Contacts of the helix formed by residues 58 - 83 (chain H) in PDB entry 1GN2
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 ALA 58 (chain H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58E ALA* 5.8 2.5 - - + -
61E LEU* 3.9 20.9 - - + -
55H ASP 4.8 1.0 + - - -
56H HIS* 3.1 1.0 - - - +
57H SER* 1.3 82.1 + - - +
59H ILE* 1.3 62.3 + - - -
60H LEU 3.3 2.9 - - - -
61H LEU* 3.2 13.8 + - + -
62H ASN* 3.0 34.4 + - - +
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Residues in contact with ILE 59 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112F GLN* 4.1 16.8 - - + +
115F ALA* 4.1 10.1 - - + +
116F ALA* 4.1 15.5 - - - +
119F THR* 3.5 36.1 - - + +
141F GLN* 5.2 0.7 - - - +
47H LEU* 4.3 9.9 - - + -
56H HIS* 3.3 41.2 + - + +
57H SER 3.3 2.8 + - - +
58H ALA* 1.3 75.7 - - - +
60H LEU* 1.3 55.7 + - + +
62H ASN* 3.2 4.4 + - - +
63H GLU* 2.8 68.9 + - + +
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Residues in contact with LEU 60 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60E LEU* 5.8 2.0 - - + -
61E LEU* 3.7 27.4 - - + -
64E LYS* 4.2 29.8 - - + +
119F THR* 3.7 24.9 - - - +
121F GLN* 3.7 33.2 - - + +
141F GLN* 4.0 21.9 - - - +
143F TYR* 4.6 10.3 - - + +
58H ALA 3.3 0.8 - - - -
59H ILE* 1.3 81.0 - - + +
61H LEU* 1.3 57.5 + - - +
63H GLU* 4.1 1.4 - - - +
64H LYS* 3.1 31.6 + - + +
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Residues in contact with LEU 61 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57E SER 4.4 5.8 - - - +
58E ALA* 3.7 34.3 - - + -
60E LEU* 3.9 34.8 - - + +
61E LEU* 3.5 25.2 - - + +
58H ALA* 3.2 14.6 + - + +
60H LEU* 1.3 77.2 - - - +
62H ASN* 1.3 68.3 + - - +
63H GLU 3.2 0.2 - - - -
64H LYS* 3.7 2.9 - - - -
65H ASN* 2.8 58.9 + - - +
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Residues in contact with ASN 62 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43H ALA* 4.5 4.2 + - - +
46H LYS* 3.6 42.2 - - - +
47H LEU* 3.8 26.4 - - + +
50H ALA* 4.3 11.8 - - - +
58H ALA* 3.0 29.1 + - - +
59H ILE* 3.8 4.7 + - - +
61H LEU* 1.3 89.9 - - - +
63H GLU* 1.3 61.2 + - - +
65H ASN* 3.8 9.6 - - - +
66H LEU* 3.2 23.7 + - - +
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Residues in contact with GLU 63 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112F GLN* 3.5 20.5 + - - -
116F ALA* 4.2 3.8 - - + +
139F ILE* 2.9 36.7 - - - +
140F PHE* 3.7 7.5 - - - -
141F GLN* 4.0 34.8 + - + +
148F ASN* 3.9 4.3 + - - +
47H LEU* 5.0 3.8 - - - -
59H ILE* 2.8 41.4 + - + +
60H LEU 4.1 0.2 - - - +
62H ASN* 1.3 78.2 - - - +
64H LYS* 1.3 59.1 + - - +
66H LEU* 3.7 12.1 + - - +
67H ALA* 3.2 26.9 + - - +
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Residues in contact with LYS 64 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60E LEU* 4.1 26.3 - - + +
64E LYS* 5.6 6.7 - - + +
143F TYR* 3.7 25.4 - - + +
148F ASN* 4.1 15.2 - - - +
121G GLN* 2.7 35.9 + - - +
143G TYR* 4.6 17.8 + - - -
60H LEU* 3.1 24.2 + - + +
61H LEU* 3.2 4.0 + - - +
63H GLU* 1.3 76.2 - - - +
65H ASN* 1.3 61.7 + - - +
67H ALA* 4.1 0.5 - - - +
68H PHE* 3.1 26.7 + - - +
146H GLN* 4.1 20.5 - - - +
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Residues in contact with ASN 65 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60E LEU* 5.6 0.5 - - - +
121G GLN* 3.0 23.2 + - - +
43H ALA* 4.0 13.9 - - + +
61H LEU* 2.8 45.8 + - - +
62H ASN* 3.8 11.2 - - - +
64H LYS* 1.3 76.3 - - - +
66H LEU* 1.3 61.9 + - - +
69H ASN* 2.8 46.0 + - - +
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Residues in contact with LEU 66 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138F LEU* 4.8 16.2 - - + -
139F ILE 3.7 22.7 - - - +
140F PHE* 4.2 17.9 - - + -
4H TYR* 5.7 0.4 - - + -
40H ALA* 4.7 2.9 - - - +
43H ALA* 3.6 15.0 - - + +
44H VAL* 4.0 27.4 - - + +
47H LEU* 4.1 16.4 - - + -
62H ASN 3.2 15.7 + - - +
63H GLU* 3.7 11.7 - - - +
65H ASN* 1.3 82.3 - - - +
67H ALA* 1.3 56.9 + - - +
69H ASN* 5.4 0.2 - - - -
70H LEU* 2.9 50.3 + - + +
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Residues in contact with ALA 67 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140F PHE* 4.7 9.2 - - + -
148F ASN* 3.2 48.5 - - - +
149F PHE* 4.0 5.6 - - - +
150F PRO* 4.9 1.9 - - - -
63H GLU 3.2 15.6 + - - +
64H LYS 4.1 0.7 - - - +
65H ASN 3.4 0.2 - - - -
66H LEU* 1.3 77.7 - - - +
68H PHE* 1.3 62.7 + - - +
70H LEU* 4.9 0.9 - - - -
71H ALA* 2.9 31.7 + - - +
146H GLN* 3.8 3.7 - - + +
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Residues in contact with PHE 68 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120G VAL 5.0 1.1 - - - -
121G GLN* 3.3 68.4 - - + +
122G GLY 3.9 3.4 - - - -
36H TYR* 4.0 20.6 - + - -
64H LYS 3.1 20.2 + - - +
65H ASN 4.1 0.7 - - - +
67H ALA* 1.3 79.3 - - - +
69H ASN* 1.3 70.3 + - - +
71H ALA* 3.6 2.1 - - - +
72H GLY 2.9 23.0 + - - -
144H ASP* 4.9 0.9 - - + -
145H HIS* 3.6 20.9 - + - -
146H GLN* 3.5 31.6 - - - +
162H TRP* 4.1 12.1 - + - -
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Residues in contact with ASN 69 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121G GLN* 4.7 1.0 - - - +
35H THR* 4.3 4.3 - - - +
36H TYR* 3.5 30.8 - - - +
39H GLY* 3.6 23.4 + - - -
40H ALA* 3.4 22.9 - - - +
65H ASN* 2.8 41.7 + - - +
68H PHE* 1.3 86.3 - - - +
70H LEU* 1.3 66.5 + - - +
73H HIS* 3.1 22.3 + - - +
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Residues in contact with LEU 70 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131F ASP* 4.4 10.1 - - + +
133F LEU* 5.2 0.7 - - + -
138F LEU* 3.8 20.2 - - + -
140F PHE* 4.4 6.5 - - + -
150F PRO* 3.8 22.9 - - + -
4H TYR* 3.3 48.7 - - + +
40H ALA* 4.1 9.3 - - + +
66H LEU* 2.9 33.0 + - + +
69H ASN* 1.3 74.5 - - - +
71H ALA* 1.3 57.8 + - - +
73H HIS* 3.4 8.6 + - + -
74H VAL* 2.9 36.0 + - + +
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Residues in contact with ALA 71 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150F PRO* 4.0 21.9 - - + +
67H ALA 2.9 21.4 + - - +
68H PHE 3.6 3.1 - - - +
70H LEU* 1.3 76.5 - - - +
72H GLY* 1.3 64.3 + - - +
74H VAL* 4.5 0.9 - - - +
75H ASN* 3.0 32.5 + - - +
145H HIS* 3.6 26.2 - - + +
146H GLN* 3.7 9.2 - - + -
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Residues in contact with GLY 72 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36H TYR* 4.0 12.8 - - - -
68H PHE 2.9 12.7 + - - -
69H ASN 3.3 0.8 + - - -
71H ALA* 1.3 77.5 - - - +
73H HIS* 1.3 63.7 + - - +
75H ASN* 3.3 0.9 + - - -
76H HIS* 2.8 32.7 + - - -
145H HIS* 3.2 33.1 - - - -
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Residues in contact with HIS 73 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133F LEU* 3.7 18.8 - - + +
4H TYR* 3.7 41.2 - + + +
5H THR 3.4 26.7 + - - -
7H PRO* 4.5 2.0 - - + -
33H HIS* 3.1 22.3 + - - -
36H TYR* 3.8 12.7 - - + +
37H VAL* 3.5 16.6 - - + +
40H ALA* 5.0 1.6 - - + -
69H ASN 3.1 17.5 + - - +
70H LEU* 3.5 7.6 - - + +
72H GLY* 1.3 77.9 - - - +
74H VAL* 1.3 61.7 + - - +
76H HIS 3.4 0.2 + - - -
77H THR* 2.8 45.8 + - - -
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Residues in contact with VAL 74 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131F ASP* 4.8 4.5 - - - +
133F LEU* 4.2 24.7 - - + -
150F PRO* 3.9 19.5 - - + -
151F LEU* 4.0 23.6 - - + +
153F ILE* 6.4 0.2 - - + -
70H LEU* 2.9 33.0 + - + +
71H ALA 4.0 4.0 - - - +
72H GLY 3.4 0.2 - - - -
73H HIS* 1.3 74.7 - - - +
75H ASN* 1.3 71.4 - - - +
77H THR* 3.5 2.4 + - - -
78H ILE* 3.3 37.2 + - + +
155H PRO* 5.4 0.4 - - + -
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Residues in contact with ASN 75 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151F LEU* 3.6 26.5 + - - +
71H ALA* 3.0 23.3 + - - +
72H GLY* 3.8 2.9 - - - +
74H VAL* 1.3 83.8 - - - +
76H HIS* 1.3 58.4 + - - +
78H ILE* 3.2 5.7 + - - +
79H TRP* 2.9 24.8 + - - +
125H TRP* 3.4 43.6 - - + +
142H VAL* 5.1 1.4 - - - +
145H HIS* 3.2 27.9 + - - +
158H LEU* 3.9 14.4 - - + +
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Residues in contact with HIS 76 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28H HIS* 3.0 29.5 + + - -
32H HIS* 5.2 0.2 - - - +
33H HIS* 3.0 38.1 - + + +
36H TYR* 3.6 26.1 - + - -
72H GLY 2.8 26.6 + - - +
75H ASN* 1.3 73.8 - - - +
77H THR* 1.3 65.1 + - - +
79H TRP* 3.6 10.7 - + - +
80H TRP* 2.9 33.6 + + - +
125H TRP* 3.8 15.8 - + - -
145H HIS* 3.8 9.6 - + - -
160H ASP* 3.6 1.5 + - - -
164H HIS* 4.0 0.8 + - - -
999H FE 2.3 28.2 - - - -
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Residues in contact with THR 77 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133F LEU* 4.0 19.8 - - + +
7H PRO* 4.5 12.8 - - + +
33H HIS* 3.4 7.6 + - - -
73H HIS* 2.8 46.7 + - + -
74H VAL* 3.6 7.6 - - - +
75H ASN 3.2 0.2 - - - -
76H HIS* 1.3 80.4 - - - +
78H ILE* 1.3 64.0 + - + +
80H TRP* 3.8 5.7 + - - +
81H LYS* 3.7 22.3 + - + +
193H ARG* 6.1 1.1 - - - +
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Residues in contact with ILE 78 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151F LEU* 6.1 0.2 - - + -
74H VAL* 3.4 21.8 - - + +
75H ASN 3.2 7.5 + - - +
76H HIS 3.1 0.2 - - - -
77H THR* 1.3 82.3 - - + +
79H TRP* 1.3 66.2 + - - +
81H LYS* 3.2 1.4 + - - +
82H ASN* 2.9 45.1 + - - +
155H PRO* 3.7 33.7 - - + -
156H LEU 4.6 5.4 - - - +
158H LEU* 4.3 14.8 - - + -
193H ARG* 3.9 33.7 - - - +
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Residues in contact with TRP 79 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20H ILE* 4.5 10.1 - - + -
25H ASN* 5.3 2.0 + - - -
28H HIS* 3.5 28.9 + + - -
75H ASN 2.9 16.5 + - - +
76H HIS* 3.0 10.5 + + - +
78H ILE* 1.3 78.9 - - - +
80H TRP* 1.3 97.8 + + - +
82H ASN* 3.1 15.8 + - + +
83H LEU* 3.3 42.9 + - + +
125H TRP* 4.0 11.7 - + + -
158H LEU* 3.5 24.5 - - - -
159H LEU* 3.8 5.8 - - + -
160H ASP* 3.6 32.5 - - + -
165H ALA* 5.3 2.2 - - + -
177H PHE* 4.0 26.5 - + - -
181H PHE* 3.9 15.7 - + - -
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Residues in contact with TRP 80 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7H PRO* 4.4 10.5 - - + -
8H ASP 5.8 0.7 - - - +
9H LEU* 3.5 27.6 - - + -
10H ASP* 5.7 2.0 + - - +
11H TRP* 3.5 43.6 + + + -
25H ASN* 3.9 26.2 - - + -
28H HIS* 3.6 35.7 - + + -
29H HIS* 3.5 36.7 - + + -
33H HIS* 2.9 29.9 + + - -
76H HIS* 2.9 23.4 + + + +
77H THR* 4.2 4.7 - - - +
78H ILE 3.3 0.4 - - - -
79H TRP* 1.3 99.6 - + - +
81H LYS* 1.3 65.1 + - + +
83H LEU* 3.5 8.5 + - + +
----------------------------------------------------------
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Residues in contact with LYS 81 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7H PRO* 6.5 1.3 - - - -
8H ASP 5.1 6.1 - - - -
10H ASP* 2.7 38.8 + - - +
77H THR* 3.7 15.9 - - + +
78H ILE 3.2 3.6 + - - +
79H TRP 3.1 0.4 - - - -
80H TRP* 1.3 79.0 - - + +
82H ASN* 1.3 56.1 + - - +
83H LEU 3.0 12.2 + - - +
186H ASN* 3.1 24.9 + - - -
189H ASP* 3.7 23.6 - - - +
193H ARG* 3.8 17.5 - - - +
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Residues in contact with ASN 82 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78H ILE* 2.9 32.0 + - - +
79H TRP* 3.1 8.1 + - + +
81H LYS* 1.3 75.0 - - - +
83H LEU* 1.3 63.3 + - + +
156H LEU 3.4 15.1 + - - -
157H LEU* 3.3 21.3 - - + +
158H LEU* 2.9 34.0 + - - +
181H PHE* 5.2 0.6 - - + -
185H VAL* 3.5 8.3 - - - +
186H ASN* 2.8 27.0 + - - +
189H ASP* 2.8 30.3 + - - -
190H VAL* 4.3 3.4 - - - +
----------------------------------------------------------
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Residues in contact with LEU 83 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11H TRP* 3.2 37.9 + - + -
16H LEU* 4.1 20.6 - - + -
20H ILE* 4.5 4.7 - - + -
25H ASN* 5.2 1.1 - - - +
79H TRP* 3.3 51.3 + - + +
80H TRP* 3.5 7.7 - - + +
81H LYS 3.0 6.9 - - - +
82H ASN* 1.3 85.6 - - - +
84H SER* 1.3 66.7 + - - +
181H PHE* 4.0 24.0 - - + -
184H VAL* 3.3 26.9 - - + +
186H ASN* 3.7 1.6 + - - +
----------------------------------------------------------
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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