Contacts of the helix formed by residues 216 - 247 (chain C) in PDB entry 5EP6
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 216 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
679B SER* 3.6 28.0 + - - -
682B THR* 3.3 27.7 + - - +
683B LEU* 4.7 12.3 - - - -
215C SER* 1.3 74.8 + - - +
217C ASP* 1.3 60.7 + - - +
218C ASN 3.4 2.7 - - - -
219C MET* 3.2 12.2 + - - +
220C GLN* 2.9 28.3 + - - +
683D LEU* 5.5 2.5 - - - -
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Residues in contact with ASP 217 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215C SER* 3.1 14.5 + - - +
216C SER* 1.3 77.9 + - - +
218C ASN* 1.3 70.2 + - - +
220C GLN* 3.2 9.6 + - - +
221C HIS* 3.0 55.7 + - - -
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Residues in contact with ASN 218 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215C SER* 4.7 1.4 + - - -
216C SER 3.4 0.4 - - - -
217C ASP* 1.3 83.9 - - - +
219C MET* 1.3 58.0 + - - +
221C HIS* 3.4 6.8 + - - +
222C ALA* 3.0 29.5 + - - +
687D THR* 3.9 22.6 - - + +
691D LYS* 5.9 0.7 - - - -
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Residues in contact with MET 219 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219A MET* 3.5 26.2 - - + -
683B LEU* 3.9 12.6 - - - -
686B MET* 3.8 24.2 - - + -
690B MET* 4.7 4.9 - - + -
216C SER* 3.2 14.6 + - - +
217C ASP 3.2 0.4 - - - -
218C ASN* 1.3 77.1 - - - +
220C GLN* 1.3 59.9 + - - +
222C ALA* 3.3 1.2 + - - -
223C TYR* 2.9 29.8 + - - +
683D LEU* 3.7 29.8 - - + +
686D MET* 4.1 19.3 - - + -
687D THR* 3.6 18.3 + - - +
690D MET* 3.5 25.4 - - + +
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Residues in contact with GLN 220 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
682B THR* 3.2 26.0 + - + +
685B GLU* 2.8 26.1 + - - +
686B MET* 3.3 25.3 - - - +
216C SER* 2.9 13.4 + - - +
217C ASP* 3.5 17.0 - - - +
219C MET* 1.3 76.6 - - - +
221C HIS* 1.3 61.2 + - + +
223C TYR* 3.4 9.6 + - - +
224C TRP* 2.9 27.5 + - + +
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Residues in contact with HIS 221 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217C ASP* 3.0 55.1 + - - +
218C ASN* 3.8 7.4 - - - +
220C GLN* 1.3 78.6 - - + +
222C ALA* 1.3 65.9 + - - +
224C TRP* 3.3 10.8 + - - +
225C GLU* 3.0 31.2 + - + +
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Residues in contact with ALA 222 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218C ASN 3.0 18.2 + - - +
219C MET 3.7 3.6 - - - +
221C HIS* 1.3 75.8 - - - +
223C TYR* 1.3 62.3 + - - +
225C GLU* 3.4 6.7 + - - +
226C LEU* 3.0 24.1 + - - +
687D THR* 4.0 17.0 - - + +
690D MET* 3.9 28.6 - - + +
691D LYS* 4.1 17.7 - - + +
694D LYS* 5.5 0.3 - - - +
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Residues in contact with TYR 223 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
685B GLU* 5.0 5.8 - - + -
686B MET* 3.7 34.1 - - + -
689B GLY* 3.6 35.4 + - - -
690B MET* 4.9 1.1 - - + -
692B LYS* 5.4 6.6 - - - +
693B LEU* 3.7 26.7 - - + +
219C MET 2.9 18.2 + - - +
220C GLN* 3.6 11.0 - - - +
222C ALA* 1.3 73.9 - - - +
224C TRP* 1.3 64.7 + + + +
226C LEU* 3.2 2.5 + - - +
227C LYS* 2.9 62.8 + - + +
690D MET* 3.9 17.2 - - - +
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Residues in contact with TRP 224 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220C GLN* 2.9 15.5 + - + +
221C HIS* 3.3 16.6 + - - +
223C TYR* 1.3 81.9 - + + +
225C GLU* 1.3 62.3 + - + +
227C LYS* 3.4 34.1 + - - +
228C ARG* 2.9 57.7 + - + +
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Residues in contact with GLU 225 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
221C HIS* 3.0 21.6 + - + +
222C ALA* 3.8 6.9 - - - +
224C TRP* 1.3 81.1 - - + +
226C LEU* 1.3 57.8 + - - +
228C ARG* 3.4 38.3 + - - +
229C GLU* 3.0 26.9 + - - +
691D LYS* 6.0 3.1 - - - +
694D LYS* 3.7 31.5 + - + +
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Residues in contact with LEU 226 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
226A LEU* 4.1 7.9 - - + -
693B LEU* 3.9 25.8 - - + -
222C ALA 3.0 17.2 + - - +
223C TYR* 3.2 5.1 + - - +
225C GLU* 1.3 73.6 - - - +
227C LYS* 1.3 61.4 + - - +
229C GLU* 3.2 1.8 + - + +
230C MET* 2.9 27.2 + - - +
690D MET* 4.1 26.5 - - + +
693D LEU* 3.9 28.3 - - + +
694D LYS* 3.7 32.6 - - + +
697D MET* 4.4 18.4 - - + -
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Residues in contact with LYS 227 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
692B LYS* 6.4 1.6 - - + -
693B LEU* 4.0 19.2 - - + +
696B GLU* 5.6 3.4 - - - +
223C TYR* 2.9 52.0 + - + +
224C TRP* 3.6 36.7 - - - +
226C LEU* 1.3 75.8 - - - +
228C ARG* 1.3 62.2 + - - +
230C MET* 3.2 5.9 + - + +
231C SER* 3.1 24.4 + - - +
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Residues in contact with ARG 228 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
224C TRP* 2.9 46.3 + - + +
225C GLU* 3.5 41.1 + - - +
227C LYS* 1.3 77.0 - - - +
229C GLU* 1.3 65.8 + - - +
231C SER* 3.2 18.5 + - - -
232C ASN* 3.3 19.6 + - - +
694D LYS* 4.4 13.3 - - - +
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Residues in contact with GLU 229 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
225C GLU 3.0 12.7 + - - +
226C LEU* 3.2 8.9 + - + +
228C ARG* 1.3 78.0 + - - +
230C MET* 1.3 60.6 + - - +
232C ASN* 3.1 32.9 + - - +
233C LEU* 2.9 23.2 + - - +
694D LYS* 4.0 20.8 - - + +
697D MET* 3.6 32.7 - - + +
698D GLU* 3.5 36.7 - - - +
701D VAL* 3.8 9.9 - - - +
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Residues in contact with MET 230 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
693B LEU* 3.8 16.4 - - + +
696B GLU* 3.8 32.5 - - - +
697B MET* 3.4 33.4 - - + +
700B VAL* 4.8 0.9 - - - -
226C LEU 2.9 13.3 + - - +
227C LYS* 3.3 11.2 - - + +
229C GLU* 1.3 76.0 - - - +
231C SER* 1.3 57.5 + - - +
233C LEU* 3.1 14.4 + - + -
234C HIS* 2.9 53.7 + - + -
697D MET* 3.5 20.8 - - + -
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Residues in contact with SER 231 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
227C LYS* 3.1 15.1 + - - +
228C ARG* 3.2 13.3 + - - -
230C MET* 1.3 75.1 - - - +
232C ASN* 1.3 60.5 + - - +
234C HIS* 3.4 13.0 + - - +
235C LEU* 3.0 29.0 + - - +
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Residues in contact with ASN 232 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
228C ARG* 3.3 19.0 + - - +
229C GLU* 3.1 41.5 + - - +
231C SER* 1.3 79.7 - - - +
233C LEU* 1.3 57.6 + - - +
235C LEU* 3.3 10.9 + - - +
236C VAL* 3.0 32.9 + - - +
701D VAL* 4.1 11.4 - - + -
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Residues in contact with LEU 233 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
233A LEU* 3.6 24.9 - - + -
697B MET* 5.1 1.6 - - + -
700B VAL* 3.9 26.9 - - + -
229C GLU 2.9 12.6 + - - +
230C MET* 3.1 31.2 + - + +
232C ASN* 1.3 74.7 - - - +
234C HIS* 1.3 64.5 + - - +
236C VAL* 3.2 3.0 - - + +
237C THR* 2.9 29.5 + - - -
697D MET* 4.0 7.4 - - + -
700D VAL* 4.1 10.8 - - + -
701D VAL* 3.7 19.9 - - + +
704D LEU* 3.8 26.9 - - + -
----------------------------------------------------------
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Residues in contact with HIS 234 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
696B GLU* 2.9 41.2 + - + -
700B VAL* 3.7 25.7 - - + +
230C MET* 2.9 33.9 + - + -
231C SER* 3.5 12.8 - - - +
233C LEU* 1.3 76.4 - - - +
235C LEU* 1.3 58.0 + - - +
237C THR* 3.4 2.9 + - - -
238C GLN* 3.0 40.4 + - + +
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Residues in contact with LEU 235 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231C SER 3.0 19.1 + - - +
232C ASN* 3.6 11.0 - - - +
233C LEU 3.2 0.2 - - - -
234C HIS* 1.3 74.7 - - - +
236C VAL* 1.3 60.6 + - + +
238C GLN* 3.1 9.0 + - + +
239C VAL* 2.9 44.5 + - + +
301C GOL 3.8 12.8 - - - +
----------------------------------------------------------
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Residues in contact with VAL 236 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232C ASN 3.0 20.5 + - - +
233C LEU* 3.2 22.4 - - + +
235C LEU* 1.3 74.9 - - + +
237C THR* 1.3 58.3 + - - +
240C GLN* 3.0 23.0 + - - +
301C GOL 3.2 37.9 - - - +
701D VAL* 3.5 29.8 - - + +
704D LEU* 4.0 32.2 - - + +
705D ALA 5.0 0.2 - - - +
708D ASN* 3.2 14.0 + - - +
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Residues in contact with THR 237 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
700B VAL* 3.6 24.9 - - + +
703B GLU* 4.1 32.1 - - + +
704B LEU* 4.0 26.0 - - + +
707B ASN* 4.4 2.4 + - - +
233C LEU* 2.9 20.8 + - - +
234C HIS* 3.6 6.7 - - - -
236C VAL* 1.3 78.8 - - - +
238C GLN* 1.3 64.5 + - - +
240C GLN* 3.2 7.2 + - - +
241C ALA* 2.9 25.6 + - - +
704D LEU* 4.4 0.7 - - - +
----------------------------------------------------------
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Residues in contact with GLN 238 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
703B GLU* 3.0 37.8 + - - +
234C HIS* 3.0 27.4 + - + +
235C LEU* 3.1 10.5 + - + +
237C THR* 1.3 77.8 - - - +
239C VAL* 1.3 64.9 + - - +
241C ALA* 3.6 8.2 - - - +
242C GLU* 3.0 24.9 + - - +
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Residues in contact with VAL 239 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
235C LEU* 2.9 33.1 + - + +
236C VAL 3.6 2.2 - - - +
238C GLN* 1.3 77.7 - - - +
240C GLN* 1.3 58.0 + - - +
242C GLU* 3.4 17.0 + - - +
243C LEU* 2.9 31.2 + - + +
301C GOL 3.3 37.9 - - - +
708D ASN* 3.7 13.5 - - + +
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Residues in contact with GLN 240 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
240A GLN* 2.9 43.1 + - - -
704B LEU* 3.6 9.4 - - - +
707B ASN* 2.8 26.9 + - - +
711B LEU* 5.8 0.2 - - - -
236C VAL 3.0 12.6 + - - +
237C THR* 3.2 10.7 + - - +
239C VAL* 1.3 75.3 - - - +
241C ALA* 1.3 65.8 + - - +
243C LEU* 3.2 4.3 + - + +
244C LEU* 3.0 31.2 + - + +
704D LEU* 4.3 13.1 + - - +
707D ASN* 4.4 3.6 - - - +
708D ASN* 3.0 33.3 + - - +
711D LEU* 4.4 13.7 - - + +
----------------------------------------------------------
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Residues in contact with ALA 241 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
703B GLU* 3.4 26.7 - - - +
707B ASN* 4.1 12.9 - - - +
237C THR 2.9 10.0 + - - +
238C GLN* 3.3 15.9 + - - +
240C GLN* 1.3 76.1 - - - +
242C GLU* 1.3 62.0 + - - +
244C LEU* 3.4 5.0 + - - +
245C ARG* 3.2 20.1 + - - +
----------------------------------------------------------
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Residues in contact with GLU 242 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238C GLN 3.0 17.7 + - - +
239C VAL* 3.6 18.0 - - - +
241C ALA* 1.3 73.6 - - - +
243C LEU* 1.3 61.1 + - - +
245C ARG* 3.0 36.8 + - - +
246C LYS* 2.9 51.4 + - + +
----------------------------------------------------------
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Residues in contact with LEU 243 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
723B LEU* 3.8 29.4 - - + -
239C VAL* 2.9 20.5 + - + +
240C GLN 3.5 5.2 - - - +
242C GLU* 1.3 78.6 - - - +
244C LEU* 1.3 59.1 + - + +
246C LYS* 3.1 6.7 + - + +
247C LEU* 2.9 38.1 + - + +
708D ASN* 3.2 48.5 - - + +
711D LEU* 3.9 13.9 - - + -
712D GLU* 3.9 25.6 - - + +
----------------------------------------------------------
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Residues in contact with LEU 244 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
707B ASN* 3.6 50.9 - - + +
710B ILE* 4.8 16.5 - - + +
711B LEU* 4.0 26.7 - - + -
240C GLN* 3.0 25.2 + - + +
241C ALA* 3.8 4.9 - - - +
243C LEU* 1.3 76.4 - - + +
245C ARG* 1.3 60.2 + - - +
247C LEU* 3.8 15.1 + - + -
248C LYS* 3.6 8.4 - - - +
711D LEU* 4.5 11.4 - - + -
717D LEU* 3.3 38.9 - - + +
----------------------------------------------------------
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Residues in contact with ARG 245 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241C ALA 3.2 11.9 + - - +
242C GLU* 3.0 51.4 + - - +
244C LEU* 1.3 76.0 - - - +
246C LYS* 1.3 77.2 + - - +
247C LEU 3.1 1.8 - - - -
248C LYS* 2.8 47.2 + - - +
249C THR* 3.6 2.8 + - + +
----------------------------------------------------------
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Residues in contact with LYS 246 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
723B LEU* 4.2 25.3 - - + +
724B ARG 5.9 0.7 + - - -
242C GLU* 2.9 48.3 + - + +
243C LEU* 3.1 7.1 + - + +
245C ARG* 1.3 87.4 - - - +
247C LEU* 1.3 60.9 + - - +
248C LYS 3.0 5.6 - - - -
249C THR* 2.5 44.0 + - + +
----------------------------------------------------------
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Residues in contact with LEU 247 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
722B GLY* 3.6 30.5 - - - +
723B LEU* 4.5 8.1 - - + +
243C LEU* 2.9 22.8 + - + +
244C LEU* 4.3 17.9 - - + -
245C ARG 3.1 0.2 - - - -
246C LYS* 1.3 78.8 - - - +
248C LYS* 1.3 59.3 + - - +
249C THR 3.5 0.4 - - - -
711D LEU* 4.2 19.3 - - + +
715D GLY* 3.7 30.5 - - - +
716D SER* 4.3 3.8 - - - +
717D LEU* 3.9 42.8 + - + +
----------------------------------------------------------
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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