Contacts of the helix formed by residues 212 - 245 (chain C) in PDB entry 3KHU
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 212 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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182C GLY 3.4 10.1 - - - +
183C ASP* 5.6 0.9 - - - -
184C GLU* 4.3 28.3 + - + +
211C THR* 1.3 91.7 + - - +
213C THR* 1.3 64.0 + - - +
214C TRP* 2.9 22.0 + - + +
215C SER* 2.8 38.1 + - - -
216C SER* 3.1 9.4 + - - -
245D GLY 3.0 22.5 + - - -
246D ALA* 4.3 0.4 - - - +
247D ASP* 4.4 5.1 - - - +
250D GLU* 3.0 16.6 + - - +
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Residues in contact with THR 213 (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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137C ALA* 3.4 33.0 - - + -
156C VAL 4.5 0.2 + - - -
157C LEU 5.0 0.9 - - - -
158C SER* 4.1 17.9 - - - +
181C GLY* 4.0 4.4 + - - -
182C GLY* 3.2 30.5 + - - +
183C ASP* 3.6 3.7 + - - +
212C ASN* 1.3 75.0 - - - +
214C TRP* 1.3 69.4 + - + +
216C SER* 3.4 2.8 + - - -
217C GLU* 3.1 25.7 + - - +
609C EDO 3.3 23.7 + - - +
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Residues in contact with TRP 214 (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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134C VAL* 4.2 21.8 - - + +
135C ARG* 4.8 13.7 - - + +
138C GLU* 4.4 23.1 + - + +
183C ASP* 5.4 6.7 - - - -
212C ASN* 2.9 21.8 + - + +
213C THR* 1.3 82.0 - - + +
215C SER* 1.3 60.4 + - - +
217C GLU* 3.4 11.1 + - - +
218C LEU* 2.9 31.9 + - - +
609C EDO 4.7 14.8 - - - -
244D THR* 3.6 24.5 + - - +
245D GLY* 4.0 13.9 - - - -
246D ALA* 3.5 18.3 - - + +
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Residues in contact with SER 215 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211C THR* 3.7 9.0 - - - -
212C ASN* 2.8 19.2 + - - -
214C TRP* 1.3 72.2 - - - +
216C SER* 1.3 54.5 + - - +
219C SER* 2.6 39.2 + - - -
246D ALA* 3.8 8.9 - - - +
247D ASP 2.9 23.7 + - - -
250D GLU* 2.7 37.9 + - - +
251D VAL* 3.8 8.1 - - - +
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Residues in contact with SER 216 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158C SER* 2.8 23.4 + - - -
160C PRO* 3.2 26.0 - - - +
179C LEU* 3.6 15.8 - - - +
181C GLY* 3.7 14.5 + - - -
211C THR* 3.5 16.2 - - - -
212C ASN 3.1 6.7 + - - -
213C THR 3.5 7.0 - - - -
214C TRP 3.1 0.2 - - - -
215C SER* 1.3 76.1 - - - +
217C GLU* 1.3 67.3 + - - +
219C SER* 3.3 10.1 + - - -
220C LYS 3.4 8.7 + - - -
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Residues in contact with GLU 217 (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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128C GLU* 2.8 30.7 - - - +
132C VAL* 3.9 15.0 - - + +
133C PRO 3.9 6.3 - - - +
134C VAL* 3.6 16.8 - - - +
135C ARG* 2.9 27.4 + - - -
136C ALA* 3.5 3.6 + - - +
137C ALA* 2.9 28.0 + - - +
158C SER* 3.9 7.0 - - - +
160C PRO* 5.1 2.2 - - - -
213C THR* 3.1 18.7 + - - +
214C TRP* 3.9 9.1 - - - +
216C SER* 1.3 80.1 - - - +
218C LEU* 1.3 62.1 + - - +
220C LYS* 3.5 11.5 + - - +
221C LEU* 3.7 14.9 + - - +
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Residues in contact with LEU 218 (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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134C VAL* 3.8 21.0 - - + +
214C TRP 2.9 17.5 + - - +
215C SER 4.0 2.9 - - - +
217C GLU* 1.3 74.7 - - - +
219C SER* 1.3 60.3 + - - +
221C LEU* 3.4 3.2 + - + +
222C ALA* 2.9 34.4 + - + +
284C LEU* 3.8 28.5 - - + -
287C LEU* 4.8 0.2 - - + -
237D ILE* 4.3 12.3 - - + -
240D LEU* 4.3 22.9 - - + -
241D CYS* 4.1 16.4 - - - +
244D THR* 4.8 4.3 - - + +
246D ALA* 3.9 22.9 - - + -
251D VAL* 4.3 5.8 - - + -
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Residues in contact with SER 219 (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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162C PHE* 5.3 1.6 - - - -
177C ARG* 5.5 0.2 + - - -
179C LEU* 3.8 10.6 - - - +
211C THR* 5.7 0.3 - - - +
215C SER* 2.6 25.4 + - - -
216C SER 3.7 5.2 - - - -
217C GLU 3.3 0.2 - - - -
218C LEU* 1.3 75.6 - - - +
220C LYS* 1.3 61.0 + - - +
222C ALA* 4.0 6.2 - - - +
223C ALA* 2.9 32.9 + - - +
250D GLU 4.5 0.5 + - - -
251D VAL* 3.5 20.6 - - - -
254D ALA* 3.4 31.6 - - - +
255D ILE* 4.5 3.3 - - - +
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Residues in contact with LYS 220 (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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131C THR* 3.6 28.9 - - + +
160C PRO* 3.9 22.7 - - + -
161C GLN* 2.8 33.7 + - - +
162C PHE* 3.7 24.7 - - + -
179C LEU* 4.9 0.8 - - - +
216C SER 3.4 5.3 + - - +
217C GLU* 3.9 9.0 - - - +
218C LEU 3.3 0.6 - - - -
219C SER* 1.3 80.8 - - - +
221C LEU* 1.3 62.2 + - - +
223C ALA* 3.5 1.7 + - - +
224C ASN* 3.3 30.7 + - - +
280C ASP* 4.4 1.3 - - - +
501C UPG 2.7 51.1 + - - -
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Residues in contact with LEU 221 (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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131C THR* 3.9 17.3 - - + -
132C VAL 4.2 12.6 - - - +
134C VAL* 4.2 24.7 - - + +
217C GLU 3.7 8.7 + - - +
218C LEU 3.4 5.5 + - - +
219C SER 3.4 0.2 - - - -
220C LYS* 1.3 75.4 - - - +
222C ALA* 1.3 58.7 + - - +
224C ASN* 3.3 4.5 + - - +
225C ALA* 2.9 26.9 + - - +
280C ASP* 3.8 44.5 - - + +
283C ASN* 3.6 26.2 - - + +
284C LEU* 4.6 28.1 - - + +
287C LEU* 5.1 2.0 - - + -
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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 LEU* 2.9 23.0 + - + +
219C SER* 4.0 3.1 - - - +
221C LEU* 1.3 78.0 - - - +
223C ALA* 1.3 62.8 + - - +
225C ALA* 3.0 7.9 + - - +
226C PHE* 2.8 31.0 + - + -
284C LEU* 4.8 4.3 - - - -
237D ILE* 4.2 22.9 - - + -
251D VAL* 4.4 3.6 - - + -
255D ILE* 3.9 21.1 - - + -
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Residues in contact with ALA 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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162C PHE* 4.5 7.4 - - + -
177C ARG* 4.0 23.3 - - - +
219C SER 2.9 19.5 + - - +
220C LYS 3.8 4.5 - - - +
222C ALA* 1.3 78.9 - - - +
224C ASN* 1.3 65.3 + - - +
226C PHE* 3.3 0.6 + - - -
227C LEU* 3.0 28.4 + - + +
255D ILE* 4.2 12.0 - - + +
258D ASP* 5.3 2.2 - - - +
261D ILE* 3.6 17.9 - - + +
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Residues in contact with ASN 224 (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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162C PHE* 5.8 0.7 - - - -
220C LYS* 3.3 16.0 + - - +
221C LEU 3.3 8.1 + - - +
222C ALA 3.3 0.2 - - - -
223C ALA* 1.3 81.3 - - - +
225C ALA* 1.3 56.7 + - - +
227C LEU* 3.3 9.6 + - - +
228C ALA* 2.9 32.1 + - - +
276C CYS* 3.9 6.9 - - - +
277C PHE* 3.6 29.9 - - + +
280C ASP* 2.8 34.8 + - + +
281C VAL* 4.9 2.5 - - + -
501C UPG 3.0 33.6 + - - -
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Residues in contact with ALA 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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221C LEU 2.9 14.4 + - - +
222C ALA* 3.0 9.4 + - - +
224C ASN* 1.3 77.5 - - - +
226C PHE* 1.3 57.0 + - - +
228C ALA* 3.9 1.4 - - - +
229C GLN* 2.9 30.5 + - - +
281C VAL* 4.0 19.4 - - + +
284C LEU* 3.9 17.0 - - + -
300C TRP* 3.6 30.9 - - + -
303C VAL* 4.6 1.0 - - - +
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Residues in contact with PHE 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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222C ALA 2.8 30.6 + - - -
223C ALA 3.7 6.7 - - - +
225C ALA* 1.3 70.5 - - - +
227C LEU* 1.3 66.8 + - - +
229C GLN* 3.3 11.2 + - - +
230C ARG* 3.1 28.6 + - + +
300C TRP* 3.9 22.7 - + - -
230D ARG* 4.4 12.1 - - + -
233D SER* 3.5 26.0 - - - -
234D ILE* 3.8 15.9 - - + -
237D ILE* 4.3 9.0 - - + -
255D ILE* 3.8 25.6 - - + -
261D ILE* 4.1 30.1 - - + -
266D LEU* 3.6 25.6 - - + -
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Residues in contact with LEU 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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223C ALA* 3.0 21.4 + - + +
224C ASN* 3.3 19.9 + - - +
226C PHE* 1.3 76.3 - - - +
228C ALA* 1.3 63.8 + - - +
230C ARG* 3.2 17.9 + - - +
231C ILE* 3.4 14.9 + - - +
265C PHE* 3.9 25.3 - - + -
277C PHE* 3.8 19.7 - - + -
501C UPG 4.2 1.8 - - - +
258D ASP* 3.9 4.7 - - - +
260D ARG* 3.5 49.6 - - + +
261D ILE* 3.6 23.1 - - + -
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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 ASN 2.9 16.8 + - - +
225C ALA 3.9 1.8 - - - +
227C LEU* 1.3 78.7 - - - +
229C GLN* 1.3 56.2 + - - +
231C ILE* 3.3 6.3 + - - +
232C SER* 2.9 31.0 + - - -
272C PHE* 3.9 19.4 - - + -
277C PHE* 4.1 23.4 - - + -
281C VAL* 4.4 6.5 - - + -
303C VAL* 3.7 18.2 - - + -
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Residues in contact with GLN 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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225C ALA 2.9 19.6 + - - +
226C PHE* 3.6 12.6 - - - +
227C LEU 3.2 0.2 - - - -
228C ALA* 1.3 72.7 - - - +
230C ARG* 1.3 60.5 + - + +
233C SER* 2.7 34.5 + - - -
299C TYR* 3.5 21.6 + - - -
300C TRP* 3.7 12.8 - - + -
303C VAL* 3.9 18.5 - - + +
229D GLN* 3.5 33.4 + - - +
230D ARG* 5.3 1.0 - - - +
233D SER* 2.6 33.4 + - - -
299D TYR* 3.1 10.1 + - - +
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Residues in contact with ARG 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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226C PHE 3.1 17.0 + - - +
227C LEU* 3.2 11.9 + - - +
229C GLN* 1.3 77.2 - - + +
231C ILE* 1.3 57.1 + - - +
233C SER* 3.3 6.7 + - - -
234C ILE* 3.0 30.1 + - - +
261C ILE* 3.0 27.8 + - - +
262C GLY 3.1 28.3 + - - -
264C LYS 2.7 30.5 + - - +
265C PHE* 3.4 19.0 + - + +
266C LEU* 3.8 15.7 - - + +
226D PHE* 4.2 12.4 - - + -
229D GLN* 5.4 1.6 - - - +
230D ARG* 3.5 22.0 - - - +
260D ARG 3.6 16.5 + - - -
261D ILE* 4.2 9.7 + - - +
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Residues in contact with ILE 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 LEU 3.4 7.8 + - - +
228C ALA* 3.3 5.8 + - - +
229C GLN 3.2 0.6 - - - -
230C ARG* 1.3 74.1 - - - +
232C SER* 1.3 60.6 + - - +
234C ILE* 3.3 7.7 + - - +
235C ASN* 2.8 47.7 + - - +
265C PHE* 3.8 19.3 - - + +
267C LYS 4.6 2.9 - - - +
269C SER* 4.2 1.8 - - - +
272C PHE* 3.9 19.3 - - + -
277C PHE* 3.9 14.8 - - + -
501C UPG 3.4 68.9 - - + +
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Residues in contact with SER 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 2.9 12.3 + - - -
231C ILE* 1.3 77.5 - - - +
233C SER* 1.3 57.9 + - - +
235C ASN* 4.2 5.4 - - - +
236C SER* 2.8 26.5 + - - -
272C PHE* 3.5 15.1 - - - -
303C VAL* 2.8 31.6 + - - -
306C MET* 3.3 22.6 - - - +
307C ASN* 3.9 7.5 + - - +
299D TYR* 3.5 15.9 - - - -
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Residues in contact with SER 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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229C GLN 2.7 18.0 + - - -
230C ARG 3.7 1.8 - - - -
232C SER* 1.3 71.7 - - - +
234C ILE* 1.3 63.3 + - - +
236C SER* 2.5 22.8 + - - -
237C ILE* 3.0 8.4 + - - +
226D PHE* 3.4 24.0 - - - -
229D GLN* 2.7 29.9 + - - -
299D TYR* 2.6 28.2 + - - -
300D TRP* 3.7 6.0 - - - -
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Residues in contact with ILE 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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230C ARG 3.0 15.7 + - - +
231C ILE* 3.4 12.3 - - - +
233C SER* 1.3 75.7 - - - +
235C ASN* 1.3 61.3 + - - +
237C ILE* 3.3 11.0 + - + +
238C SER* 2.9 23.2 + - - -
248C VAL* 3.7 22.8 - - + +
252C ALA* 3.9 26.9 - - + +
255C ILE* 4.1 19.1 - - + -
266C LEU* 3.7 31.9 - - + +
267C LYS 4.1 1.3 - - - -
268C ALA* 3.9 24.0 - - - +
226D PHE* 3.7 8.0 - - + -
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Residues in contact with ASN 235 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231C ILE* 2.8 39.1 + - - +
232C SER* 3.7 7.5 - - - +
234C ILE* 1.3 74.3 - - - +
236C SER* 1.3 65.4 + - - +
238C SER* 2.5 24.6 + - - -
239C ALA* 3.3 4.0 + - - +
268C ALA* 3.2 9.2 - - - -
269C SER* 2.8 47.3 + - - +
271C GLY* 4.2 6.9 - - - -
306C MET* 4.7 4.3 - - + -
307C ASN* 4.4 5.7 + - - +
310C GLN* 3.3 28.6 + - + +
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Residues in contact with SER 236 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232C SER 2.8 18.0 + - - -
233C SER 2.5 19.3 + - - -
235C ASN* 1.3 72.3 - - - +
237C ILE* 1.3 61.3 + - - +
239C ALA* 3.2 15.6 + - - +
240C LEU* 3.4 7.1 + - - +
306C MET* 3.7 27.3 - - - -
296D VAL* 3.6 27.6 - - - +
299D TYR* 4.2 4.7 - - - -
300D TRP* 3.0 24.2 + - - -
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Residues in contact with ILE 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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233C SER 3.0 11.6 + - - +
234C ILE* 3.5 13.0 - - + +
235C ASN 3.2 0.2 - - - -
236C SER* 1.3 78.5 + - - +
238C SER* 1.3 60.5 + - - +
240C LEU* 3.1 19.3 + - + +
241C CYS* 2.9 41.5 + - - -
248C VAL* 4.2 7.2 - - + -
251C VAL* 3.9 22.7 - - + -
218D LEU* 4.2 11.2 - - + -
222D ALA* 4.1 20.0 - - + -
226D PHE* 4.3 17.0 - - + -
284D LEU* 4.7 4.5 - - + -
300D TRP* 4.2 20.6 - - + +
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Residues in contact with SER 238 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234C ILE 2.9 12.2 + - - -
235C ASN* 2.5 20.3 + - - -
237C ILE* 1.3 77.0 - - - +
239C ALA* 1.3 62.4 + - - +
241C CYS* 3.4 0.6 + - - -
242C GLU* 3.2 27.2 + - - +
248C VAL* 3.9 15.0 - - - -
268C ALA* 4.3 8.3 - - - -
310C GLN* 3.0 22.1 + - - -
313C ARG* 3.0 5.8 + - - -
462C ILE 4.6 1.1 - - - -
463C GLY* 3.4 23.5 - - - -
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Residues in contact with ALA 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 ASN 3.3 2.4 + - - +
236C SER* 3.2 11.3 + - - +
237C ILE 3.2 0.6 - - - -
238C SER* 1.3 82.5 + - - +
240C LEU* 1.3 60.7 + - - +
242C GLU* 3.2 14.0 + - - +
243C ALA* 3.2 13.5 + - - +
309C TYR* 4.0 16.2 - - + +
313C ARG* 3.5 34.3 - - - +
293D LEU* 4.0 10.3 - - + +
296D VAL* 4.1 11.4 - - + -
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Residues in contact with LEU 240 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236C SER 3.4 3.6 + - - +
237C ILE* 3.1 22.4 + - + +
239C ALA* 1.3 76.7 - - - +
241C CYS* 1.3 63.0 + - - +
243C ALA* 3.1 2.4 + - - +
244C THR* 2.8 32.7 + - + +
218D LEU* 4.2 19.3 - - + -
284D LEU* 3.9 23.3 - - + -
287D LEU* 4.2 9.6 - - + -
288D CYS* 3.6 29.8 - - - -
291D LEU* 3.9 20.9 - - + -
293D LEU* 3.6 23.3 - - + +
296D VAL* 4.5 5.8 - - + -
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Residues in contact with CYS 241 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
237C ILE* 2.9 35.0 + - - +
238C SER 3.5 6.1 - - - +
240C LEU* 1.3 78.5 - - - +
242C GLU* 1.3 62.1 + - - +
244C THR* 3.7 6.1 - - - -
245C GLY* 3.0 23.7 + - - -
246C ALA* 3.2 31.7 - - - +
247C ASP 3.7 4.9 - - - -
248C VAL* 3.4 30.1 - - - +
251C VAL* 4.2 1.6 - - - -
463C GLY* 3.6 12.8 - - - +
465C LYS* 4.1 3.2 - - - +
218D LEU* 4.0 3.8 - - - -
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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 SER 3.2 10.8 + - - +
239C ALA* 3.2 6.1 + - - +
241C CYS* 1.3 77.3 - - - +
243C ALA* 1.3 60.7 + - - +
313C ARG* 2.6 40.6 + - - -
317C ARG* 3.2 28.8 + - - +
462C ILE* 3.3 3.3 - - - +
463C GLY 2.8 27.9 + - - +
464C LYS 3.7 15.7 - - - +
465C LYS* 3.5 30.2 - - - +
466C VAL 5.0 0.2 + - - -
----------------------------------------------------------
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Residues in contact with ALA 243 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
239C ALA 3.2 11.3 + - - +
240C LEU 3.1 8.7 + - - +
241C CYS 3.1 1.0 - - - -
242C GLU* 1.3 78.4 - - - +
244C THR* 1.3 60.8 + - - +
465C LYS* 4.8 6.9 + - - +
291D LEU* 4.0 28.6 - - + +
293D LEU* 3.9 21.1 - - + -
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Residues in contact with THR 244 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
240C LEU* 2.8 23.1 + - + +
241C CYS* 3.5 1.0 + - - -
243C ALA* 1.3 79.2 - - - +
245C GLY* 1.3 59.3 + - - +
246C ALA* 3.2 20.2 + - - +
465C LYS* 4.3 10.3 + - - +
134D VAL* 4.3 24.7 - - + -
214D TRP* 3.5 27.4 + - - -
218D LEU* 4.7 2.9 - - + +
287D LEU* 4.9 4.5 - - + -
291D LEU* 3.6 28.5 - - + -
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Residues in contact with GLY 245 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241C CYS 3.0 8.0 + - - -
244C THR* 1.3 78.4 - - - +
246C ALA* 1.3 66.4 + - - +
247C ASP* 5.0 0.5 - - - +
465C LYS* 3.9 22.0 - - - +
212D ASN* 3.0 18.9 + - - -
214D TRP* 3.8 17.1 - - - -
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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