Contacts of the helix formed by residues 165 - 193 (chain F) in PDB entry 6C3P
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 SER 165 (chain F).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95F SER* 4.8 8.7 + - - -
157F PHE* 4.6 2.3 - - - -
163F GLY* 3.0 4.7 - - - +
164F PHE* 1.3 76.3 + - - +
166F GLN* 1.3 57.0 + - - +
167F LEU* 3.0 5.2 - - - +
168F ARG* 2.7 58.7 + - - +
169F PHE 3.5 1.9 + - - -
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Residues in contact with GLN 166 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163F GLY 3.3 12.8 + - - +
164F PHE 3.4 4.2 + - - +
165F SER* 1.3 72.3 - - - +
167F LEU* 1.3 56.8 + - - +
169F PHE* 3.0 14.6 + - + +
170F CYS* 3.0 26.5 + - - +
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Residues in contact with LEU 167 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91F GLU* 6.3 2.9 - - + -
165F SER* 3.0 5.7 - - - +
166F GLN* 1.3 75.0 - - - +
168F ARG* 1.3 64.2 + - - +
170F CYS* 4.4 5.6 - - - +
171F LEU* 2.9 40.9 + - + +
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Residues in contact with ARG 168 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91F GLU* 5.3 6.2 + - - +
92F GLY* 5.8 1.2 - - - -
95F SER* 4.0 22.2 + - - -
106F LEU* 4.0 30.6 + - - +
153F LYS* 4.5 14.1 - - - +
157F PHE* 3.5 28.7 - - + -
165F SER* 2.7 37.6 + - - +
167F LEU* 1.3 74.7 - - - +
169F PHE* 1.3 52.0 + - - +
171F LEU* 3.9 4.8 - - - +
172F THR* 2.6 44.1 + - - +
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Residues in contact with PHE 169 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154F PHE* 3.5 37.5 - + - -
157F PHE* 3.4 37.4 - + + -
158F LEU* 4.3 27.4 - - + -
163F GLY* 6.0 1.3 - - - -
165F SER 3.5 1.6 + - - -
166F GLN* 3.0 18.2 + - + +
168F ARG* 1.3 76.9 - - - +
170F CYS* 1.3 69.4 + - - +
172F THR* 3.3 2.5 + - - -
173F GLY* 3.0 21.7 + - - -
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Residues in contact with CYS 170 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166F GLN 3.0 13.8 + - - +
167F LEU* 3.9 7.4 - - - +
169F PHE* 1.3 82.9 - - + +
171F LEU* 1.3 64.5 + - + +
173F GLY* 3.4 0.9 + - - -
174F LEU* 2.8 36.1 + - - +
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Residues in contact with LEU 171 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84F VAL* 4.1 10.1 - - + +
87F CYS* 4.1 16.4 - - + +
88F GLU* 3.9 41.3 - - + +
91F GLU* 5.2 7.0 - - + -
167F LEU* 2.9 34.9 + - + +
168F ARG* 4.0 4.3 - - - +
170F CYS* 1.3 83.8 - - + +
172F THR* 1.3 58.0 + - - +
174F LEU* 3.9 7.4 - - + -
175F LEU* 2.9 40.7 + - + +
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Residues in contact with THR 172 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150F LYS* 4.3 14.2 + - - +
153F LYS* 3.4 31.3 + - + +
154F PHE* 3.6 39.7 - - + +
157F PHE* 5.0 5.3 - - + -
168F ARG* 2.6 25.4 + - - +
169F PHE* 3.6 6.0 - - - -
171F LEU* 1.3 75.7 - - - +
173F GLY* 1.3 64.7 + - - +
175F LEU* 3.1 7.0 + - - +
176F VAL* 3.0 24.8 + - - +
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Residues in contact with GLY 173 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154F PHE* 3.7 23.2 - - - -
169F PHE 3.0 12.2 + - - -
170F CYS 3.9 1.8 - - - -
172F THR* 1.3 77.2 - - - +
174F LEU* 1.3 61.5 + - - +
176F VAL* 3.2 8.2 + - - +
177F ILE* 2.9 31.4 + - - +
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Residues in contact with LEU 174 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84F VAL* 3.6 41.7 - - + -
170F CYS* 2.8 25.0 + - - +
171F LEU* 3.4 11.2 - - + +
173F GLY* 1.3 76.8 - - - +
175F LEU* 1.3 63.7 + - + +
177F ILE* 3.2 8.1 + - + +
178F LEU* 2.9 51.8 + - + +
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Residues in contact with LEU 175 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81F LEU* 4.4 5.4 - - + -
84F VAL* 3.6 32.3 - - + +
85F LEU* 3.5 28.5 - - + -
88F GLU* 4.5 13.7 - - - +
150F LYS* 3.9 23.1 - - - +
171F LEU* 2.9 26.9 + - + +
172F THR 3.7 3.6 - - - +
174F LEU* 1.3 77.9 - - + +
176F VAL* 1.3 62.4 - - - +
178F LEU* 3.2 5.3 + - + +
179F TYR* 2.9 57.1 + - + +
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Residues in contact with VAL 176 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147F PHE* 3.2 22.0 - - + -
150F LYS* 3.6 37.0 - - + +
151F THR* 3.6 24.9 - - + +
154F PHE* 4.1 17.3 - - + -
172F THR* 3.0 16.3 + - + +
173F GLY* 3.2 10.3 + - - +
175F LEU* 1.3 76.0 - - - +
177F ILE* 1.3 70.6 + - + +
179F TYR 3.3 0.5 + - - -
180F GLY 2.9 18.2 + - - -
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Residues in contact with ILE 177 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147F PHE* 5.4 0.2 - - - -
173F GLY* 2.9 16.4 + - - +
174F LEU* 3.7 11.2 - - + +
176F VAL* 1.3 84.1 - - + +
178F LEU* 1.3 63.2 + - + +
180F GLY* 3.3 2.2 + - - +
181F MET* 2.9 49.3 + - + +
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Residues in contact with LEU 178 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77F LEU* 4.3 19.4 - - + +
80F MET* 3.9 11.4 - - + -
81F LEU* 3.5 48.1 - - + +
84F VAL* 4.0 3.4 - - + -
174F LEU* 2.9 57.4 + - + +
175F LEU* 3.2 9.8 + - + +
177F ILE* 1.3 82.9 - - + +
179F TYR* 1.3 59.6 + - - +
181F MET* 3.3 8.0 + - + +
182F LEU* 2.9 27.7 + - - +
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Residues in contact with TYR 179 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36F HIS* 3.8 20.7 + - - -
81F LEU* 3.5 20.7 - - + +
85F LEU* 4.8 1.6 - - - +
113F ALA* 4.7 6.9 - - - +
143F TRP* 3.5 38.1 - + + +
146F ALA* 3.9 25.4 - - + -
147F PHE* 3.5 25.0 - + + +
150F LYS* 3.4 34.9 - - + +
175F LEU* 2.9 38.1 + - + +
178F LEU* 1.3 77.2 - - - +
180F GLY* 1.3 57.7 + - - +
182F LEU* 3.2 6.1 + - - +
183F LEU* 2.9 27.9 + - - +
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Residues in contact with GLY 180 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147F PHE* 3.5 20.1 - - - -
176F VAL 2.9 11.7 + - - -
177F ILE* 3.7 3.8 - - - -
179F TYR* 1.3 77.4 - - - +
181F MET* 1.3 56.9 + - - +
183F LEU* 3.1 9.1 + - - +
184F LEU* 2.9 27.4 + - - +
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Residues in contact with MET 181 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77F LEU* 3.5 29.8 - - + -
177F ILE* 2.9 37.9 + - + +
178F LEU* 3.8 2.0 - - + +
180F GLY* 1.3 75.7 - - - +
182F LEU* 1.3 57.2 + - - +
184F LEU* 3.3 22.0 + - + +
185F VAL* 2.9 31.5 + - - +
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Residues in contact with LEU 182 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74F ARG* 4.4 24.9 - - + +
77F LEU* 3.6 22.2 - - + +
78F THR* 4.7 7.2 - - - +
81F LEU* 6.0 2.2 - - + -
143F TRP* 3.3 61.5 - - + +
178F LEU 2.9 14.4 + - - +
179F TYR* 3.4 12.3 - - - +
181F MET* 1.3 75.1 - - - +
183F LEU* 1.3 60.5 + - - +
185F VAL* 3.1 9.3 + - + +
186F GLU* 2.9 32.1 + - + +
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Residues in contact with LEU 183 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140F LEU* 3.6 33.4 - - + +
143F TRP* 4.9 7.4 - - + +
144F THR* 3.8 23.3 - - + +
147F PHE* 5.9 7.0 - - + -
179F TYR 2.9 12.5 + - - +
180F GLY* 3.1 12.1 + - - +
182F LEU* 1.3 77.1 - - - +
184F LEU* 1.3 59.9 + - + +
186F GLU* 2.9 9.2 + - + +
187F VAL* 2.9 40.9 + - + +
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Residues in contact with LEU 184 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180F GLY 2.9 12.7 + - - +
181F MET* 3.5 26.0 - - + +
182F LEU 3.2 0.2 - - - -
183F LEU* 1.3 76.7 - - + +
185F VAL* 1.3 60.0 + - + +
187F VAL* 3.0 20.0 - - + +
188F ASN* 2.7 45.6 + - - +
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Residues in contact with VAL 185 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69F PRO 5.4 3.5 - - - +
70F GLY* 4.5 7.2 - - - +
73F LEU* 4.7 9.9 - - + -
74F ARG* 3.5 51.4 - - + +
77F LEU* 3.7 19.3 - - + -
181F MET 2.9 19.1 + - - +
182F LEU* 3.2 12.1 - - + +
184F LEU* 1.3 74.8 - - + +
186F GLU* 1.3 58.5 + - - +
188F ASN* 3.2 13.5 + - + +
189F VAL* 2.9 27.5 + - - +
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Residues in contact with GLU 186 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74F ARG* 3.9 13.9 + - - -
136F LEU* 4.4 5.0 - - - +
137F ILE* 3.9 25.1 + - - +
139F LEU* 4.4 11.3 - - - +
140F LEU* 3.8 39.8 - - + +
143F TRP* 5.9 1.1 - - + -
182F LEU* 2.9 21.6 + - + +
183F LEU* 2.9 16.1 + - + +
185F VAL* 1.3 79.3 - - - +
187F VAL* 1.3 56.2 + - - +
189F VAL* 3.0 15.3 - - - +
190F ILE* 2.9 29.6 + - + +
195F TYR* 4.7 2.6 + - - -
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Residues in contact with VAL 187 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140F LEU* 5.1 6.7 - - + -
183F LEU* 2.9 34.2 + - + +
184F LEU* 3.0 38.1 - - + +
186F GLU* 1.3 74.8 - - + +
188F ASN* 1.3 63.0 + - - +
190F ILE* 3.5 8.5 - - + +
191F ARG* 2.9 31.7 + - - +
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Residues in contact with ASN 188 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69F PRO* 5.3 1.8 - - - +
70F GLY* 6.5 1.3 - - - -
184F LEU* 2.7 46.6 + - - +
185F VAL* 3.3 14.7 - - + +
187F VAL* 1.3 79.8 - - - +
189F VAL* 1.3 57.5 + - - +
191F ARG* 3.3 3.6 + - - +
192F VAL* 2.9 37.6 + - + +
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Residues in contact with VAL 189 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68F PHE* 4.4 7.4 - - - +
69F PRO* 3.7 41.4 + - + +
74F ARG* 3.5 24.5 - - - +
124F TYR* 5.3 4.0 - - + +
133F PRO* 6.2 3.4 - - + -
185F VAL 2.9 16.2 + - - +
186F GLU* 3.0 32.1 - - - +
188F ASN* 1.3 75.4 - - - +
190F ILE* 1.3 62.9 + - - +
192F VAL* 3.9 0.7 - - - +
193F ARG* 2.9 27.5 + - + +
195F TYR* 4.8 2.9 - - + +
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Residues in contact with ILE 190 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137F ILE* 5.8 3.8 - - + -
140F LEU* 6.3 2.7 - - + -
186F GLU* 2.9 23.4 + - + +
187F VAL* 3.5 9.6 - - + +
189F VAL* 1.3 77.3 - - - +
191F ARG* 1.3 63.2 + - - +
193F ARG 2.8 13.9 + - - -
194F ARG* 2.9 17.8 + - - -
195F TYR* 4.5 17.5 - - + +
196F ILE* 6.0 5.6 - - + -
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Residues in contact with ARG 191 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187F VAL 2.9 20.9 + - - +
188F ASN* 3.8 4.7 - - - +
190F ILE* 1.3 72.9 - - - +
192F VAL* 1.3 66.6 + - + +
193F ARG 3.2 0.7 + - - -
194F ARG* 3.2 20.0 + - - +
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Residues in contact with VAL 192 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69F PRO* 3.5 37.9 - - + -
188F ASN* 2.9 24.1 + - + +
189F VAL 3.9 0.2 - - - +
191F ARG* 1.3 76.9 - - + +
193F ARG* 1.3 59.6 + - + +
194F ARG 3.6 1.6 + - - -
200F THR 4.9 0.2 - - - +
201F PRO 3.2 12.1 - - - +
202F ARG* 3.5 19.6 - - + +
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Residues in contact with ARG 193 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68F PHE 6.3 0.4 - - - +
69F PRO* 5.7 2.9 - - + -
133F PRO* 5.1 8.3 - - + -
189F VAL* 2.9 20.3 + - + +
190F ILE 2.8 6.1 + - - -
192F VAL* 1.3 81.1 - - + +
194F ARG* 1.3 48.2 - - - -
195F TYR* 2.1 53.2 + - + +
200F THR 4.1 0.9 - - - -
201F PRO* 3.3 18.8 - - + +
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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