Contacts of the helix formed by residues 232 - 264 (chain M) in PDB entry 1C17
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 TRP 232 (chain M).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132M HIS* 6.3 0.2 - - - -
230M PRO* 4.4 1.8 - - - +
231M TRP* 1.3 87.6 - - + +
233M SER* 1.3 53.7 + - - +
234M GLN* 2.8 38.1 + - + +
235M TRP* 3.7 3.4 + - + +
236M ILE* 3.0 39.6 + - + +
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Residues in contact with SER 233 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132M HIS* 5.0 13.5 + - - -
134M LEU* 5.7 4.3 - - - +
227M GLY* 2.9 35.6 + - - -
230M PRO* 4.4 3.0 + - - -
231M TRP 3.1 9.4 + - - +
232M TRP* 1.3 72.8 - - - +
234M GLN* 1.3 66.4 + - - +
237M LEU* 2.5 35.6 - - - +
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Residues in contact with GLN 234 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126M LEU* 4.1 16.5 - - + +
129M ILE* 4.1 28.9 - - - +
132M HIS* 3.4 49.3 + - + +
232M TRP* 2.8 24.0 + - + +
233M SER* 1.3 85.8 - - - +
235M TRP* 1.3 63.9 + - + +
237M LEU* 4.1 0.2 - - - +
238M ASN* 3.3 16.6 + - - +
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Residues in contact with TRP 235 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123M ILE* 6.3 0.7 - - + -
126M LEU* 3.5 28.8 - - + +
232M TRP* 3.7 2.7 + - + +
234M GLN* 1.3 77.9 - - + +
236M ILE* 1.3 93.7 + - + +
238M ASN* 3.3 1.6 + - - +
239M VAL* 3.2 47.7 + - + +
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Residues in contact with ILE 236 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
226M ALA 5.4 0.2 - - - +
230M PRO* 3.2 32.8 - - + -
232M TRP* 3.0 36.5 + - + +
235M TRP* 1.3 104.6 - - + +
237M LEU* 1.3 50.2 + - - +
239M VAL* 4.4 2.3 - - - +
240M PRO* 2.6 40.4 - - + +
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Residues in contact with LEU 237 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138M ALA* 6.2 3.6 - - + -
223M ILE* 3.2 25.8 - - + +
224M LEU* 5.5 0.2 - - - -
226M ALA* 3.4 15.1 - - + +
227M GLY* 3.0 38.6 - - - +
233M SER* 2.5 34.4 + - - +
236M ILE* 1.3 78.8 - - - +
238M ASN* 1.3 57.9 + - - +
240M PRO* 3.1 1.2 - - - +
241M TRP* 3.0 49.9 + - + +
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Residues in contact with ASN 238 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122M PRO 4.1 9.7 - - - +
123M ILE* 3.2 39.6 + - - +
126M LEU* 3.5 31.9 - - + +
234M GLN 3.3 15.4 + - - +
235M TRP* 3.3 1.7 + - - +
237M LEU* 1.3 78.8 - - - +
239M VAL* 1.3 67.5 + - - +
241M TRP* 3.6 27.8 - - + -
242M ALA* 3.0 33.2 + - - +
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Residues in contact with VAL 239 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123M ILE* 6.1 2.9 - - + -
235M TRP* 3.2 51.1 + - + +
236M ILE* 4.4 1.8 - - - +
238M ASN* 1.3 75.4 - - + +
240M PRO* 1.3 69.3 - - + +
242M ALA* 4.3 2.0 - - - +
243M ILE* 2.9 29.9 + - + +
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Residues in contact with PRO 240 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
226M ALA* 4.9 8.7 - - + -
236M ILE* 2.6 34.1 - - + +
237M LEU* 3.1 10.8 - - - +
239M VAL* 1.3 89.4 - - + +
241M TRP* 1.3 63.6 + - - +
243M ILE* 3.5 7.6 - - + -
244M PHE* 2.8 44.4 + - + -
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Residues in contact with TRP 241 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122M PRO* 3.6 31.2 - - + -
141M VAL* 4.4 16.4 - - + -
145M ALA* 5.0 2.0 - - + -
219M GLU* 2.7 51.9 + - - +
222M PHE* 3.9 10.3 - - + +
223M ILE* 3.3 39.2 - - + +
226M ALA* 4.0 9.1 - - + +
237M LEU* 3.0 34.2 + - + +
238M ASN* 3.6 30.5 - - + -
240M PRO* 1.3 78.4 - - - +
242M ALA* 1.3 69.2 + - + +
244M PHE* 4.1 3.3 - - - +
245M HIS* 3.2 22.0 + - + +
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Residues in contact with ALA 242 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119M ASP* 3.0 38.7 - - + +
122M PRO* 5.5 2.5 - - + -
123M ILE* 5.3 8.5 - - + -
238M ASN* 3.0 32.2 + - - +
239M VAL* 4.3 2.2 - - - +
241M TRP* 1.3 87.1 - - + +
243M ILE* 1.3 62.4 + - - +
245M HIS* 4.1 1.5 - - - +
246M ILE* 3.3 8.9 + - - +
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Residues in contact with ILE 243 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
239M VAL* 2.9 27.6 + - + +
240M PRO* 3.1 20.2 - - + +
242M ALA* 1.3 79.3 - - - +
244M PHE* 1.3 74.7 + - + +
246M ILE* 2.7 32.9 - - + +
247M LEU* 3.2 13.7 + - + +
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Residues in contact with PHE 244 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74K VAL* 4.6 21.3 - - + -
78K VAL* 6.1 6.5 - - + -
222M PHE* 3.2 37.9 - + + -
240M PRO* 2.8 41.0 + - + +
241M TRP* 4.1 1.3 - - - +
243M ILE* 1.3 91.3 - - + +
245M HIS* 1.3 63.1 + - - +
247M LEU* 3.3 7.1 + - - +
248M ILE* 3.3 27.2 + - - +
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Residues in contact with HIS 245 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118M MET* 3.8 28.3 - - + +
119M ASP* 3.8 22.2 + - - +
215M MET* 3.0 47.0 + - + +
218M GLY 5.3 1.3 - - - +
219M GLU* 3.6 38.2 + - + +
222M PHE* 4.6 3.0 - - + -
241M TRP* 3.2 17.9 + - + +
242M ALA* 4.1 4.0 - - - +
243M ILE 3.4 0.2 - - - -
244M PHE* 1.3 78.0 - - - +
246M ILE* 1.3 59.8 + - - +
248M ILE* 2.8 32.1 - - - +
249M ILE* 3.3 17.2 + - + +
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Residues in contact with ILE 246 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115M MET 4.5 0.2 - - - +
116M ASN* 3.4 31.4 - - - +
119M ASP* 3.1 30.0 + - + +
242M ALA 3.3 9.2 + - - +
243M ILE* 2.7 41.7 - - + +
245M HIS* 1.3 79.7 - - - +
247M LEU* 1.3 56.6 + - - +
249M ILE* 2.9 33.8 - - + +
250M THR* 2.6 32.9 + - - +
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Residues in contact with LEU 247 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243M ILE* 3.2 18.1 + - + +
244M PHE* 3.7 7.4 - - - +
245M HIS 3.3 0.2 - - - -
246M ILE* 1.3 84.6 - - + +
248M ILE* 1.3 72.2 + - + +
250M THR* 3.3 12.2 + - + -
251M LEU* 3.1 31.7 + - + +
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Residues in contact with ILE 248 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67K ALA* 6.4 2.0 - - + -
214M ASN* 4.2 15.9 - - + +
215M MET* 4.4 3.4 - - - +
218M GLY* 3.9 23.8 - - - -
222M PHE* 4.5 19.1 - - + -
244M PHE 3.3 10.3 + - - +
245M HIS* 2.8 46.7 - - - +
247M LEU* 1.3 86.0 - - + +
249M ILE* 1.3 69.6 + - + +
251M LEU* 3.2 15.6 + - - +
252M GLN* 3.3 18.2 + - - +
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Residues in contact with ILE 249 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112M VAL* 6.5 0.7 - - + -
115M MET* 3.5 37.9 - - + +
119M ASP* 5.0 3.1 - - - +
211M LEU* 4.9 1.5 - - - +
215M MET* 3.1 46.9 - - + -
245M HIS* 3.4 24.5 - - + +
246M ILE* 2.9 39.3 - - + +
248M ILE* 1.3 76.0 - - + +
250M THR* 1.3 90.3 + - - +
252M GLN* 3.3 9.5 + - - +
253M ALA* 3.0 21.7 + - - +
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Residues in contact with THR 250 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112M VAL* 6.5 1.1 - - + -
116M ASN* 5.4 0.2 + - - -
246M ILE* 2.6 30.3 + - - +
247M LEU* 3.5 13.4 - - + -
249M ILE* 1.3 93.3 - - - +
251M LEU* 1.3 58.1 + - - +
253M ALA* 3.2 7.5 + - + +
254M PHE* 2.8 32.9 + - + +
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Residues in contact with LEU 251 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63K ILE* 4.9 16.8 - - + -
67K ALA* 5.3 13.0 - - + -
247M LEU* 3.1 24.7 + - + +
248M ILE* 3.2 11.2 + - - +
250M THR* 1.3 76.9 - - - +
252M GLN* 1.3 80.7 + - - +
254M PHE* 3.2 15.7 + - + +
255M ILE* 3.2 26.0 + - + +
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Residues in contact with GLN 252 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60K VAL* 5.7 7.8 - - - +
63K ILE* 5.4 4.4 - - - +
64K PRO* 5.7 7.7 - - - +
207M LEU* 5.5 3.6 - - - +
210M ARG* 4.1 14.7 - - + +
211M LEU* 3.2 36.8 - - + +
214M ASN* 3.1 33.2 - - + +
248M ILE 3.3 13.8 + - - +
249M ILE* 3.8 4.3 - - - +
250M THR 3.3 0.4 - - - -
251M LEU* 1.3 93.8 - - - +
253M ALA* 1.3 63.1 + - - +
255M ILE* 3.2 19.7 + - - +
256M PHE* 3.2 11.4 + - - +
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Residues in contact with ALA 253 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111M TRP* 6.2 0.2 - - + -
112M VAL* 5.7 9.6 - - + -
115M MET* 4.3 20.4 - - + -
211M LEU* 4.7 6.6 - - + +
249M ILE 3.0 14.3 + - - +
250M THR* 3.2 12.5 + - + +
252M GLN* 1.3 77.8 - - - +
254M PHE* 1.3 61.9 + - - +
256M PHE* 3.0 12.0 + - + +
257M MET* 3.0 28.2 + - + +
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Residues in contact with PHE 254 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
250M THR* 2.8 20.6 + - + +
251M LEU* 3.2 13.7 + - + +
253M ALA* 1.3 73.2 - - - +
255M ILE* 1.3 73.4 + - + +
257M MET* 3.2 18.7 + - + +
258M VAL* 3.2 33.1 + - + +
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Residues in contact with ILE 255 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56K VAL* 6.0 3.4 - - + -
60K VAL* 5.1 24.5 - - + -
63K ILE* 6.2 2.9 - - + -
207M LEU* 4.9 11.7 - - + -
251M LEU* 3.3 30.7 - - + +
252M GLN* 3.2 12.3 + - - +
254M PHE* 1.3 84.3 - - + +
256M PHE* 1.3 60.7 + - - +
258M VAL* 2.7 32.2 - - + +
259M LEU* 3.2 9.2 + - + +
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Residues in contact with PHE 256 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108M ILE* 5.2 16.8 - - + -
111M TRP* 6.1 9.6 - + - -
203M LYS* 6.1 0.9 - - + -
204M PRO* 3.6 48.0 - - + -
207M LEU* 3.7 38.8 - - + +
208M GLY* 5.4 0.9 - - - -
211M LEU* 5.4 8.5 - - + -
252M GLN 3.2 7.6 + - - +
253M ALA* 3.0 14.0 + - + +
255M ILE* 1.3 80.7 - - - +
257M MET* 1.3 68.4 + - - +
259M LEU* 3.3 8.0 + - + +
260M THR* 3.2 31.8 + - + +
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Residues in contact with MET 257 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108M ILE* 4.3 36.6 - - + +
109M PHE* 6.1 2.0 - - + -
112M VAL* 6.5 1.1 - - - -
253M ALA* 3.0 18.5 + - + +
254M PHE* 3.2 12.5 + - + +
256M PHE* 1.3 84.5 - - - +
258M VAL* 1.3 60.8 + - + +
260M THR* 2.7 34.0 - - + +
261M ILE* 3.2 17.6 + - + +
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Residues in contact with VAL 258 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
254M PHE* 3.2 34.3 + - + +
255M ILE* 2.7 41.3 - - + +
257M MET* 1.3 76.3 - - + +
259M LEU* 1.3 60.4 + - + +
261M ILE* 2.7 36.2 - - + +
262M VAL* 3.2 10.3 + - - +
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Residues in contact with LEU 259 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49K LEU* 6.2 3.6 - - + -
52K GLN* 5.9 2.5 - - - +
53K PHE* 5.2 19.1 - - + -
203M LYS* 4.7 24.2 - - + -
207M LEU* 4.1 29.8 - - + -
255M ILE* 3.2 10.2 + - + +
256M PHE* 3.6 14.1 - - + +
257M MET 3.3 0.2 - - - -
258M VAL* 1.3 83.7 - - + +
260M THR* 1.3 64.0 + - - +
262M VAL* 2.7 30.1 - - + +
263M TYR* 3.2 13.1 + - + +
----------------------------------------------------------
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Residues in contact with THR 260 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108M ILE* 5.9 8.9 - - + +
256M PHE* 3.2 22.0 + - + +
257M MET* 2.7 45.5 - - + +
259M LEU* 1.3 84.8 - - - +
261M ILE* 1.3 65.8 + - + +
263M TYR* 3.3 7.5 + - - +
264M LEU* 3.3 21.5 + - - +
----------------------------------------------------------
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Residues in contact with ILE 261 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257M MET* 3.4 15.3 - - + +
258M VAL* 2.7 43.3 - - + +
260M THR* 1.3 81.5 - - + +
262M VAL* 1.3 58.0 + - + +
264M LEU* 2.7 32.5 + - - +
265M SER* 4.2 0.7 + - - -
----------------------------------------------------------
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Residues in contact with VAL 262 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49K LEU* 6.6 0.2 - - + -
52K GLN* 4.5 28.9 - - - +
258M VAL 3.4 7.6 - - - +
259M LEU* 2.7 39.9 - - + +
261M ILE* 1.3 82.5 - - + +
263M TYR* 1.3 63.5 + - - +
265M SER* 3.1 17.5 + - - -
----------------------------------------------------------
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Residues in contact with TYR 263 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49K LEU* 4.3 25.8 - - + -
50L ARG* 5.4 2.4 + - - -
199M SER 5.6 0.2 - - - -
200M LEU* 3.4 36.7 - - + +
203M LYS* 4.2 35.5 + - + -
259M LEU* 3.2 14.3 + - + +
260M THR* 3.5 11.9 - - - +
261M ILE 3.2 0.2 - - - -
262M VAL* 1.3 84.9 - - + +
264M LEU* 1.3 65.7 + - + +
265M SER* 3.4 4.7 + - - -
----------------------------------------------------------
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Residues in contact with LEU 264 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101M ILE* 4.5 21.5 - - + -
260M THR 3.3 11.9 + - - +
261M ILE* 2.7 24.2 + - - +
263M TYR* 1.3 78.8 - - + +
265M SER* 1.3 73.4 + - - +
----------------------------------------------------------
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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