Contacts of the helix formed by residues 227 - 260 (chain C) in PDB entry 2E52
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 LYS 227 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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220C MET* 3.6 26.7 - - + -
226C ASP* 1.3 74.5 - - - +
228C ASP* 1.3 57.4 + - - +
230C LEU* 3.4 0.9 + - - +
231C ASN* 2.8 45.9 + - + +
299D LEU* 3.1 44.7 + - + +
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Residues in contact with ASP 228 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
226C ASP* 3.3 11.5 - - - +
227C LYS* 1.3 79.1 - - - +
229C THR* 1.3 58.5 + - - +
231C ASN* 3.7 6.3 - - - +
232C GLN* 3.0 28.8 + - - +
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Residues in contact with THR 229 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178C LEU* 4.4 12.6 - - + -
225C ILE* 4.0 13.5 - - + -
226C ASP* 2.6 31.0 + - - -
228C ASP* 1.3 75.0 - - - +
230C LEU* 1.3 63.7 + - - +
232C GLN* 3.2 4.8 + - - +
233C LEU* 2.9 42.0 + - + +
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Residues in contact with LEU 230 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171C HIS* 5.3 1.6 - - + -
174C ILE* 3.6 32.1 - - + -
216C ASN* 4.0 23.8 - - + +
219C PHE* 4.3 20.9 - - + -
220C MET* 3.6 27.4 - - + -
225C ILE* 3.8 11.3 - - + +
226C ASP 2.9 14.5 + - - +
227C LYS 3.9 2.9 - - - +
229C THR* 1.3 75.6 - - - +
231C ASN* 1.3 53.2 + - - +
233C LEU* 3.2 2.7 + - - -
234C LEU* 2.8 46.0 + - + +
299D LEU* 3.8 20.0 - - + -
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Residues in contact with ASN 231 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
227C LYS* 2.8 31.7 + - + +
228C ASP* 3.7 7.2 - - - +
230C LEU* 1.3 73.0 - - - +
232C GLN* 1.3 57.6 + - - +
234C LEU* 3.4 2.3 + - - +
235C GLN* 2.7 57.5 + - - +
294D ASN* 5.0 5.7 - - - +
297D LEU* 4.1 12.5 - - - +
299D LEU* 3.5 26.6 - - + +
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Residues in contact with GLN 232 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
228C ASP 3.0 18.6 + - - +
229C THR* 3.9 4.5 - - - +
231C ASN* 1.3 76.5 + - - +
233C LEU* 1.3 64.8 + - + +
235C GLN* 3.4 10.0 + - - +
236C LYS* 3.0 56.1 + - - +
239C ASN* 5.6 1.2 + - - -
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Residues in contact with LEU 233 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174C ILE* 4.0 27.4 - - + +
177C GLN* 4.9 22.7 - - + +
178C LEU* 3.8 38.6 - - + -
225C ILE* 5.3 0.2 - - + -
229C THR* 2.9 32.5 + - + +
230C LEU* 3.7 4.9 - - - +
232C GLN* 1.3 78.8 - - + +
234C LEU* 1.3 60.7 + - - +
236C LYS* 3.4 23.7 + - + +
237C GLU* 3.2 29.8 + - - +
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Residues in contact with LEU 234 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145C PHE* 4.9 9.9 - - + -
146C PHE* 4.6 12.9 - - + -
170C GLU* 4.7 15.9 - - + -
171C HIS* 5.3 7.2 - - + +
174C ILE* 3.8 22.2 - - + -
216C ASN* 4.2 9.2 - - - +
230C LEU* 2.8 39.1 + - + +
231C ASN 3.9 1.8 - - - +
233C LEU* 1.3 69.6 - - - +
235C GLN* 1.3 60.6 + - - +
237C GLU* 3.2 6.4 + - + +
238C ILE* 3.0 30.7 + - - +
297D LEU* 3.7 41.5 - - + +
299D LEU* 4.1 9.6 - - + -
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Residues in contact with GLN 235 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231C ASN* 2.7 42.9 + - - +
232C GLN* 3.9 12.3 - - - +
233C LEU 3.3 0.4 - - - -
234C LEU* 1.3 76.5 - - - +
236C LYS* 1.3 57.4 + - - +
238C ILE* 3.3 19.5 + - + +
239C ASN* 3.0 41.4 + - - +
294D ASN* 5.3 2.8 - - - +
297D LEU* 3.9 15.7 - - + +
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Residues in contact with LYS 236 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232C GLN* 3.0 52.8 + - - +
233C LEU* 3.7 22.3 - - + +
234C LEU 3.3 0.2 - - - -
235C GLN* 1.3 72.7 - - - +
237C GLU* 1.3 62.2 + - - +
239C ASN* 3.2 12.1 + - - +
240C PHE* 3.0 47.8 + - + -
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Residues in contact with GLU 237 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44C ARG* 3.0 49.7 + - - +
146C PHE* 4.9 4.0 - - + -
170C GLU* 4.0 38.4 - - + +
173C ALA* 4.2 14.0 - - - +
174C ILE* 4.8 8.6 - - + +
177C GLN* 5.6 1.2 - - - +
233C LEU* 3.2 19.8 + - - +
234C LEU* 3.2 11.0 + - + +
236C LYS* 1.3 76.4 - - - +
238C ILE* 1.3 64.0 + - - +
240C PHE* 3.3 8.7 + - - +
241C ILE* 3.0 29.4 + - + +
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Residues in contact with ILE 238 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146C PHE* 3.5 24.7 - - + -
234C LEU 3.0 12.9 + - - +
235C GLN* 3.5 16.8 - - + +
236C LYS 3.3 0.2 - - - -
237C GLU* 1.3 75.2 - - - +
239C ASN* 1.3 64.7 + - - +
241C ILE* 3.2 7.0 + - - +
242C GLU* 2.9 28.4 + - + +
291D ILE* 3.3 46.9 - - + +
292D LYS* 4.3 17.5 - - + +
297D LEU* 3.5 33.0 - - + -
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Residues in contact with ASN 239 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232C GLN* 5.6 1.4 + - - -
235C GLN* 3.0 29.2 + - - +
236C LYS* 3.2 12.6 + - - +
238C ILE* 1.3 85.5 - - - +
240C PHE* 1.3 56.6 + - + +
242C GLU* 3.3 15.7 + - - +
243C GLU* 2.9 42.5 + - - +
292D LYS* 5.4 3.8 - - - +
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Residues in contact with PHE 240 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44C ARG* 3.4 59.0 - - + +
236C LYS* 3.0 37.3 + - + -
237C GLU* 3.6 10.8 - - - +
239C ASN* 1.3 73.2 - - + +
241C ILE* 1.3 61.9 + - + +
243C GLU* 3.4 26.0 + - - +
244C ARG* 3.0 28.1 + - - +
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Residues in contact with ILE 241 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44C ARG 5.8 2.2 - - - +
48C ILE* 4.4 15.9 - - + -
114C LEU* 4.2 11.6 - - + +
146C PHE* 3.7 33.0 - - + -
170C GLU* 3.9 17.3 - - + +
237C GLU* 3.0 20.6 + - + +
238C ILE 3.5 6.7 - - - +
240C PHE* 1.3 73.1 - - + +
242C GLU* 1.3 61.5 + - - +
244C ARG* 3.2 8.5 + - - +
245C SER* 2.9 26.5 + - - -
287D PHE* 3.9 15.9 - - + -
288D ILE* 3.7 19.7 - - + -
291D ILE* 3.8 12.3 - - + -
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Residues in contact with GLU 242 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238C ILE* 2.9 19.0 + - + +
239C ASN* 3.3 14.5 + - - +
241C ILE* 1.3 76.7 - - - +
243C GLU* 1.3 61.2 + - - +
245C SER* 2.6 26.3 + - - +
246C LEU* 3.4 14.8 + - + +
288D ILE* 4.0 27.5 - - + +
291D ILE* 5.8 0.7 - - + -
292D LYS* 3.2 35.4 + - + +
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Residues in contact with GLU 243 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
239C ASN* 2.9 31.1 + - - +
240C PHE* 3.6 30.8 + - - +
241C ILE 3.3 0.2 - - - -
242C GLU* 1.3 74.1 - - - +
244C ARG* 1.3 64.0 + - - +
246C LEU* 3.3 28.9 + - + +
247C ILE* 3.8 11.4 + - + +
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Residues in contact with ARG 244 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5C LEU* 3.6 34.9 - - - +
9C LEU* 5.5 0.4 - - - +
45C SER* 3.1 31.5 + - - +
48C ILE* 2.8 47.3 + - + +
50C PRO* 3.7 19.8 - - - +
114C LEU* 4.5 1.6 - - + -
240C PHE 3.0 17.7 + - - +
241C ILE* 3.2 7.8 + - - +
243C GLU* 1.3 77.1 - - - +
245C SER* 1.3 63.8 + - - +
247C ILE* 3.1 29.5 + - - +
248C GLU* 2.7 43.0 + - + +
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Residues in contact with SER 245 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114C LEU* 3.6 24.0 - - - +
241C ILE 2.9 13.3 + - - -
242C GLU* 2.6 22.8 + - - +
244C ARG* 1.3 73.9 - - - +
246C LEU* 1.3 61.0 + - - +
248C GLU* 3.8 1.9 - - - +
249C LYS* 3.0 42.0 + - - +
284D ILE* 3.9 7.6 - - - +
288D ILE* 3.7 26.2 - - - +
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Residues in contact with LEU 246 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242C GLU* 3.7 18.8 - - + +
243C GLU* 3.5 15.5 - - + +
244C ARG 3.2 0.8 - - - -
245C SER* 1.3 79.3 + - - +
247C ILE* 1.3 63.9 + - + +
249C LYS* 4.1 22.6 - - - +
250C GLU* 3.0 25.8 + - - +
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Residues in contact with ILE 247 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5C LEU* 6.3 1.6 - - + -
243C GLU 3.8 16.1 + - - +
244C ARG* 3.1 20.9 + - - +
246C LEU* 1.3 79.6 - - + +
248C GLU* 1.3 66.6 + - - +
250C GLU* 3.5 6.8 + - - +
251C TYR* 3.1 26.7 + - + +
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Residues in contact with GLU 248 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C LEU* 6.1 0.2 - - - +
48C ILE* 4.8 2.7 - - + -
49C LEU 4.6 1.3 - - - -
50C PRO* 3.6 8.7 - - - +
51C GLU* 2.8 54.6 + - + +
52C ALA 4.4 1.2 + - - -
114C LEU* 4.2 15.3 - - + -
244C ARG* 2.7 50.9 + - + +
245C SER* 4.0 6.5 - - - +
246C LEU 3.3 0.2 - - - -
247C ILE* 1.3 85.0 - - - +
249C LYS* 1.3 59.7 + - - +
251C TYR* 3.4 20.0 + - - +
252C TRP* 3.6 5.7 + - - -
284D ILE* 4.4 8.7 - - + -
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Residues in contact with LYS 249 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
245C SER* 3.0 33.2 + - - +
246C LEU* 4.1 20.3 - - - +
248C GLU* 1.3 71.5 - - - +
250C GLU* 1.3 66.0 + - - +
252C TRP* 3.2 5.8 + - - +
253C LYS* 3.2 40.5 + - - +
281D ILE* 4.1 19.6 - - + +
284D ILE* 3.7 30.3 - - + -
285D ASP* 2.8 36.0 + - - +
288D ILE* 6.1 0.4 - - - -
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Residues in contact with GLU 250 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246C LEU 3.0 19.7 + - - +
247C ILE* 3.7 6.7 - - - +
249C LYS* 1.3 71.8 - - - +
251C TYR* 1.3 65.1 + - - +
253C LYS* 3.4 22.7 + - - +
254C LYS* 3.1 55.3 + - - +
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Residues in contact with TYR 251 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51C GLU* 3.7 27.2 + - + -
52C ALA* 3.6 38.1 + - + +
247C ILE 3.1 13.2 + - - +
248C GLU* 3.4 14.4 - - - +
249C LYS 3.2 0.4 - - - -
250C GLU* 1.3 77.7 - - - +
252C TRP* 1.3 88.5 + + - +
254C LYS* 3.4 9.5 + - + +
255C GLN* 3.2 61.6 + - + +
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Residues in contact with TRP 252 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51C GLU* 2.8 55.8 + - + +
113C ARG* 6.3 0.4 - - - -
248C GLU 3.6 5.3 + - - -
249C LYS 3.2 7.8 + - - +
251C TYR* 1.3 99.9 - + - +
253C LYS* 1.3 65.2 + - - +
255C GLN* 3.2 11.8 + - + +
256C ILE* 3.1 28.7 + - - +
275D ILE* 3.6 32.1 - - + -
277D MET* 3.4 29.8 - - + -
280D LYS* 3.5 37.3 - - + +
281D ILE* 3.9 22.0 - - + -
284D ILE* 4.7 4.3 - - + -
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Residues in contact with LYS 253 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
249C LYS* 3.2 33.7 + - - +
250C GLU* 3.7 27.6 - - - +
251C TYR 3.3 0.2 - - - -
252C TRP* 1.3 76.8 - - - +
254C LYS* 1.3 60.0 + - - +
256C ILE* 3.5 16.7 + - + +
257C ASN* 3.6 20.7 + - - +
281D ILE* 4.1 28.0 - - + +
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Residues in contact with LYS 254 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
250C GLU* 3.1 43.5 + - - +
251C TYR* 3.7 10.5 - - + +
253C LYS* 1.3 73.0 - - - +
255C GLN* 1.3 62.7 + - - +
257C ASN* 3.3 8.9 + - - +
258C ILE* 2.9 38.7 + - + +
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Residues in contact with GLN 255 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
251C TYR* 3.2 58.9 + - + +
252C TRP* 3.2 23.1 + - + +
254C LYS* 1.3 74.8 - - - +
256C ILE* 1.3 66.4 + - - +
258C ILE* 3.3 27.5 + - - +
259C ILE* 2.8 38.4 + - + +
277D MET* 4.2 6.3 - - + -
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Residues in contact with ILE 256 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
252C TRP 3.1 20.2 + - - +
253C LYS* 3.8 10.8 - - + +
254C LYS 3.3 0.2 - - - -
255C GLN* 1.3 75.0 - - - +
257C ASN* 1.3 59.6 + - - +
259C ILE* 3.5 2.1 + - - +
260C LYS* 2.7 64.5 + - + +
272D LEU* 4.3 14.8 - - + +
277D MET* 3.4 29.8 - - + -
278D SER* 5.0 9.2 - - - +
281D ILE* 4.6 15.3 - - + -
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Residues in contact with ASN 257 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
253C LYS* 3.6 14.3 + - - +
254C LYS* 3.3 8.4 + - - +
255C GLN 3.1 0.4 - - - -
256C ILE* 1.3 85.2 - - - +
258C ILE* 1.3 66.3 + - - +
260C LYS* 3.5 20.1 + - - +
261C ASN* 3.7 18.2 + - - +
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Residues in contact with ILE 258 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
254C LYS* 2.9 24.7 + - + +
255C GLN* 3.3 34.5 + - - +
257C ASN* 1.3 74.6 - - - +
259C ILE* 1.3 60.8 + - + +
261C ASN* 2.8 30.0 - - - +
262C PHE* 3.5 19.9 - - + -
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Residues in contact with ILE 259 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
255C GLN* 2.8 31.3 + - + +
256C ILE 3.8 2.9 - - - +
258C ILE* 1.3 68.2 - - + +
260C LYS* 1.3 56.8 + - - +
261C ASN 3.0 5.2 - - - -
262C PHE* 2.9 41.3 - - + +
268D ILE* 4.0 12.9 - - + +
271D LEU* 3.8 25.8 - - + -
272D LEU* 3.6 27.6 - - + -
275D ILE* 3.6 22.0 - - + -
277D MET* 3.5 32.1 - - + -
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Residues in contact with LYS 260 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256C ILE* 2.7 50.9 + - + +
257C ASN* 4.0 15.9 - - - +
258C ILE 3.3 1.0 - - - -
259C ILE* 1.3 71.5 - - - +
261C ASN* 1.3 64.4 + - - +
262C PHE 4.2 0.5 - - - +
264D ARG* 4.6 5.0 + - - -
268D ILE* 3.8 23.4 - - + +
272D LEU* 3.9 23.4 - - + +
----------------------------------------------------------
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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