.9 57.6 + - - +
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Residues in contact with GLU 64 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60B HIS* 3.0 27.1 + - - +
61B GLU* 3.2 11.9 + - - +
63B ARG* 1.3 78.5 - - + +
65B HIS* 1.3 59.5 + - + +
67B GLU* 3.2 14.0 + - - +
68B LYS* 2.9 29.1 + - - +
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Residues in contact with HIS 65 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27B GLU* 3.7 8.7 - - - +
61B GLU* 2.9 36.1 + - + +
62B GLU* 3.3 12.4 + - - +
64B GLU* 1.3 77.6 - - + +
66B ALA* 1.3 64.0 + - - +
68B LYS* 3.4 6.4 + - + -
69B LEU* 3.0 11.3 + - - +
136B HIS 4.5 10.5 + - - -
137B TYR* 2.5 49.2 + + + -
140B GLU* 4.2 28.2 + - + +
141B GLN* 5.3 1.8 - - - -
201B FE 2.8 23.6 - - - -
202B FE 4.7 2.5 - - - -
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Residues in contact with ALA 66 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24B ILE* 4.2 7.1 - - + +
27B GLU* 3.9 17.4 - - + +
28B LEU* 3.6 37.2 - - + +
62B GLU 2.9 12.6 + - - +
63B ARG 3.0 9.6 + - - +
65B HIS* 1.3 76.4 - - - +
67B GLU* 1.3 58.3 + - + +
69B LEU* 3.1 7.9 + - - +
70B MET* 2.9 33.7 + - - +
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Residues in contact with GLU 67 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28B LEU* 6.4 0.4 - - + -
63B ARG* 2.9 55.3 + - - +
64B GLU* 3.2 14.7 + - - +
66B ALA* 1.3 74.8 - - + +
68B LYS* 1.3 61.6 + - - +
70B MET* 3.3 17.1 + - - +
71B LYS* 2.9 29.1 + - - +
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Residues in contact with LYS 68 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64B GLU 2.9 15.6 + - - +
65B HIS* 4.3 5.2 - - + -
67B GLU* 1.3 75.9 - - - +
69B LEU* 1.3 56.6 + - - +
71B LYS* 3.4 11.5 + - + +
72B LEU* 2.9 26.0 + - - +
132B PHE* 3.6 15.8 - - + -
136B HIS* 4.1 36.1 - - + +
137B TYR* 3.3 16.8 - - + +
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Residues in contact with LEU 69 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20B ILE* 3.8 28.5 - - + +
23B GLN* 3.6 27.8 - - + +
24B ILE* 3.6 14.1 - - + +
27B GLU* 3.6 31.4 - - + -
65B HIS 3.0 8.4 + - - +
66B ALA 3.5 6.7 - - - +
68B LYS* 1.3 74.3 - - - +
70B MET* 1.3 61.1 + - - +
72B LEU* 3.3 4.3 + - + +
73B GLN* 2.9 27.9 + - - +
132B PHE* 3.9 19.1 - - + -
133B ILE* 4.6 6.7 - - + -
137B TYR* 3.0 31.0 - - + +
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Residues in contact with MET 70 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24B ILE* 3.7 29.2 - - + -
28B LEU* 5.3 5.6 - - - -
66B ALA* 2.9 23.4 + - - +
67B GLU* 3.3 20.8 + - - +
69B LEU* 1.3 77.1 - - - +
71B LYS* 1.3 62.3 + - - +
73B GLN 3.2 1.9 + - - -
74B ASN* 3.0 22.3 + - - +
80B ILE* 3.2 43.0 - - + +
82B LEU* 4.1 18.6 - - + -
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Residues in contact with LYS 71 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67B GLU 2.9 17.0 + - - +
68B LYS* 3.6 9.9 - - + +
70B MET* 1.3 78.9 - - - +
72B LEU* 1.3 58.0 + - - +
74B ASN* 3.2 9.7 + - - +
75B GLN* 2.9 56.3 + - + +
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Residues in contact with LEU 72 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12B TYR* 4.5 2.2 - - - +
20B ILE* 3.9 19.7 - - + -
68B LYS 2.9 17.9 + - - +
69B LEU* 3.5 4.7 - - - +
71B LYS* 1.3 71.8 - - - +
73B GLN* 1.3 69.3 + - - +
75B GLN* 3.1 16.2 + - + +
76B ARG* 3.1 32.9 + - + +
128B HIS* 3.5 32.1 - - + +
129B LEU* 3.9 25.8 - - + -
132B PHE* 3.6 37.7 - - + -
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Residues in contact with GLN 73 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12B TYR* 2.6 42.7 + - - -
17B GLU* 3.0 35.4 + - - +
20B ILE* 3.4 16.4 - - + +
21B ASN* 3.2 21.4 + - - +
24B ILE* 4.5 0.9 - - + -
69B LEU 2.9 13.5 + - - +
70B MET* 3.2 9.4 + - - +
72B LEU* 1.3 78.2 - - - +
74B ASN* 1.3 61.8 + - - +
76B ARG* 3.5 1.7 + - - +
77B GLY 3.4 2.4 + - - -
78B GLY* 3.1 37.4 + - - +
79B ARG 3.9 6.1 - - - -
80B ILE* 3.6 19.1 - - + -
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Residues in contact with ASN 74 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8B VAL* 4.4 4.0 - - - +
70B MET* 3.0 18.6 + - - +
71B LYS* 3.7 9.6 - - - +
72B LEU 3.2 0.4 - - - -
73B GLN* 1.3 74.0 - - - +
75B GLN* 1.3 66.0 + - + +
77B GLY* 3.0 13.9 + - - -
78B GLY 3.8 5.4 - - - +
79B ARG* 3.7 19.6 + - - +
80B ILE* 3.9 20.7 + - - +
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Residues in contact with GLN 75 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8B VAL* 3.7 15.1 - - - +
71B LYS* 2.9 48.9 + - + +
72B LEU* 3.1 22.7 + - + +
74B ASN* 1.3 76.8 - - + +
76B ARG* 1.3 66.0 + - + +
77B GLY 3.5 0.7 + - - -
128B HIS* 5.7 2.7 - - + -
132B PHE* 5.3 3.5 - - - -
----------------------------------------------------------
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Residues in contact with ARG 76 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8B VAL* 4.1 3.6 - - - -
9B ARG* 3.4 25.7 - - - +
10B GLN 2.7 30.7 + - - +
11B ASN* 3.1 22.4 + - - +
12B TYR* 3.5 41.1 - - + +
72B LEU* 3.1 29.5 + - + +
73B GLN 4.1 0.4 - - - +
74B ASN 3.1 1.0 - - - -
75B GLN* 1.3 80.3 - - - +
77B GLY* 1.3 60.0 + - - +
78B GLY 3.4 0.8 + - - -
126B ASP* 2.8 30.5 + - - -
128B HIS* 3.1 38.8 + - - +
129B LEU* 3.8 5.1 - - - +
----------------------------------------------------------
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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