Contacts of the helix formed by residues 169 - 195 (chain C) in PDB entry 5E9W
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 169 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167C SER 5.2 1.3 - - - +
168C ARG* 1.3 74.4 - - - +
170C PHE* 1.3 65.7 + - - +
171C TYR 3.3 3.1 - - - -
172C LEU* 3.1 17.3 + - + +
173C ARG* 2.9 49.2 + - + +
340C ILE* 4.4 16.4 - - + -
362C LEU* 4.4 23.6 - - + +
363C GLU* 3.0 44.0 - - + +
460C GLU* 5.8 0.4 - - - -
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Residues in contact with PHE 170 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167C SER* 3.4 30.9 + - - +
168C ARG 3.4 2.4 - - - -
169C ILE* 1.3 77.7 - - - +
171C TYR* 1.3 100.8 + + + +
173C ARG* 3.5 24.5 + - - +
174C ASN* 3.1 28.0 + - + +
415C MET 4.7 13.2 - - - -
416C GLN* 4.9 9.2 - - + -
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Residues in contact with TYR 171 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167C SER 5.2 6.1 - - - -
168C ARG 4.9 2.8 + - - -
169C ILE 3.3 0.6 - - - -
170C PHE* 1.3 105.6 - + + +
172C LEU* 1.3 60.4 + - - +
174C ASN* 3.4 6.0 + - - +
175C PHE* 2.8 29.8 + - - +
416C GLN* 4.5 26.7 + - + -
455C THR 5.3 4.5 - - - +
456C LEU* 4.0 8.3 - - + +
460C GLU* 4.0 26.9 - - - +
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Residues in contact with LEU 172 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169C ILE* 3.1 18.3 + - + +
171C TYR* 1.3 75.8 - - - +
173C ARG* 1.3 64.4 + - - +
175C PHE* 3.3 4.8 + - + +
176C ASN* 3.0 38.6 + - - +
340C ILE* 3.7 33.9 - - + -
362C LEU* 4.3 19.5 - - + -
456C LEU* 4.6 7.7 - - + +
460C GLU* 3.6 34.1 + - + +
463C ALA* 4.0 10.8 - - + -
464C THR* 3.8 22.7 - - - +
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Residues in contact with ARG 173 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167C SER 4.4 8.7 - - - +
169C ILE* 2.9 36.0 + - + +
170C PHE* 3.8 38.5 - - - +
172C LEU* 1.3 75.7 - - - +
174C ASN* 1.3 66.0 + - - +
176C ASN* 3.3 11.4 + - - +
177C ASN* 3.0 36.1 + - - +
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Residues in contact with ASN 174 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170C PHE* 3.1 27.0 + - + +
171C TYR* 3.4 10.5 + - - +
172C LEU 3.2 0.2 - - - -
173C ARG* 1.3 81.9 - - + +
175C PHE* 1.3 60.1 + - - +
177C ASN* 3.3 9.1 + - - +
178C TRP* 3.0 25.6 + - - +
412C LEU* 4.4 10.1 - - - +
415C MET* 2.9 36.8 - - - +
416C GLN 2.6 36.4 + - - -
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Residues in contact with PHE 175 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171C TYR 2.8 17.9 + - - +
172C LEU* 3.6 5.6 - - + +
174C ASN* 1.3 78.8 - - - +
176C ASN* 1.3 62.2 + - - +
178C TRP* 3.1 13.8 + + - +
179C MET* 2.9 63.4 + - + +
395C PHE* 4.4 4.3 - + + -
399C TYR* 3.6 28.5 - + + -
412C LEU* 4.5 7.4 - - + -
455C THR* 4.3 12.3 - - + -
456C LEU* 3.8 27.8 - - + -
461C TRP* 3.6 26.7 - + - -
464C THR* 3.6 29.8 - - + -
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Residues in contact with ASN 176 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172C LEU* 3.0 27.5 + - - +
173C ARG* 3.5 11.7 - - - +
174C ASN 3.3 0.2 - - - -
175C PHE* 1.3 75.5 - - - +
177C ASN* 1.3 57.5 + - - +
179C MET* 3.4 8.8 + - - +
180C LYS* 3.1 34.9 + - - +
285C PHE* 4.0 33.0 - - + -
362C LEU* 6.0 3.8 - - - +
395C PHE* 4.0 6.2 - - - -
464C THR* 3.6 20.3 + - - -
467C TYR* 5.5 6.2 - - - -
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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
----------------------------------------------------------
173C ARG* 3.0 30.6 + - - +
174C ASN* 3.4 11.5 - - - +
175C PHE 3.2 0.2 - - - -
176C ASN* 1.3 74.8 - - - +
178C TRP* 1.3 59.2 + - - +
180C LYS* 3.4 12.9 + - - +
181C SER* 2.8 33.0 + - - -
210C GLY* 4.1 4.0 + - - +
214C LYS* 2.6 34.6 + - - +
415C MET* 3.7 14.6 - - + +
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Residues in contact with TRP 178 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174C ASN 3.0 13.6 + - - +
175C PHE* 3.1 10.7 + + - +
177C ASN* 1.3 73.4 - - - +
179C MET* 1.3 93.4 + - + +
181C SER* 3.3 3.4 + - - -
182C VAL* 3.1 43.5 + - + +
398C PHE* 5.5 0.4 - + - -
399C TYR* 4.0 27.1 - + - -
402C LYS* 4.0 22.7 - - + -
403C ILE* 4.4 11.7 - - + -
408C ASN* 2.9 39.2 + - + -
411C LEU* 3.7 16.7 - - + +
412C LEU* 3.3 48.9 - - + +
415C MET* 3.7 11.2 - - - +
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Residues in contact with MET 179 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175C PHE* 2.9 52.0 + - + +
176C ASN* 3.5 8.7 - - - +
177C ASN 3.3 0.2 - - - -
178C TRP* 1.3 90.4 - - + +
180C LYS* 1.3 61.9 + - + +
182C VAL 3.4 0.3 + - - -
183C LEU* 3.0 25.2 + - - +
317C THR* 5.9 1.3 - - + -
395C PHE* 3.4 63.7 - - + +
398C PHE* 3.5 38.8 - - + -
399C TYR* 4.5 1.6 - - - -
469C VAL* 4.1 2.9 - - + -
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Residues in contact with LYS 180 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176C ASN* 3.1 21.5 + - - +
177C ASN* 3.7 22.8 + - - +
179C MET* 1.3 76.7 - - + +
181C SER* 1.3 55.0 + - - +
183C LEU* 3.3 7.0 + - - +
184C ILE* 2.8 43.6 + - + +
210C GLY* 4.7 2.8 - - - -
211C ASP* 2.7 34.0 + - - +
214C LYS* 4.0 8.5 - - + -
284C GLN* 3.6 34.1 - - + +
285C PHE* 3.9 16.3 - - + -
317C THR* 5.0 3.4 - - + +
501C SAH 2.6 32.0 + - - +
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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
----------------------------------------------------------
177C ASN 2.8 21.9 + - - -
178C TRP* 3.4 9.6 - - - -
180C LYS* 1.3 76.9 - - - +
182C VAL* 1.3 53.5 + - - +
184C ILE* 3.7 2.7 - - - +
185C GLY* 2.7 32.1 + - - -
214C LYS* 3.4 25.1 - - - +
411C LEU* 4.4 18.8 - - - +
415C MET* 4.5 8.4 - - - +
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Residues in contact with VAL 182 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178C TRP* 3.1 48.0 + - + +
179C MET 4.0 2.5 - - - +
181C SER* 1.3 73.0 - - - +
183C LEU* 1.3 61.4 + - - +
185C GLY* 4.3 1.8 - - - +
186C GLU* 2.8 28.6 + - + +
398C PHE* 4.4 4.7 - - + -
402C LYS* 3.4 36.1 - - + -
408C ASN* 3.6 26.5 - - - +
411C LEU* 4.2 9.0 - - + -
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Residues in contact with LEU 183 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179C MET 3.0 18.8 + - - +
180C LYS* 3.6 4.3 - - - +
182C VAL* 1.3 74.9 - - - +
184C ILE* 1.3 66.0 + - - +
186C GLU* 3.1 11.7 + - - +
187C PHE* 3.2 40.2 + - + -
284C GLN* 4.0 28.3 - - - +
315C ILE* 4.2 11.0 - - + -
316C GLY 4.1 23.8 - - - +
317C THR* 4.5 7.2 - - + -
391C TYR* 3.4 28.9 - - + +
398C PHE* 4.0 16.0 - - + -
469C VAL* 4.6 7.6 - - + -
470C PHE 4.8 3.8 - - - +
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Residues in contact with ILE 184 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180C LYS* 2.8 26.0 + - + +
181C SER* 3.9 3.8 - - - +
183C LEU* 1.3 73.8 - - + +
185C GLY* 1.3 58.0 + - - +
187C PHE* 3.4 1.0 + - - +
188C LEU* 2.9 40.3 + - + +
211C ASP* 4.2 14.1 - - - +
214C LYS* 4.1 30.3 - - + +
215C TRP* 3.5 55.6 - - + +
280C ILE* 5.1 0.9 - - - +
282C SER* 4.4 5.2 - - - +
284C GLN* 4.8 4.7 - - - +
315C ILE* 4.2 17.0 - - + -
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Residues in contact with GLY 185 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181C SER 2.7 23.5 + - - -
182C VAL* 3.7 2.9 - - - -
184C ILE* 1.3 75.2 - - - +
186C GLU* 1.3 61.0 + - - +
188C LEU* 3.6 6.5 + - - +
189C GLU* 3.4 22.7 + - - +
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Residues in contact with GLU 186 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182C VAL* 2.8 17.8 + - + +
183C LEU 3.1 5.6 + - - +
185C GLY* 1.3 77.3 - - - +
187C PHE* 1.3 63.0 + - + +
189C GLU* 3.6 6.5 + - - +
190C LYS* 3.3 48.3 + - + +
391C TYR* 2.8 41.0 + - - -
398C PHE* 4.1 2.8 - - - -
402C LYS* 3.7 26.6 + - - -
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Residues in contact with PHE 187 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183C LEU* 3.2 31.7 + - + +
184C ILE 4.4 1.1 - - - +
186C GLU* 1.3 84.4 - - - +
188C LEU* 1.3 66.0 + - - +
189C GLU 3.1 1.3 - - - -
190C LYS* 3.7 23.8 - - + +
191C VAL* 3.0 28.9 + - - +
280C ILE* 3.9 13.7 - - + -
313C TYR* 3.7 35.6 - + + -
315C ILE* 3.9 17.7 - - + -
390C VAL* 4.2 8.5 - - + -
391C TYR* 3.3 36.8 - + - -
471C ALA* 3.3 29.4 - - + -
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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
----------------------------------------------------------
184C ILE* 2.9 36.2 + - + +
185C GLY* 4.0 6.5 - - - +
187C PHE* 1.3 76.6 - - - +
189C GLU* 1.3 58.3 + - - +
191C VAL* 3.5 3.8 + - + +
192C ARG* 3.1 42.7 + - - +
199C ILE* 3.8 17.9 - - + -
214C LYS 4.7 1.1 - - - +
215C TRP* 3.9 20.9 - - + -
218C GLY* 3.5 31.2 - - - -
220C ILE* 3.6 23.1 - - + -
280C ILE* 4.0 9.6 - - + +
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Residues in contact with GLU 189 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185C GLY 3.4 14.3 + - - +
186C GLU* 3.8 6.7 - - - +
187C PHE 3.1 0.6 - - - -
188C LEU* 1.3 79.6 - - - +
190C LYS* 1.3 60.2 + - + +
192C ARG* 3.2 10.0 + - + +
193C GLN* 2.9 28.7 + - + +
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Residues in contact with LYS 190 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186C GLU* 3.3 39.8 + - - +
187C PHE* 3.4 32.7 + - + +
189C GLU* 1.3 79.1 - - + +
191C VAL* 1.3 63.8 + - - +
193C GLN* 3.3 16.1 + - - +
194C LYS* 3.5 12.5 + - - +
313C TYR* 4.0 25.1 + - + +
390C VAL* 5.4 5.6 - - + -
391C TYR* 5.7 0.2 - - - -
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Residues in contact with VAL 191 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187C PHE 3.0 21.5 + - - +
188C LEU* 3.5 5.8 - - - +
190C LYS* 1.3 76.5 - - - +
192C ARG* 1.3 58.0 + - - +
194C LYS* 3.0 24.5 + - - +
195C LYS* 2.8 29.8 + - + +
199C ILE* 3.6 29.6 - - + -
279C ASP* 4.0 23.1 - - + +
280C ILE* 3.8 24.7 - - + -
313C TYR* 3.9 16.4 - - + -
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Residues in contact with ARG 192 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188C LEU* 3.1 37.2 + - - +
189C GLU* 3.2 10.2 + - + +
191C VAL* 1.3 75.4 - - - +
193C GLN* 1.3 62.1 + - - +
194C LYS 3.4 0.3 + - - -
195C LYS 4.2 0.7 - - - -
196C LYS* 3.6 31.7 + - - +
197C ARG 5.5 0.6 + - - +
199C ILE* 3.8 32.0 - - + +
218C GLY* 2.6 24.7 + - - -
219C ARG* 2.7 36.0 + - - +
220C ILE* 3.9 0.8 - - - +
221C ASN* 5.4 0.4 + - - -
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Residues in contact with GLN 193 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189C GLU* 2.9 13.9 + - + +
190C LYS* 3.6 13.0 - - - +
191C VAL 3.2 0.2 - - - -
192C ARG* 1.3 76.9 - - - +
194C LYS* 1.3 60.4 + - - +
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Residues in contact with LYS 194 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190C LYS 3.5 6.1 + - - +
191C VAL* 3.0 37.1 + - - +
192C ARG 4.2 0.7 - - - -
193C GLN* 1.3 81.0 - - - +
195C LYS* 1.3 83.0 + - + +
196C LYS* 4.8 1.8 - - - +
279C ASP* 4.1 13.7 + - - +
309C SER* 5.8 2.3 - - - -
310C PRO 4.0 10.8 - - - -
311C GLY* 3.7 36.0 + - - +
312C GLY* 4.3 4.4 - - - +
313C TYR* 5.5 2.9 - - + +
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Residues in contact with LYS 195 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191C VAL* 2.8 22.4 + - + +
194C LYS* 1.3 84.4 - - + +
196C LYS* 1.3 71.4 + - - +
197C ARG* 3.2 61.0 - - + +
198C ASP* 2.6 29.0 + - - +
199C ILE* 4.6 3.1 - - + -
200C THR* 4.7 3.0 + - - +
279C ASP* 2.8 34.3 + - - +
309C SER* 5.7 1.9 + - - -
----------------------------------------------------------
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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