Contacts of the helix formed by residues 215 - 247 (chain B) in PDB entry 2XZ0
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 ASP 215 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83B LEU* 4.7 1.9 - - - +
86B ARG* 3.2 36.1 - - + +
90B ILE* 3.9 23.0 - - + +
153B TYR* 3.9 9.0 + - - -
210B ALA 2.9 22.3 + - - +
211B LYS 3.9 0.8 + - - -
213B HIS 4.8 1.3 - - - +
214B GLY* 1.3 71.7 - - - +
216B ILE* 1.3 58.0 + - - +
217B LYS* 3.3 10.9 + - - +
218B LEU* 3.1 32.2 + - + +
219B ALA* 3.1 20.6 + - - +
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Residues in contact with ILE 216 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211B LYS* 5.1 16.4 - - + +
214B GLY* 4.0 3.0 + - - +
215B ASP* 1.3 71.8 + - - +
217B LYS* 1.3 73.8 + - + +
219B ALA* 3.1 7.6 + - + +
220B GLN* 2.9 36.8 + - + +
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Residues in contact with LYS 217 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67B PHE* 5.1 8.4 - - - +
79B GLN* 5.7 7.0 - - - +
215B ASP* 3.3 7.9 + - - +
216B ILE* 1.3 89.2 - - + +
218B LEU* 1.3 59.6 + - - +
220B GLN* 3.5 18.8 + - - +
221B ILE* 3.3 27.8 + - + +
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Residues in contact with LEU 218 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90B ILE* 3.4 30.3 - - + -
94B TYR* 3.9 24.7 - - + +
95B PHE* 5.6 0.2 - - + -
98B LEU* 4.2 10.8 - - + -
150B LEU* 5.5 0.7 - - + -
153B TYR* 3.5 42.6 - - + +
210B ALA* 4.0 10.5 - - + -
215B ASP* 3.1 24.6 + - - +
217B LYS* 1.3 73.4 - - - +
219B ALA* 1.3 65.6 + - - +
220B GLN 3.2 0.4 - - - -
221B ILE* 3.4 17.5 + - + -
222B CYS* 3.3 26.8 + - - -
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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
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207B ALA* 3.6 19.4 - - - +
210B ALA* 3.9 3.3 - - - +
211B LYS* 3.5 40.4 - - + +
215B ASP 3.1 12.3 + - - +
216B ILE* 3.1 11.2 + - + +
218B LEU* 1.3 77.8 - - - +
220B GLN* 1.3 51.6 + - + +
222B CYS* 3.3 2.9 + - - +
223B GLY* 2.6 34.8 + - - -
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Residues in contact with GLN 220 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67B PHE* 4.3 23.1 - - + -
216B ILE* 2.9 21.5 + - + +
217B LYS* 3.5 24.3 + - - +
218B LEU 3.2 0.2 - - - -
219B ALA* 1.3 77.3 - - + +
221B ILE* 1.3 56.3 + - - +
223B GLY* 4.3 1.6 - - - +
224B THR* 2.8 40.2 + - + +
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Residues in contact with ILE 221 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67B PHE* 3.9 23.1 - - + +
68B LEU* 5.0 0.9 - - + -
83B LEU* 6.3 0.2 - - + -
149B LEU* 3.5 46.6 - - + +
150B LEU* 4.0 24.2 - - + +
153B TYR* 4.1 30.7 - - + -
217B LYS* 3.3 16.3 + - + +
218B LEU* 3.6 14.1 - - + +
219B ALA 3.3 0.4 - - - -
220B GLN* 1.3 79.8 - - - +
222B CYS* 1.3 64.9 + - - +
224B THR* 4.1 2.4 + - - -
225B ILE* 3.2 27.8 + - + +
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Residues in contact with CYS 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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94B TYR* 4.0 11.2 - - - -
98B LEU* 4.3 15.5 - - - -
150B LEU* 5.3 2.0 - - - -
203B HIS* 3.6 27.9 - - - +
206B THR* 3.3 27.6 - - - +
207B ALA* 3.7 13.7 - - - +
218B LEU* 3.3 16.8 + - - -
219B ALA 3.7 1.8 - - - +
221B ILE* 1.3 81.6 - - - +
223B GLY* 1.3 63.9 + - - +
225B ILE* 3.4 7.7 + - - +
226B ALA* 3.1 23.8 + - - +
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Residues in contact with GLY 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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207B ALA* 4.0 9.4 - - - +
219B ALA 2.6 21.9 + - - -
220B GLN* 3.5 2.9 - - - -
222B CYS* 1.3 72.5 - - - +
224B THR* 1.3 60.9 + - - +
226B ALA* 3.2 9.8 + - - +
227B ALA* 3.2 18.5 + - - +
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Residues in contact with THR 224 (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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62B TRP* 3.3 43.7 + - - -
67B PHE* 3.5 32.5 - - + -
149B LEU* 5.1 0.5 - - - +
220B GLN* 2.8 24.4 + - + +
221B ILE 4.2 2.4 + - - -
223B GLY* 1.3 70.1 - - - +
225B ILE* 1.3 66.0 + - - +
227B ALA* 3.3 20.6 - - - +
228B ASP* 3.6 2.8 + - - +
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Residues in contact with ILE 225 (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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62B TRP* 4.3 14.8 - - + -
105B GLU* 3.9 0.9 - - - +
146B HIS* 3.5 46.0 - - + +
149B LEU* 4.5 4.0 - - + -
150B LEU* 3.9 35.4 - - + -
203B HIS* 3.6 27.4 - - + +
221B ILE* 3.2 25.6 + - + +
222B CYS* 3.7 7.0 - - - +
224B THR* 1.3 76.5 - - - +
226B ALA* 1.3 65.2 + - - +
228B ASP* 2.8 18.2 + - - +
229B GLU* 3.2 10.4 + - - +
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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
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200B PHE* 3.4 28.7 - - + -
203B HIS* 3.9 17.4 - - + +
204B GLY* 4.3 10.8 - - - +
222B CYS 3.1 13.4 + - - +
223B GLY* 3.2 12.3 + - - +
225B ILE* 1.3 74.4 - - - +
227B ALA* 1.3 58.3 + - - +
229B GLU* 2.9 11.3 + - - -
230B LYS 2.8 26.9 + - - -
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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
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62B TRP* 5.5 1.3 - - + +
200B PHE* 5.6 0.2 - - - -
223B GLY 3.2 10.3 + - - +
224B THR* 3.3 20.6 - - - +
225B ILE 3.1 0.2 - - - -
226B ALA* 1.3 77.2 - - - +
228B ASP* 1.3 64.0 + - - +
230B LYS* 3.3 8.1 + - - +
231B ARG* 3.2 34.3 + - - +
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Residues in contact with ASP 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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62B TRP* 3.3 22.8 + - - -
142B GLU* 3.8 6.2 - - - +
145B ARG* 2.8 26.8 + - - -
146B HIS* 2.8 32.5 + - + +
224B THR 3.7 2.2 - - - +
225B ILE 2.8 12.4 + - - +
227B ALA* 1.3 75.9 - - - +
229B GLU* 1.3 56.9 + - - +
231B ARG* 3.1 31.7 + - - +
232B HIS* 3.0 39.9 + - + -
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Residues in contact with GLU 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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105B GLU* 3.1 8.3 - - - +
143B GLU* 3.2 1.4 - - - +
146B HIS* 3.5 7.0 + - - -
196B GLU* 2.5 33.0 - - - +
199B THR* 3.5 18.0 + - - +
200B PHE* 3.9 9.4 - - + +
203B HIS* 4.2 8.7 - - + -
225B ILE* 3.6 12.1 - - - +
226B ALA* 2.9 12.3 + - - +
228B ASP* 1.3 73.7 - - - +
230B LYS* 1.3 60.1 + - - +
232B HIS* 3.2 4.7 + - - +
233B GLU* 2.8 33.7 + - - +
1364B FE 2.4 27.3 - - - -
1365B FE 2.3 26.1 - - - -
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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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197B ARG* 3.8 24.0 - - - +
200B PHE* 3.8 33.9 - - + -
226B ALA 2.8 14.9 + - - +
227B ALA* 3.3 11.2 + - - +
229B GLU* 1.3 70.4 - - - +
231B ARG* 1.3 59.1 + - + +
233B GLU* 3.7 17.5 + - - +
234B THR* 2.9 37.2 + - - +
303B PHE* 5.4 4.2 - - - -
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Residues in contact with ARG 231 (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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54B HIS* 3.8 32.9 + - + +
56B LYS* 3.7 40.3 - - - +
61B CYS* 5.3 0.2 - - - -
62B TRP* 6.0 0.8 - - - -
142B GLU* 3.5 23.4 + - - -
145B ARG* 4.4 3.4 - - - +
227B ALA* 3.2 24.7 + - - +
228B ASP* 3.1 34.0 + - - +
229B GLU 3.1 0.6 - - - -
230B LYS* 1.3 75.8 - - + +
232B HIS* 1.3 69.8 + - + +
234B THR* 3.3 8.8 + - - -
235B ALA* 3.1 21.1 + - - +
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Residues in contact with HIS 232 (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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54B HIS 5.5 2.9 - - - -
55B LEU* 5.7 0.7 - - + -
135B TRP* 4.0 13.0 - + - -
139B TRP* 3.5 24.7 - + + +
142B GLU* 3.0 34.5 + - + +
143B GLU* 3.1 25.1 + - + -
146B HIS* 4.5 0.7 - + - -
196B GLU* 3.1 30.4 + - + +
228B ASP* 3.0 33.5 + - + +
229B GLU* 3.4 5.7 + - - +
231B ARG* 1.3 77.9 - - + +
233B GLU* 1.3 56.8 + - - +
235B ALA* 3.1 7.7 + - - +
236B TYR* 3.0 38.0 + - + -
1365B FE 3.3 1.0 - - - -
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Residues in contact with GLU 233 (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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193B SER 3.8 19.1 - - - +
196B GLU* 4.1 13.6 - - + +
197B ARG* 2.7 49.7 + - + +
200B PHE* 4.7 4.3 - - - -
229B GLU 2.8 17.7 + - - +
230B LYS* 3.7 28.0 + - - +
232B HIS* 1.3 76.5 - - - +
234B THR* 1.3 51.2 + - - +
236B TYR* 3.4 4.0 + - - +
237B THR* 2.7 46.9 + - + +
303B PHE* 3.3 16.0 - - - -
304B LEU* 5.5 0.3 - - - +
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Residues in contact with THR 234 (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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54B HIS* 3.6 25.6 - - + +
230B LYS* 2.9 26.2 + - - +
231B ARG* 3.6 11.0 - - - -
232B HIS 3.3 0.2 - - - -
233B GLU* 1.3 78.8 + - - +
235B ALA* 1.3 62.0 + - - +
237B THR* 3.0 10.3 + - - +
238B LYS* 2.9 24.1 + - + +
307B ARG* 5.1 5.4 + - - +
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Residues in contact with ALA 235 (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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51B ILE* 3.4 16.5 - - + +
54B HIS* 4.0 23.0 - - + -
135B TRP* 3.6 28.0 - - + -
231B ARG 3.1 11.3 + - - +
232B HIS 3.1 8.5 + - - +
234B THR* 1.3 75.8 - - - +
236B TYR* 1.3 56.6 + - - +
238B LYS* 3.2 5.9 + - - +
239B ILE* 3.1 32.0 + - + +
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Residues in contact with TYR 236 (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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115B LEU* 3.8 18.6 - - + +
135B TRP* 2.9 42.0 + + - -
139B TRP* 3.9 18.1 + + - -
189B PHE* 3.7 24.1 - + - +
192B THR* 3.3 36.1 - - + +
193B SER* 3.2 25.6 + - - +
196B GLU* 4.1 17.7 - - + -
232B HIS* 3.0 28.5 + - + +
233B GLU* 4.0 2.2 - - - +
235B ALA* 1.3 72.1 - - - +
237B THR* 1.3 57.5 + - - +
238B LYS 3.1 4.7 - - - -
239B ILE* 3.1 22.2 + - + +
240B VAL* 3.1 25.6 + - - +
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Residues in contact with THR 237 (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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193B SER* 3.8 7.9 - - - +
233B GLU* 2.7 46.1 + - + +
234B THR* 3.0 17.0 + - - +
236B TYR* 1.3 71.0 - - - +
238B LYS* 1.3 56.8 + - - +
240B VAL 4.1 1.1 - - - -
241B GLU* 3.4 13.9 + - - +
303B PHE* 5.0 2.5 - - + -
304B LEU* 4.0 26.9 - - + -
307B ARG* 3.7 28.3 + - + -
308B TRP* 3.2 29.1 + - + +
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Residues in contact with LYS 238 (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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46B TRP* 4.0 28.3 - - + -
50B ASN* 4.1 28.4 + - + +
51B ILE* 4.2 8.1 - - + -
54B HIS* 4.9 5.6 - - - +
234B THR* 2.9 14.6 + - + +
235B ALA* 3.4 11.4 - - - +
236B TYR 3.1 0.4 - - - -
237B THR* 1.3 77.2 - - - +
239B ILE* 1.3 58.9 + - - +
240B VAL 3.3 0.2 - - - -
241B GLU* 3.3 39.0 + - - +
242B LYS* 3.0 28.6 + - - +
307B ARG* 4.4 6.3 - - - +
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Residues in contact with ILE 239 (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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40B PHE* 5.2 2.5 - - + -
43B LEU* 6.1 2.7 - - + -
46B TRP* 5.5 3.1 - - + +
51B ILE* 3.4 28.5 - - + -
132B TRP* 3.9 33.2 - - + -
135B TRP* 5.6 1.6 - - + +
189B PHE* 4.1 25.8 - - + -
235B ALA 3.1 17.3 - - - +
236B TYR* 3.1 36.0 + - + +
238B LYS* 1.3 76.6 - - - +
240B VAL* 1.3 59.8 + - - +
242B LYS* 3.6 7.5 + - + +
243B LEU* 3.2 31.7 + - + +
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Residues in contact with VAL 240 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186B TYR 5.6 0.2 - - - +
189B PHE* 3.9 17.9 - - + +
190B ILE* 4.1 20.4 - - + -
193B SER* 3.5 15.9 - - - +
236B TYR 3.1 15.5 + - - +
238B LYS 3.3 0.2 - - - -
239B ILE* 1.3 75.4 - - - +
241B GLU* 1.3 53.8 + - - +
243B LEU* 3.0 9.8 + - + +
244B PHE* 2.8 50.8 + - + -
251B THR* 4.1 6.5 - - + -
308B TRP* 3.5 34.3 - - + +
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Residues in contact with GLU 241 (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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46B TRP* 5.5 1.2 - - - -
237B THR 3.4 17.9 + - - +
238B LYS* 3.3 34.8 + - - +
240B VAL* 1.3 78.3 - - - +
242B LYS* 1.3 60.7 + - - +
244B PHE* 3.4 7.3 + - + +
245B GLU* 3.1 48.0 + - + +
307B ARG* 3.3 31.1 + - - +
308B TRP* 3.9 14.7 - - + +
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Residues in contact with LYS 242 (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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43B LEU* 4.1 21.5 - - + -
46B TRP* 3.5 62.1 - - + +
238B LYS 3.0 15.8 + - - +
239B ILE* 3.8 7.9 - - + +
241B GLU* 1.3 77.1 - - - +
243B LEU* 1.3 59.1 + - + +
245B GLU* 3.5 20.5 + - + +
246B ILE* 3.1 53.0 + - + +
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Residues in contact with LEU 243 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39B ILE* 5.0 8.5 - - + -
40B PHE* 3.5 39.5 - - + -
43B LEU* 4.8 9.2 - - + -
185B PRO 4.9 3.4 - - - +
186B TYR* 3.6 37.9 - - + +
189B PHE* 5.0 4.3 - - + -
239B ILE* 3.2 25.2 + - + +
240B VAL* 3.0 12.6 + - + +
242B LYS* 1.3 79.0 - - + +
244B PHE* 1.3 57.5 + - - +
245B GLU 3.2 0.7 - - - -
246B ILE* 4.5 5.4 - - + +
247B ASP* 3.0 25.7 + - - +
251B THR* 2.8 27.1 + - + +
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Residues in contact with PHE 244 (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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240B VAL* 2.8 30.4 + - + +
241B GLU* 3.7 7.9 - - + +
242B LYS 3.4 0.2 - - - -
243B LEU* 1.3 76.6 - - - +
245B GLU* 1.3 59.3 + - + +
248B PRO* 3.3 30.5 - - - +
251B THR* 3.5 26.7 + - + -
252B VAL* 3.5 29.2 - - + -
255B PHE* 4.3 14.1 - + + -
308B TRP* 3.5 45.1 - + + +
310B VAL* 3.8 16.8 - - + -
313B LEU* 3.7 33.1 - - + +
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Residues in contact with GLU 245 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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46B TRP* 5.7 1.4 - - - -
241B GLU* 3.1 44.1 + - + +
242B LYS* 3.9 24.3 + - + +
243B LEU 3.2 0.6 - - - -
244B PHE* 1.3 80.5 - - + +
246B ILE* 1.3 65.5 + - + +
247B ASP 3.5 0.2 - - - -
248B PRO* 4.1 8.3 - - - +
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Residues in contact with ILE 246 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39B ILE* 4.0 26.0 - - + -
43B LEU* 4.1 22.9 - - + -
242B LYS* 3.1 50.3 + - + +
243B LEU* 4.6 5.4 - - + +
245B GLU* 1.3 80.0 - - + +
247B ASP* 1.3 61.5 + - + +
248B PRO* 3.8 3.8 - - - +
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Residues in contact with ASP 247 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36B LYS* 2.9 21.3 + - - -
39B ILE* 5.7 1.8 - - + -
186B TYR* 2.6 36.9 + - - +
243B LEU* 3.0 16.2 + - - +
246B ILE* 1.3 84.4 - - + +
248B PRO* 1.4 67.3 - - - +
249B ASP* 4.0 5.2 + - - +
250B GLY* 3.3 16.0 + - - -
251B THR* 3.2 13.7 + - - -
1367B EDO 5.4 0.9 + - - -
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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
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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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