Contacts of the helix formed by residues 240 - 278 (chain R) in PDB entry 6CMO
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 240 (chain R).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
318A GLU* 2.9 25.8 + - - -
320A TYR* 4.6 2.2 - - - -
345A LYS* 3.5 21.4 + - - -
237R GLN* 2.8 31.6 + - - +
239R GLU* 1.3 73.1 + - - +
241R ALA* 1.3 61.1 + - - +
242R THR* 3.4 11.6 + - - -
243R THR* 3.3 19.1 + - - -
244R GLN* 2.8 17.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 241 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
318A GLU* 3.9 5.3 + - - -
239R GLU 3.4 5.4 + - - +
240R SER* 1.3 69.8 + - - +
242R THR* 1.3 60.7 + - - +
243R THR 3.2 0.3 + - - -
244R GLN* 3.3 24.2 + - - +
245R LYS* 3.0 43.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 242 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315A ASP 3.8 18.7 + - - +
316A THR* 5.7 4.4 - - - +
318A GLU* 4.7 4.0 + - - +
345A LYS* 4.5 20.8 + - + +
354A PHE* 3.6 28.6 - - + -
240R SER* 3.2 11.6 + - - -
241R ALA* 1.3 78.0 - - - +
243R THR* 1.3 56.7 + - - +
245R LYS* 3.5 9.4 + - + +
246R ALA* 2.9 27.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 243 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
341A ASP* 4.1 13.6 + - - +
345A LYS* 4.1 12.8 - - - +
230R VAL* 5.2 3.7 - - + +
233R ALA* 4.6 2.7 - - + +
234R ALA* 3.7 33.7 - - + +
237R GLN* 3.5 12.4 + - + +
240R SER* 3.3 27.2 + - - -
241R ALA 3.1 0.6 - - - -
242R THR* 1.3 78.3 - - - +
244R GLN* 1.3 58.7 + - - +
246R ALA* 3.1 9.1 + - + +
247R GLU* 2.9 26.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 244 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234R ALA* 5.2 4.3 - - + +
238R GLN* 5.6 4.5 - - - -
239R GLU 5.3 2.3 + - - -
240R SER 2.8 19.3 + - - +
241R ALA* 3.3 30.4 - - - +
243R THR* 1.3 74.9 - - - +
245R LYS* 1.3 69.7 + - - +
247R GLU* 3.4 19.7 - - + +
248R LYS* 2.9 29.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 245 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
354A PHE* 4.0 12.6 - - + -
241R ALA* 3.0 33.9 + - + +
242R THR* 3.6 11.9 - - - +
244R GLN* 1.3 86.9 - - + +
246R ALA* 1.3 57.1 + - - +
248R LYS* 3.5 7.5 + - + +
249R GLU* 3.0 29.1 + - - +
252R ARG* 5.8 0.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 246 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
345A LYS* 6.5 0.7 - - + -
348A LEU* 4.4 21.8 - - + -
354A PHE* 3.6 26.1 - - + +
230R VAL* 4.7 3.8 - - + -
242R THR* 2.9 15.4 + - + +
243R THR* 3.1 13.0 + - + +
245R LYS* 1.3 74.1 - - - +
247R GLU* 1.3 60.9 + - - +
249R GLU* 3.2 1.9 + - - +
250R VAL* 2.9 32.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 247 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230R VAL* 3.9 23.9 - - + +
231R LYS* 5.1 18.0 + - + +
234R ALA* 4.6 10.8 - - + -
243R THR 2.9 10.0 + - - +
244R GLN* 3.4 26.8 - - + +
246R ALA* 1.3 75.8 - - - +
248R LYS* 1.3 64.6 + - - +
250R VAL* 3.5 9.5 - - + +
251R THR* 2.3 49.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 248 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
244R GLN 2.9 19.4 + - - +
245R LYS* 3.6 9.6 - - + +
247R GLU* 1.3 86.0 - - - +
249R GLU* 1.3 58.0 + - - +
251R THR* 3.3 6.6 + - + +
252R ARG* 3.0 72.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 249 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
353A LEU 3.5 25.7 - - - +
354A PHE* 4.3 20.4 - - + +
245R LYS 3.0 17.6 + - - +
246R ALA 3.2 4.2 + - - +
248R LYS* 1.3 76.3 - - - +
250R VAL* 1.3 57.9 + - - +
252R ARG* 3.1 29.6 + - - +
253R MET* 3.0 47.2 + - + +
309R MET 5.7 0.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 250 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
348A LEU* 5.7 9.0 - - + -
353A LEU* 4.3 16.2 - - + -
226R LEU* 3.9 20.9 - - + -
227R VAL* 4.4 9.4 - - + +
230R VAL* 4.0 22.4 - - + -
246R ALA 2.9 20.2 + - - +
247R GLU* 3.5 14.4 - - - +
249R GLU* 1.3 78.0 - - - +
251R THR* 1.3 62.8 + - - +
253R MET* 3.6 8.7 - - + -
254R VAL* 2.9 51.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 251 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
227R VAL* 4.8 15.9 - - + +
247R GLU* 2.3 38.5 + - - +
248R LYS* 3.6 10.1 - - + +
249R GLU 3.2 0.2 - - - -
250R VAL* 1.3 80.5 - - - +
252R ARG* 1.3 65.4 + - + +
254R VAL* 4.0 1.2 - - - +
255R ILE* 3.0 43.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 252 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
245R LYS 5.8 0.2 + - - -
248R LYS* 3.0 54.5 + - + +
249R GLU* 3.1 31.4 + - - +
251R THR* 1.3 76.6 - - + +
253R MET* 1.3 59.6 + - + +
255R ILE* 3.3 14.8 - - + +
256R ILE* 3.0 35.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 253 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
353A LEU* 3.6 54.1 - - + +
249R GLU* 3.0 32.3 + - + +
250R VAL* 3.6 14.6 - - - +
252R ARG* 1.3 78.4 - - + +
254R VAL* 1.3 64.1 + - - +
256R ILE* 3.2 10.1 - - + +
257R TYR* 3.1 74.2 + - + +
309R MET* 5.3 5.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 254 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
353A LEU* 5.2 2.9 - - + -
223R TYR* 4.0 29.8 - - + -
226R LEU* 4.6 7.4 - - + -
227R VAL* 4.0 20.9 - - + -
250R VAL* 2.9 40.1 + - + +
251R THR 4.1 1.3 - - - +
253R MET* 1.3 85.4 - - - +
255R ILE* 1.3 66.6 + - + +
257R TYR* 3.1 15.6 + - + +
258R VAL* 3.0 26.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 255 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
251R THR* 3.0 33.5 + - + +
252R ARG* 3.3 17.7 - - + +
254R VAL* 1.3 81.8 - - + +
256R ILE* 1.3 62.1 + - + +
258R VAL* 3.2 7.8 + - + +
259R ILE* 2.9 39.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 256 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
252R ARG* 3.0 24.0 + - + +
253R MET* 3.2 21.1 - - + +
255R ILE* 1.3 80.2 - - + +
257R TYR* 1.3 77.5 + - + +
259R ILE* 3.7 17.2 - - + +
260R ALA* 3.0 34.2 + - + +
305R ILE* 3.8 27.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 257 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
353A LEU* 5.3 1.1 - - + -
135R ARG* 4.0 16.2 + - - -
219R ILE* 6.4 0.7 - - + -
223R TYR* 4.2 28.5 - + + -
253R MET* 3.1 61.2 + - + +
254R VAL* 3.1 17.2 + - + +
256R ILE* 1.3 89.8 - - + +
258R VAL* 1.3 56.5 + - + +
260R ALA* 4.2 2.1 - - - +
261R PHE* 2.9 34.7 + - - +
305R ILE* 4.9 13.2 - - + -
306R TYR* 4.5 25.0 + + - +
309R MET* 3.2 42.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 258 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219R ILE* 5.1 9.6 - - + +
220R PHE* 5.4 18.4 - - + -
223R TYR* 5.0 11.4 - - + -
254R VAL* 3.0 24.2 + - + +
255R ILE* 3.2 9.8 + - + +
257R TYR* 1.3 78.5 - - + +
259R ILE* 1.3 61.7 + - + +
261R PHE* 4.1 3.6 - - - +
262R LEU* 2.9 41.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 259 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
255R ILE* 2.9 27.3 + - + +
256R ILE* 3.7 20.2 - - + +
258R VAL* 1.3 79.8 - - + +
260R ALA* 1.3 65.2 + - + +
262R LEU* 3.9 10.7 - - + +
263R ILE* 3.0 48.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 260 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256R ILE* 3.0 22.8 + - + +
257R TYR* 4.2 2.5 - - - +
259R ILE* 1.3 80.3 - - + +
261R PHE* 1.3 56.1 + - - +
263R ILE* 4.1 2.9 - - - +
264R CYS* 3.0 34.3 + - - +
301R TYR* 3.9 29.8 - - + +
305R ILE* 5.4 9.6 - - + -
306R TYR* 6.4 1.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 261 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125R LEU* 3.7 24.9 - - + -
128R LEU* 3.8 24.9 - - + -
215R PRO* 5.4 0.2 - - + -
216R MET* 3.8 39.9 - - + -
219R ILE* 4.1 28.9 - - + -
257R TYR 2.9 20.7 + - - +
258R VAL* 4.1 4.3 - - - +
260R ALA* 1.3 72.3 - - - +
262R LEU* 1.3 64.1 + - - +
264R CYS* 3.3 7.6 - - - -
265R TRP* 3.0 57.5 + + - +
266R VAL* 5.1 0.2 - - - +
302R ASN* 5.9 0.9 - - - -
306R TYR* 4.3 15.2 - + - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 262 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
216R MET* 6.1 3.8 - - + -
258R VAL* 2.9 29.4 + - + +
259R ILE* 3.9 11.4 - - + +
261R PHE* 1.3 81.1 - - - +
263R ILE* 1.3 62.5 + - + +
266R VAL* 3.0 62.5 + - + +
267R PRO* 4.0 0.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 263 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
259R ILE* 3.0 34.5 + - + +
260R ALA* 4.1 2.9 - - - +
262R LEU* 1.3 84.0 - - + +
264R CYS* 1.3 64.6 + - + +
267R PRO* 3.3 22.9 - - - +
294R PHE* 3.8 15.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 264 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260R ALA 3.0 25.9 + - - +
261R PHE* 3.3 13.0 - - - -
263R ILE* 1.3 80.6 - - - +
265R TRP* 1.3 85.3 + - - +
267R PRO* 4.7 1.1 - - - +
268R TYR* 5.8 1.2 + - - +
294R PHE* 4.0 21.4 - - + -
295R ALA* 5.3 3.1 - - - +
298R ALA* 3.8 28.7 - - + +
301R TYR* 4.6 15.0 - - + -
302R ASN* 4.6 10.5 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 265 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121R GLY* 3.5 37.9 - - - -
122R GLU* 5.3 8.5 - - - -
124R ALA* 4.7 10.3 - - + -
125R LEU* 4.8 16.4 - - + -
128R LEU* 4.6 7.7 - - - +
212R PHE* 6.1 0.2 - - - -
216R MET* 4.4 18.6 - - + -
261R PHE* 3.0 44.2 + + + +
264R CYS* 1.3 104.1 - - - +
266R VAL* 1.3 65.0 + - + +
267R PRO 3.6 1.6 - - - -
268R TYR* 3.7 29.1 + + + +
269R ALA* 4.1 4.2 + - - +
295R ALA* 5.6 12.3 - - + -
298R ALA* 5.5 7.4 - - + +
299R ALA* 6.4 0.4 - - - -
302R ASN* 4.6 14.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 266 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
212R PHE* 4.4 26.9 - - + -
216R MET* 4.8 13.9 - - + -
262R LEU* 3.0 49.0 + - + +
265R TRP* 1.3 75.2 - - + +
267R PRO* 1.4 67.0 - - + +
269R ALA* 3.1 7.8 + - - +
270R SER* 3.0 23.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 267 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
262R LEU 4.0 1.1 - - - +
263R ILE* 3.3 24.7 - - + +
264R CYS 4.7 2.0 - - - +
265R TRP 3.8 2.0 - - - -
266R VAL* 1.4 93.0 - - + +
268R TYR* 1.3 56.3 + - - +
270R SER* 2.5 27.0 + - - +
271R VAL* 2.9 22.5 + - + +
291R PRO* 5.7 1.1 - - - -
294R PHE* 4.8 13.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 268 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122R GLU* 5.9 2.9 - - - -
189R ILE* 3.8 20.1 - - + +
191R TYR* 2.9 28.7 + + - -
208R PHE* 5.9 4.0 - + - -
264R CYS 5.8 1.5 + - - +
265R TRP* 3.7 21.7 + + + +
266R VAL 3.3 0.6 - - - -
267R PRO* 1.3 77.6 - - - +
269R ALA* 1.3 61.8 + - + +
271R VAL* 3.3 8.6 - - + +
272R ALA* 3.0 31.7 + - + +
291R PRO* 3.6 40.1 - - + +
292R ALA* 5.2 4.0 - - - -
294R PHE* 6.2 0.8 - - - -
295R ALA* 5.1 10.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 269 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208R PHE* 3.3 31.7 - - + -
212R PHE* 3.6 35.4 - - + -
265R TRP 4.1 3.3 + - - +
266R VAL 3.1 10.0 + - - +
268R TYR* 1.3 79.6 - - + +
270R SER* 1.3 60.0 + - - +
273R PHE* 3.0 25.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 270 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
266R VAL* 3.0 17.9 + - - -
267R PRO* 2.5 28.9 + - - +
269R ALA* 1.3 76.9 - - - +
271R VAL* 1.3 66.1 + - - +
273R PHE* 3.1 5.2 + - - +
274R TYR* 3.0 46.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 271 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191R TYR* 5.9 2.0 - - + +
267R PRO* 2.9 20.6 + - + +
268R TYR* 3.3 10.8 - - + +
270R SER* 1.3 86.1 + - - +
272R ALA* 1.3 60.3 + - - +
274R TYR* 3.9 6.3 - - - +
275R ILE* 2.9 41.3 + - + +
287R PHE* 5.7 8.3 - - + +
290R ILE* 5.4 7.6 - - + -
291R PRO* 3.8 28.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 272 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191R TYR* 3.6 35.4 - - + +
208R PHE* 3.8 21.3 - - + -
268R TYR* 3.0 22.8 + - + +
269R ALA 3.5 6.1 - - - +
270R SER 3.2 0.2 - - - -
271R VAL* 1.3 77.9 - - - +
273R PHE* 1.3 56.3 + - - +
276R PHE* 3.0 32.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 273 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208R PHE* 4.4 17.7 - + + -
269R ALA 3.0 17.5 + - - +
270R SER* 3.1 4.7 + - - +
272R ALA* 1.3 78.6 - - - +
274R TYR* 1.3 73.9 + + - +
276R PHE* 3.5 11.4 + + - -
277R THR* 2.6 57.8 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 274 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
270R SER* 3.0 39.4 + - - +
271R VAL* 4.4 4.7 - - - +
273R PHE* 1.3 88.0 - + - +
275R ILE* 1.3 65.0 + - + +
277R THR* 4.4 1.6 - - - -
278R HIS* 2.9 59.2 + + - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 275 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191R TYR* 4.0 28.4 - - + +
192R TYR* 5.6 7.3 - - + -
271R VAL* 2.9 28.5 + - + +
272R ALA* 4.4 2.0 - - - +
274R TYR* 1.3 77.5 - - + +
276R PHE* 1.3 63.5 + - - +
277R THR 3.3 0.5 + - - -
278R HIS 3.4 18.9 - - - +
279R GLN* 4.1 5.2 - - - +
283R PHE* 3.6 38.1 - - + -
287R PHE* 5.6 6.3 - - + -
288R MET* 4.7 21.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 276 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191R TYR* 4.0 26.6 - + + +
201R GLU* 4.3 28.7 - - + -
204R VAL* 6.0 1.1 - - + -
205R ILE* 3.6 36.6 - - + -
272R ALA 3.0 22.3 + - - +
273R PHE* 3.9 12.1 - + - +
274R TYR 3.3 0.2 - - - -
275R ILE* 1.3 76.7 - - - +
277R THR* 1.3 65.4 + - - +
279R GLN* 3.1 35.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 277 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
273R PHE* 2.6 49.7 + - + -
274R TYR* 3.9 4.3 - - - -
275R ILE 3.2 0.2 - - - -
276R PHE* 1.3 83.6 - - - +
278R HIS* 1.3 76.8 + - + +
279R GLN* 3.3 8.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 278 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
274R TYR* 2.9 50.1 + + - +
275R ILE* 3.4 13.5 - - - +
277R THR* 1.3 89.0 - - + +
279R GLN* 1.3 60.5 + - - +
280R GLY 3.4 3.3 + - - +
281R SER* 4.1 12.0 + - - +
283R PHE* 4.6 16.6 - - + -
----------------------------------------------------------
Back to top of page
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