Contacts of the helix formed by residues 175 - 199 (chain C) in PDB entry 5WFE
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 THR 175 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174C ASP* 1.3 76.4 + - - +
176C ILE* 1.3 62.7 + - - +
177C ASN 3.4 0.4 - - - -
178C GLN* 3.2 8.0 + - - +
179C CYS* 2.9 41.0 + - - -
236C ALA* 4.9 6.5 - - + +
239C ASN* 3.5 34.5 + - - +
243C PRO* 4.2 15.7 - - + -
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Residues in contact with ILE 176 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158C VAL* 3.6 31.2 - - + -
159C THR 4.4 10.1 - - - +
160C TRP* 5.4 5.2 - - + -
174C ASP* 3.7 10.5 - - - +
175C THR* 1.3 79.2 - - - +
177C ASN* 1.3 68.4 + - - +
179C CYS* 3.1 1.6 + - - +
180C ILE* 2.9 45.2 + - + +
232C ALA 4.6 0.7 - - - +
233C PHE* 3.6 30.7 - - + -
236C ALA* 3.5 30.5 - - + -
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Residues in contact with ASN 177 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160C TRP* 4.7 4.9 - - - -
161C ASN* 6.2 2.2 - - - +
163C ARG* 3.8 28.1 + - - +
164C ARG* 2.5 43.4 + - - +
174C ASP* 2.7 28.2 + - - +
175C THR 3.4 0.4 - - - -
176C ILE* 1.3 83.7 - - - +
178C GLN* 1.3 51.7 + - - +
180C ILE* 3.8 11.5 - - - +
181C SER* 2.5 36.9 + - - -
27G G 3.3 9.6 - - - +
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Residues in contact with GLN 178 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174C ASP 3.7 17.5 + - - +
175C THR* 3.2 11.4 + - - +
176C ILE 3.2 0.6 - - - -
177C ASN* 1.3 75.2 - - - +
179C CYS* 1.3 59.1 + - - +
181C SER* 3.2 3.9 + - - -
182C ALA 2.9 23.4 + - - -
243C PRO* 4.8 12.5 - - + +
244C ASP* 2.5 43.0 + - - +
26G G 2.9 34.2 + - + +
27G G 3.2 18.4 - - + +
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Residues in contact with CYS 179 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175C THR* 2.9 26.2 + - - -
176C ILE* 3.1 6.9 + - + +
178C GLN* 1.3 73.7 - - - +
180C ILE* 1.3 66.8 - - - +
182C ALA* 3.1 6.1 + - - +
183C ALA* 2.9 21.8 + - - +
232C ALA* 3.9 14.4 - - + +
235C ILE 5.1 0.2 - - - -
236C ALA* 3.6 33.4 - - + -
243C PRO* 3.6 29.2 - - - -
244C ASP* 4.3 4.5 - - - -
247C VAL* 4.0 16.5 - - + +
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Residues in contact with ILE 180 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149C TYR* 4.9 9.2 - - + +
160C TRP* 4.3 13.9 - - + -
163C ARG* 4.3 20.0 - - - +
176C ILE* 2.9 35.4 + - + +
177C ASN* 3.9 16.8 - - - +
179C CYS* 1.3 74.6 - - - +
181C SER* 1.3 57.8 + - - +
183C ALA* 3.2 7.5 + - - +
184C THR* 2.9 39.3 + - + +
229C VAL* 4.6 16.8 - - + -
232C ALA* 4.4 4.0 - - + -
233C PHE* 3.4 36.1 - - + -
28G C 5.0 0.4 - - - +
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Residues in contact with SER 181 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163C ARG* 4.3 4.3 + - - +
177C ASN 2.5 18.4 + - - -
178C GLN* 3.3 8.5 - - - -
179C CYS 3.1 0.2 - - - -
180C ILE* 1.3 77.2 - - - +
182C ALA* 1.3 58.3 + - - +
184C THR* 2.5 24.2 + - - -
185C SER* 2.9 19.2 + - - -
26G G 4.8 9.2 - - - -
27G G 2.3 54.3 + - - +
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Residues in contact with ALA 182 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84C ARG* 5.5 2.7 - - - +
178C GLN 2.9 13.5 + - - +
179C CYS 3.1 7.4 + - - +
181C SER* 1.3 75.4 - - - +
183C ALA* 1.3 63.8 + - - +
185C SER* 3.0 9.0 + - - -
186C CYS* 2.9 30.9 + - - -
244C ASP* 3.8 29.8 - - + +
247C VAL* 4.2 14.1 - - + -
248C ARG* 5.1 3.1 - - + +
26G G 5.6 4.6 + - - +
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Residues in contact with ALA 183 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179C CYS 2.9 12.3 + - - +
180C ILE* 3.2 9.4 + - - +
182C ALA* 1.3 76.8 - - - +
184C THR* 1.3 57.2 + - - +
186C CYS* 3.3 3.5 + - - +
187C LEU* 2.9 29.9 + - - +
228C VAL* 3.6 29.7 - - + +
229C VAL* 4.5 8.5 - - + +
232C ALA* 3.8 20.0 - - + -
247C VAL* 4.3 3.5 - - + +
251C CYS* 4.5 7.4 - - - -
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Residues in contact with THR 184 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149C TYR* 6.2 0.2 - - - +
180C ILE* 2.9 24.2 + - + +
181C SER* 2.5 24.8 + - - -
183C ALA* 1.3 76.2 - - + +
185C SER* 1.3 56.1 + - - +
187C LEU* 4.5 5.4 - - - -
188C TYR* 2.9 43.8 + - - -
224C LYS* 4.3 24.0 - - + +
229C VAL* 5.3 1.6 - - + -
27G G 3.3 15.8 - - - -
28G C 3.3 33.9 - - - +
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Residues in contact with SER 185 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83C VAL 3.6 3.3 - - - +
84C ARG* 3.4 36.8 + - - -
181C SER 2.9 16.0 + - - -
182C ALA* 3.0 10.6 + - - -
184C THR* 1.3 74.1 + - - +
186C CYS* 1.3 66.2 + - - +
188C TYR* 3.3 3.3 + - - +
189C GLY* 2.9 18.9 + - - -
26G G 2.6 30.0 + - - -
27G G 3.0 14.9 + - - -
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Residues in contact with CYS 186 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83C VAL* 3.4 32.8 - - + +
84C ARG* 5.4 0.9 - - - -
182C ALA 2.9 19.7 + - - -
183C ALA 3.7 5.8 - - - +
185C SER* 1.3 77.3 - - - +
187C LEU* 1.3 63.4 + - - +
189C GLY 3.1 1.9 + - - -
190C VAL* 3.0 24.4 + - - +
248C ARG* 3.8 20.9 - - - -
251C CYS* 3.7 25.8 - - + -
255C PHE* 3.6 22.8 - - + -
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Residues in contact with LEU 187 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183C ALA 2.9 17.0 + - - +
184C THR* 4.0 4.0 - - - +
186C CYS* 1.3 73.7 - - - +
188C TYR* 1.3 60.5 + - + +
190C VAL* 3.4 13.0 - - + +
191C THR* 2.7 54.6 + - - +
220C ALA* 3.1 33.2 - - + +
223C ILE* 4.2 22.4 - - + +
224C LYS* 3.5 34.3 - - + +
228C VAL* 4.6 21.5 - - + -
255C PHE* 4.2 3.8 - - + -
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Residues in contact with TYR 188 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184C THR* 2.9 29.4 + - - +
185C SER* 3.7 4.3 - - - +
187C LEU* 1.3 76.3 - - + +
189C GLY* 1.3 58.8 + - - +
191C THR* 4.6 0.4 - - - -
192C GLU* 2.9 36.6 + - - +
213C LEU* 5.3 6.3 - - + -
216C VAL* 3.7 11.2 - - + +
217C TYR* 3.4 36.2 - + + +
220C ALA* 3.6 25.6 - - + -
221C ASP* 5.8 0.2 - - - -
224C LYS* 3.4 19.7 + - - -
27G G 3.9 17.5 - - - +
28G C 2.5 63.9 + + - -
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Residues in contact with GLY 189 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82C GLY 3.8 6.1 - - - -
83C VAL 3.3 19.5 - - - -
84C ARG* 4.0 11.0 - - - -
85C VAL* 3.3 15.0 - - - +
185C SER 2.9 12.2 + - - -
186C CYS 3.1 0.2 + - - -
188C TYR* 1.3 77.9 - - - +
190C VAL* 1.3 56.5 + - - +
192C GLU* 4.6 1.6 - - - -
193C ALA* 2.9 26.2 + - - +
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Residues in contact with VAL 190 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81C ALA 4.7 2.5 - - - +
82C GLY* 3.2 21.3 + - - +
186C CYS 3.0 16.3 + - - +
187C LEU* 3.4 15.3 - - + +
189C GLY* 1.3 71.7 - - - -
191C THR* 1.3 60.8 + - - +
193C ALA* 3.4 4.4 + - - -
194C ALA* 2.9 24.4 + - - +
255C PHE* 3.4 51.8 - - + -
260C THR* 4.6 8.3 - - - +
261C LEU* 3.1 26.2 - - + +
264C LEU* 4.1 5.6 - - + +
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Residues in contact with THR 191 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187C LEU* 2.7 41.9 + - - +
188C TYR* 4.2 1.8 - - - -
190C VAL* 1.3 78.1 - - - +
192C GLU* 1.3 57.7 + - - +
194C ALA* 3.1 3.0 + - + +
195C ILE* 2.9 32.6 + - + +
216C VAL 3.9 7.4 - - - +
219C ILE* 3.6 23.4 + - + +
220C ALA* 3.5 32.2 - - - +
223C ILE* 5.2 0.5 - - - +
264C LEU* 3.7 16.2 - - + +
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Residues in contact with GLU 192 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85C VAL* 3.9 23.6 + - + +
188C TYR* 2.9 23.8 + - - +
189C GLY* 3.7 3.3 - - - +
191C THR* 1.3 74.5 - - - +
193C ALA* 1.3 59.7 + - - +
195C ILE* 3.2 3.0 + - + +
196C LEU* 2.9 38.1 + - + +
202C PRO* 4.6 3.4 - - + +
213C LEU* 3.5 30.7 - - - +
216C VAL* 3.9 23.3 - - + +
91D PRO* 3.2 29.7 - - - +
92D GLY 4.6 0.5 + - - -
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Residues in contact with ALA 193 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53C MET* 4.2 21.3 - - + +
76C VAL* 5.1 3.8 - - + +
78C VAL* 4.9 6.7 - - + -
82C GLY* 5.2 3.1 - - - +
85C VAL* 3.7 13.3 - - + +
189C GLY 2.9 17.6 + - - +
190C VAL* 3.6 6.1 - - - +
192C GLU* 1.3 75.8 - - - +
194C ALA* 1.3 57.5 + - - +
196C LEU* 3.4 7.3 + - - +
197C ALA* 2.9 29.3 + - - +
261C LEU* 3.8 16.4 - - + -
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Residues in contact with ALA 194 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190C VAL 2.9 14.9 + - - +
191C THR 3.1 8.9 + - - +
193C ALA* 1.3 77.9 - - - +
195C ILE* 1.3 56.8 + - - +
197C ALA* 3.2 8.1 + - - +
198C ALA* 2.9 27.2 + - - +
261C LEU* 3.3 16.1 - - + +
264C LEU* 3.6 35.0 - - + -
265C ILE* 5.0 6.0 - - + +
268C ILE* 4.6 7.8 - - + +
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Residues in contact with ILE 195 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191C THR* 2.9 23.9 + - + +
192C GLU* 3.2 6.7 + - + +
194C ALA* 1.3 75.8 - - - +
196C LEU* 1.3 57.4 + - - +
198C ALA* 3.1 6.4 + - - +
199C GLY 2.8 22.9 + - - -
200C TYR* 3.2 27.3 + - + +
201C ALA 4.3 5.6 - - - +
202C PRO* 4.7 5.2 - - + -
215C PHE* 3.5 37.7 - - + +
216C VAL* 3.5 37.5 - - + +
219C ILE* 4.5 1.8 - - + -
268C ILE* 3.6 22.7 - - + -
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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
----------------------------------------------------------
74C LEU* 3.3 26.9 - - + +
76C VAL* 4.8 7.2 - - + -
85C VAL* 4.2 19.5 - - + -
88C SER* 3.6 32.1 - - - +
89C GLY 5.9 1.1 - - - +
90C GLN 5.8 3.4 - - - +
91C PRO* 6.3 0.9 - - + -
92C GLY 5.8 6.3 - - - +
192C GLU* 2.9 25.8 + - + +
193C ALA* 3.9 4.9 - - - +
195C ILE* 1.3 75.1 - - + +
197C ALA* 1.3 58.8 + - - +
199C GLY* 3.0 20.9 + - - +
200C TYR 4.2 14.4 - - - +
202C PRO* 4.3 17.3 - - + -
91D PRO* 4.4 11.9 - - + -
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Residues in contact with ALA 197 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C MET* 4.6 19.3 - - + -
50C ALA* 5.1 11.4 - - + +
51C CYS* 4.6 16.6 - - + -
53C MET* 4.9 3.1 - - + -
74C LEU* 4.4 6.7 - - - +
76C VAL* 5.9 0.2 - - - +
193C ALA 2.9 18.3 + - - +
194C ALA* 3.2 8.9 + - - +
196C LEU* 1.3 78.7 - - - +
198C ALA* 1.3 60.9 + - - +
199C GLY* 4.5 0.2 - - - -
265C ILE* 5.0 10.1 - - + -
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Residues in contact with ALA 198 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98C LYS* 4.3 13.0 - - - +
194C ALA 2.9 13.3 + - - +
195C ILE* 3.1 11.0 + - - +
197C ALA* 1.3 77.2 - - - +
199C GLY* 1.3 59.3 + - - +
200C TYR* 3.6 30.6 - - + -
265C ILE* 5.5 14.9 - - + +
268C ILE* 4.8 12.8 - - + -
269C GLU* 6.6 0.4 - - + -
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Residues in contact with GLY 199 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C GLY* 4.0 15.3 - - - -
94C ALA* 4.6 4.7 + - - -
95C ARG 5.4 1.6 + - - +
98C LYS* 5.3 5.7 - - - +
99C LEU* 3.9 13.5 - - - +
195C ILE 2.8 8.3 + - - -
196C LEU* 3.0 16.9 + - - -
197C ALA 4.4 0.4 - - - -
198C ALA* 1.3 78.6 - - - +
200C TYR* 1.3 61.0 + - - -
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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