Contacts of the helix formed by residues 197 - 224 (chain M) in PDB entry 2I5N
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 CYS 197 (chain M).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
702L LDA 3.4 5.9 - - - +
194M PHE* 3.1 19.1 + - + +
196M TYR* 1.3 76.1 - - - +
198M PRO* 1.3 68.4 - - - +
199M TRP* 3.2 13.7 - - - -
200M HIS* 3.1 29.4 + - + +
201M GLY 3.2 8.7 + - - -
281M GLY* 4.2 10.3 - - - -
285M THR* 4.6 1.1 - - - -
292M TRP* 3.7 45.2 - - + +
401M BCB 4.3 6.5 - - - -
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Residues in contact with PRO 198 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17H TRP* 3.6 28.3 - - + -
702L LDA 3.7 24.7 - - + -
196M TYR 3.4 9.4 - - - +
197M CYS* 1.3 82.9 - - - +
199M TRP* 1.3 72.8 + - + +
201M GLY 3.2 1.6 + - - -
202M PHE* 2.8 32.7 + - + -
292M TRP* 3.6 20.0 - - + -
295M TRP* 3.5 25.1 - - + -
715M UNL 3.4 4.4 - - + +
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Residues in contact with TRP 199 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13H ALA* 3.3 24.0 - - + -
16H VAL* 3.5 12.3 - - + +
17H TRP* 3.4 32.5 - - + -
20H GLN* 3.1 39.7 + - - +
197M CYS* 3.2 2.8 - - - -
198M PRO* 1.3 91.9 - - + +
200M HIS* 1.3 59.5 + - - +
202M PHE* 3.8 11.3 - + - +
203M SER* 3.0 28.6 + - - -
277M SER* 3.3 20.8 - - - +
280M VAL* 3.4 22.0 - - + +
281M GLY* 3.4 19.1 - - - -
284M LEU* 3.6 20.9 - - + -
292M TRP* 3.7 23.1 - + - -
295M TRP* 4.7 1.3 - + - -
401M BCB 4.4 2.2 - - - +
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Residues in contact with HIS 200 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
401L BCB 4.6 1.2 + - - -
194M PHE* 3.1 30.0 + + + +
195M TYR* 4.1 8.6 + + - -
197M CYS* 3.1 22.2 + - + +
199M TRP* 1.3 76.6 - - - +
201M GLY* 1.3 56.7 + - - +
203M SER* 3.3 2.4 + - - -
204M ILE* 2.9 50.9 + - + +
401M BCB 2.1 108.0 + + + -
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Residues in contact with GLY 201 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
701H LDA 4.9 1.2 - - - +
401L BCB 3.3 39.1 + - - +
702L LDA 3.6 8.2 - - - +
197M CYS 3.2 7.5 + - - -
198M PRO 3.2 4.9 + - - -
200M HIS* 1.3 78.4 - - - +
202M PHE* 1.3 55.6 + - - +
204M ILE* 3.4 1.7 + - - +
205M GLY* 2.9 26.9 + - - -
715M UNL 4.0 3.4 - - - +
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Residues in contact with PHE 202 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17H TRP* 4.1 19.5 - + - -
20H GLN* 3.5 31.4 - - + -
21H TRP* 3.4 49.6 - + - -
24H ILE* 3.5 28.0 - - + -
701H LDA 4.3 12.5 - - + +
198M PRO* 2.8 32.1 + - + +
199M TRP* 3.8 13.2 - + - +
200M HIS 3.4 0.2 - - - -
201M GLY* 1.3 69.7 - - - +
203M SER* 1.3 63.1 + - - +
205M GLY* 3.2 1.7 + - - -
206M PHE* 2.9 31.6 + + + -
277M SER* 3.6 18.6 - - - +
715M UNL 3.8 7.1 - - + +
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Residues in contact with SER 203 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199M TRP 3.0 18.7 + - - -
200M HIS 3.7 3.6 - - - -
202M PHE* 1.3 75.1 - - - +
204M ILE* 1.3 57.1 + - - +
206M PHE* 3.4 2.4 + - - +
207M ALA* 2.8 28.9 + - - +
274M VAL* 2.8 32.1 + - - +
277M SER* 3.6 7.4 - - - -
278M ALA* 3.7 4.4 - - - +
401M BCB 3.4 38.6 - - - +
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Residues in contact with ILE 204 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
401L BCB 3.1 39.3 - - + +
200M HIS* 2.9 48.8 + - + +
201M GLY 3.7 3.4 - - - +
203M SER* 1.3 72.3 - - - +
205M GLY* 1.3 59.9 + - - +
207M ALA* 4.2 2.0 - - - -
208M TYR* 2.8 65.1 + - + +
401M BCB 3.3 41.3 - - + -
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Residues in contact with GLY 205 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
701H LDA 4.1 13.7 - - - -
401L BCB 3.3 39.6 - - - +
201M GLY 2.9 18.5 + - - -
202M PHE 3.7 3.1 - - - -
204M ILE* 1.3 72.4 - - - +
206M PHE* 1.3 55.7 + - - +
209M GLY* 2.8 25.8 + - - -
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Residues in contact with PHE 206 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24H ILE* 4.0 32.1 - - + -
701H LDA 3.9 31.0 - - + -
202M PHE* 2.9 29.6 + + - +
203M SER 3.8 3.1 - - - +
205M GLY* 1.3 74.6 - - - +
207M ALA* 1.3 58.9 + - - +
209M GLY 3.3 0.7 + - - -
210M CYS* 2.8 32.4 + - - -
269M PHE* 4.3 7.0 - + - -
270M PHE* 3.6 47.3 - + - +
273M MET* 3.5 37.7 - - + -
274M VAL* 3.7 9.6 - - + +
277M SER* 3.8 14.8 - - - -
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Residues in contact with ALA 207 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180L LEU* 3.8 30.4 - - + +
181L PHE* 6.3 0.4 - - + -
183L ASN* 5.2 0.2 - - - +
184L ALA* 5.1 6.1 - - + +
203M SER 2.8 20.8 + - - +
204M ILE* 3.1 4.4 + - - +
206M PHE* 1.3 69.6 - - - +
208M TYR* 1.3 65.7 + - + +
210M CYS* 3.2 14.9 + - - +
211M GLY 3.2 8.8 + - - -
274M VAL* 3.6 16.1 - - + +
401M BCB 3.9 19.3 - - + -
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Residues in contact with TYR 208 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180L LEU* 4.0 18.6 - - + -
240L ILE* 6.2 0.2 - - + -
241L PHE* 5.6 4.3 - + - -
400L BCB 3.5 30.1 - - + +
401L BCB 3.4 46.7 - + + +
402L BPB 3.4 45.8 - - + +
204M ILE* 2.8 39.1 + - + +
207M ALA* 1.3 72.9 - - + +
209M GLY* 1.3 58.6 + - - +
211M GLY* 3.1 4.0 + - - +
212M LEU* 3.0 25.3 + - - +
401M BCB 3.2 42.8 - - + +
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Residues in contact with GLY 209 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
401L BCB 3.6 12.7 - - - -
205M GLY 2.8 20.7 + - - -
206M PHE 3.6 2.5 - - - -
207M ALA 3.2 0.2 - - - -
208M TYR* 1.3 77.1 - - - +
210M CYS* 1.3 54.6 + - - +
212M LEU* 3.6 5.8 - - - +
213M LEU* 2.9 34.8 + - - +
270M PHE* 3.8 19.7 - - - -
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Residues in contact with CYS 210 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183L ASN* 3.0 10.9 - - - +
184L ALA* 3.9 29.6 - - + -
187L LEU* 3.7 23.6 - - + +
206M PHE 2.8 21.1 + - - -
207M ALA 3.2 9.4 + - - +
209M GLY* 1.3 71.8 - - - +
211M GLY* 1.3 59.9 + - - +
213M LEU* 4.6 0.2 - - - -
214M PHE* 2.9 27.4 + - - +
270M PHE* 3.7 4.3 - - - -
271M SER* 3.5 37.2 - - - -
274M VAL* 4.1 2.0 - - - -
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Residues in contact with GLY 211 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183L ASN* 3.4 12.9 + - - -
237L ALA* 3.4 10.4 - - - +
240L ILE* 4.2 9.4 - - - -
402L BPB 3.8 15.9 - - - +
207M ALA 3.2 5.6 + - - -
208M TYR* 3.1 8.4 + - - -
210M CYS* 1.3 78.1 - - - +
212M LEU* 1.3 61.1 + - - +
215M ALA* 3.0 28.1 + - - +
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Residues in contact with LEU 212 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
401L BCB 3.9 28.3 - - + -
402L BPB 3.5 91.6 - - + +
501L MQ9 4.1 19.7 - - + -
208M TYR 3.0 11.9 + - - +
209M GLY* 3.6 9.2 - - - +
211M GLY* 1.3 75.1 - - - +
213M LEU* 1.3 58.0 + - + +
215M ALA* 3.7 1.7 - - - +
216M ALA* 2.8 39.9 + - + +
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Residues in contact with LEU 213 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187L LEU* 4.1 13.2 - - + -
501L MQ9 3.9 55.6 - - + -
209M GLY 2.9 17.6 + - - +
212M LEU* 1.3 74.9 - - + +
214M PHE* 1.3 56.8 + - - +
216M ALA* 3.8 3.0 - - + +
217M HIS* 2.7 33.7 + - - +
263M VAL* 5.1 5.8 - - + -
266M TRP* 4.0 23.1 - - + +
267M GLY* 4.2 4.9 - - - +
270M PHE* 3.7 44.4 - - + -
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Residues in contact with PHE 214 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183L ASN* 3.4 30.3 - - - +
186L ALA* 3.7 13.9 - - + -
187L LEU* 3.5 45.9 - - + +
190L HIS* 4.1 33.2 - + + -
229L ILE* 3.8 20.6 - - + -
230L HIS* 4.8 6.3 - - - -
233L GLY* 3.7 27.1 - - - +
234L LEU 4.1 3.5 + - - -
210M CYS 2.9 14.4 + - - +
213M LEU* 1.3 71.8 - - - +
215M ALA* 1.3 61.7 + - - +
217M HIS* 4.6 8.1 - + - -
218M GLY* 2.8 32.3 + - - -
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Residues in contact with ALA 215 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120L ALA* 4.3 2.8 - - + +
234L LEU* 3.6 22.0 - - + +
237L ALA* 3.8 15.2 - - + +
238L SER* 5.2 1.6 - - - +
402L BPB 4.0 29.4 - - + -
211M GLY 3.0 20.1 + - - +
212M LEU 3.7 2.7 - - - +
214M PHE* 1.3 76.0 - - - +
216M ALA* 1.3 55.1 + - - +
219M ALA* 3.0 32.7 + - - +
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Residues in contact with ALA 216 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117L VAL* 4.1 2.0 - - - +
402L BPB 4.2 12.1 - - + +
501L MQ9 4.1 7.4 - - + -
212M LEU* 2.8 32.3 + - + +
213M LEU* 3.8 6.1 - - + +
215M ALA* 1.3 73.5 - - - +
217M HIS* 1.3 52.3 + - - +
219M ALA* 3.8 3.2 - - - +
220M THR* 2.6 37.7 + - - -
250M TRP* 3.8 27.4 - - + -
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Residues in contact with HIS 217 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187L LEU* 5.5 5.2 - - + -
190L HIS* 4.0 11.7 - + - -
230L HIS* 3.1 15.7 + + - -
500L FE2 2.1 32.3 - - - -
501L MQ9 2.8 33.0 + - + +
213M LEU* 2.7 22.6 + - + +
214M PHE* 4.5 8.3 - + - +
216M ALA* 1.3 70.0 - - - +
218M GLY* 1.3 64.5 + - - +
220M THR* 3.6 0.3 - - - -
221M ILE* 3.0 38.1 + - + +
232M GLU* 3.0 11.4 + - - -
260M ILE* 4.1 1.1 - - + -
263M VAL* 3.7 19.3 - - + +
264M HIS* 3.0 16.5 + + - -
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Residues in contact with GLY 218 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230L HIS* 3.4 37.2 - - - +
234L LEU* 4.6 3.1 - - - -
214M PHE* 2.8 25.1 + - - -
217M HIS* 1.3 74.2 - - - +
219M ALA* 1.3 59.4 + - - +
221M ILE* 3.4 0.9 + - - -
222M LEU* 3.0 28.8 + - - +
----------------------------------------------------------
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Residues in contact with ALA 219 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116L HIS* 3.5 39.2 - - + +
117L VAL* 3.7 12.6 - - + +
120L ALA* 4.1 7.9 - - + -
234L LEU* 4.1 12.0 - - + +
215M ALA 3.0 20.6 + - - +
216M ALA* 3.9 0.7 - - - +
218M GLY* 1.3 72.9 - - - +
220M THR* 1.3 59.1 + - - +
222M LEU* 3.4 1.9 + - - -
223M ALA* 2.8 30.3 + - - +
----------------------------------------------------------
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Residues in contact with THR 220 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113L ILE* 6.4 1.1 - - + -
117L VAL* 3.6 12.6 - - + +
501L MQ9 3.6 21.7 + - + +
216M ALA 2.6 29.6 + - - -
217M HIS 3.3 5.1 + - - -
219M ALA* 1.3 72.2 - - - +
221M ILE* 1.3 63.7 + - + +
223M ALA* 3.2 7.9 + - + +
224M VAL* 3.1 22.2 + - + +
246M ALA* 3.5 33.9 - - + -
249M PHE* 6.0 1.3 - - + -
250M TRP* 3.0 24.6 + - + +
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Residues in contact with ILE 221 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
227L LEU* 4.8 2.9 - - + -
230L HIS* 3.5 36.3 - - + +
501L MQ9 4.7 7.4 - - + -
217M HIS* 3.0 37.7 + - + +
218M GLY 4.0 0.2 - - - +
220M THR* 1.3 75.9 - - + +
222M LEU* 1.3 62.7 + - - +
224M VAL* 3.1 14.9 + - + +
225M ALA* 3.0 21.0 + - - +
229M GLY* 4.0 9.0 - - - +
230M ASP* 3.8 28.9 - - + +
232M GLU* 3.7 3.1 - - - +
243M VAL* 5.4 1.3 - - + -
246M ALA* 5.6 0.2 - - + -
260M ILE* 3.7 29.2 - - + -
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Residues in contact with LEU 222 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116L HIS* 3.7 26.7 - - + +
227L LEU* 3.7 26.5 - - + +
230L HIS* 4.7 1.3 - - + -
231L ARG* 4.1 33.0 - - + +
234L LEU* 3.9 27.1 - - + -
2M ASP* 4.6 1.7 - - - +
5M THR* 3.3 46.9 - - + +
218M GLY 3.0 18.9 + - - +
219M ALA 3.8 2.2 - - - +
221M ILE* 1.3 74.2 - - - +
223M ALA* 1.3 62.2 + - - +
225M ALA* 3.2 12.3 + - - +
----------------------------------------------------------
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Residues in contact with ALA 223 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113L ILE* 3.4 21.4 - - + +
114L GLY* 3.0 43.7 + - - +
116L HIS* 3.5 15.8 + - + +
117L VAL* 5.2 4.3 - - + -
219M ALA 2.8 18.8 + - - +
220M THR* 3.2 9.8 + - - +
222M LEU* 1.3 76.0 - - - +
224M VAL* 1.3 59.3 + - + +
225M ALA 3.6 0.2 - - - -
226M ARG* 5.1 4.9 + - - +
227M PHE* 4.4 2.6 - - - -
----------------------------------------------------------
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Residues in contact with VAL 224 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113L ILE* 3.8 25.4 - - + -
220M THR* 3.1 17.4 + - + +
221M ILE* 3.1 17.7 + - + +
223M ALA* 1.3 78.7 - - - +
225M ALA* 1.3 64.2 + - - +
226M ARG 3.2 2.7 - - - -
227M PHE* 3.1 25.3 + - + +
228M GLY 3.5 0.2 + - - -
229M GLY* 3.1 27.5 + - - -
242M ALA* 3.4 29.2 - - + +
243M VAL* 5.6 0.4 - - + -
245M ARG* 4.4 0.7 - - + -
246M ALA* 4.3 15.0 - - + +
----------------------------------------------------------
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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