Contacts of the helix formed by residues 32 - 59 (chain I) in PDB entry 6MZL
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 GLN 32 (chain I).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20I LYS* 3.2 14.7 - - - +
30I GLN 4.1 2.6 + - - +
31I ILE* 1.3 73.1 - - - +
33I GLU* 1.3 60.5 + - - +
34I GLU* 3.5 2.2 - - + +
35I THR* 2.5 39.8 + - + +
36I CYS 3.9 0.2 + - - -
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Residues in contact with GLU 33 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16I SER* 4.1 10.7 - - - +
17I GLU* 5.0 11.2 - - + +
20I LYS* 3.5 20.4 - - - +
32I GLN* 1.3 76.5 - - - +
34I GLU* 1.3 62.4 + - + +
36I CYS* 3.0 8.8 + - - +
37I GLN* 2.9 47.4 + - - +
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Residues in contact with GLU 34 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32I GLN* 3.5 2.1 - - + +
33I GLU* 1.3 77.4 - - + +
35I THR* 1.3 58.0 + - + +
37I GLN* 3.4 22.3 - - - +
38I LEU* 2.9 43.5 + - + +
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Residues in contact with THR 35 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31I ILE* 3.5 13.3 - - + +
32I GLN* 2.5 39.7 + - + +
34I GLU* 1.3 78.5 - - + +
36I CYS* 1.3 60.0 + - - -
38I LEU* 3.3 5.7 + - - +
39I LEU* 2.9 35.9 + - - +
66M VAL* 4.3 19.7 - - - +
67M ASP 5.1 4.9 - - - +
68M ALA* 5.1 10.5 - - + +
71M VAL* 5.0 12.8 - - - +
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Residues in contact with CYS 36 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16I SER* 3.7 24.2 - - - +
19I MET* 4.3 11.4 - - + -
20I LYS* 3.7 23.3 - - + -
23I ALA* 5.5 2.5 - - - -
31I ILE* 3.6 30.1 - - - -
32I GLN 4.6 0.4 - - - +
33I GLU 3.0 3.8 + - - +
35I THR* 1.3 80.0 + - - +
37I GLN* 1.3 60.6 + - - +
39I LEU* 3.5 18.1 - - - +
40I THR* 2.9 34.0 + - - +
51M LEU* 5.9 2.7 - - - -
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Residues in contact with GLN 37 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13I VAL* 4.6 8.0 - - + +
16I SER* 4.2 14.9 + - - +
33I GLU* 2.9 38.4 + - - +
34I GLU* 3.4 31.7 - - - +
36I CYS* 1.3 76.1 - - - +
38I LEU* 1.3 59.6 + - + +
40I THR* 2.4 24.7 + - - -
41I ASP* 2.9 20.6 + - - +
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Residues in contact with LEU 38 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257G GLU* 3.4 30.1 - - - +
286G THR* 6.1 2.7 - - + -
34I GLU* 2.9 27.3 + - + +
35I THR* 3.9 4.3 - - - +
37I GLN* 1.3 78.2 - - + +
39I LEU* 1.3 58.1 + - - +
41I ASP* 3.3 20.6 + - + +
42I GLU* 2.9 43.6 + - + +
68M ALA* 6.2 3.6 - - + -
71M VAL* 5.5 2.9 - - + -
72M ARG* 4.5 23.1 - - - +
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Residues in contact with LEU 39 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35I THR* 2.9 24.1 + - - +
36I CYS* 3.5 22.9 - - + +
37I GLN 3.2 0.2 - - - -
38I LEU* 1.3 75.2 - - - +
40I THR* 1.3 61.2 - - + +
42I GLU* 3.2 19.4 + - - +
43I VAL* 2.9 36.9 + - + +
47M VAL* 5.8 10.1 - - + -
50M ILE* 3.8 30.5 - - + -
51M LEU* 4.7 19.1 - - + -
66M VAL* 6.4 0.9 - - + -
71M VAL* 3.7 26.2 - - + -
75M ILE* 5.3 0.2 - - + -
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Residues in contact with THR 40 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12I THR 5.0 0.5 - - - +
13I VAL* 3.3 23.3 - - - +
14I LEU* 3.7 28.0 - - + +
16I SER* 5.3 0.2 - - - -
19I MET* 3.7 36.8 - - + -
36I CYS 2.9 17.6 + - - +
37I GLN* 2.4 25.0 + - - -
39I LEU* 1.3 73.9 - - + +
41I ASP* 1.3 56.4 + - - +
43I VAL* 4.2 4.2 - - - +
44I SER* 2.9 33.0 + - - -
47M VAL* 6.5 0.2 - - - -
----------------------------------------------------------
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Residues in contact with ASP 41 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257G GLU* 4.4 4.2 - - - +
286G THR* 5.6 0.4 - - - +
11I ASN* 4.9 7.9 + - - +
13I VAL* 3.4 26.2 - - - +
37I GLN* 2.9 23.2 + - - +
38I LEU* 3.3 32.5 - - + +
39I LEU 3.2 0.2 - - - -
40I THR* 1.3 75.7 + - - +
42I GLU* 1.3 57.4 + - + +
44I SER* 2.4 25.2 + - - -
45I TYR* 2.8 41.1 + - + +
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Residues in contact with GLU 42 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
286G THR* 6.5 1.1 - - + -
289G GLU* 5.9 1.1 - - - +
38I LEU* 2.9 23.6 + - + +
39I LEU* 3.2 21.9 + - - +
41I ASP* 1.3 71.5 - - + +
43I VAL* 1.3 68.8 + - + +
45I TYR* 3.1 18.7 + - + +
46I ARG* 3.0 30.3 + - + +
50M ILE* 6.0 0.6 - - + +
71M VAL* 3.5 14.1 - - - +
72M ARG* 3.9 8.5 + - - -
75M ILE* 3.3 49.9 - - + +
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Residues in contact with VAL 43 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39I LEU* 2.9 19.0 + - + +
40I THR* 4.2 4.0 - - - +
42I GLU* 1.3 78.6 - - + +
44I SER* 1.3 57.1 + - - +
46I ARG* 3.3 9.8 + - + +
47I ILE* 2.8 53.0 + - + +
43M ALA* 4.5 7.6 - - + +
46M TYR* 5.8 3.4 - - + -
47M VAL* 3.7 27.8 - - + -
50M ILE* 3.7 30.1 - - + -
----------------------------------------------------------
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Residues in contact with SER 44 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11I ASN* 5.3 7.6 + - - +
12I THR 3.9 20.5 + - - -
13I VAL* 5.5 0.2 - - - +
40I THR 2.9 17.7 + - - -
41I ASP* 2.4 30.3 + - - -
43I VAL* 1.3 74.9 - - - +
45I TYR* 1.3 62.7 + - - +
47I ILE* 4.3 8.5 - - - -
48I LYS* 2.9 49.0 + - - +
22M ILE* 6.5 0.4 - - - -
----------------------------------------------------------
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Residues in contact with TYR 45 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257G GLU* 5.1 3.1 + - - +
283G SER 4.3 4.9 + - - -
284G SER* 3.2 46.2 - - - +
285G LEU 3.9 4.2 + - - -
286G THR* 2.4 37.1 + - + -
290G HIS* 3.4 26.9 - + + +
11I ASN* 4.6 17.5 + - - -
41I ASP* 2.8 40.8 + - + +
42I GLU* 3.1 19.7 + - + +
44I SER* 1.3 80.0 + - - +
46I ARG* 1.3 59.1 + - + +
48I LYS* 3.8 3.6 - - + +
49I GLU* 2.9 38.6 + - - +
----------------------------------------------------------
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Residues in contact with ARG 46 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
289G GLU* 4.8 3.8 + - - -
42I GLU* 3.0 20.8 + - - +
43I VAL* 3.3 8.9 + - + +
45I TYR* 1.3 77.5 - - + +
47I ILE* 1.3 58.0 + - + +
49I GLU* 3.3 15.9 + - - +
50I ILE* 3.0 44.3 + - + +
50M ILE* 5.7 6.4 - - - +
75M ILE* 3.3 23.4 + - - +
78M ARG* 3.3 31.7 + - - +
79M ALA* 3.0 36.1 - - - +
82M SER* 5.8 5.0 - - - -
83M PHE* 5.0 17.4 - - + -
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Residues in contact with ILE 47 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43I VAL* 2.8 35.4 + - + +
44I SER* 3.8 8.1 - - - +
46I ARG* 1.3 77.2 - - + +
48I LYS* 1.3 65.3 + - + +
50I ILE* 3.2 9.1 + - + +
51I ALA* 2.7 28.8 + - + +
19M MET* 5.7 6.3 - - + -
22M ILE* 4.8 20.9 - - + -
39M MET* 4.3 22.5 - - + +
43M ALA* 3.7 30.3 - - + -
----------------------------------------------------------
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Residues in contact with LYS 48 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
283G SER* 6.1 1.3 - - - +
284G SER* 5.6 10.5 - - - -
10I SER 4.1 1.4 + - - -
11I ASN* 4.0 12.2 + - - +
12I THR* 3.2 37.2 + - - +
44I SER* 2.9 31.3 + - - +
45I TYR* 4.1 3.6 - - + +
47I ILE* 1.3 76.9 - - + +
49I GLU* 1.3 61.2 + - - +
51I ALA* 3.4 7.9 - - - +
52I GLN* 2.9 32.9 + - - +
22M ILE* 3.9 40.2 - - + +
25M ASP* 4.0 14.6 + - + +
26M MET* 3.9 13.3 - - - +
----------------------------------------------------------
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Residues in contact with GLU 49 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
284G SER* 4.9 11.7 + - - +
290G HIS* 3.6 25.3 + - - +
294G ASN* 5.2 13.6 + - - +
45I TYR* 2.9 27.3 + - - +
46I ARG* 3.3 16.7 - - - +
48I LYS* 1.3 74.4 - - - +
50I ILE* 1.3 58.5 + - + +
52I GLN* 3.0 13.4 + - - +
53I ASP* 2.9 37.5 + - - +
83M PHE* 3.2 37.3 - - + -
----------------------------------------------------------
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Residues in contact with ILE 50 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46I ARG* 3.0 30.9 + - + +
47I ILE* 3.6 6.5 - - + +
49I GLU* 1.3 74.5 - - + +
51I ALA* 1.3 56.9 + - - +
53I ASP* 3.1 13.1 + - - +
54I ALA* 2.8 29.8 + - - +
71I ILE* 4.5 15.3 - - + -
74I ALA* 4.4 20.6 - - + +
75I LEU* 5.1 16.6 - - + -
77I LEU* 4.6 17.9 - - + -
39M MET* 5.2 9.2 - - + -
82M SER* 5.8 3.4 - - - +
----------------------------------------------------------
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Residues in contact with ALA 51 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47I ILE* 2.7 21.0 + - + +
48I LYS* 3.4 11.7 - - + +
49I GLU 3.1 0.2 - - - -
50I ILE* 1.3 75.4 - - - +
52I GLN* 1.3 64.9 + - - +
54I ALA* 3.8 4.9 - - - +
55I LEU* 3.0 28.7 + - + +
66I LEU* 5.6 0.7 - - - +
22M ILE* 5.4 3.4 - - + -
23M LEU* 5.6 3.4 - - + -
26M MET* 3.6 26.0 - - + -
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Residues in contact with GLN 52 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
277G ASP* 3.7 8.8 + - - +
280G ARG* 3.6 29.6 + - - +
281G VAL* 3.4 35.2 - - - +
294G ASN* 5.4 1.6 + - - -
48I LYS 2.9 17.2 + - - +
49I GLU* 3.0 12.9 + - - +
51I ALA* 1.3 74.3 - - - +
53I ASP* 1.3 59.2 + - - +
55I LEU* 3.2 9.3 + - - +
56I LYS* 2.9 46.5 + - - +
26M MET* 3.5 16.0 - - + +
----------------------------------------------------------
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Residues in contact with ASP 53 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
605G HIS* 5.9 5.7 - - + -
49I GLU* 2.9 28.3 + - - +
50I ILE* 3.1 17.4 + - - +
52I GLN* 1.3 77.7 - - - +
54I ALA* 1.3 57.9 + - - +
56I LYS* 2.9 32.1 + - - +
57I PHE* 2.9 34.4 + - + -
74I ALA* 5.0 8.5 - - + +
77I LEU* 4.7 11.3 - - + +
----------------------------------------------------------
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Residues in contact with ALA 54 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50I ILE 2.8 19.8 + - - +
51I ALA* 4.0 4.5 - - - +
53I ASP* 1.3 69.6 - - - +
55I LEU* 1.3 61.9 + - - +
57I PHE* 3.2 13.2 - - - +
58I MET* 3.0 30.3 + - - +
66I LEU* 4.5 8.9 - - + +
70I ASP* 4.7 6.1 - - + +
71I ILE* 4.0 28.9 - - + +
74I ALA* 4.2 10.7 - - + +
----------------------------------------------------------
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Residues in contact with LEU 55 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51I ALA* 3.0 19.4 + - + +
52I GLN* 3.3 10.5 - - + +
53I ASP 3.2 0.2 - - - -
54I ALA* 1.3 77.8 - - - +
56I LYS* 1.3 58.6 + - + +
58I MET 4.5 0.2 - - - +
59I HIS* 2.9 61.1 + - + +
66I LEU* 3.7 33.2 - - + -
23M LEU* 6.3 0.9 - - + -
26M MET* 3.7 32.5 - - + +
28M ILE* 3.7 32.3 - - + -
31M TYR* 5.7 1.1 - - + +
----------------------------------------------------------
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Residues in contact with LYS 56 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
294G ASN* 5.7 2.8 + - - -
589G TRP* 4.4 10.5 - - + -
605G HIS* 6.2 0.8 - - - -
629G ASP* 4.0 26.1 + - + +
647G ALA* 5.1 13.0 - - + -
52I GLN* 2.9 39.6 + - - +
53I ASP* 2.9 31.4 + - - +
55I LEU* 1.3 72.6 - - + +
57I PHE* 1.3 67.3 - - - +
59I HIS* 3.7 4.4 - - - -
60I MET* 3.1 23.2 + - - +
----------------------------------------------------------
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Residues in contact with PHE 57 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
547G TYR* 3.2 30.6 + + - +
563G GLU* 3.2 26.9 - - + -
587G PRO* 4.4 15.3 - - + -
589G TRP* 4.8 12.1 - + - -
605G HIS* 6.4 2.0 - + - -
53I ASP* 2.9 29.1 + - + -
54I ALA* 3.2 16.6 - - + +
56I LYS* 1.3 74.0 - - - +
58I MET* 1.3 66.7 + - + +
60I MET* 2.8 7.6 + - - +
61I GLY* 2.8 23.9 + - - -
70I ASP* 4.3 8.5 - - + +
73I TYR* 3.2 36.3 - + + -
74I ALA* 3.6 21.3 - - + -
----------------------------------------------------------
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Residues in contact with MET 58 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
473G LEU* 6.4 1.6 - - + -
489G PHE* 6.2 3.8 - - + -
547G TYR* 5.6 2.5 - - - -
54I ALA 3.0 12.6 + - - +
55I LEU* 3.8 1.3 - - - +
57I PHE* 1.3 80.5 - - - +
59I HIS* 1.3 61.9 + - + +
60I MET 3.3 0.4 - - - -
61I GLY* 4.1 9.6 - - - +
62I LYS* 2.9 19.1 + - - -
63I ARG* 3.1 52.6 + - + +
65I LYS 3.3 18.2 - - - +
66I LEU* 3.6 23.3 - - + -
67I THR* 5.0 4.5 - - + -
70I ASP* 3.3 42.4 - - + +
----------------------------------------------------------
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Residues in contact with HIS 59 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
673G HIS* 3.1 39.0 + - + +
713G THR* 5.7 3.5 + - + +
731G MET* 4.9 12.8 - - + +
55I LEU* 2.9 46.1 + - + +
56I LYS* 3.7 4.5 - - - +
58I MET* 1.3 81.2 + - + +
60I MET* 1.3 61.1 + - - +
62I LYS* 4.1 8.4 - - - +
63I ARG 4.7 6.4 + - - -
64I GLN* 4.6 20.9 - - + -
66I LEU* 6.1 0.9 - - + -
28M ILE* 3.7 34.0 - - + +
----------------------------------------------------------
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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