Contacts of the helix formed by residues 222 - 245 (chain C) in PDB entry 1XHU
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 THR 222 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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161C PHE* 6.2 0.9 - - - -
219C PHE* 3.8 9.9 - - - -
221C GLY* 1.3 77.2 - - - +
223C ARG* 1.3 63.6 + - - +
224C GLU* 3.0 26.4 + - - +
225C GLU* 3.5 17.0 + - - +
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Residues in contact with ARG 223 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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122C PHE* 4.1 7.7 - - - -
155C MET* 3.4 21.0 - - + +
161C PHE* 3.9 32.0 + - + +
162C ASP* 5.3 3.0 - - - +
164C PHE* 3.0 37.4 + - - +
165C ASP* 2.5 30.4 + - - -
191C PHE* 3.3 48.4 - - - +
219C PHE* 5.6 0.4 - - - -
222C THR* 1.3 73.1 - - - +
224C GLU* 1.3 66.5 + - - +
226C TRP* 2.9 27.4 - - + +
227C ALA* 3.2 6.8 + - - +
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Residues in contact with GLU 224 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161C PHE* 4.0 36.3 - - + +
222C THR* 3.1 16.5 + - - +
223C ARG* 1.3 79.8 - - - +
225C GLU* 1.3 68.1 + - + +
227C ALA* 3.0 12.6 + - - +
228C LYS* 3.4 13.9 + - - +
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Residues in contact with GLU 225 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219C PHE* 3.6 19.2 - - + -
220C ASN 3.6 7.3 - - - +
221C GLY* 3.4 27.2 - - - -
222C THR* 3.5 9.6 + - - +
223C ARG 3.4 0.4 - - - -
224C GLU* 1.3 79.3 - - + +
226C TRP* 1.3 52.2 + - - +
228C LYS* 3.3 7.9 + - - +
229C SER* 2.6 40.4 + - - -
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Residues in contact with TRP 226 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148C LEU* 4.7 7.5 - - + +
152C CYS* 3.9 19.5 - - - -
155C MET* 4.7 5.2 - - - -
190C LEU* 2.8 39.7 - - + -
191C PHE* 3.0 59.0 - + - +
193C SER* 2.9 30.1 - - - -
195C PRO* 3.4 28.0 - - + -
198C LEU* 4.4 10.8 - - + -
219C PHE* 3.8 12.6 - + + -
222C THR 3.8 1.6 + - - -
223C ARG* 2.9 27.7 + - - +
225C GLU* 1.3 77.1 - - - +
227C ALA* 1.3 58.8 + - - +
229C SER* 3.0 7.5 - - - -
230C TYR* 2.7 34.9 + - + +
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Residues in contact with ALA 227 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152C CYS* 3.9 28.3 - - + +
155C MET* 4.5 9.0 - - + -
156C ILE* 4.7 5.4 - - + -
161C PHE* 4.4 16.6 - - + -
223C ARG 3.2 4.8 + - - +
224C GLU 3.0 9.8 + - - +
226C TRP* 1.3 80.7 - - - +
228C LYS* 1.3 57.3 - - + +
229C SER 2.7 14.4 + - - -
231C LEU* 3.0 32.4 + - + +
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Residues in contact with LYS 228 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156C ILE* 5.0 12.9 - - + +
161C PHE* 6.4 1.6 - - + -
224C GLU 3.4 9.5 + - - +
225C GLU* 3.3 9.3 + - - +
227C ALA* 1.3 78.7 - - + +
229C SER* 1.3 57.4 + - - +
231C LEU* 4.6 4.0 - - - +
232C LYS* 3.1 24.1 + - - +
256D TYR* 3.4 49.3 - - + +
257D ILE* 5.1 2.4 - - - +
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Residues in contact with SER 229 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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195C PRO* 3.1 23.1 - - - +
196C SER* 4.4 10.4 + - - -
219C PHE* 5.4 5.4 - - - -
225C GLU* 2.6 25.5 + - - -
226C TRP* 3.0 5.8 - - - -
227C ALA 2.7 1.0 + - - -
228C LYS* 1.3 72.2 - - - +
230C TYR* 1.3 59.2 + - - -
232C LYS* 2.7 29.6 + - - +
233C HIS* 2.9 12.2 + - - +
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Residues in contact with TYR 230 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145C ALA* 2.6 30.8 + - - -
148C LEU* 3.4 27.2 - - + +
149C ALA* 3.2 31.0 - - - -
152C CYS* 3.3 27.8 - - - -
195C PRO* 4.1 26.2 - - + +
198C LEU* 4.4 11.0 - - + -
200C ILE* 4.5 4.7 - - + -
208C ILE* 3.4 16.0 - - + +
226C TRP* 2.7 21.8 + + - +
229C SER* 1.3 72.4 + - - +
231C LEU* 1.3 52.8 + - - +
233C HIS* 2.7 10.5 + + + +
234C PHE* 2.5 58.8 + + + +
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Residues in contact with LEU 231 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149C ALA* 3.2 30.5 - - + +
152C CYS* 3.4 27.6 - - + +
153C ALA* 3.7 4.5 - - + +
156C ILE* 4.8 0.4 - - + -
227C ALA* 3.0 25.8 + - + +
228C LYS 4.4 2.5 - - - +
230C TYR* 1.3 78.6 - - - +
232C LYS* 1.3 59.5 + - - +
234C PHE* 4.2 5.7 - - - +
235C VAL* 3.1 32.4 + - - +
253D PHE* 3.4 26.0 - - + +
256D TYR* 3.6 43.3 - - + -
257D ILE* 4.9 2.1 - - - +
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Residues in contact with LYS 232 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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228C LYS 3.1 16.5 + - - +
229C SER* 2.7 19.9 + - - +
231C LEU* 1.3 74.9 - - - +
233C HIS* 1.3 53.4 + - + +
235C VAL* 4.3 2.1 + - - +
236C THR* 2.7 39.8 + - - +
257D ILE* 3.8 33.5 + - + +
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Residues in contact with HIS 233 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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195C PRO 3.4 24.7 - - - +
196C SER* 3.1 29.8 + - - -
197C GLU 4.6 0.4 - - - -
198C LEU* 3.3 22.5 + - + -
200C ILE* 5.2 4.7 - - + -
229C SER* 2.9 8.0 + - - +
230C TYR* 2.7 18.3 + + - +
232C LYS* 1.3 75.4 - - + +
234C PHE* 1.3 66.2 + - - +
235C VAL 3.2 2.4 + - - -
236C THR* 3.3 7.0 + - - -
237C GLN* 3.1 64.3 + - + +
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Residues in contact with PHE 234 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145C ALA* 3.0 35.2 - - + -
146C TYR* 3.4 25.6 - + + -
149C ALA* 3.5 17.3 - - + -
200C ILE* 3.5 19.5 - - + -
202C TRP* 4.3 16.1 - + - -
230C TYR* 2.5 49.3 + + + +
231C LEU* 4.2 5.6 - - - +
233C HIS* 1.3 75.2 - - - +
235C VAL* 1.3 66.0 + - + +
237C GLN* 3.7 1.7 + - - +
238C ALA* 3.1 18.9 + - - +
249D PHE* 3.7 38.8 - + + -
253D PHE* 5.1 3.6 - + + -
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Residues in contact with VAL 235 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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231C LEU 3.1 19.9 + - - +
232C LYS 4.5 3.6 - - - +
233C HIS 3.2 0.8 - - - -
234C PHE* 1.3 77.3 - - + +
236C THR* 1.3 58.6 + - - +
238C ALA* 2.7 27.3 + - - +
239C GLU* 2.8 36.8 + - - +
249D PHE 4.4 2.7 - - - +
250D VAL* 3.8 27.6 - - + +
253D PHE* 3.9 31.9 - - + +
254D LYS* 4.8 5.2 - - + -
257D ILE* 4.3 17.3 - - + -
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Residues in contact with THR 236 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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232C LYS* 2.7 33.7 + - - +
233C HIS* 3.6 7.5 + - - -
235C VAL* 1.3 77.2 - - - +
237C GLN* 1.3 65.7 + - - +
239C GLU* 3.3 17.5 + - + +
240C GLN* 3.0 30.4 + - + +
257D ILE* 5.6 2.4 - - - +
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Residues in contact with GLN 237 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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198C LEU 5.5 0.4 - - - +
200C ILE* 4.6 11.7 - - + +
202C TRP* 3.5 22.1 + - + +
233C HIS* 3.1 53.1 + - + +
234C PHE 4.0 4.3 - - - +
236C THR* 1.3 79.5 - - - +
238C ALA* 1.3 65.8 + - - +
240C GLN* 3.3 15.7 + - - +
241C ARG* 2.9 19.4 + - - +
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Residues in contact with ALA 238 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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202C TRP* 3.4 24.0 - - + -
234C PHE* 3.1 15.7 + - + +
235C VAL* 2.7 16.9 + - - +
237C GLN* 1.3 70.0 - - - +
239C GLU* 1.3 65.9 + - - +
241C ARG* 3.0 6.1 + - - +
242C ALA* 3.0 18.2 + - - +
245D MET* 3.5 8.1 - - + +
246D ILE* 4.9 0.2 - - - +
249D PHE* 4.5 15.5 - - + -
250D VAL* 3.7 18.8 - - + -
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Residues in contact with GLU 239 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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235C VAL* 2.8 40.2 + - - +
236C THR* 3.4 15.7 + - - +
238C ALA* 1.3 76.4 - - - +
240C GLN* 1.3 64.8 + - - +
242C ALA* 2.9 20.1 + - - +
243C ILE* 3.4 9.1 + - - +
246D ILE* 4.2 13.7 - - + -
250D VAL* 3.7 21.9 - - + +
254D LYS* 4.4 14.1 - - - -
257D ILE* 5.0 2.8 - - - +
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Residues in contact with GLN 240 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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236C THR* 3.0 16.7 + - + +
237C GLN* 3.4 23.3 - - - +
238C ALA 3.2 0.2 - - - -
239C GLU* 1.3 76.0 - - - +
241C ARG* 1.3 52.7 + - - +
243C ILE* 2.6 39.4 + - - +
244C SER* 2.9 22.2 + - - -
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Residues in contact with ARG 241 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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202C TRP* 3.2 53.8 - - + +
203C ALA* 3.7 13.9 - - - +
237C GLN 2.9 7.7 + - - +
238C ALA 3.3 9.4 - - - +
240C GLN* 1.3 75.3 - - - +
242C ALA* 1.3 57.3 + - - +
244C SER* 3.2 16.7 + - - -
245C MET* 2.9 54.4 + - - +
248C LYS* 5.2 2.0 - - - +
249C PHE* 3.5 28.9 - - - -
202D TRP* 5.2 3.4 + - - +
206D MET* 3.9 12.7 - - - +
245D MET* 3.2 19.9 - - + +
4I G 5.8 0.2 - - - -
5I G 3.5 26.0 + - - -
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Residues in contact with ALA 242 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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238C ALA 3.0 6.4 + - - +
239C GLU 2.9 16.4 + - - +
241C ARG* 1.3 78.9 - - - +
243C ILE* 1.3 63.4 + - + +
246C ILE* 3.1 23.9 + - - +
242D ALA* 3.7 20.3 - - + +
245D MET* 3.2 12.5 - - + +
246D ILE* 3.6 29.8 - - + -
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Residues in contact with ILE 243 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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239C GLU 3.7 10.5 - - - +
240C GLN* 2.6 28.5 + - - +
242C ALA* 1.3 75.9 - - + +
244C SER* 1.3 54.0 + - - +
245C MET 2.8 5.0 + - - -
246C ILE* 2.5 35.2 + - + +
247C ASP* 3.1 25.3 + - + +
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Residues in contact with SER 244 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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240C GLN* 2.9 13.0 + - - +
241C ARG* 3.2 33.9 + - - -
243C ILE* 1.3 77.6 - - - +
245C MET* 1.3 56.1 + - - +
246C ILE 3.2 0.2 - - - -
247C ASP* 3.9 7.9 - - - +
248C LYS* 3.0 33.8 + - - +
4I G 5.6 5.8 - - - -
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Residues in contact with MET 245 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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241C ARG* 2.9 45.0 + - - +
242C ALA 3.9 4.9 - - - +
243C ILE 2.8 0.6 + - - -
244C SER* 1.3 78.3 + - - +
246C ILE* 1.3 60.6 + - - +
249C PHE* 3.0 54.2 + - + +
250C VAL* 3.8 2.1 + - - +
202D TRP* 4.9 9.6 - - + -
238D ALA* 4.4 13.2 - - - +
241D ARG* 3.6 20.0 - - + -
242D ALA* 3.5 21.3 - - + -
245D MET* 3.2 42.2 - - + +
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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
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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) + - + + + + + -
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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