Contacts of the helix formed by residues 37 - 65 (chain G) in PDB entry 3E1J
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 G).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140B LEU* 3.8 19.3 - - + -
143B LYS* 5.9 4.3 - - + +
32G PHE* 2.8 23.5 + - + +
35G TRP* 3.8 34.8 - - + +
36G GLY* 1.3 74.4 - - - +
38G LYS* 1.3 63.7 + - - +
39G ARG 2.9 5.5 + - - -
40G LEU* 3.0 17.6 + - + -
41G ASN* 3.2 8.7 + - - +
83G VAL* 3.9 27.1 - - + -
150G LEU* 4.0 30.7 - - + +
153G GLN* 3.2 21.5 - - + -
154G ILE* 5.1 2.0 - - + -
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Residues in contact with LYS 38 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39B ARG* 5.4 4.2 - - - +
157B GLU* 2.8 41.0 + - - -
33G LYS* 5.4 4.3 - - + +
36G GLY* 2.9 14.5 + - - +
37G LEU* 1.3 73.9 - - - +
39G ARG* 1.3 55.6 + - - +
41G ASN* 3.3 10.4 + - - +
42G ASP* 3.0 35.0 + - - +
153G GLN 3.0 2.2 + - - +
154G ILE* 3.3 27.1 + - - +
155G ARG* 4.5 0.2 - - - +
156G GLU* 3.9 28.8 + - - +
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Residues in contact with ARG 39 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37G LEU 2.9 0.4 + - - -
38G LYS* 1.3 75.7 - - - +
40G LEU* 1.3 62.0 + - - +
42G ASP* 3.4 9.8 + - + +
43G VAL* 3.1 34.8 + - - +
133G TRP* 4.2 14.7 - - - +
137G GLU* 3.3 35.2 + - - -
140G LEU* 5.6 1.4 - - - +
152G ALA 4.5 2.6 + - - -
153G GLN* 3.0 39.7 + - - +
155G ARG 3.6 19.1 - - - +
156G GLU* 4.6 0.4 - - - +
157G GLU* 4.1 28.7 + - + +
38K LYS* 5.5 3.0 - - - +
154K ILE* 3.2 37.0 + - - +
155K ARG* 3.7 12.7 - - - +
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Residues in contact with LEU 40 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32G PHE* 3.6 41.3 - - + -
37G LEU* 3.0 15.8 + - + +
39G ARG* 1.3 82.7 - - - +
41G ASN* 1.3 60.3 + - - +
43G VAL* 4.3 2.9 - - - +
44G GLU* 3.0 36.1 + - - +
83G VAL* 4.1 16.2 - - + -
87G LEU* 5.1 2.9 - - + -
133G TRP* 4.2 20.6 - - + -
149G TYR* 3.5 19.7 - - + +
153G GLN* 3.3 42.3 + - + +
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Residues in contact with ASN 41 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29G ALA* 3.0 36.0 - - - +
30G ARG* 3.4 27.8 + - - +
32G PHE* 3.9 1.2 - - - +
33G LYS* 3.5 34.6 - - + +
37G LEU 3.2 7.4 + - - +
38G LYS* 3.5 11.0 + - - +
40G LEU* 1.3 74.3 - - - +
42G ASP* 1.3 82.0 + - - +
45G TYR* 2.9 29.0 + - - +
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Residues in contact with ASP 42 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38G LYS* 3.0 17.8 + - - +
39G ARG* 3.7 7.5 - - + +
40G LEU 3.4 0.4 - - - -
41G ASN* 1.3 87.5 + - - +
43G VAL* 1.3 64.8 + - + +
45G TYR* 3.7 3.1 - - - +
46G HIS* 2.8 41.5 + - + +
156G GLU* 3.0 43.0 - - - +
157G GLU 4.7 2.6 + - - +
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Residues in contact with VAL 43 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39G ARG* 3.1 27.2 + - - +
40G LEU 4.3 0.9 - - - +
42G ASP* 1.3 76.8 - - + +
44G GLU* 1.3 60.1 + - - +
46G HIS* 3.0 10.2 + - - +
47G GLU* 2.9 36.5 + - - +
133G TRP* 3.5 54.5 - - + +
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Residues in contact with GLU 44 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25G TYR* 3.4 31.1 - - - +
28G HIS* 3.1 19.2 - - - +
29G ALA* 3.9 10.1 - - + -
32G PHE* 3.9 17.0 - - + -
40G LEU 3.0 18.7 + - - +
43G VAL* 1.3 72.7 - - - +
45G TYR* 1.3 67.1 + - - +
47G GLU* 3.1 9.9 + - - +
48G SER* 2.9 22.2 + - - -
87G LEU* 3.8 6.5 - - - +
90G ASP* 2.9 27.7 - - - +
133G TRP* 3.7 26.9 - - + -
134G LEU* 4.0 1.6 - - - +
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Residues in contact with TYR 45 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26G PHE* 3.6 31.2 - + - -
29G ALA* 3.6 11.0 - - + +
30G ARG* 3.3 27.8 - - - +
41G ASN* 2.9 22.2 + - - +
42G ASP* 3.7 3.6 - - - +
44G GLU* 1.3 77.8 - - - +
46G HIS* 1.3 86.3 + + - +
48G SER* 3.0 17.1 + - - -
49G ILE* 3.1 32.3 + - + +
200H HEM 3.2 35.7 - - + +
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Residues in contact with HIS 46 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42G ASP* 2.8 35.0 + - + +
43G VAL* 3.0 11.6 + - + +
45G TYR* 1.3 98.7 - + - +
47G GLU* 1.3 58.0 + - - +
49G ILE* 3.6 10.3 + - - +
50G ASP* 3.1 26.3 + - - +
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Residues in contact with GLU 47 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25G TYR* 3.7 33.1 + - + -
43G VAL* 2.9 29.0 + - + +
44G GLU* 3.6 16.7 - - - +
45G TYR 3.1 0.6 - - - -
46G HIS* 1.3 76.7 - - - +
48G SER* 1.3 64.8 + - - +
50G ASP* 3.2 5.6 + - + +
51G GLU* 3.0 27.0 + - - +
130G HIS* 3.2 48.9 - - + +
133G TRP* 4.1 17.7 - - - +
134G LEU* 4.9 0.6 - - - +
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Residues in contact with SER 48 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22G ILE* 2.8 28.6 + - - +
25G TYR* 3.8 13.3 - - - +
26G PHE* 3.6 22.7 - - - +
44G GLU 2.9 12.4 + - - -
45G TYR* 3.3 9.9 - - - -
47G GLU* 1.3 73.6 - - - +
49G ILE* 1.3 65.5 + - - +
51G GLU* 3.2 4.0 + - - +
52G MET* 3.0 39.6 + - - +
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Residues in contact with ILE 49 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45G TYR* 3.1 48.0 + - + +
46G HIS* 3.8 13.7 - - - +
48G SER* 1.3 74.6 - - - +
50G ASP* 1.3 63.9 + - - +
52G MET* 3.2 25.7 + - + +
53G LYS* 3.1 37.2 + - - +
200H HEM 3.7 53.8 - - + +
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Residues in contact with ASP 50 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46G HIS 3.1 16.1 + - - +
47G GLU* 3.2 11.7 - - - +
48G SER 3.1 0.4 - - - -
49G ILE* 1.3 79.1 - - - +
51G GLU* 1.3 63.7 + - - +
53G LYS* 3.1 28.6 + - - +
54G HIS* 3.1 34.8 + - - -
126G ASP* 3.8 10.8 - - - +
130G HIS* 3.3 31.0 + - + +
----------------------------------------------------------
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Residues in contact with GLU 51 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18G GLU* 2.9 23.5 - - - +
21G ALA* 3.8 21.3 - - + +
22G ILE* 3.6 21.8 - - + +
25G TYR* 3.9 10.1 - - + -
47G GLU 3.0 15.6 + - - +
48G SER 3.2 1.3 + - - +
50G ASP* 1.3 76.1 - - - +
52G MET* 1.3 57.2 + - - +
54G HIS* 2.8 35.0 + - - +
55G ALA* 2.9 27.4 + - - +
94G GLU* 3.6 9.2 - - - +
127G GLU* 2.8 26.2 - - - +
130G HIS* 3.5 11.6 - - - -
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Residues in contact with MET 52 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22G ILE* 3.6 17.3 - - + -
26G PHE* 4.6 0.7 - - + -
48G SER* 3.0 37.5 + - - +
49G ILE* 3.4 19.7 - - + +
50G ASP 3.1 0.2 - - - -
51G GLU* 1.3 74.1 - - - +
53G LYS* 1.3 60.8 + - + +
55G ALA* 3.2 3.2 + - - +
56G ASP* 2.9 29.3 + - - +
200H HEM 2.2 112.3 - - + +
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Residues in contact with LYS 53 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49G ILE* 3.1 33.1 + - + +
50G ASP* 3.1 20.8 + - - +
52G MET* 1.3 74.7 - - + +
54G HIS* 1.3 67.3 + - + +
56G ASP* 3.4 8.7 - - - +
57G ARG* 3.1 30.2 + - - +
200H HEM 5.3 17.3 + - + -
----------------------------------------------------------
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Residues in contact with HIS 54 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18G GLU* 3.3 20.4 + - + +
50G ASP* 3.1 24.4 + - - -
51G GLU* 2.8 33.3 + - - +
53G LYS* 1.3 78.8 - - + +
55G ALA* 1.3 66.4 + - - +
57G ARG* 3.0 12.5 + - - +
58G TYR* 3.0 27.8 + - - -
123G ILE* 3.7 33.2 - - + +
126G ASP* 2.9 37.2 + - + +
127G GLU* 3.4 12.9 + - - -
130G HIS* 4.7 0.2 - + - -
----------------------------------------------------------
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Residues in contact with ALA 55 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15G LEU* 3.6 22.4 - - + +
18G GLU* 4.3 7.1 - - + +
19G LEU* 4.6 2.2 - - + -
22G ILE* 4.1 10.8 - - + -
51G GLU 2.9 13.6 + - - +
52G MET 3.2 3.6 + - - +
54G HIS* 1.3 74.5 - - - +
56G ASP* 1.3 63.4 + - - +
58G TYR* 3.2 6.7 + - - +
59G ILE* 2.8 30.2 + - - +
200H HEM 3.3 24.2 - - + -
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Residues in contact with ASP 56 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52G MET 2.9 12.8 + - - +
53G LYS* 3.4 13.9 - - - +
55G ALA* 1.3 74.4 - - - +
57G ARG* 1.3 65.5 + - + +
59G ILE* 3.2 2.6 + - - +
60G GLU* 2.9 29.9 + - - +
26H PHE* 3.3 22.5 - - + -
30H ARG* 2.6 50.1 + - - -
200H HEM 4.0 9.1 - - + +
----------------------------------------------------------
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Residues in contact with ARG 57 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53G LYS* 3.1 21.2 + - - +
54G HIS* 3.0 17.0 + - - +
56G ASP* 1.3 78.3 - - + +
58G TYR* 1.3 62.2 + - - +
60G GLU* 3.9 9.0 - - - +
61G ARG* 3.0 24.9 + - - +
119G MET* 3.5 56.9 + - + +
122G GLU* 4.2 19.4 - - - +
123G ILE* 3.8 21.9 - - + +
126G ASP* 5.0 4.4 + - - -
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Residues in contact with TYR 58 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11G LEU* 4.1 29.8 - - + +
14G LEU* 3.5 28.8 - - + +
15G LEU* 3.8 29.4 - - + -
18G GLU* 3.7 26.7 + - + -
54G HIS 3.0 25.2 + - - -
55G ALA* 3.6 5.8 - - - +
57G ARG* 1.3 72.5 - - - +
59G ILE* 1.3 56.8 + - - +
61G ARG* 3.1 3.8 + - - +
62G ILE* 2.7 42.2 + - + +
101G LEU* 3.5 27.0 - - - +
119G MET* 4.3 8.3 - - - -
120G MET* 4.4 7.1 - - + +
123G ILE* 3.6 29.4 - - + +
----------------------------------------------------------
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Residues in contact with ILE 59 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15G LEU* 3.9 23.6 - - + -
55G ALA 2.8 22.1 + - - +
56G ASP* 3.2 4.7 + - - +
58G TYR* 1.3 74.6 - - - +
60G GLU* 1.3 64.1 + - - +
62G ILE* 3.4 2.6 + - - +
63G LEU* 3.0 40.4 + - + +
69G PRO* 4.0 16.4 - - + +
71G LEU* 4.1 22.2 - - + -
26H PHE* 3.9 23.8 - - + -
27H LEU* 4.4 9.4 - - + +
30H ARG* 4.1 17.0 - - + -
200H HEM 3.9 15.0 - - + -
----------------------------------------------------------
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Residues in contact with GLU 60 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56G ASP* 2.9 26.0 + - - +
57G ARG* 3.9 8.4 - - - +
59G ILE* 1.3 76.2 - - - +
61G ARG* 1.3 58.3 + - - +
63G LEU* 3.5 7.4 + - - +
64G PHE* 3.0 27.5 + - - +
30H ARG* 2.9 48.3 + - + +
33H LYS* 3.4 22.3 - - + -
34H ASN* 5.1 1.2 + - - -
----------------------------------------------------------
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Residues in contact with ARG 61 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1G MET* 5.0 5.5 - - - +
11G LEU* 3.8 22.0 - - + -
57G ARG 3.0 18.1 + - - +
58G TYR 3.1 4.0 + - - +
60G GLU* 1.3 76.6 - - - +
62G ILE* 1.3 60.5 + - - +
64G PHE* 3.0 34.5 + - - +
65G LEU* 2.8 47.0 + - + +
113G ASP* 2.8 30.7 + - - -
115G VAL* 3.2 31.5 - - - +
116G SER* 2.9 18.3 + - - +
119G MET* 3.6 27.6 - - + -
----------------------------------------------------------
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Residues in contact with ILE 62 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8G ILE* 4.0 13.0 - - + +
11G LEU* 3.6 26.2 - - + +
12G ASN* 3.3 43.1 - - - +
15G LEU* 4.3 9.0 - - + -
58G TYR 2.7 24.1 + - - +
59G ILE 3.8 3.8 - - - +
61G ARG* 1.3 71.2 - - - +
63G LEU* 1.3 60.8 + - - +
65G LEU* 3.3 7.2 + - - +
66G GLU 3.0 4.9 + - - -
67G GLY* 2.8 53.4 + - - +
68G LEU 3.8 2.7 - - - +
69G PRO* 3.7 18.4 - - + -
----------------------------------------------------------
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Residues in contact with LEU 63 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59G ILE* 3.0 38.8 + - + +
60G GLU* 3.7 7.0 - - - +
62G ILE* 1.3 73.8 - - - +
64G PHE* 1.3 66.7 + - - +
66G GLU* 3.0 17.0 + - - +
67G GLY 3.8 7.4 - - - +
68G LEU* 6.0 1.6 - - + -
69G PRO* 3.4 27.4 - - + -
27H LEU* 4.3 1.1 - - + -
30H ARG* 3.7 32.8 - - + +
31H MET* 4.0 22.0 - - + +
34H ASN* 4.1 25.6 + - + +
----------------------------------------------------------
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Residues in contact with PHE 64 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1G MET* 3.3 65.4 + - + -
60G GLU 3.0 18.2 + - - +
61G ARG* 3.0 36.1 + - - +
63G LEU* 1.3 79.1 - - - +
65G LEU* 1.3 62.5 + - + +
66G GLU* 3.1 6.4 + - - +
34H ASN* 3.9 15.5 - - - +
----------------------------------------------------------
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Residues in contact with LEU 65 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1G MET* 3.3 18.2 - - + +
2G LYS* 3.8 0.5 - - - +
3G GLY* 3.0 39.8 + - - -
7G VAL* 4.2 7.2 - - + -
8G ILE* 3.7 18.3 - - + +
11G LEU* 3.9 21.1 - - + -
61G ARG* 2.8 33.4 + - - +
62G ILE 3.8 4.7 - - - +
63G LEU 3.2 0.2 - - - -
64G PHE* 1.3 91.6 - - + +
66G GLU* 1.3 66.4 + - - +
67G GLY 3.4 0.8 + - - -
113G ASP* 3.7 20.2 - - - +
116G SER* 3.8 11.0 - - - +
----------------------------------------------------------
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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