Contacts of the helix formed by residues 212 - 244 (chain D) in PDB entry 3PRJ
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 D).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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245C GLY 5.3 7.1 + - - -
246C ALA* 5.7 1.2 - - - +
250C GLU* 5.1 2.8 + - - -
181D GLY* 3.8 2.0 - - - -
182D GLY 3.1 12.1 - - - +
183D ASP* 5.4 0.9 - - - -
184D GLU* 3.3 30.3 + - + +
211D THR* 1.3 87.3 + - - +
213D THR* 1.3 66.2 + - - +
214D TRP* 3.2 12.5 + - - +
215D SER* 3.1 31.9 + - - -
216D SER* 3.1 21.1 + - - -
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Residues in contact with THR 213 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137D ALA* 3.9 17.5 - - + +
141D ARG* 2.9 31.6 + - - +
156D VAL* 4.0 14.4 - - + +
158D SER* 4.1 7.1 - - - +
181D GLY* 3.5 27.4 - - - +
182D GLY* 3.7 12.4 + - - -
183D ASP* 4.1 5.6 - - - +
212D ASN* 1.3 74.0 + - - +
214D TRP* 1.3 67.8 + - - +
216D SER* 3.1 5.8 + - - -
217D GLU* 3.0 25.9 + - - +
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Residues in contact with TRP 214 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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240C LEU* 4.9 0.4 - - + -
244C THR* 2.8 59.7 + - + -
245C GLY 4.8 1.1 - - - -
246C ALA* 4.0 17.0 - - + +
133D PRO 6.1 0.2 - - - -
135D ARG* 4.9 20.6 - - + -
137D ALA* 6.3 0.2 - - - -
138D GLU* 5.9 1.6 - - - -
212D ASN* 3.2 9.4 + - - +
213D THR* 1.3 81.8 + - - +
215D SER* 1.3 64.5 + - - +
217D GLU* 3.0 27.0 + - + +
218D LEU* 2.9 46.2 + - + +
221D LEU* 5.6 3.8 - - + -
287D LEU* 4.0 27.8 - - + -
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Residues in contact with SER 215 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246C ALA* 4.2 20.5 - - - +
247C ASP 4.6 2.1 + - - -
250C GLU* 4.2 12.9 + - - +
251C VAL* 3.9 17.4 + - - +
211D THR* 3.5 24.6 + - - +
212D ASN* 3.1 21.5 + - - -
214D TRP* 1.3 77.4 - - - +
216D SER* 1.3 54.6 + - - +
218D LEU* 4.0 2.5 - - - +
219D SER* 2.6 36.1 + - - -
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Residues in contact with SER 216 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158D SER* 3.6 9.2 + - - -
160D PRO* 3.4 26.0 - - - +
179D LEU* 3.5 16.5 - - - +
181D GLY* 3.8 16.1 + - - -
211D THR* 3.9 11.6 - - - +
212D ASN 3.1 12.8 + - - -
213D THR* 3.1 11.2 + - - -
214D TRP 3.0 0.2 - - - -
215D SER* 1.3 76.6 - - - +
217D GLU* 1.3 64.3 + - - +
219D SER* 3.3 6.1 + - - -
220D LYS* 3.2 17.7 + - - +
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Residues in contact with GLU 217 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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128D GLU* 4.1 2.1 - - - +
133D PRO* 3.8 32.2 - - + +
135D ARG* 3.4 12.8 + - - -
136D ALA* 3.3 26.6 + - - +
137D ALA* 3.1 33.8 + - - +
138D GLU* 5.0 0.9 + - - +
158D SER* 3.5 17.1 + - - +
160D PRO* 4.9 0.7 - - - -
213D THR 3.0 14.5 + - - +
214D TRP* 3.0 21.5 + - + +
216D SER* 1.3 74.9 - - - +
218D LEU* 1.3 63.6 + - - +
220D LYS* 3.1 5.2 + - - +
221D LEU* 3.0 26.0 + - - +
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Residues in contact with LEU 218 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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237C ILE* 5.0 6.5 - - + -
240C LEU* 3.7 29.4 - - + -
241C CYS* 4.0 21.5 - - - +
244C THR* 4.3 5.6 - - - +
246C ALA* 3.7 28.9 - - + -
251C VAL* 4.3 9.6 - - + -
214D TRP* 2.9 45.4 + - + +
215D SER 4.1 3.1 - - - +
217D GLU* 1.3 74.4 - - - +
219D SER* 1.3 65.6 + - - +
221D LEU* 3.0 17.5 + - + +
222D ALA* 2.8 25.3 + - + +
284D LEU* 5.2 0.9 - - + -
287D LEU* 5.2 0.4 - - + -
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Residues in contact with SER 219 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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250C GLU 5.1 0.2 - - - -
251C VAL* 3.7 32.9 - - - +
254C ALA* 3.8 25.4 - - - +
255C ILE* 4.2 1.9 - - - +
162D PHE* 5.9 0.4 - - - -
179D LEU* 3.9 10.0 - - - +
211D THR* 5.8 0.7 - - - +
215D SER* 2.6 25.3 + - - -
216D SER* 3.4 6.8 - - - -
218D LEU* 1.3 74.8 - - - +
220D LYS* 1.3 57.3 - - - +
222D ALA* 3.4 1.2 + - - +
223D ALA* 2.8 32.7 + - - +
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Residues in contact with LYS 220 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131D THR 3.0 25.0 + - - +
133D PRO* 3.7 17.3 - - + -
160D PRO* 3.8 21.3 - - + -
161D GLU 2.9 26.5 - - - +
162D PHE* 3.3 29.3 - - + -
179D LEU* 4.7 0.4 - - - +
216D SER 3.2 5.3 + - - +
217D GLU 3.1 9.2 + - - +
219D SER* 1.3 76.6 - - - +
221D LEU* 1.3 66.8 + - - +
223D ALA* 4.4 2.2 - - + -
224D ASN* 2.9 52.3 + - - +
501D UDX 2.7 30.5 + - - -
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Residues in contact with LEU 221 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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132D VAL* 4.0 15.5 - - + -
133D PRO* 3.8 23.8 - - + +
134D VAL* 5.1 11.2 - - + -
214D TRP* 5.6 4.3 - - + -
217D GLU 3.0 15.4 + - - +
218D LEU* 3.4 14.1 - - + +
220D LYS* 1.3 77.3 - - - +
222D ALA* 1.3 64.2 + - - +
225D ALA* 3.0 11.1 + - - +
280D ASP* 2.9 42.0 - - - +
283D ASN* 5.1 3.6 - - + +
284D LEU* 4.2 39.2 - - + +
287D LEU* 4.5 15.5 - - + -
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Residues in contact with ALA 222 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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237C ILE* 4.0 32.5 - - + -
251C VAL* 4.4 2.2 - - + -
255C ILE* 3.7 23.1 - - + -
218D LEU* 2.8 18.1 + - + +
219D SER 3.8 1.8 - - - +
221D LEU* 1.3 74.1 - - - +
223D ALA* 1.3 57.0 + - - +
225D ALA* 2.7 30.0 + - - +
226D PHE* 2.9 18.3 + - + -
284D LEU* 5.4 2.0 - - - -
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Residues in contact with ALA 223 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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254C ALA 5.5 0.4 - - - -
255C ILE* 4.0 23.4 - - + +
258C ASP* 5.7 0.2 - - - +
261C ILE* 3.6 5.1 - - + +
162D PHE* 4.6 6.1 - - + -
177D ARG* 3.9 23.8 - - - +
219D SER 2.8 22.9 + - - +
220D LYS* 3.8 6.1 - - - +
222D ALA* 1.3 72.4 - - - +
224D ASN* 1.3 64.4 + - - +
226D PHE* 3.3 3.5 + - - +
227D LEU* 3.1 29.8 + - + +
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Residues in contact with ASN 224 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131D THR 3.1 25.1 + - - -
132D VAL* 4.1 1.4 - - - +
162D PHE* 5.5 0.3 - - - -
220D LYS* 2.9 39.3 + - - +
223D ALA* 1.3 74.6 - - - +
225D ALA* 1.3 64.8 + - - +
227D LEU* 3.3 7.3 + - - +
228D ALA* 3.0 23.1 + - - +
276D CYS* 3.3 17.6 - - - -
277D PHE* 3.8 11.7 - - + -
280D ASP* 3.2 34.3 + - + +
281D VAL* 5.8 0.2 - - - -
501D UDX 3.8 13.2 + - - -
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Residues in contact with ALA 225 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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221D LEU 3.0 13.7 + - - +
222D ALA* 2.7 16.1 + - - +
224D ASN* 1.3 72.0 - - - +
226D PHE* 1.3 52.5 + - - +
228D ALA* 3.0 7.3 + - - +
229D GLN* 2.8 35.7 + - - +
280D ASP* 4.0 6.3 - - - +
281D VAL* 4.6 8.7 - - + -
284D LEU* 4.0 16.4 - - + -
300D TRP* 3.5 30.6 - - + -
303D VAL* 5.0 0.7 - - - +
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Residues in contact with PHE 226 (chain D).
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* 4.3 12.1 - - + -
233C SER* 3.5 27.4 - - - -
234C ILE* 3.6 25.6 - - + -
237C ILE* 3.9 23.1 - - + -
255C ILE* 4.1 20.9 - - + -
261C ILE* 4.1 20.9 - - + -
266C LEU* 3.6 24.9 - - + -
222D ALA* 2.9 23.8 + - + -
223D ALA 3.5 8.1 - - - +
225D ALA* 1.3 71.3 - - - +
227D LEU* 1.3 62.1 + - - +
229D GLN* 3.2 13.5 + - - +
230D ARG* 3.1 28.5 + - - +
300D TRP* 3.8 14.1 - + - -
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Residues in contact with LEU 227 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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258C ASP* 3.8 7.2 - - - +
260C ARG* 3.6 44.0 - - + +
261C ILE* 3.8 21.7 - - + +
223D ALA* 3.1 18.3 + - + +
224D ASN* 3.4 11.4 - - - +
225D ALA 3.2 0.2 - - - -
226D PHE* 1.3 79.3 - - - +
228D ALA* 1.3 62.5 + - - +
230D ARG* 3.3 18.1 + - - +
231D ILE* 3.5 18.2 + - - +
265D PHE* 3.7 26.4 - - + -
277D PHE* 3.6 13.5 - - + -
501D UDX 4.0 20.0 - - - +
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Residues in contact with ALA 228 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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224D ASN 3.0 13.5 + - - +
225D ALA 3.6 6.5 - - - +
227D LEU* 1.3 76.7 - - - +
229D GLN* 1.3 62.7 + - - +
231D ILE* 3.3 8.1 + - - +
232D SER* 3.1 17.3 + - - -
272D PHE* 3.8 9.3 - - + -
277D PHE* 3.8 34.7 - - + -
281D VAL* 4.4 10.1 - - + -
303D VAL* 3.7 19.3 - - + +
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Residues in contact with GLN 229 (chain D).
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* 3.5 26.4 - - - +
230C ARG* 5.5 1.4 - - - +
233C SER* 2.7 32.6 + - - -
299C TYR* 3.1 20.6 + - + +
225D ALA 2.8 16.0 + - - +
226D PHE* 3.4 10.9 - - - +
228D ALA* 1.3 75.5 - - - +
230D ARG* 1.3 54.8 + - - +
232D SER 3.1 0.9 + - - -
233D SER* 2.6 34.5 + - - -
299D TYR* 3.3 24.9 + - - -
300D TRP* 3.7 13.3 - - + -
303D VAL* 3.8 22.5 - - + +
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Residues in contact with ARG 230 (chain D).
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* 4.3 9.9 - - + -
229C GLN* 5.5 1.3 - - - +
230C ARG* 3.5 20.4 - - - +
260C ARG 3.7 15.4 + - - -
261C ILE* 3.9 11.9 + - - +
226D PHE* 3.1 19.6 + - + +
227D LEU* 3.3 13.4 + - - +
229D GLN* 1.3 75.4 - - - +
231D ILE* 1.3 56.4 + - - +
233D SER* 3.3 6.8 + - - -
234D ILE* 2.9 31.2 + - - +
261D ILE* 2.7 38.0 + - - +
262D GLY 3.2 16.4 + - - -
264D LYS 2.8 29.8 + - - +
265D PHE* 3.5 19.4 + - + +
266D LEU* 3.7 18.1 - - + +
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Residues in contact with ILE 231 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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227D LEU 3.5 11.6 + - - +
228D ALA* 3.3 6.0 + - - +
229D GLN 3.3 0.6 - - - -
230D ARG* 1.3 75.3 - - - +
232D SER* 1.3 57.9 + - - +
234D ILE* 3.2 10.9 - - + +
235D ASN* 2.8 45.2 + - - +
265D PHE* 3.7 18.2 - - + +
267D LYS 5.0 2.0 - - - +
269D SER* 4.4 1.1 - - - +
272D PHE* 4.0 15.7 - - + -
277D PHE* 3.6 34.8 - - + -
501D UDX 3.7 52.3 - - + +
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Residues in contact with SER 232 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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299C TYR* 3.6 11.9 - - - -
228D ALA 3.1 9.2 + - - -
229D GLN 3.6 5.8 - - - -
231D ILE* 1.3 75.8 - - - +
233D SER* 1.3 58.7 + - - +
235D ASN* 3.2 5.8 + - - +
236D SER* 2.9 24.8 + - - -
272D PHE* 3.5 15.9 - - - -
303D VAL* 2.8 31.2 + - - +
306D MET* 3.3 23.9 - - - +
307D ASN* 3.8 8.0 + - - +
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Residues in contact with SER 233 (chain D).
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* 3.6 21.5 - - - -
229C GLN* 2.7 32.4 + - - -
299C TYR* 2.7 26.1 + - - -
300C TRP* 3.6 6.1 - - - -
229D GLN 2.6 16.9 + - - -
230D ARG* 3.5 5.4 - - - -
232D SER* 1.3 72.2 - - - +
234D ILE* 1.3 62.5 + - - +
236D SER* 2.5 24.7 + - - -
237D ILE* 3.0 7.2 + - - +
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Residues in contact with ILE 234 (chain D).
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* 3.7 11.1 - - + -
230D ARG 2.9 15.9 + - - +
231D ILE* 3.2 16.4 - - + +
233D SER* 1.3 76.1 - - - +
235D ASN* 1.3 60.1 + - - +
237D ILE* 3.2 7.8 + - + +
238D SER* 2.9 26.0 + - - -
248D VAL* 3.9 18.5 - - + +
252D ALA* 4.1 17.7 - - + +
255D ILE* 4.0 26.9 - - + -
266D LEU* 3.5 32.1 - - + +
267D LYS 4.3 1.6 - - - +
268D ALA* 3.8 22.9 - - + +
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Residues in contact with ASN 235 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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231D ILE* 2.8 39.3 + - - +
232D SER* 3.6 7.2 - - - +
234D ILE* 1.3 76.9 - - - +
236D SER* 1.3 62.3 + - - +
238D SER* 2.6 23.9 + - - -
239D ALA* 3.3 4.2 + - - +
268D ALA* 3.4 4.9 - - - +
269D SER* 2.8 38.8 + - - +
271D GLY* 4.2 9.3 - - - -
306D MET* 4.7 4.3 - - + -
307D ASN* 4.3 6.1 + - - +
310D GLN* 3.0 37.7 + - + +
313D ARG* 4.0 0.3 + - - -
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Residues in contact with SER 236 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
296C VAL* 3.9 17.8 - - - +
299C TYR* 4.3 4.5 - - - -
300C TRP* 3.0 27.8 + - - -
232D SER 2.9 13.8 + - - -
233D SER 2.5 19.4 + - - -
235D ASN* 1.3 77.4 - - - +
237D ILE* 1.3 60.5 + - - +
239D ALA* 3.2 15.3 + - - +
240D LEU* 3.4 8.0 + - - +
306D MET* 3.7 32.3 - - - -
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Residues in contact with ILE 237 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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218C LEU* 5.0 6.3 - - + -
222C ALA* 4.0 21.5 - - + -
226C PHE* 4.0 18.2 - - + -
284C LEU* 4.9 5.4 - - + -
296C VAL* 5.7 0.4 - - + -
300C TRP* 3.9 18.2 - - + +
233D SER 3.0 11.2 + - - +
234D ILE* 3.2 13.0 + - + +
236D SER* 1.3 87.5 + - - +
238D SER* 1.3 59.6 + - - +
240D LEU* 3.0 23.2 + - + +
241D CYS* 2.8 42.2 + - - -
248D VAL* 4.6 4.7 - - + -
251D VAL* 4.2 20.6 - - + -
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Residues in contact with SER 238 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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234D ILE 2.9 12.9 + - - -
235D ASN* 2.6 21.0 + - - -
237D ILE* 1.3 77.6 - - - +
239D ALA* 1.3 60.5 + - - +
241D CYS* 3.3 2.6 + - - +
242D GLU* 3.0 27.8 + - - +
248D VAL* 3.8 24.6 - - - +
268D ALA* 4.1 10.5 - - - -
310D GLN* 3.2 8.8 + - - -
313D ARG* 3.1 15.7 + - - -
462D ILE* 3.9 11.3 - - - +
463D GLY* 3.8 2.3 - - - -
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Residues in contact with ALA 239 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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293C LEU* 4.2 9.4 - - + +
296C VAL* 4.1 17.3 - - + -
235D ASN 3.3 2.2 + - - +
236D SER* 3.2 11.3 + - - +
237D ILE 3.2 0.4 - - - -
238D SER* 1.3 80.8 + - - +
240D LEU* 1.3 61.5 + - - +
242D GLU* 3.4 4.7 + - - +
243D ALA* 3.2 22.2 + - - +
309D TYR* 4.2 12.8 - - + +
313D ARG* 3.6 34.5 + - - +
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Residues in contact with LEU 240 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214C TRP* 4.9 0.7 - - + -
218C LEU* 3.8 23.8 - - + -
284C LEU* 3.6 31.2 - - + -
287C LEU* 4.2 11.9 - - + -
288C CYS* 4.0 18.8 - - - -
291C LEU* 3.7 28.5 - - + -
293C LEU* 4.0 10.0 - - + +
296C VAL* 5.2 1.8 - - + -
236D SER 3.4 5.6 + - - +
237D ILE* 3.0 22.8 + - + +
239D ALA* 1.3 75.6 - - - +
241D CYS* 1.3 66.0 + - - +
243D ALA* 3.2 8.7 + - - +
244D THR* 3.1 26.3 + - + +
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Residues in contact with CYS 241 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218C LEU* 4.0 20.4 - - - -
237D ILE* 2.8 24.8 + - - -
238D SER* 3.5 9.6 - - - +
239D ALA 3.3 0.2 - - - -
240D LEU* 1.3 75.8 - - - +
242D GLU* 1.3 64.8 + - - +
244D THR* 2.9 17.0 + - - -
245D GLY* 3.1 12.6 + - - -
246D ALA* 3.4 26.1 + - - +
247D ASP 4.0 3.6 - - - -
248D VAL* 3.7 32.5 - - - +
251D VAL* 4.2 3.8 - - - -
463D GLY 4.1 3.8 - - - +
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Residues in contact with GLU 242 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238D SER 3.0 9.4 + - - +
239D ALA 3.7 6.5 - - - +
241D CYS* 1.3 77.1 - - - +
243D ALA* 1.3 59.6 + - - +
244D THR 3.5 0.3 + - - -
245D GLY 4.2 1.9 + - - -
313D ARG* 2.6 40.0 + - - +
317D ARG* 3.3 36.1 + - - +
462D ILE* 3.9 4.9 - - - +
463D GLY* 3.2 28.4 + - - +
464D LYS 3.9 7.4 - - - +
465D LYS* 3.4 51.2 + - - +
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Residues in contact with ALA 243 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
291C LEU* 4.6 16.9 - - + +
293C LEU* 4.3 21.8 - - + -
239D ALA 3.2 16.0 + - - +
240D LEU 3.2 6.0 + - - +
241D CYS 3.0 1.4 + - - -
242D GLU* 1.3 78.4 - - - +
244D THR* 1.3 66.6 + - + +
245D GLY 3.8 0.2 - - - -
465D LYS* 5.2 2.7 - - - +
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Residues in contact with THR 244 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214C TRP* 2.8 46.9 + - + -
218C LEU* 4.4 2.3 - - - +
287C LEU* 6.1 0.2 - - + -
291C LEU* 3.5 35.4 - - + -
240D LEU* 3.1 20.5 + - + +
241D CYS* 2.9 7.4 + - - -
243D ALA* 1.3 86.2 - - - +
245D GLY* 1.3 60.3 + - - +
246D ALA 3.4 1.2 + - - -
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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) + - + + + + + -
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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