Contacts of the helix formed by residues 120 - 149 (chain F) in PDB entry 2FJC
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 ILE 120 (chain F).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C ILE* 4.3 15.3 - - + -
60F ILE* 4.1 19.5 - - + -
61F TYR 3.3 23.0 + - - +
62F GLY* 3.9 3.4 - - - -
64F GLU* 3.3 29.6 - - - +
65F PHE* 3.4 30.7 - - - +
68F VAL* 3.6 22.7 - - + -
118F ILE 3.8 0.2 + - - -
119F THR* 1.3 76.0 - - + +
121F VAL* 1.3 65.2 + - + +
123F ALA* 3.2 5.8 + - - +
124F LEU* 2.9 35.0 + - + +
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Residues in contact with VAL 121 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C ILE* 4.4 23.6 - - + -
119F THR* 3.3 18.1 - - + +
120F ILE* 1.3 78.8 - - + +
122F SER* 1.3 62.8 + - - +
124F LEU* 4.6 0.2 - - - -
125F ALA* 2.9 31.9 + - - +
175F LEU* 3.7 23.9 - - + +
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Residues in contact with SER 122 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118F ILE* 3.7 11.8 - - - +
119F THR* 3.5 21.3 - - - +
120F ILE 3.2 0.2 - - - -
121F VAL* 1.3 85.4 - - - +
123F ALA* 1.3 61.1 + - - +
125F ALA* 3.5 4.3 + - - +
126F ARG* 3.1 55.8 + - - +
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Residues in contact with ALA 123 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56F TYR* 3.8 25.2 - - + -
60F ILE* 3.7 25.1 - - + -
72F LEU* 5.5 0.9 - - + -
118F ILE* 3.6 10.3 - - + +
119F THR 2.9 16.6 + - - +
120F ILE 3.2 3.1 + - - +
122F SER* 1.3 76.6 - - - +
124F LEU* 1.3 66.5 + - + +
126F ARG* 3.1 4.7 + - - +
127F VAL* 3.0 28.0 + - - +
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Residues in contact with LEU 124 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C ILE* 4.8 6.3 - - + -
68F VAL* 3.9 27.8 - - + -
71F LEU* 4.4 12.8 - - + -
72F LEU* 4.4 13.7 - - + -
120F ILE* 2.9 37.1 + - + +
123F ALA* 1.3 77.0 - - + +
125F ALA* 1.3 63.7 + - - +
127F VAL* 3.2 8.1 + - + +
128F LYS* 2.9 24.8 + - - +
171F LEU* 3.8 24.4 - - + +
174F THR* 3.9 21.5 - - - +
175F LEU* 3.8 18.3 - - + +
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Residues in contact with ALA 125 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121F VAL 2.9 19.8 + - - +
122F SER* 3.8 7.0 - - - +
123F ALA 3.2 0.2 - - - -
124F LEU* 1.3 77.2 - - - +
126F ARG* 1.3 57.0 + - - +
128F LYS* 3.4 3.5 + - - +
129F ARG* 3.0 52.5 + - - +
175F LEU* 3.5 18.5 - - + +
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Residues in contact with ARG 126 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52F LYS* 5.4 3.8 - - - +
56F TYR* 3.4 23.1 - - - +
113F GLU* 2.7 39.8 + - - -
115F GLU* 3.4 25.8 + - - -
118F ILE* 3.3 20.2 - - - +
122F SER* 3.1 30.4 + - - +
123F ALA 3.1 7.5 + - - +
125F ALA* 1.3 75.4 - - + +
127F VAL* 1.3 65.2 + - - +
129F ARG* 3.2 24.8 + - - +
130F ASP* 3.0 28.0 + - - +
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Residues in contact with VAL 127 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49F LEU* 5.5 1.3 - - + -
53F LEU* 3.8 22.7 - - + -
56F TYR* 3.5 26.7 - - + -
72F LEU* 4.4 7.6 - - + -
75F TYR* 4.2 14.8 - - + -
123F ALA 3.0 16.4 + - - +
124F LEU* 3.4 12.6 - - + +
126F ARG* 1.3 72.4 - - - +
128F LYS* 1.3 65.6 + - - +
130F ASP* 3.2 7.7 + - - +
131F PHE* 2.7 40.5 + - + -
171F LEU* 3.3 23.6 - - + -
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Residues in contact with LYS 128 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124F LEU 2.9 17.7 + - - +
125F ALA* 3.6 6.5 - - - +
126F ARG 3.2 0.2 - - - -
127F VAL* 1.3 76.7 - - - +
129F ARG* 1.3 58.3 + - - +
131F PHE* 3.2 4.1 + - - +
132F GLU* 2.9 67.1 + - + +
168F ILE* 3.7 15.2 - - + +
171F LEU* 3.7 22.2 - - + -
172F GLY* 3.5 37.7 - - - +
175F LEU* 4.1 12.1 - - + -
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Residues in contact with ARG 129 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125F ALA* 3.0 37.5 + - - +
126F ARG* 3.3 35.5 - - - +
128F LYS* 1.3 76.8 - - - +
130F ASP* 1.3 60.5 + - - +
132F GLU* 3.3 15.4 + - - +
133F TYR* 3.0 26.9 + - - +
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Residues in contact with ASP 130 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49F LEU* 4.2 23.1 - - + +
52F LYS* 2.7 43.6 + - - +
56F TYR* 5.4 0.3 - - - -
110F ILE* 3.8 20.9 - - + +
111F ALA 5.4 0.3 + - - -
126F ARG 3.0 20.1 + - - +
127F VAL* 3.8 4.6 - - - +
129F ARG* 1.3 75.3 - - - +
131F PHE* 1.3 61.7 + - - +
133F TYR* 3.3 8.8 + - - +
134F LEU* 2.9 33.1 + - - +
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Residues in contact with PHE 131 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49F LEU* 3.7 30.5 - - + -
53F LEU* 4.9 3.6 - - + -
75F TYR* 3.9 45.8 - + + -
79F VAL* 4.4 10.5 - - + -
127F VAL* 2.7 25.2 + - + +
128F LYS 3.5 4.5 - - - +
130F ASP* 1.3 72.9 - - - +
132F GLU* 1.3 57.9 + - - +
134F LEU* 3.3 5.0 + - + +
135F SER* 2.8 28.9 + - - -
164F LEU* 3.8 23.9 - - + +
167F ALA* 3.8 27.6 - - + -
168F ILE* 3.6 18.3 - - + +
171F LEU* 3.8 18.6 - - + -
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Residues in contact with GLU 132 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128F LYS* 2.9 53.3 + - - +
129F ARG* 3.5 17.3 - - - +
131F PHE* 1.3 75.1 - - - +
133F TYR* 1.3 64.6 + - - +
135F SER* 3.2 3.4 + - - -
136F THR* 3.1 30.0 + - + +
168F ILE* 3.8 28.8 - - + +
----------------------------------------------------------
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Residues in contact with TYR 133 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41F GLN* 3.9 2.6 + - - -
45F ASP* 3.2 28.8 + - - -
109F GLY* 3.3 30.3 + - - -
110F ILE* 3.7 27.1 - - + -
129F ARG 3.0 14.1 + - - +
130F ASP* 3.3 12.1 + - - +
132F GLU* 1.3 74.9 - - - +
134F LEU* 1.3 70.3 + - + +
136F THR* 3.0 23.0 + - - -
137F ARG* 3.0 50.4 + - + +
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Residues in contact with LEU 134 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42F HIS* 5.2 3.4 - - - +
45F ASP* 3.7 33.7 - - + +
46F LEU* 3.5 27.4 - - + -
49F LEU* 3.6 25.8 - - + -
79F VAL* 5.6 0.7 - - + -
110F ILE* 4.3 7.9 - - + -
130F ASP 2.9 17.2 + - - +
131F PHE* 3.5 10.8 - - + +
133F TYR* 1.3 78.7 - - + +
135F SER* 1.3 53.3 + - - +
137F ARG* 3.2 6.6 + - + +
138F PHE* 2.7 64.7 + - + -
164F LEU* 4.0 7.0 - - + -
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Residues in contact with SER 135 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131F PHE 2.8 18.1 + - - -
132F GLU* 3.4 7.6 - - - -
134F LEU* 1.3 78.3 - - - +
136F THR* 1.3 57.6 + - - +
138F PHE 3.4 0.2 + - - -
139F SER* 2.9 36.0 + - - -
161F LEU* 3.6 14.6 + - - +
164F LEU* 3.9 14.6 - - - +
165F GLY* 5.6 1.7 + - - -
168F ILE* 4.0 16.5 - - - +
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Residues in contact with THR 136 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25B GLY* 5.2 10.4 - - - +
132F GLU* 3.1 15.5 + - + +
133F TYR* 3.0 15.0 + - - -
135F SER* 1.3 75.4 - - - +
137F ARG* 1.3 75.8 + - - +
139F SER* 3.3 8.3 + - - -
140F GLN* 3.1 30.8 + - - +
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Residues in contact with ARG 137 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38F GLN* 3.2 31.8 + - - +
41F GLN* 2.3 47.4 + - - +
42F HIS* 3.8 14.4 - - + +
45F ASP* 4.5 1.5 + - - +
133F TYR* 3.0 51.9 + - + +
134F LEU* 3.5 9.4 - - + +
136F THR* 1.3 88.9 + - - +
138F PHE* 1.3 62.6 + - - +
140F GLN* 2.9 41.5 + - - +
141F THR* 3.4 13.3 + - - -
----------------------------------------------------------
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Residues in contact with PHE 138 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42F HIS* 3.3 33.9 - + + -
46F LEU* 4.0 20.9 - - + -
86F ILE* 3.3 33.2 - - + -
134F LEU* 2.7 45.4 + - + +
137F ARG* 1.3 73.5 - - - +
139F SER* 1.3 58.5 + - - +
141F THR* 3.0 3.1 + - - -
142F GLN 2.9 24.1 + - - -
157F ILE* 3.3 26.5 - - + +
160F ILE* 3.8 18.8 - - + -
161F LEU* 3.3 17.7 - - + -
164F LEU* 3.5 27.6 - - + -
----------------------------------------------------------
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Residues in contact with SER 139 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24B PRO 3.8 3.8 - - - +
25B GLY* 3.5 31.4 + - - -
135F SER* 2.9 24.4 + - - -
136F THR* 3.5 4.9 - - - -
138F PHE* 1.3 76.6 - - - +
140F GLN* 1.3 62.8 + - - +
142F GLN* 3.3 10.2 + - - +
143F VAL* 3.0 28.5 + - - +
161F LEU* 4.1 14.5 - - - +
----------------------------------------------------------
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Residues in contact with GLN 140 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24B PRO* 4.3 22.4 - - + +
25B GLY 5.5 0.9 - - - +
38F GLN* 3.7 9.0 + - - +
136F THR* 3.1 17.2 + - - +
137F ARG* 2.9 45.4 + - - +
138F PHE 3.2 0.4 - - - -
139F SER* 1.3 76.7 - - - +
141F THR* 1.3 58.5 + - - +
143F VAL* 3.3 4.0 + - - +
144F LEU* 3.0 32.6 + - + +
----------------------------------------------------------
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Residues in contact with THR 141 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35F ILE* 4.6 7.9 - - + -
38F GLN* 3.2 22.5 + - + +
39F LEU* 3.7 29.4 - - + -
42F HIS* 2.6 27.6 + - - +
137F ARG 3.4 0.2 + - - -
138F PHE 3.0 8.6 + - - -
140F GLN* 1.3 76.9 - - - +
142F GLN* 1.3 58.3 + - - +
144F LEU* 3.1 8.9 + - - +
145F ALA* 2.8 29.1 + - - +
153F THR* 4.3 7.0 - - + -
157F ILE* 4.0 13.7 - - + -
----------------------------------------------------------
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Residues in contact with GLN 142 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24B PRO 5.3 0.4 + - - -
149B GLY* 4.3 11.1 + - - -
151B ALA* 3.3 34.2 - - + +
138F PHE 2.9 11.8 + - - +
139F SER* 3.3 12.5 + - - +
141F THR* 1.3 76.7 - - - +
143F VAL* 1.3 77.8 + - - +
145F ALA* 3.8 5.2 - - - +
146F ALA* 2.8 32.1 + - - +
154F ASP* 2.8 29.3 - - - +
157F ILE* 3.9 15.0 - - + +
158F THR* 3.9 10.3 - - - +
161F LEU* 4.1 6.1 - - + -
----------------------------------------------------------
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Residues in contact with VAL 143 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24B PRO* 3.4 46.0 - - + +
149B GLY* 5.4 6.1 - - - +
139F SER 3.0 18.7 + - - +
140F GLN 3.6 8.1 - - - +
141F THR 3.2 0.2 - - - -
142F GLN* 1.3 87.2 - - - +
144F LEU* 1.3 67.8 + - + +
146F ALA* 3.6 2.6 - - - +
147F GLU* 2.9 57.5 + - + +
----------------------------------------------------------
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Residues in contact with LEU 144 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34F ALA* 3.9 42.8 - - + +
35F ILE* 4.0 13.5 - - + +
38F GLN* 4.0 17.7 - - + -
140F GLN* 3.0 18.4 + - + +
141F THR* 3.1 7.6 + - - +
143F VAL* 1.3 78.3 - - + +
145F ALA* 1.3 64.0 + - - +
147F GLU* 3.4 10.3 + - - +
148F SER* 3.0 27.4 + - - -
----------------------------------------------------------
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Residues in contact with ALA 145 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35F ILE* 3.8 7.2 - - + +
141F THR 2.8 19.1 + - - +
142F GLN* 3.8 3.6 - - - +
144F LEU* 1.3 73.2 - - - +
146F ALA* 1.3 62.9 + - - +
148F SER* 3.3 6.2 + - - -
149F GLY 3.1 4.0 + - - -
150F ASP* 2.8 48.2 + - + +
153F THR* 4.0 14.6 - - + -
154F ASP* 3.7 18.2 - - - +
----------------------------------------------------------
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Residues in contact with ALA 146 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142F GLN* 2.8 28.0 + - - +
143F VAL* 3.6 5.8 - - - +
145F ALA* 1.3 77.4 - - - +
147F GLU* 1.3 63.5 + - + +
149F GLY* 3.4 11.1 + - - -
150F ASP 5.8 0.2 - - - -
154F ASP* 3.6 20.3 + - - +
----------------------------------------------------------
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Residues in contact with GLU 147 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143F VAL* 2.9 41.7 + - + +
144F LEU* 4.1 9.6 - - - +
146F ALA* 1.3 77.4 - - + +
148F SER* 1.3 59.3 + - - +
149F GLY 3.4 0.4 + - - -
----------------------------------------------------------
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Residues in contact with SER 148 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28F ASP* 5.5 4.1 - - - +
31F ALA* 3.6 29.8 - - - -
35F ILE* 3.5 17.2 - - - +
144F LEU 3.0 17.9 + - - -
145F ALA 3.3 5.7 + - - -
147F GLU* 1.3 77.4 - - - +
149F GLY* 1.3 60.2 + - - +
150F ASP* 3.4 5.4 + - - +
----------------------------------------------------------
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Residues in contact with GLY 149 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145F ALA 3.1 4.8 + - - -
146F ALA 3.4 10.1 + - - -
147F GLU 3.4 1.2 + - - -
148F SER* 1.3 78.6 - - - +
150F ASP* 1.3 59.7 + - - +
151F ALA* 2.8 11.4 + - - +
139J SER* 6.0 1.4 - - - -
142J GLN* 4.1 20.5 + - - +
143J VAL* 5.4 8.6 - - - +
----------------------------------------------------------
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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