Contacts of the helix formed by residues 206 - 233 (chain B) in PDB entry 6UQY
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 ARG 206 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149B PHE* 4.3 4.2 - - + -
153B GLU* 2.9 47.6 + - - +
201B VAL* 3.0 23.9 + - + +
204B GLY* 3.0 27.3 + - - +
205B ASN* 1.3 76.3 - - - +
207B VAL* 1.3 63.8 + - - +
208B GLU 3.3 2.7 - - - -
209B ARG* 3.3 32.1 + - + +
210B ALA* 3.0 19.1 + - - +
402B GOL 3.3 29.7 - - - +
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Residues in contact with VAL 207 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196B SER* 3.6 26.6 - - - +
201B VAL* 4.1 5.4 - - - +
202B VAL* 4.1 29.8 - - + +
205B ASN* 3.6 5.3 + - - +
206B ARG* 1.3 77.2 - - - +
208B GLU* 1.3 56.9 + - - +
210B ALA* 3.3 4.0 + - - +
211B GLN* 2.9 49.4 + - - +
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Residues in contact with GLU 208 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205B ASN 5.5 0.4 + - - -
206B ARG 3.3 0.6 - - - -
207B VAL* 1.3 79.7 - - - +
209B ARG* 1.3 67.1 + - + +
211B GLN* 3.3 19.3 + - + +
212B ARG* 2.8 64.9 + - - +
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Residues in contact with ARG 209 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149B PHE* 3.8 9.2 - - + -
152B HIS* 5.9 1.0 - - - -
153B GLU* 2.8 43.8 + - - -
161B LEU* 3.6 24.0 - - + +
206B ARG* 3.3 34.6 + - + +
208B GLU* 1.3 83.3 - - + +
210B ALA* 1.3 62.6 + - - +
212B ARG* 3.2 15.9 + - - +
213B TYR* 3.0 24.1 + - - +
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Residues in contact with ALA 210 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149B PHE* 3.5 20.7 - - + -
195B LEU* 3.7 11.6 - - + +
196B SER* 3.6 27.4 - - - +
201B VAL* 3.9 4.7 - - + -
206B ARG 3.0 13.8 + - - +
207B VAL 3.5 8.1 - - - +
209B ARG* 1.3 73.2 - - - +
211B GLN* 1.3 65.1 - - - +
213B TYR* 3.3 2.3 + - - +
214B LEU* 2.9 30.7 + - - +
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Residues in contact with GLN 211 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196B SER* 3.7 15.7 + - - +
207B VAL* 2.9 33.2 + - - +
208B GLU* 3.3 22.6 + - + +
210B ALA* 1.3 74.9 - - - +
212B ARG* 1.3 63.8 + - - +
214B LEU* 3.6 10.0 - - + +
215B GLN* 3.0 35.8 + - + +
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Residues in contact with ARG 212 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161B LEU* 4.0 19.2 - - + +
162B GLU* 3.0 38.9 + - + +
208B GLU* 2.8 53.2 + - - +
209B ARG* 3.6 22.2 - - - +
211B GLN* 1.3 77.8 - - - +
213B TYR* 1.3 64.0 + - - +
215B GLN* 4.0 4.0 - - - +
216B ALA* 3.1 23.0 + - - +
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Residues in contact with TYR 213 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145B SER* 3.4 24.5 + - - -
148B ASP* 3.7 1.0 - - - +
149B PHE* 3.8 30.3 - + + -
161B LEU* 4.1 15.0 - - + +
164B LEU* 3.7 27.4 - - + -
165B ALA* 3.6 29.8 - - + -
168B SER* 2.7 26.3 + - - -
192B SER* 4.7 5.6 - - - -
195B LEU* 3.9 24.2 - - + -
209B ARG 3.0 16.4 + - - +
210B ALA 3.8 1.3 - - - +
212B ARG* 1.3 79.1 - - - +
214B LEU* 1.3 65.9 + - - +
216B ALA* 3.1 6.2 + - - +
217B VAL* 3.0 35.1 + - + +
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Residues in contact with LEU 214 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192B SER* 3.4 25.8 - - - +
193B THR 4.0 2.7 - - - +
194B ASP* 3.5 24.9 - - - +
195B LEU* 3.7 17.7 - - + +
196B SER* 3.9 2.9 - - - +
210B ALA 2.9 26.8 + - - +
211B GLN* 3.6 9.4 - - + +
213B TYR* 1.3 83.3 - - + +
215B GLN* 1.3 72.6 + - + +
217B VAL* 3.5 1.2 + - - +
218B ASN* 2.9 39.0 + - - +
242B LEU* 3.6 33.0 - - + -
246B ARG* 5.3 1.3 - - - +
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Residues in contact with GLN 215 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211B GLN* 3.0 29.0 + - + +
212B ARG* 4.0 4.3 - - - +
214B LEU* 1.3 87.1 - - + +
216B ALA* 1.3 55.8 + - - +
218B ASN* 3.9 4.3 - - - +
219B ALA* 2.9 34.7 + - - +
242B LEU* 3.8 12.1 - - - +
246B ARG* 3.5 27.0 + - - -
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Residues in contact with ALA 216 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162B GLU* 5.0 14.1 - - + +
165B ALA* 3.5 23.8 - - + -
169B VAL* 4.8 0.2 - - - +
212B ARG 3.1 16.7 + - - +
213B TYR* 3.1 2.3 + - - +
215B GLN* 1.3 74.4 - - - +
217B VAL* 1.3 66.2 + - - +
219B ALA* 4.0 3.1 - - - +
220B SER* 3.3 24.9 + - - -
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Residues in contact with VAL 217 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145B SER* 4.7 9.4 - - - +
165B ALA* 3.7 18.4 - - + +
168B SER* 4.5 3.6 - - - -
169B VAL* 3.9 15.5 - - + -
172B ILE* 5.4 1.8 - - + -
192B SER* 4.3 12.1 - - - +
213B TYR* 3.0 48.3 + - + +
214B LEU 3.9 4.3 - - - +
216B ALA* 1.3 76.9 - - - +
218B ASN* 1.3 68.7 + - - +
221B LEU* 2.9 46.4 + - + +
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Residues in contact with ASN 218 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191B SER* 3.5 16.6 + - - -
192B SER* 2.9 48.5 + - - -
214B LEU* 2.9 21.1 + - + +
215B GLN* 4.3 6.5 - - - +
217B VAL* 1.3 77.2 - - - +
219B ALA* 1.3 62.9 + - - +
222B PRO* 3.1 24.5 - - - +
238B TRP* 4.1 8.7 + - + -
240B ASP* 4.6 3.3 + - - +
242B LEU* 4.0 26.0 - - + +
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Residues in contact with ALA 219 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215B GLN* 2.9 20.5 + - - +
216B ALA* 4.0 4.5 - - - +
218B ASN* 1.3 81.1 - - - +
220B SER* 1.3 60.7 + - - +
222B PRO* 3.9 4.2 - - - +
223B ILE* 3.4 24.7 - - - +
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Residues in contact with SER 220 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166B GLY* 6.2 0.2 - - - -
169B VAL* 3.6 22.0 - - - +
216B ALA 3.3 14.6 + - - -
219B ALA* 1.3 79.9 - - - +
221B LEU* 1.3 66.9 + - - +
223B ILE* 3.2 11.0 + - - +
224B GLN* 3.0 28.1 + - - +
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Residues in contact with LEU 221 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169B VAL* 4.0 35.6 - - + +
172B ILE* 3.8 38.8 - - + -
173B ARG 4.6 1.3 - - - +
189B VAL* 4.3 5.2 - - + -
190B VAL 4.7 4.7 - - - +
191B SER* 5.3 0.7 - - - -
192B SER 5.7 0.2 - - - +
217B VAL* 2.9 33.3 + - + +
220B SER* 1.3 73.0 - - - +
222B PRO* 1.3 61.3 - - + +
224B GLN* 3.1 4.9 + - + +
225B LEU* 2.9 49.8 + - + +
238B TRP* 3.6 26.7 - - + -
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Residues in contact with PRO 222 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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218B ASN 3.1 25.4 - - - +
219B ALA 3.9 5.6 - - - +
220B SER 3.6 1.3 - - - -
221B LEU* 1.3 94.3 - - + +
223B ILE* 1.3 60.1 + - + +
225B LEU* 3.9 6.3 - - + +
226B ALA* 2.9 30.7 + - - +
238B TRP* 3.7 44.6 - - + +
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Residues in contact with ILE 223 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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219B ALA 3.4 20.2 - - - +
220B SER* 3.2 10.5 + - - +
221B LEU 3.2 0.4 - - - -
222B PRO* 1.3 79.2 - - + +
224B GLN* 1.3 73.3 + - - +
226B ALA* 3.4 6.7 + - - +
227B ALA* 3.2 21.5 + - - +
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Residues in contact with GLN 224 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169B VAL* 3.8 22.7 - - + -
173B ARG* 3.1 43.3 + - + -
220B SER* 3.0 21.2 + - - +
221B LEU* 3.6 8.3 - - + +
223B ILE* 1.3 84.0 - - - +
225B LEU* 1.3 63.9 + - - +
227B ALA* 3.3 8.4 + - - +
228B LEU* 3.1 22.3 + - - +
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Residues in contact with LEU 225 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172B ILE* 4.9 0.9 - - + -
173B ARG* 4.4 13.5 - - + +
176B VAL* 4.0 28.9 - - + -
189B VAL* 3.8 30.7 - - + -
221B LEU* 2.9 47.8 + - + +
222B PRO* 4.0 4.3 - - + +
224B GLN* 1.3 73.7 - - - +
226B ALA* 1.3 61.9 + - - +
228B LEU* 3.3 6.5 + - + +
229B ARG* 2.8 32.7 + - - +
236B LEU* 3.9 25.9 - - + +
238B TRP* 4.0 12.3 - - + -
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Residues in contact with ALA 226 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222B PRO 2.9 19.4 + - - +
223B ILE* 3.7 6.5 - - - +
224B GLN 3.3 0.2 - - - -
225B LEU* 1.3 78.2 - - - +
227B ALA* 1.3 61.0 + - - +
229B ARG* 3.4 35.3 + - - +
230B LYS* 3.2 21.0 + - - +
236B LEU* 6.1 0.2 - - - -
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Residues in contact with ALA 227 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173B ARG* 4.7 7.9 - - - +
223B ILE 3.2 13.0 + - - +
224B GLN* 3.6 11.7 - - - +
225B LEU 3.2 0.4 - - - -
226B ALA* 1.3 75.6 - - - +
228B LEU* 1.3 65.1 + - - +
230B LYS* 3.3 11.1 + - - +
231B THR* 3.0 27.9 + - - +
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Residues in contact with LEU 228 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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173B ARG* 3.7 43.9 - - + +
176B VAL* 3.6 29.2 - - + -
177B GLN* 3.7 28.7 - - + +
224B GLN 3.1 13.8 + - - +
225B LEU* 3.7 8.7 - - + +
227B ALA* 1.3 78.7 - - - +
229B ARG* 1.3 66.4 + - - +
231B THR* 3.2 8.5 + - + -
232B ARG* 2.9 42.9 + - + +
234B LEU* 4.1 7.6 - - + +
236B LEU* 5.8 0.2 - - + -
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Residues in contact with ARG 229 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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225B LEU 2.8 21.0 + - - +
226B ALA* 3.4 34.7 + - - +
227B ALA 3.3 0.2 - - - -
228B LEU* 1.3 71.8 - - - +
230B LYS* 1.3 71.5 + - - +
233B GLY* 3.1 5.4 + - - -
234B LEU* 3.0 55.5 + - - +
235B GLU* 4.8 0.4 - - - +
236B LEU* 3.9 37.8 + - + +
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Residues in contact with LYS 230 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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226B ALA 3.2 11.5 + - - +
227B ALA* 3.3 10.6 + - - +
228B LEU 3.1 0.4 - - - -
229B ARG* 1.3 90.2 - - - +
231B THR* 1.3 68.0 + - - +
232B ARG 3.3 0.5 + - - -
233B GLY* 3.5 7.2 + - - -
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Residues in contact with THR 231 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173B ARG* 5.6 2.0 + - - -
227B ALA* 3.0 18.6 + - - +
228B LEU* 3.2 11.6 + - + -
230B LYS* 1.3 83.1 - - - +
232B ARG* 1.3 68.2 + - + +
233B GLY 3.7 0.3 + - - -
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Residues in contact with ARG 232 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177B GLN* 3.9 18.0 - - - +
180B GLY* 3.3 32.0 + - - -
181B GLU* 3.1 41.2 + - - +
185B ARG* 3.1 20.5 + - - +
228B LEU* 2.9 31.8 + - + +
231B THR* 1.3 83.6 - - + +
233B GLY* 1.3 64.4 + - - +
234B LEU* 3.3 19.2 + - + +
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Residues in contact with GLY 233 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185B ARG* 3.1 27.5 + - - +
229B ARG 3.1 8.0 + - - -
230B LYS 3.5 5.1 + - - -
231B THR 3.4 4.0 + - - -
232B ARG* 1.3 75.7 - - - +
234B LEU* 1.3 61.4 + - - +
235B GLU 4.3 0.3 + - - -
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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