Contacts of the helix formed by residues 249 - 281 (chain H) in PDB entry 4DVQ
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 249 (chain H).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56H TRP* 4.3 9.7 - - - +
236H GLN* 4.7 6.5 + - - +
237H LEU* 4.5 10.1 - - - -
240H MET* 5.4 2.3 - - - -
245H SER* 2.9 16.6 + - - -
248H ILE* 1.3 91.5 + - - +
250H PRO* 1.3 59.8 - - - +
251H LYS* 3.1 2.9 - - - -
252H VAL* 2.8 41.3 + - - +
253H TRP* 3.1 12.3 + - - -
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Residues in contact with PRO 250 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246H ARG 3.4 21.7 - - - +
247H TRP* 3.5 10.8 - - - +
248H ILE 3.3 8.3 - - - +
249H SER* 1.3 89.9 - - - +
251H LYS* 1.3 63.7 + - + +
253H TRP* 3.4 10.4 + - + +
254H LYS* 3.2 28.8 + - - +
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Residues in contact with LYS 251 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
249H SER 3.1 0.8 - - - -
250H PRO* 1.3 83.4 - - + +
252H VAL* 1.3 61.5 + - + +
254H LYS* 3.9 9.1 - - + +
255H GLU* 3.3 27.6 + - - +
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Residues in contact with VAL 252 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59H GLN* 6.3 0.2 - - - +
233H SER* 3.9 13.9 - - - -
236H GLN* 3.4 44.6 - - + +
237H LEU* 3.7 22.2 - - + -
249H SER* 2.8 30.0 + - - +
251H LYS* 1.3 80.9 - - + +
253H TRP* 1.3 63.5 + - - +
255H GLU* 3.5 10.3 - - - +
256H HIS* 3.0 23.4 + - - +
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Residues in contact with TRP 253 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114H GLU* 4.7 3.4 - - + -
115H PRO* 3.9 35.7 - - + -
118H ALA* 4.0 17.3 - - + -
237H LEU* 3.1 26.1 - - + +
241H PRO 5.8 0.2 - - - -
242H ARG* 3.7 42.6 - - + +
245H SER* 2.9 42.2 + - - -
246H ARG* 4.0 5.4 - - - +
249H SER 3.1 25.1 + - - -
250H PRO* 3.4 11.4 + - + +
252H VAL* 1.3 78.1 - - - +
254H LYS* 1.3 56.7 + - + +
256H HIS* 3.3 4.0 + + - +
257H PHE* 2.9 61.0 + + + +
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Residues in contact with LYS 254 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
250H PRO 3.2 16.6 + - - +
251H LYS* 3.9 9.4 - - + +
252H VAL 3.3 0.2 - - - -
253H TRP* 1.3 74.2 - - + +
255H GLU* 1.3 60.1 + - - +
257H PHE* 3.5 5.4 + - - +
258H GLU* 2.9 56.2 + - + +
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Residues in contact with GLU 255 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
229H VAL* 4.1 24.6 - - + +
232H LYS* 5.8 4.6 - - - +
233H SER* 4.4 6.9 - - - -
236H GLN* 4.6 6.9 + - - +
251H LYS 3.3 13.6 + - - +
252H VAL* 3.5 25.8 - - - +
254H LYS* 1.3 77.0 - - - +
256H HIS* 1.3 55.3 + - - +
258H GLU* 3.1 11.5 + - - +
259H ALA* 2.8 35.9 + - - +
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Residues in contact with HIS 256 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115H PRO* 3.5 32.2 - - + +
116H TRP* 3.8 6.7 - + - -
230H MET* 3.6 5.7 + - + +
233H SER* 2.7 28.7 + - - +
234H THR* 3.4 28.0 + - - -
237H LEU* 4.2 9.0 - - + -
252H VAL 3.0 15.3 + - - +
253H TRP* 3.5 4.9 - + - +
255H GLU* 1.3 79.6 - - - +
257H PHE* 1.3 75.0 + + - +
259H ALA* 3.4 5.2 + - - +
260H TRP* 3.0 70.4 + + - -
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Residues in contact with PHE 257 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115H PRO 4.1 4.0 - - - -
118H ALA* 3.5 22.9 - - + -
119H TYR* 3.7 36.5 - + + -
122H HIS* 3.8 39.5 - + + -
123H ARG* 5.4 7.6 - - - +
242H ARG* 4.8 6.1 - - - -
253H TRP* 2.9 51.6 + + + +
254H LYS* 4.0 5.4 - - - +
256H HIS* 1.3 84.1 - + - +
258H GLU* 1.3 60.3 + - + +
260H TRP 3.6 0.2 + - - -
261H ASP* 3.0 37.8 + - - +
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Residues in contact with GLU 258 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
254H LYS* 2.9 47.2 + - + +
255H GLU* 3.5 8.9 - - - +
257H PHE* 1.3 74.7 - - - +
259H ALA* 1.3 65.4 + - - +
261H ASP* 3.2 14.0 + - - +
262H CYS* 3.1 20.3 + - - +
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Residues in contact with ALA 259 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
226H ALA* 3.5 30.5 - - - +
229H VAL* 3.7 11.4 - - + -
230H MET* 3.7 18.2 - - + +
255H GLU 2.8 20.0 + - - +
256H HIS 3.7 4.0 - - - +
258H GLU* 1.3 73.6 - - - +
260H TRP* 1.3 63.0 + - - +
262H CYS* 3.1 7.5 + - - +
263H ILE* 3.0 25.0 + - - +
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Residues in contact with TRP 260 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116H TRP* 3.4 37.3 - + - +
119H TYR* 3.6 35.9 - + + -
120H ARG* 3.8 18.4 - - - -
230H MET* 3.4 33.8 - - + +
256H HIS* 3.0 60.7 + + - +
257H PHE 3.9 0.2 - - - +
259H ALA* 1.3 76.1 - - - +
261H ASP* 1.3 53.5 + - - +
263H ILE* 3.0 28.2 + - + -
264H PHE* 2.7 68.7 + + - -
309H MET* 5.0 1.3 - - + -
313H ALA* 4.7 8.3 - - + -
602H 1CA 5.0 4.0 - - - -
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Residues in contact with ASP 261 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119H TYR* 2.4 31.7 + - - -
123H ARG* 2.8 35.3 + - - -
257H PHE 3.0 24.2 + - - +
258H GLU* 3.2 14.8 + - - +
260H TRP* 1.3 75.1 - - - +
262H CYS* 1.3 57.9 + - - +
264H PHE* 3.3 1.1 + - - +
265H GLN* 2.8 31.2 + - - +
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Residues in contact with CYS 262 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222H ASN* 3.6 39.0 - - - -
223H PHE* 4.8 2.7 - - - -
226H ALA* 3.8 8.7 - - + -
258H GLU 3.1 7.8 + - - +
259H ALA* 3.1 10.3 + - - +
261H ASP* 1.3 75.7 - - - +
263H ILE* 1.3 65.8 + - - +
265H GLN* 3.3 16.5 + - - +
266H TYR* 3.0 24.6 + - - +
----------------------------------------------------------
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Residues in contact with ILE 263 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
223H PHE* 4.2 22.1 - - + -
226H ALA* 4.0 17.5 - - + +
227H LEU* 4.1 16.6 - - + +
230H MET* 4.0 24.2 - - + -
259H ALA 3.0 16.9 + - - +
260H TRP* 3.0 33.5 + - + +
262H CYS* 1.3 76.3 - - - +
264H PHE* 1.3 56.7 + - - +
266H TYR* 3.2 3.6 + - - +
267H GLY 2.9 25.5 + - - -
309H MET* 3.2 29.6 - - + +
313H ALA* 4.0 13.2 - - + -
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Residues in contact with PHE 264 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119H TYR* 3.6 24.7 - + - +
120H ARG* 3.8 28.3 - - - -
125H HIS* 3.4 42.8 - + + +
126H LYS 5.9 0.4 - - - -
260H TRP* 2.7 55.4 + + - +
261H ASP 3.9 2.5 - - - +
263H ILE* 1.3 70.0 - - - +
265H GLN* 1.3 60.0 + - - +
268H ASP* 2.8 36.9 + - + +
306H ALA* 6.2 2.0 - - - -
309H MET* 3.8 35.8 - - + +
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Residues in contact with GLN 265 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
261H ASP 2.8 21.0 + - - +
262H CYS* 3.5 17.9 + - - +
264H PHE* 1.3 73.1 - - - +
266H TYR* 1.3 62.7 + - - +
268H ASP* 3.9 3.2 - - - +
269H ASN* 3.0 29.2 + - + +
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Residues in contact with TYR 266 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197H ILE* 3.7 14.4 - - + +
201H ASN* 4.5 4.1 + - - -
209H LEU* 3.5 26.8 - - + +
219H ALA* 4.1 36.1 - - + -
220H SER* 4.7 3.7 - - - -
223H PHE* 3.8 48.2 - + + -
262H CYS* 3.0 17.2 + - - +
263H ILE 3.6 2.9 - - - +
265H GLN* 1.3 83.5 - - - +
267H GLY* 1.3 65.1 + - - +
269H ASN* 3.4 10.1 + - - +
270H CYS* 3.2 34.4 + - - -
312H THR* 4.0 13.5 - - + -
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Residues in contact with GLY 267 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205H PHE* 5.0 2.6 - - - -
263H ILE 2.9 13.9 + - - -
266H TYR* 1.3 81.8 - - - +
268H ASP* 1.3 60.8 + - - +
270H CYS* 3.5 7.0 + - - +
271H ILE* 3.2 20.8 + - - +
308H SER* 5.9 1.7 - - - -
309H MET* 3.8 23.3 - - - -
312H THR* 4.3 14.5 + - - -
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Residues in contact with ASP 268 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
264H PHE* 2.8 26.9 + - + +
265H GLN* 3.9 3.4 - - - +
267H GLY* 1.3 69.7 - - - +
269H ASN* 1.3 67.5 + - - +
271H ILE* 3.0 19.9 + - - +
272H GLN* 2.9 46.4 + - - +
305H LYS* 4.2 15.8 + - - +
309H MET* 4.5 1.4 - - - -
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Residues in contact with ASN 269 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
265H GLN 3.0 15.4 + - - +
266H TYR* 3.6 12.8 + - - +
268H ASP* 1.3 78.7 + - - +
270H CYS* 1.3 68.6 + - - +
272H GLN* 3.4 8.6 + - - +
273H LYS* 3.3 46.3 + - - +
496I LEU* 5.0 11.1 - - - +
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Residues in contact with CYS 270 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201H ASN* 3.5 25.4 - - - -
205H PHE* 3.7 30.3 - - + +
209H LEU* 6.1 2.2 - - - -
266H TYR* 3.2 37.5 + - - -
267H GLY* 3.6 10.5 - - - +
269H ASN* 1.3 84.4 - - - +
271H ILE* 1.3 61.5 + - - +
273H LYS* 3.5 16.0 + - - +
274H ILE* 3.3 20.6 + - - +
312H THR* 4.9 1.1 - - - -
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Residues in contact with ILE 271 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205H PHE* 3.9 6.5 - - + -
267H GLY 3.2 8.5 + - - +
268H ASP* 3.0 30.8 + - - +
270H CYS* 1.3 76.6 - - - +
272H GLN* 1.3 67.7 + - + +
273H LYS 3.3 0.2 + - - -
274H ILE* 3.3 9.6 - - + +
275H TYR* 2.8 35.4 + - + +
290H VAL* 3.5 22.0 - - + -
294H LEU* 4.6 9.2 - - + -
301H LEU* 5.6 2.9 - - + -
304H ILE* 4.9 4.0 - - + -
305H LYS* 4.3 31.4 - - + +
308H SER* 3.5 33.0 - - - +
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Residues in contact with GLN 272 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268H ASP* 2.9 43.6 + - - +
269H ASN* 3.4 7.5 + - - +
271H ILE* 1.3 73.9 - - + +
273H LYS* 1.3 57.1 + - - +
275H TYR* 3.8 4.9 - - - +
276H GLN* 2.9 33.7 + - - +
305H LYS* 6.1 2.2 - - - +
496I LEU* 3.2 29.4 - - + +
----------------------------------------------------------
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Residues in contact with LYS 273 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201H ASN* 5.5 1.2 - - - +
207H GLU* 3.0 45.1 + - + +
209H LEU* 4.6 13.3 - - - +
269H ASN* 3.3 42.4 + - - +
270H CYS* 3.6 13.7 - - - +
271H ILE 3.2 0.4 - - - -
272H GLN* 1.3 78.6 - - - +
274H ILE* 1.3 62.2 + - - +
276H GLN* 3.9 1.2 - - - +
277H GLU* 3.0 33.5 + - - +
184I LEU* 5.4 2.9 - - - +
185I THR* 3.7 44.1 + - + +
496I LEU* 4.9 4.7 - - + -
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Residues in contact with ILE 274 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205H PHE* 3.8 23.3 - - + +
270H CYS 3.3 11.3 + - - +
271H ILE* 3.3 22.0 - - + +
273H LYS* 1.3 76.0 - - - +
275H TYR* 1.3 62.5 + - - +
277H GLU* 4.2 1.6 - - - -
278H LEU* 2.9 43.0 + - + +
290H VAL* 4.6 1.6 - - + -
291H ALA* 3.8 28.0 - - + +
294H LEU* 3.9 14.6 - - + -
181I ARG* 3.2 47.1 - - - +
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Residues in contact with TYR 275 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
271H ILE* 2.8 22.3 + - + +
272H GLN* 3.8 6.3 - - - +
274H ILE* 1.3 78.8 - - + +
276H GLN* 1.3 58.8 + - - +
278H LEU* 3.8 4.0 - - + +
279H ALA* 2.9 32.4 + - + +
294H LEU* 3.9 28.9 - - + -
301H LEU* 3.8 39.1 - - + +
305H LYS* 6.3 0.7 - - - -
476I LEU* 3.8 24.9 - - + -
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Residues in contact with GLN 276 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
272H GLN 2.9 19.3 + - - +
273H LYS 3.9 2.7 - - - +
275H TYR* 1.3 76.1 - - - +
277H GLU* 1.3 62.8 + - - +
279H ALA* 3.0 16.6 + - - +
280H PHE* 3.3 16.0 + - + -
185I THR* 3.7 7.6 - - + +
474I GLU 3.3 12.5 + - - -
475I THR* 3.7 1.3 - - - -
476I LEU* 2.8 48.0 + - + +
477I THR* 4.4 2.3 + - - -
496I LEU* 2.7 36.5 + - + +
498I THR* 3.0 28.3 + - - +
----------------------------------------------------------
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Residues in contact with GLU 277 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207H GLU* 3.7 15.2 - - - +
273H LYS 3.0 20.9 + - - +
274H ILE* 3.8 2.9 - - - +
276H GLN* 1.3 75.1 - - - +
278H LEU* 1.3 63.6 + - - +
280H PHE* 3.0 4.2 + - - -
281H ASN 3.0 19.5 + - - +
181I ARG* 2.7 49.4 + - - +
183I SER* 4.1 23.8 - - - +
184I LEU 4.3 0.5 - - - -
185I THR* 2.5 34.9 + - - +
498I THR* 4.0 9.6 - - + +
500I ARG* 3.1 18.7 + - - +
----------------------------------------------------------
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Residues in contact with LEU 278 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
274H ILE* 2.9 25.9 + - + +
275H TYR* 4.0 4.3 - - + +
277H GLU* 1.3 73.1 - - - +
279H ALA* 1.3 63.1 + - - +
280H PHE 3.4 0.2 + - - -
281H ASN 3.4 14.7 + - - +
282H ARG* 3.8 12.1 - - - +
283H PRO* 3.4 32.5 - - + -
291H ALA* 3.9 25.6 - - + -
294H LEU* 3.8 36.1 - - + -
295H LEU* 4.1 19.1 - - + -
181I ARG* 3.8 17.5 - - - -
----------------------------------------------------------
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Residues in contact with ALA 279 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
275H TYR* 2.9 18.6 + - + +
276H GLN 3.0 15.2 + - - +
278H LEU* 1.3 79.5 - - - +
280H PHE* 1.3 59.4 + - - +
282H ARG* 5.8 0.3 - - - +
476I LEU* 3.8 32.5 - - + -
----------------------------------------------------------
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Residues in contact with PHE 280 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
276H GLN* 3.3 17.4 + - + +
277H GLU* 3.0 8.0 + - - +
279H ALA* 1.3 80.7 - - + +
281H ASN* 1.3 69.1 + - - +
331I ALA 5.7 3.1 - - - -
334I PRO* 6.2 4.0 - - + -
474I GLU* 3.6 45.1 - - + +
475I THR* 3.0 46.4 - - - -
476I LEU* 3.8 20.0 - - + -
478I GLN* 5.7 3.8 - - - -
498I THR* 6.1 0.4 - - - -
500I ARG* 4.3 0.6 + - - +
----------------------------------------------------------
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Residues in contact with ASN 281 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
277H GLU 3.0 5.7 + - - +
278H LEU* 3.4 21.1 + - - +
280H PHE* 1.3 84.3 + - - +
282H ARG* 1.3 68.5 + - - +
283H PRO* 3.3 17.5 - - - +
181I ARG* 5.3 1.4 - - - -
500I ARG* 3.7 34.0 + - - +
----------------------------------------------------------
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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