Contacts of the helix formed by residues 58 - 83 (chain C) 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 C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58B ALA* 6.1 0.9 - - + -
61B LEU* 4.2 20.0 - - + -
55C ASP 4.8 1.0 + - - -
56C HIS* 3.1 1.0 - - - +
57C SER* 1.3 82.5 + - - +
59C ILE* 1.3 63.3 + - - -
60C LEU 3.3 2.9 - - - -
61C LEU* 3.2 14.4 + - + -
62C ASN* 3.0 34.3 + - - +
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Residues in contact with ILE 59 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A GLN* 3.7 34.1 - - + +
115A ALA* 3.9 17.7 - - + +
116A ALA* 4.0 8.7 - - - +
119A THR* 3.7 33.0 - - + +
141A GLN* 5.5 0.2 - - - +
47C LEU* 4.3 9.0 - - + -
56C HIS* 3.3 34.2 + - + +
57C SER 3.3 3.0 + - - +
58C ALA* 1.3 75.4 - - - +
60C LEU* 1.3 55.2 + - + +
62C ASN* 3.2 4.6 + - - +
63C GLU* 2.8 63.0 + - + +
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Residues in contact with LEU 60 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A THR* 3.6 30.1 - - - +
121A GLN* 4.1 24.2 - - + +
141A GLN* 3.7 24.8 - - - +
143A TYR* 4.7 12.6 - - + +
60B LEU* 5.8 3.1 - - + -
61B LEU* 3.7 29.6 - - + -
64B LYS* 4.5 24.5 - - + +
65B ASN* 5.5 0.2 - - - +
57C SER 5.3 0.2 + - - -
58C ALA 3.3 0.8 - - - -
59C ILE* 1.3 80.5 - - + +
61C LEU* 1.3 57.3 + - - +
63C GLU* 4.1 1.4 - - - +
64C LYS* 3.1 31.8 + - + +
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Residues in contact with LEU 61 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57B SER 4.5 5.2 - - - +
58B ALA* 3.8 33.9 - - + -
60B LEU* 4.2 29.4 - - + -
61B LEU* 3.7 27.4 - - + +
58C ALA* 3.2 15.8 + - + +
60C LEU* 1.3 77.0 - - - +
62C ASN* 1.3 69.1 + - - +
64C LYS* 3.2 2.9 + - - -
65C ASN* 2.8 61.5 + - - +
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Residues in contact with ASN 62 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43C ALA* 4.5 4.2 + - - +
46C LYS* 3.6 43.1 - - - +
47C LEU* 3.8 26.9 - - + +
50C ALA* 4.3 11.6 - - - +
58C ALA* 3.0 29.3 + - - +
59C ILE* 3.8 5.1 + - - +
61C LEU* 1.3 89.6 - - - +
63C GLU* 1.3 60.9 + - - +
65C ASN* 3.6 9.3 + - - +
66C LEU* 3.2 23.6 + - - +
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Residues in contact with GLU 63 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A GLN* 3.1 28.1 + - - -
116A ALA* 4.3 2.7 - - + +
139A ILE* 2.6 37.9 - - - +
140A PHE* 3.7 8.2 - - - -
141A GLN* 4.1 26.8 + - + +
148A ASN* 4.2 3.5 + - - +
47C LEU* 5.0 2.9 - - - -
59C ILE* 2.8 40.6 + - + +
60C LEU 4.1 3.4 - - - +
62C ASN* 1.3 77.5 - - + +
64C LYS* 1.3 58.7 + - - +
66C LEU* 3.7 10.9 - - - +
67C ALA* 3.2 26.7 + - - +
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Residues in contact with LYS 64 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A TYR* 3.8 26.7 - - + +
148A ASN* 4.2 16.4 - - - +
60B LEU* 4.1 26.9 - - + +
64B LYS* 5.8 5.4 - - + -
60C LEU* 3.1 23.6 + - + +
61C LEU* 3.2 4.0 + - - +
63C GLU* 1.3 76.6 - - - +
65C ASN* 1.3 61.5 + - - +
67C ALA* 4.1 0.9 - - - +
68C PHE* 3.1 26.9 + - - +
146C GLN* 4.1 20.2 - - - +
121D GLN* 2.5 37.5 + - - +
143D TYR* 4.7 16.2 + - - -
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Residues in contact with ASN 65 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60B LEU* 5.8 0.3 - - - +
39C GLY 5.6 0.2 - - - +
43C ALA* 4.0 14.0 - - + +
61C LEU* 2.8 47.0 + - - +
62C ASN* 3.8 11.4 - - - +
64C LYS* 1.3 74.9 - - - +
66C LEU* 1.3 61.5 + - - +
69C ASN* 2.8 46.5 + - - +
121D GLN* 3.1 22.3 + - - +
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Residues in contact with LEU 66 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A GLN* 6.0 0.2 - - - +
138A LEU* 4.4 24.9 - - + -
139A ILE 3.6 24.7 - - - +
140A PHE* 4.3 16.4 - - + -
4C TYR* 5.7 0.7 - - + -
40C ALA* 4.7 2.7 - - - +
43C ALA* 3.6 14.8 - - + -
44C VAL* 4.0 28.5 - - + +
47C LEU* 4.1 15.7 - - + -
62C ASN 3.2 15.5 + - - +
63C GLU* 3.7 9.0 - - - +
65C ASN* 1.3 81.9 - - - +
67C ALA* 1.3 57.5 + - - +
69C ASN* 5.4 0.2 - - - -
70C LEU* 2.9 43.2 + - + +
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Residues in contact with ALA 67 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140A PHE* 4.3 13.9 - - + -
148A ASN* 3.3 45.3 - - - +
149A PHE* 4.2 4.0 - - - +
150A PRO* 4.6 1.3 - - - +
63C GLU 3.2 15.1 + - - +
64C LYS 4.1 0.9 - - - +
65C ASN 3.4 0.2 - - - -
66C LEU* 1.3 76.2 - - - +
68C PHE* 1.3 63.1 + - - +
70C LEU* 4.5 1.2 - - - +
71C ALA* 2.9 32.1 + - - +
146C GLN* 3.8 2.9 - - + +
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Residues in contact with PHE 68 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36C TYR* 4.0 21.8 - + - -
64C LYS 3.1 20.1 + - - +
65C ASN 4.1 0.4 - - - +
67C ALA* 1.3 80.2 - - - +
69C ASN* 1.3 69.6 + - - +
71C ALA* 3.6 1.7 - - - +
72C GLY 2.9 23.2 + - - -
144C ASP* 4.9 0.9 - - + -
145C HIS* 3.6 20.2 - + - -
146C GLN* 3.5 32.7 - - - +
162C TRP* 4.1 13.7 - + - -
120D VAL 5.0 1.3 - - - -
121D GLN* 3.4 66.0 - - + +
122D GLY 4.0 3.1 - - - -
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Residues in contact with ASN 69 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C THR* 4.3 4.5 - - - +
36C TYR* 3.5 30.2 - - - +
39C GLY* 3.6 23.9 + - - -
40C ALA* 3.4 21.8 - - - +
65C ASN* 2.8 41.0 + - - +
68C PHE* 1.3 86.7 - - - +
70C LEU* 1.3 66.6 + - - +
72C GLY 3.3 0.2 + - - -
73C HIS* 3.1 23.2 + - - +
121D GLN* 4.8 0.6 - - - +
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Residues in contact with LEU 70 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131A ASP* 4.1 11.9 - - + +
133A LEU* 5.1 0.4 - - + -
138A LEU* 3.4 23.6 - - + -
140A PHE* 4.4 4.7 - - + -
150A PRO* 4.0 19.7 - - + -
4C TYR* 3.3 48.0 - - + +
40C ALA* 4.1 9.5 - - + +
66C LEU* 2.9 31.7 + - + +
69C ASN* 1.3 74.3 - - - +
71C ALA* 1.3 56.9 + - - +
73C HIS* 3.4 8.1 + - + -
74C VAL* 2.9 38.4 + - + +
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Residues in contact with ALA 71 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150A PRO* 3.8 22.2 - - + +
67C ALA 2.9 22.0 + - - +
68C PHE 3.6 3.4 - - - +
70C LEU* 1.3 77.4 - - - +
72C GLY* 1.3 64.3 + - - +
74C VAL* 4.5 0.4 - - - +
75C ASN* 3.0 31.8 + - - +
145C HIS* 3.6 26.7 - - + +
146C GLN* 3.7 8.1 - - + -
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Residues in contact with GLY 72 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36C TYR* 4.0 12.8 - - - -
68C PHE 2.9 12.4 + - - -
69C ASN 3.3 0.8 + - - -
71C ALA* 1.3 77.5 - - - +
73C HIS* 1.3 63.2 + - - +
75C ASN* 3.3 0.7 + - - -
76C HIS* 2.8 32.6 + - - -
145C HIS* 3.2 32.7 - - - -
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Residues in contact with HIS 73 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A LEU* 3.7 18.5 - - + +
4C TYR* 3.7 41.9 - + + +
5C THR 3.4 26.8 + - - -
7C PRO* 4.5 1.8 - - + -
33C HIS* 3.1 22.5 + - - -
36C TYR* 3.8 11.0 - - + +
37C VAL* 3.5 17.0 - - + +
40C ALA* 5.0 1.1 - - + -
69C ASN 3.1 16.7 + - - +
70C LEU* 3.5 8.1 - - + +
72C GLY* 1.3 77.8 - - - +
74C VAL* 1.3 62.1 + - - +
75C ASN 3.2 0.2 + - - -
77C THR* 2.8 46.1 + - - -
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Residues in contact with VAL 74 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131A ASP* 4.4 5.6 - - - +
133A LEU* 3.8 29.6 - - + -
150A PRO* 4.1 15.9 - - + -
151A LEU* 4.0 22.9 - - + +
153A ILE* 6.3 0.2 - - + -
70C LEU* 2.9 31.2 + - + +
71C ALA* 4.0 5.2 - - - +
73C HIS* 1.3 74.6 - - - +
75C ASN* 1.3 70.9 + - - +
77C THR* 3.5 1.6 + - - -
78C ILE* 3.3 36.8 + - + +
155C PRO* 5.4 0.7 - - + -
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Residues in contact with ASN 75 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A LEU* 3.8 26.0 + - - +
71C ALA* 3.0 23.1 + - - +
72C GLY* 3.8 3.1 - - - +
73C HIS 3.1 0.2 - - - -
74C VAL* 1.3 84.3 - - - +
76C HIS* 1.3 58.0 + - - +
78C ILE* 3.2 5.9 + - - +
79C TRP* 2.9 25.3 + - - +
125C TRP* 3.4 43.8 - - + +
142C VAL* 5.1 1.4 - - - +
145C HIS* 3.2 27.9 + - - +
158C LEU* 3.9 15.4 - - + +
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Residues in contact with HIS 76 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C HIS* 3.0 30.3 + + - -
33C HIS* 3.0 38.8 - + + +
36C TYR* 3.6 26.9 - + - -
72C GLY 2.8 28.2 + - - +
75C ASN* 1.3 73.3 - - - +
77C THR* 1.3 65.0 + - - +
79C TRP* 3.6 10.7 - + - +
80C TRP* 2.9 34.1 + + - +
125C TRP* 3.8 14.8 - + - -
145C HIS* 3.8 9.4 - + - -
160C ASP* 3.6 1.5 + - - -
164C HIS* 4.0 0.6 + - - -
999C FE 2.3 28.2 - - - -
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Residues in contact with THR 77 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A LEU* 3.7 24.6 - - + +
7C PRO* 4.5 13.3 - - + +
33C HIS* 3.4 8.1 + - - -
73C HIS* 2.8 45.8 + - - -
74C VAL 3.6 6.7 - - - +
75C ASN 3.2 0.2 - - - -
76C HIS* 1.3 78.9 - - - +
78C ILE* 1.3 64.8 + - + +
80C TRP* 3.8 5.9 + - - +
81C LYS* 3.7 22.8 + - + +
193C ARG* 6.1 1.3 - - - +
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Residues in contact with ILE 78 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74C VAL* 3.4 22.0 - - + +
75C ASN 3.2 7.5 + - - +
76C HIS 3.1 0.2 - - - -
77C THR* 1.3 80.8 - - + +
79C TRP* 1.3 67.0 + - - +
81C LYS* 3.2 1.8 + - - +
82C ASN* 2.9 44.9 + - - +
155C PRO* 3.7 34.8 - - + +
156C LEU 4.6 5.6 - - - +
158C LEU* 4.3 16.6 - - + -
193C ARG* 3.9 34.8 - - - +
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Residues in contact with TRP 79 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20C ILE* 4.5 9.9 - - + -
25C ASN* 5.3 2.2 + - - -
28C HIS* 3.5 27.6 + + - -
75C ASN 2.9 15.1 + - - +
76C HIS* 3.0 10.7 + + - +
78C ILE* 1.3 78.2 - - - +
80C TRP* 1.3 99.6 + + - +
82C ASN* 3.1 16.6 + - + +
83C LEU* 3.3 41.9 + - + +
125C TRP* 4.0 11.2 - + + -
158C LEU* 3.5 23.5 - - - +
159C LEU* 3.8 5.4 - - + -
160C ASP* 3.6 30.1 - - + -
165C ALA* 5.3 2.2 - - + -
177C PHE* 4.0 27.1 - + - -
181C PHE* 3.9 17.0 - + - -
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Residues in contact with TRP 80 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7C PRO* 4.4 10.3 - - + -
8C ASP 5.8 0.7 - - - +
9C LEU* 3.5 28.3 - - + -
10C ASP* 5.7 2.2 + - - +
11C TRP* 3.5 44.8 + + + -
25C ASN* 3.9 26.2 - - + -
28C HIS* 3.6 35.9 - + + -
29C HIS* 3.5 37.3 - + + -
33C HIS* 2.9 31.6 + + - -
76C HIS* 2.9 24.0 + + + +
77C THR* 4.2 4.0 - - - +
79C TRP* 1.3 100.2 - + - +
81C LYS* 1.3 66.3 + - + +
83C LEU* 3.5 7.5 + - + +
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Residues in contact with LYS 81 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8C ASP 5.1 6.1 - - - -
10C ASP* 2.7 38.1 + - - +
77C THR* 3.7 16.6 + - + +
78C ILE 3.2 3.0 + - - +
79C TRP 3.1 0.2 - - - -
80C TRP* 1.3 78.8 - - + +
82C ASN* 1.3 57.0 + - - +
83C LEU 3.0 10.8 + - - +
186C ASN* 3.1 25.3 + - - -
189C ASP* 3.7 23.7 - - - +
193C ARG* 3.8 17.3 - - - +
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Residues in contact with ASN 82 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78C ILE* 2.9 31.7 + - - +
79C TRP* 3.1 7.9 + - + +
81C LYS* 1.3 74.9 - - - +
83C LEU* 1.3 61.6 + - + +
156C LEU 3.4 14.9 + - - -
157C LEU* 3.3 20.9 - - + +
158C LEU* 2.9 33.9 + - - +
181C PHE* 5.2 1.2 - - + -
185C VAL* 3.5 8.7 - - - +
186C ASN* 2.8 26.9 + - - +
189C ASP* 2.8 30.1 + - - -
190C VAL* 4.4 3.6 - - - +
----------------------------------------------------------
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Residues in contact with LEU 83 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11C TRP* 3.2 36.7 + - + -
16C LEU* 4.1 20.2 - - + -
20C ILE* 4.5 4.5 - - + -
25C ASN* 5.2 1.1 - - - +
79C TRP* 3.3 51.5 + - + +
80C TRP* 3.5 7.7 - - + +
81C LYS 3.0 6.2 - - - +
82C ASN* 1.3 86.9 - - - +
84C SER* 1.3 67.7 + - - +
181C PHE* 4.0 23.3 - - + -
184C VAL* 3.3 26.9 - - + +
186C 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