Contacts of the helix formed by residues 182 - 209 (chain C) in PDB entry 3JRS
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 182 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112B SER* 3.9 5.9 + - - -
143C ARG* 4.2 3.9 + - - +
177C VAL* 4.4 0.4 - - - -
180C GLY 3.9 0.6 + - - -
181C ASN* 1.3 72.8 - - - +
183C GLU* 1.3 53.5 + - - +
184C GLU* 3.4 12.6 + - - +
185C ASP* 2.9 43.3 + - - +
186C THR* 2.6 37.9 + - - -
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Residues in contact with GLU 183 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55C GLY* 6.0 1.2 - - - -
56C ARG 4.5 5.2 - - - +
57C CYS* 3.3 20.0 - - + +
177C VAL* 4.2 23.2 - - + +
181C ASN 3.4 5.7 + - - -
182C SER* 1.3 67.5 - - - +
184C GLU* 1.3 63.1 + - - +
186C THR* 3.2 4.8 + - - -
187C ARG* 2.8 62.2 + - - +
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Residues in contact with GLU 184 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182C SER* 3.4 10.8 + - - +
183C GLU* 1.3 79.1 - - - +
185C ASP* 1.3 70.2 + - - +
187C ARG* 3.9 10.4 - - - +
188C LEU* 2.9 31.7 + - - +
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Residues in contact with ASP 185 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90B LYS* 5.0 12.0 + - - +
111B ILE* 3.9 24.8 - - + +
112B SER* 2.6 50.7 + - - +
143C ARG* 4.2 4.9 - - - +
182C SER* 2.9 28.9 + - - +
184C GLU* 1.3 88.8 - - - +
186C THR* 1.3 61.1 + - - +
188C LEU* 3.8 6.4 - - - +
189C PHE* 3.1 24.3 + - - +
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Residues in contact with THR 186 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57C CYS* 5.4 1.8 - - - -
143C ARG* 3.6 41.5 + - + +
144C LEU* 4.0 18.6 - - + +
175C VAL* 4.8 14.1 - - + -
177C VAL* 4.6 14.8 - - + +
178C PRO* 5.8 0.2 - - - +
181C ASN* 4.6 2.9 + - - +
182C SER 2.6 23.8 + - - -
183C GLU* 3.6 6.0 - - - -
185C ASP* 1.3 74.9 - - - +
187C ARG* 1.3 64.5 + - - +
189C PHE* 3.4 5.7 + - - +
190C ALA* 3.1 22.8 + - - +
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Residues in contact with ARG 187 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57C CYS* 3.5 21.4 - - - +
58C SER 3.1 28.9 + - - +
59C SER* 4.2 6.3 + - - -
173C TYR* 3.5 15.8 + - - +
183C GLU* 2.8 50.9 + - - +
184C GLU* 3.9 7.6 - - - +
186C THR* 1.3 69.7 - - - +
188C LEU* 1.3 62.1 + - - +
190C ALA 3.2 0.3 + - - -
191C ASP* 2.8 51.9 + - - +
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Residues in contact with LEU 188 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87B HIS* 3.6 51.8 - - + +
88B PHE* 4.7 1.1 - - + -
111B ILE* 4.3 27.6 - - + -
184C GLU 2.9 20.2 + - - +
185C ASP* 3.8 6.3 - - - +
187C ARG* 1.3 78.2 - - - +
189C PHE* 1.3 56.9 + - - +
191C ASP* 3.9 5.4 - - + +
192C THR* 2.7 34.7 + - - +
195C ARG* 5.8 2.9 - - - +
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Residues in contact with PHE 189 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88B PHE* 4.3 23.1 - + - -
111B ILE* 4.7 7.4 - - + -
114B LEU* 4.2 15.0 - - + -
3C A8S 3.7 36.3 - - + -
88C PHE* 5.4 2.2 - + - -
114C LEU* 4.3 13.0 - - + -
115C PRO* 3.4 34.3 - - + -
144C LEU* 5.2 11.7 - - + -
185C ASP 3.1 18.0 + - - +
186C THR* 3.8 5.2 - - - +
187C ARG 3.2 0.2 - - - -
188C LEU* 1.3 74.2 - - - +
190C ALA* 1.3 69.2 + - + +
192C THR* 3.3 5.2 + - - -
193C VAL* 3.0 51.6 + - + +
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Residues in contact with ALA 190 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3C A8S 4.1 22.4 - - + +
144C LEU* 4.7 9.4 - - + -
147C TYR* 4.4 6.7 - - + -
173C TYR* 3.6 32.3 - - + +
175C VAL* 5.9 0.2 - - + -
186C THR* 3.1 15.3 + - + +
189C PHE* 1.3 79.4 - - - +
191C ASP* 1.3 63.6 + - - +
192C THR 3.2 0.2 + - - -
193C VAL* 3.2 2.1 + - - +
194C ILE* 3.0 29.3 + - - +
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Residues in contact with ASP 191 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59C SER* 2.8 25.6 + - - -
61C LEU* 3.4 18.4 - - + +
173C TYR* 2.8 24.2 + - - -
187C ARG* 2.8 36.0 + - - +
188C LEU* 3.9 6.7 - - + +
190C ALA* 1.3 71.3 - - - +
192C THR* 1.3 52.0 + - - +
195C ARG* 2.8 53.3 + - - +
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Residues in contact with THR 192 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87B HIS* 2.7 35.8 + - + +
88B PHE* 4.2 8.3 - - + -
196B LEU* 3.6 33.4 - - + -
88C PHE* 5.8 0.9 - - + -
188C LEU* 2.7 24.4 + - - +
189C PHE* 3.6 7.4 - - - -
190C ALA 3.1 0.4 - - - -
191C ASP* 1.3 73.6 - - - +
193C VAL* 1.3 68.8 + - + +
195C ARG* 3.4 12.9 + - - +
196C LEU* 2.9 36.0 + - + +
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Residues in contact with VAL 193 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3C A8S 3.7 46.4 - - + +
88C PHE* 4.3 12.6 - - + -
189C PHE* 3.0 55.5 + - + +
190C ALA 3.2 3.8 + - - +
192C THR* 1.3 77.5 - - + +
194C ILE* 1.3 57.8 + - - +
196C LEU* 3.3 9.5 + - - +
197C ASN* 2.8 50.3 + - - +
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Residues in contact with ILE 194 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3C A8S 4.0 10.8 - - + +
61C LEU* 4.1 18.4 - - + -
147C TYR* 3.3 17.7 - - + +
171C GLU* 3.7 36.1 - - + +
173C TYR* 3.2 37.9 - - + -
190C ALA 3.0 21.0 + - - +
191C ASP 3.8 2.9 - - - +
193C VAL* 1.3 77.3 - - - +
195C ARG* 1.3 59.1 + - - +
197C ASN* 3.1 9.7 + - - +
198C LEU* 2.7 49.0 + - + +
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Residues in contact with ARG 195 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87B HIS* 4.4 12.3 - - - -
196B LEU* 4.6 7.8 - - - +
199B GLN* 5.8 5.9 - - - +
61C LEU* 4.0 16.5 - - + +
63C GLN* 4.8 2.2 - - - +
188C LEU* 5.8 3.2 - - - +
191C ASP* 2.8 43.3 + - - +
192C THR* 3.7 27.5 + - - +
194C ILE* 1.3 78.6 - - - +
196C LEU* 1.3 62.7 + - + +
198C LEU* 3.3 5.7 + - - +
199C GLN* 3.0 50.3 + - + +
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Residues in contact with LEU 196 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192B THR* 3.8 21.1 - - + -
195B ARG* 6.0 5.4 - - + -
196B LEU* 4.5 13.7 - - + -
199B GLN* 5.8 2.0 - - - +
87C HIS* 3.7 34.3 + - + +
88C PHE* 3.6 29.6 - - + -
192C THR* 2.9 37.5 + - + +
193C VAL* 3.6 4.5 - - - +
195C ARG* 1.3 75.6 - - + +
197C ASN* 1.3 59.2 + - - +
199C GLN* 3.3 19.0 + - + +
200C LYS* 2.9 29.6 + - - +
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Residues in contact with ASN 197 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3C A8S 3.7 30.1 + - - -
85C TYR* 3.5 27.2 - - + +
86C LYS* 3.4 19.6 - - - +
87C HIS* 2.8 25.2 + - - +
88C PHE 4.6 1.0 + - - -
171C GLU* 5.5 3.2 + - - +
193C VAL* 2.8 33.9 + - - +
194C ILE* 3.4 9.7 - - - +
196C LEU* 1.3 75.7 - - - +
198C LEU* 1.3 59.7 + - + +
200C LYS 3.2 0.7 + - - -
201C LEU* 2.8 29.5 + - - +
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Residues in contact with LEU 198 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61C LEU* 4.1 23.1 - - + +
62C ALA 4.7 1.3 - - - +
63C GLN* 3.6 34.7 - - + +
85C TYR* 5.4 4.7 - - + -
151C THR* 5.4 0.7 - - + -
169C VAL* 3.6 32.5 - - + +
171C GLU* 4.1 21.1 - - + +
194C ILE* 2.7 42.1 + - + +
195C ARG* 3.9 5.6 - - - +
197C ASN* 1.3 76.5 - - + +
199C GLN* 1.3 58.1 + - - +
201C LEU* 3.5 17.5 + - + +
202C ALA 3.0 21.1 + - - -
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Residues in contact with GLN 199 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199B GLN* 4.8 17.0 + - - +
63C GLN* 3.6 18.9 + - - +
195C ARG* 3.0 42.1 + - + +
196C LEU* 3.7 23.3 - - - +
198C LEU* 1.3 74.7 - - - +
200C LYS* 1.3 62.0 + - - +
202C ALA* 3.2 7.0 + - - +
203C SER* 3.0 27.2 + - - -
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Residues in contact with LYS 200 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83C GLN 4.4 9.3 + - - -
84C ILE 3.8 16.7 + - - -
85C TYR* 3.1 30.3 - - - +
86C LYS 4.5 6.5 + - - -
87C HIS* 4.2 27.4 + - + +
89C ILE 5.8 1.0 + - - -
196C LEU 2.9 15.8 + - - +
197C ASN* 4.6 0.2 - - - -
199C GLN* 1.3 73.6 - - - +
201C LEU* 1.3 65.6 + - - +
203C SER* 3.2 6.8 + - - -
204C ILE* 2.9 36.6 + - + +
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Residues in contact with LEU 201 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65C ILE* 3.9 20.9 - - + -
72C VAL* 4.0 7.4 - - + +
75C VAL* 3.7 32.8 - - + -
76C VAL* 3.7 28.7 - - + -
85C TYR* 3.7 22.1 + - + -
169C VAL* 4.2 4.5 - - + -
197C ASN 2.8 16.8 + - - +
198C LEU* 3.5 23.3 - - + +
199C GLN 3.3 0.2 - - - -
200C LYS* 1.3 78.4 - - - +
202C ALA* 1.3 60.7 + - - +
204C ILE* 3.4 1.7 + - + +
205C THR* 2.8 44.6 + - + +
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Residues in contact with ALA 202 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C GLN* 4.1 15.0 - - - +
65C ILE* 3.8 22.7 - - + -
198C LEU 3.0 15.6 + - - +
199C GLN* 3.2 8.9 + - - +
201C LEU* 1.3 75.6 - - - +
203C SER* 1.3 58.6 + - - +
205C THR* 3.8 5.4 - - - -
206C GLU* 2.8 50.5 + - - +
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Residues in contact with SER 203 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199C GLN 3.0 16.3 + - - -
200C LYS* 3.7 7.0 - - - -
202C ALA* 1.3 77.2 - - - +
204C ILE* 1.3 66.7 + - - +
206C GLU* 4.0 6.0 - - - +
207C ALA* 3.1 24.6 + - - +
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Residues in contact with ILE 204 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75C VAL* 4.6 3.8 - - + -
84C ILE* 3.8 37.9 - - + +
85C TYR* 4.8 1.8 - - + -
200C LYS* 2.9 36.8 + - + +
201C LEU* 3.8 6.1 - - - +
203C SER* 1.3 79.8 - - - +
205C THR* 1.3 69.1 + - + +
207C ALA* 3.4 7.4 + - + +
208C MET* 3.3 42.6 + - + +
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Residues in contact with THR 205 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65C ILE* 3.1 24.8 - - - +
67C ALA* 3.6 10.5 - - - +
71C THR* 4.1 9.7 - - + +
72C VAL* 3.6 27.9 - - - +
75C VAL* 4.1 17.9 - - + -
201C LEU* 2.8 42.8 + - + +
204C ILE* 1.3 77.4 - - + +
206C GLU* 1.3 65.1 + - - +
208C MET* 3.0 19.7 + - - +
209C ASN 3.2 8.0 + - - -
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Residues in contact with GLU 206 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64C ARG 4.3 1.6 - - - +
65C ILE* 3.5 11.2 - - + +
66C HIS* 2.8 62.9 + - + +
67C ALA* 4.3 0.2 - - - -
202C ALA* 2.8 32.3 + - - +
203C SER* 4.1 4.8 - - - +
205C THR* 1.3 77.2 + - - +
207C ALA* 1.3 60.7 + - - +
209C ASN* 3.1 20.0 + - - +
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Residues in contact with ALA 207 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203C SER 3.1 19.9 + - - +
204C ILE* 3.7 7.4 - - + +
205C THR 3.2 0.6 - - - -
206C GLU* 1.3 76.3 - - - +
208C MET* 1.3 60.9 + - - +
209C ASN 3.4 4.9 + - - -
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Residues in contact with MET 208 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71C THR* 3.6 28.9 - - + +
74C SER* 5.2 2.7 - - - -
75C VAL* 3.9 20.0 - - + -
84C ILE* 5.6 2.7 - - + -
204C ILE* 3.3 35.5 + - + +
205C THR* 3.0 11.5 + - - +
207C ALA* 1.3 73.6 - - - +
209C ASN* 1.3 61.0 + - - +
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Residues in contact with ASN 209 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66C HIS 3.3 24.3 + - - +
67C ALA* 3.8 9.1 - - + +
68C PRO* 3.5 27.0 - - + +
165C ILE 5.6 2.8 + - - -
205C THR 3.2 9.3 + - - +
206C GLU 3.1 18.5 + - - +
207C ALA 4.0 4.9 - - - -
208C MET* 1.3 82.1 - - - +
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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