Contacts of the helix formed by residues 213 - 237 (chain C) in PDB entry 1C3Q
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 ASN 213 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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-6C HIS 5.6 0.4 - - - +
-4C HIS* 5.6 1.8 + - - -
176C ASP* 5.2 4.6 + - - +
179C HIS* 6.4 0.2 - - - -
211C GLU* 3.0 19.5 + - - +
212C GLU* 1.3 82.3 - - + +
214C PRO* 1.3 63.4 - - - +
215C LEU* 2.8 27.1 + - - +
216C PHE* 3.1 36.1 + - + -
217C ALA* 2.9 26.3 + - - +
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Residues in contact with PRO 214 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
-10C ARG* 5.2 4.0 - - - +
118C ALA* 3.5 43.1 - - + +
119C ALA* 4.9 1.6 - - + -
164C VAL* 3.9 12.3 - - + +
208C CYS* 4.2 11.7 - - - -
211C GLU 4.6 0.6 - - - +
212C GLU 3.1 11.9 - - - +
213C ASN* 1.3 87.1 - - - +
215C LEU* 1.3 57.7 + - - +
217C ALA* 3.6 9.5 - - + +
218C ALA* 2.9 31.4 + - - +
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Residues in contact with LEU 215 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
-4C HIS* 4.4 2.9 - - + -
164C VAL* 3.6 16.5 - - + +
174C ILE* 3.8 36.1 - - + +
175C ALA* 4.3 9.9 - - - +
176C ASP* 4.0 16.4 - - - +
179C HIS* 3.9 28.0 - - + +
181C TYR* 4.1 13.7 - - + -
213C ASN* 2.8 20.0 + - - +
214C PRO* 1.3 77.1 - - - +
216C PHE* 1.3 69.5 + - + +
218C ALA* 3.3 1.7 + - - +
219C ILE* 2.9 47.4 + - + +
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Residues in contact with PHE 216 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
-6C HIS* 3.3 45.3 - - + -
-5C HIS* 4.0 4.7 - + - -
-4C HIS* 3.4 51.4 - + - -
1C MET* 3.9 36.7 - - + +
9C CYS* 5.4 0.7 - - - -
181C TYR* 4.4 0.7 - + - -
211C GLU* 4.1 13.7 - - + +
213C ASN* 3.1 32.2 + - + +
215C LEU* 1.3 86.4 - - + +
217C ALA* 1.3 66.5 + - - +
219C ILE* 3.3 6.5 + - + +
220C ALA* 2.9 26.2 + - - +
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Residues in contact with ALA 217 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C CYS* 5.3 0.2 - - - -
204C VAL 5.1 0.7 - - - -
207C PHE* 3.4 16.9 - - - +
208C CYS* 3.7 39.5 - - - +
211C GLU* 3.7 18.5 - - + +
213C ASN 2.9 16.6 + - - +
214C PRO* 3.6 5.8 - - + +
216C PHE* 1.3 78.8 - - - +
218C ALA* 1.3 57.0 + - - +
220C ALA* 3.4 3.5 + - - +
221C ALA* 2.9 23.4 + - - +
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Residues in contact with ALA 218 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119C ALA* 5.5 2.0 - - + -
164C VAL* 4.6 6.5 - - + -
166C ALA* 5.1 4.0 - - + -
174C ILE* 4.3 17.7 - - + -
204C VAL* 4.1 25.3 - - + +
214C PRO 2.9 19.5 + - - +
215C LEU 3.7 3.4 - - - +
217C ALA* 1.3 74.0 - - - +
219C ILE* 1.3 65.9 + - - +
221C ALA* 4.3 0.4 - - - -
222C ILE* 2.9 39.4 + - + +
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Residues in contact with ILE 219 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1C MET* 3.7 25.4 - - + -
174C ILE* 4.4 14.8 - - + -
181C TYR* 3.6 37.0 - - + -
183C LEU* 3.9 14.9 - - + +
215C LEU* 2.9 38.3 + - + +
216C PHE 3.6 3.6 - - - +
218C ALA* 1.3 75.7 - - - +
220C ALA* 1.3 59.0 + - - +
223C SER* 2.8 35.3 + - - +
266C ILE* 3.7 35.0 - - + -
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Residues in contact with ALA 220 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1C MET* 4.2 1.1 - - + -
6C ALA* 3.7 34.3 - - - +
9C CYS* 3.7 12.8 - - + -
207C PHE* 3.7 21.3 - - + -
216C PHE 2.9 17.6 + - - +
217C ALA 3.7 0.9 - - - +
219C ILE* 1.3 78.9 - - - +
221C ALA* 1.3 57.4 + - - +
223C SER* 3.9 0.5 - - - -
224C SER* 2.9 36.2 + - - -
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Residues in contact with ALA 221 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200C LEU* 4.6 2.2 - - + -
203C VAL* 3.9 6.9 - - + +
204C VAL* 3.6 35.0 - - + +
207C PHE* 3.6 25.0 - - + -
217C ALA 2.9 18.1 + - - +
218C ALA 3.7 4.3 - - - +
220C ALA* 1.3 78.1 - - - +
222C ILE* 1.3 57.6 - - - +
224C SER* 3.7 1.7 - - - -
225C TYR* 2.9 31.3 + - - +
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Residues in contact with ILE 222 (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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121C ARG* 5.0 1.8 - - + -
166C ALA* 4.2 11.9 - - + -
168C THR* 4.7 9.6 - - + -
172C ASP* 3.7 22.7 - - - +
174C ILE* 3.4 32.1 - - + -
183C LEU* 3.6 19.7 - - + -
185C ASN* 5.3 0.7 - - - +
200C LEU* 4.0 31.4 - - + -
204C VAL* 4.3 11.2 - - + -
218C ALA* 2.9 19.5 + - + +
221C ALA* 1.3 74.4 - - - +
223C SER* 1.3 58.0 + - - +
225C TYR* 3.7 1.4 - - - +
226C GLY* 2.9 27.0 + - - -
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Residues in contact with SER 223 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6C ALA* 4.7 3.6 - - - -
183C LEU* 4.0 8.2 - - - +
185C ASN* 4.5 13.5 + - - +
219C ILE 2.8 22.6 + - - -
220C ALA* 3.9 4.5 - - - -
222C ILE* 1.3 77.8 - - - +
224C SER* 1.3 57.9 + - - +
226C GLY* 3.1 2.1 + - - -
227C VAL* 2.9 35.3 + - - +
260C VAL* 5.1 0.7 - - - -
264C ALA* 4.2 14.6 - - - -
266C ILE* 3.3 32.8 - - - +
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Residues in contact with SER 224 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6C ALA 4.4 2.1 + - - -
10C LEU* 4.0 15.9 - - - +
39C LEU* 6.1 1.1 - - - -
207C PHE* 3.7 22.5 - - - -
220C ALA 2.9 21.9 + - - -
221C ALA 3.7 3.6 - - - -
223C SER* 1.3 74.9 - - - +
225C TYR* 1.3 63.2 + - - +
227C VAL* 3.3 3.2 + - - +
228C ALA* 3.0 24.3 + - - +
252C LEU* 5.6 0.9 - - - -
255C VAL* 4.8 6.1 - - - +
260C VAL* 3.9 29.9 - - - +
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Residues in contact with TYR 225 (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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190C LEU* 4.2 26.7 - - + -
196C ALA* 2.6 39.7 + - - +
199C LEU* 3.7 34.7 - - + +
200C LEU* 3.7 32.1 - - + -
203C VAL* 4.1 17.0 - - + +
221C ALA 2.9 17.5 + - - +
222C ILE 3.7 4.0 - - - +
224C SER* 1.3 76.2 - - - +
226C GLY* 1.3 57.7 + - - +
228C ALA* 3.3 7.6 + - - +
229C ALA* 2.9 28.8 + - - +
248C LEU* 3.8 15.8 - - + +
252C LEU* 3.9 23.8 - - + -
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Residues in contact with GLY 226 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185C ASN* 4.0 7.4 - - - -
186C GLY* 3.5 24.3 + - - -
190C LEU* 5.7 0.7 - - - -
222C ILE 2.9 15.4 + - - -
223C SER 3.5 3.4 - - - -
225C TYR* 1.3 77.5 - - - +
227C VAL* 1.3 59.6 + - - +
229C ALA* 3.1 5.5 + - - +
230C GLN* 2.9 32.2 + - - +
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Residues in contact with VAL 227 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185C ASN* 4.4 5.8 - - - +
223C SER 2.9 21.2 + - - +
224C SER* 3.7 5.8 - - - +
226C GLY* 1.3 74.8 - - - +
228C ALA* 1.3 64.5 + - - +
230C GLN* 3.1 10.6 + - - +
231C LEU* 2.9 40.4 + - + +
255C VAL* 4.1 12.8 - - + -
259C ASP* 4.1 17.3 - - + +
260C VAL* 4.3 9.4 - - + -
263C TRP* 4.0 15.7 - - + -
264C ALA* 3.9 29.8 - - - +
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Residues in contact with ALA 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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224C SER 3.0 14.1 + - - +
225C TYR 3.3 8.9 + - - +
227C VAL* 1.3 78.0 - - - +
229C ALA* 1.3 56.3 + - - +
231C LEU* 3.5 6.4 + - - -
232C ALA* 3.0 27.7 + - - +
248C LEU* 4.3 3.8 - - + +
251C LYS* 3.4 28.3 - - + +
252C LEU* 3.8 26.2 - - + -
255C VAL* 4.5 7.8 - - + +
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Residues in contact with ALA 229 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186C GLY* 4.4 4.7 - - - -
187C HIS* 4.6 3.6 - - - +
190C LEU* 4.0 38.1 - - + -
225C TYR 2.9 14.1 + - - +
226C GLY* 3.4 9.6 - - - +
227C VAL 3.1 0.2 - - - -
228C ALA* 1.3 74.8 - - - +
230C GLN* 1.3 59.2 + - - +
232C ALA* 3.1 4.5 + - - +
233C ALA* 2.9 30.2 + - - +
244C PHE* 3.6 6.3 - - + -
248C LEU* 4.0 12.3 - - + +
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Residues in contact with GLN 230 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184C HIS 4.1 1.4 - - - +
185C ASN* 2.9 27.3 + - - +
186C GLY 2.8 41.8 + - - +
187C HIS* 4.8 2.2 - - + +
226C GLY 2.9 15.6 + - - +
227C VAL* 3.6 8.1 - - - +
229C ALA* 1.3 75.6 - - - +
231C LEU* 1.3 62.2 + - + +
233C ALA* 3.2 6.6 + - - +
234C GLN* 2.8 41.1 + - - +
263C TRP* 4.5 19.4 + - - +
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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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227C VAL* 2.9 35.4 + - + +
228C ALA* 3.7 5.2 - - - +
230C GLN* 1.3 78.3 - - + +
232C ALA* 1.3 61.8 + - - +
234C GLN* 3.6 21.3 + - + +
235C GLN* 3.7 6.4 + - - +
251C LYS* 3.8 30.4 - - + -
255C VAL* 4.2 12.6 - - + -
259C ASP* 4.0 24.0 - - - +
263C TRP* 4.6 18.6 - - + +
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Residues in contact with ALA 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 ALA 3.0 17.5 + - - +
229C ALA* 3.1 6.3 + - - +
231C LEU* 1.3 75.4 - - - +
233C ALA* 1.3 65.0 + - - +
235C GLN 3.2 8.8 + - - -
236C THR* 2.9 19.5 + - - -
244C PHE* 3.7 14.6 - - + -
247C GLU* 3.6 30.0 - - + +
248C LEU* 3.8 19.5 - - - +
251C LYS* 3.7 2.4 - - + +
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Residues in contact with ALA 233 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187C HIS* 3.4 47.3 - - + +
189C LEU* 4.2 2.5 - - + -
229C ALA 2.9 13.6 + - - +
230C GLN* 3.2 5.1 + - - +
232C ALA* 1.3 75.0 - - - +
234C GLN* 1.3 64.2 + - - +
236C THR* 4.1 1.6 - - - -
237C ALA* 2.6 34.9 + - - +
244C PHE* 3.7 12.0 - - + -
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Residues in contact with GLN 234 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230C GLN* 2.8 37.9 + - - +
231C LEU* 3.6 17.3 - - + +
232C ALA 3.3 0.2 - - - -
233C ALA* 1.3 78.8 - - - +
235C GLN* 1.3 60.8 + - + +
237C ALA* 4.8 2.3 + - - +
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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
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231C LEU 3.7 4.4 + - - +
232C ALA 3.2 7.0 + - - +
233C ALA 3.0 1.0 - - - -
234C GLN* 1.3 83.3 - - + +
236C THR* 1.3 64.2 + - + +
239C LYS* 3.4 19.2 + - - -
247C GLU* 2.4 37.3 + - + +
251C LYS* 2.8 18.7 + - - +
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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
----------------------------------------------------------
189C LEU* 4.7 1.4 - - - +
232C ALA 2.9 13.3 + - - -
233C ALA 3.0 0.6 + - - -
235C GLN* 1.3 87.3 - - + +
237C ALA* 1.3 66.3 + - - +
238C ASP 3.0 3.4 - - - -
239C LYS* 2.8 24.3 + - + +
240C GLY* 3.2 11.6 + - - +
243C SER* 3.5 33.2 - - - +
244C PHE* 3.2 30.4 - - - +
247C GLU* 4.0 14.4 - - + +
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Residues in contact with ALA 237 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187C HIS* 4.7 9.0 - - + +
189C LEU* 3.8 24.0 - - + +
233C ALA* 2.6 27.2 + - + +
234C GLN* 4.7 2.4 + - - +
235C GLN 4.0 0.2 - - - -
236C THR* 1.3 72.5 + - - +
238C ASP* 1.3 59.1 + - - +
240C GLY* 4.3 5.2 + - - -
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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
------------------------------------------------------------
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