Contacts of the helix formed by residues 184 - 227 (chain D) in PDB entry 4LHZ
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 184 (chain D).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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180D GLU 3.3 12.1 + - - +
181D ARG* 3.2 7.3 + - - +
183D SER* 1.3 80.7 + - - +
185D VAL* 1.3 59.8 + - - +
186D ARG 3.7 0.2 - - - -
187D ASP* 4.0 6.6 + - - +
188D GLN* 2.9 39.6 + - + +
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Residues in contact with VAL 185 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72B THR* 5.1 4.0 - - - +
186C ARG* 3.0 57.7 - - + +
189C LEU* 5.3 1.3 - - + -
181D ARG 3.7 13.7 + - - +
182D LEU* 3.8 7.2 - - + +
183D SER 3.1 1.0 - - - -
184D LYS* 1.3 75.6 - - - +
186D ARG* 1.3 69.9 + - - +
188D GLN* 2.8 14.7 + - - +
189D LEU* 2.8 48.4 + - + +
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Residues in contact with ARG 186 (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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185C VAL* 5.8 5.4 - - + -
189C LEU* 3.6 30.3 - - + +
182D LEU 4.6 1.6 + - - +
183D SER 3.7 9.9 + - - +
184D LYS 3.7 0.2 - - - -
185D VAL* 1.3 79.5 - - - +
187D ASP* 1.3 66.3 + - - +
189D LEU* 3.5 2.8 + - - +
190D GLY* 3.2 14.4 + - - -
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Residues in contact with ASP 187 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183D SER 4.5 1.8 + - - +
184D LYS* 4.0 10.1 + - - +
185D VAL 3.2 0.8 - - - -
186D ARG* 1.3 77.1 - - - +
188D GLN* 1.3 69.5 + - - +
190D GLY* 2.8 5.9 + - - -
191D GLN* 2.8 47.1 + - - +
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Residues in contact with GLN 188 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72B THR* 3.6 24.4 + - - +
181D ARG 5.1 0.7 - - - +
184D LYS* 2.9 33.1 + - + +
185D VAL* 2.8 16.6 + - - +
187D ASP* 1.3 83.4 + - - +
189D LEU* 1.3 54.1 + - - +
191D GLN* 3.1 5.4 + - - +
192D GLU* 2.8 42.2 + - + +
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Residues in contact with LEU 189 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72B THR* 2.7 48.5 - - + +
73B ILE* 4.0 7.0 - - + +
76B ALA* 4.9 5.2 - - + -
186C ARG* 5.3 1.3 - - + +
189C LEU* 3.6 40.2 - - + +
190C GLY* 4.1 7.2 - - - +
193C LEU* 3.9 23.2 - - + +
185D VAL* 2.8 35.2 + - + +
186D ARG* 3.7 5.6 - - - +
188D GLN* 1.3 73.8 - - - +
190D GLY* 1.3 57.5 + - - +
192D GLU* 4.2 1.0 - - - +
193D LEU* 3.1 26.2 + - - +
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Residues in contact with GLY 190 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186D ARG 3.2 9.4 + - - -
187D ASP* 2.8 13.1 + - - -
189D LEU* 1.3 71.1 - - - +
191D GLN* 1.3 62.4 + - - -
193D LEU* 3.3 7.8 + - - +
194D GLU* 3.0 32.6 + - - +
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Residues in contact with GLN 191 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187D ASP* 2.8 39.8 + - - +
188D GLN* 3.7 9.0 - - - +
190D GLY* 1.3 72.5 - - - -
192D GLU* 1.3 63.8 + - + +
194D GLU* 3.3 34.5 + - - +
195D GLU* 3.5 19.2 + - - +
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Residues in contact with GLU 192 (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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68B GLU 5.1 0.2 - - - +
69B ARG 3.9 11.6 - - - +
70B PHE* 2.8 26.4 - - + +
71B ARG* 3.2 8.7 + - - +
72B THR* 2.9 29.6 + - + -
73B ILE* 2.8 46.7 + - + +
188D GLN* 2.8 23.1 + - - +
189D LEU 4.2 0.4 - - - +
191D GLN* 1.3 71.2 - - + +
193D LEU* 1.3 68.3 + - - +
194D GLU 3.2 0.2 + - - -
195D GLU* 3.2 4.6 + - - +
196D LEU* 2.8 24.8 + - - +
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Residues in contact with LEU 193 (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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73B ILE* 3.9 6.5 - - - +
193C LEU* 3.1 26.0 - - + -
196C LEU* 3.9 26.5 - - + -
197C THR* 4.1 16.6 - - + +
200C LEU* 4.3 8.7 - - + -
189D LEU 3.1 18.9 + - - +
190D GLY* 3.3 7.4 + - - +
192D GLU* 1.3 76.9 - - - +
194D GLU* 1.3 65.1 + - + +
196D LEU* 3.9 3.1 - - + +
197D THR* 3.1 35.6 + - - +
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Residues in contact with GLU 194 (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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190D GLY* 3.0 24.7 + - - +
191D GLN* 3.3 32.6 + - - +
192D GLU 3.2 0.4 - - - -
193D LEU* 1.3 76.4 - - + +
195D GLU* 1.3 57.9 + - - +
197D THR* 3.6 4.5 - - - -
198D ALA* 3.0 26.7 + - - +
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Residues in contact with GLU 195 (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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69B ARG* 2.8 41.4 + - - +
70B PHE* 3.8 12.8 - - + -
191D GLN 3.5 9.2 + - - +
192D GLU* 3.2 6.3 + - - +
194D GLU* 1.3 76.8 - - - +
196D LEU* 1.3 67.7 + - - +
197D THR 3.1 1.7 + - - -
198D ALA* 3.1 8.0 + - + +
199D SER* 2.8 30.6 + - - +
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Residues in contact with LEU 196 (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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41B ILE* 3.7 32.8 - - + -
43B ILE* 4.4 13.7 - - + -
70B PHE* 3.9 13.4 - - + -
73B ILE* 4.0 22.2 - - + -
77B TYR* 4.5 2.2 - - - +
197C THR* 4.1 18.2 - - + -
200C LEU* 6.1 1.3 - - + -
201C PHE* 3.9 32.3 - - + -
192D GLU 2.8 21.0 + - - +
193D LEU* 3.9 4.9 - - + +
195D GLU* 1.3 73.1 - - - +
197D THR* 1.3 54.9 + - - +
199D SER* 3.2 3.0 + - - -
200D LEU* 2.7 37.5 + - + +
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Residues in contact with THR 197 (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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200C LEU* 3.6 31.2 - - + +
193D LEU* 3.1 33.2 + - - +
194D GLU* 3.6 5.2 - - - -
195D GLU 3.1 0.6 - - - -
196D LEU* 1.3 74.5 - - - +
198D ALA* 1.3 67.6 + - - +
200D LEU* 4.1 6.1 - - + -
201D PHE* 2.9 27.8 + - + +
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Residues in contact with ALA 198 (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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194D GLU 3.0 15.3 + - - +
195D GLU* 3.6 10.3 - - + +
197D THR* 1.3 76.2 - - - +
199D SER* 1.3 63.1 + - - +
201D PHE* 3.4 9.2 + - - +
202D GLU* 3.1 25.3 + - - +
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Residues in contact with SER 199 (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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41B ILE* 3.9 21.5 - - - -
69B ARG* 3.5 24.5 + - - -
70B PHE* 4.4 0.5 - - - -
195D GLU* 2.8 19.5 + - - +
196D LEU* 3.4 8.0 + - - -
198D ALA* 1.3 73.4 - - - +
200D LEU* 1.3 59.3 + - - +
202D GLU* 3.1 10.7 + - - -
203D GLU* 2.6 41.8 + - - +
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Residues in contact with LEU 200 (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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37B PHE* 4.0 20.4 - - + -
41B ILE* 3.9 12.5 - - + +
200C LEU* 3.8 36.1 - - + +
201C PHE* 3.8 48.7 - - + -
204C ALA* 4.1 12.3 - - + -
196D LEU* 2.7 24.4 + - + +
197D THR* 3.2 9.2 + - + +
199D SER* 1.3 72.2 - - - +
201D PHE* 1.3 64.2 + - - +
204D ALA* 3.0 27.4 + - - +
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Residues in contact with PHE 201 (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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197D THR* 2.9 20.5 + - + +
198D ALA* 3.5 8.7 - - - +
200D LEU* 1.3 76.0 - - - +
202D GLU* 1.3 62.6 + - + +
204D ALA* 3.7 3.8 - - - +
205D HIS* 2.9 36.5 + + + +
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Residues in contact with GLU 202 (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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198D ALA* 3.1 17.6 + - - +
199D SER* 3.6 9.1 - - - +
201D PHE* 1.3 84.4 - - + +
203D GLU* 1.3 69.2 + - - +
205D HIS* 3.2 8.0 + - + +
206D LYS* 3.0 40.8 + - + +
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Residues in contact with GLU 203 (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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37B PHE* 3.9 19.7 - - + -
40B THR* 3.2 44.0 - - + +
41B ILE* 4.3 6.5 - - + +
199D SER* 2.6 26.3 + - - +
200D LEU 4.2 0.4 - - - +
202D GLU* 1.3 79.6 - - - +
204D ALA* 1.3 61.4 + - - +
206D LYS* 3.3 34.3 + - - +
207D MET* 3.1 35.1 + - + +
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Residues in contact with ALA 204 (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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37B PHE* 4.1 6.8 - - + -
204C ALA* 3.8 28.9 - - + +
207C MET* 5.4 7.4 - - - -
208C VAL* 3.8 15.6 - - + +
200D LEU 3.0 19.9 + - - +
201D PHE* 3.8 3.6 - - - +
203D GLU* 1.3 76.7 - - - +
205D HIS* 1.3 59.5 + - - +
207D MET 4.1 0.2 - - - -
208D VAL* 3.0 33.8 + - + +
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Residues in contact with HIS 205 (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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201D PHE* 2.9 29.4 + + + +
202D GLU* 3.6 10.1 + - - +
203D GLU 3.2 0.2 - - - -
204D ALA* 1.3 77.2 - - - +
206D LYS* 1.3 67.6 + - - +
208D VAL* 4.0 4.6 - - + +
209D ARG* 3.1 55.0 + - + +
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Residues in contact with LYS 206 (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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202D GLU* 3.0 29.5 + - + +
203D GLU* 3.3 34.7 + - - +
205D HIS* 1.3 80.5 - - - +
207D MET* 1.3 58.0 + - + +
209D ARG* 3.3 33.3 + - - +
210D GLU* 3.0 35.4 + - + +
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Residues in contact with MET 207 (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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35B SER* 3.5 33.0 - - - +
36B THR 3.9 14.8 - - - +
37B PHE* 3.1 43.3 - - + -
40B THR* 6.2 0.7 - - + -
205C HIS* 6.3 0.2 - - - -
208C VAL* 4.0 21.7 - - + +
212C ASN* 5.0 2.8 - - - +
203D GLU* 3.1 22.0 + - + +
204D ALA* 4.2 0.4 - - - +
206D LYS* 1.3 80.8 - - + +
208D VAL* 1.3 61.9 + - - +
210D GLU* 3.4 34.2 - - - +
211D ALA* 3.5 8.7 + - - +
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Residues in contact with VAL 208 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207C MET* 4.0 14.6 - - + +
208C VAL* 3.6 33.0 - - + +
211C ALA* 3.6 18.6 - - + +
204D ALA* 3.0 23.5 + - + +
205D HIS* 4.0 6.5 - - + +
206D LYS 3.3 0.2 - - - -
207D MET* 1.3 75.6 - - - +
209D ARG* 1.3 61.0 + - - +
211D ALA 3.3 4.0 + - - -
212D ASN* 3.0 38.4 + - - +
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Residues in contact with ARG 209 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205D HIS* 3.1 43.3 + - + +
206D LYS* 3.5 41.7 + - - +
208D VAL* 1.3 77.6 - - - +
210D GLU* 1.3 63.9 + - - +
212D ASN* 3.1 14.8 + - + +
213D ILE* 3.0 43.3 + - + +
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Residues in contact with GLU 210 (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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206D LYS* 3.0 22.1 + - - +
207D MET* 3.4 31.2 + - - +
209D ARG* 1.3 77.1 - - - +
211D ALA* 1.3 58.8 + - + +
213D ILE* 3.5 11.0 + - - +
214D LYS* 3.2 33.5 + - + +
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Residues in contact with ALA 211 (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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211C ALA* 3.1 24.9 - - + +
212C ASN* 3.4 22.9 - - - +
215C GLN* 2.9 40.4 - - - +
207D MET 3.5 6.4 + - - +
208D VAL 3.3 6.8 + - - +
209D ARG 3.3 0.2 - - - -
210D GLU* 1.3 78.1 - - + +
212D ASN* 1.3 60.9 + - - +
214D LYS* 3.8 4.5 - - - -
215D GLN* 3.9 4.7 + - - -
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Residues in contact with ASN 212 (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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211C ALA* 4.5 6.4 - - - +
214C LYS* 5.5 4.5 + - - -
208D VAL* 3.0 30.4 + - - +
209D ARG* 3.1 18.8 + - + +
211D ALA* 1.3 78.7 - - - +
213D ILE* 1.3 60.4 + - + +
215D GLN* 2.8 44.7 + - - +
216D ALA* 3.6 2.8 + - - +
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Residues in contact with ILE 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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209D ARG* 3.0 39.9 + - + +
210D GLU* 3.5 8.7 - - - +
212D ASN* 1.3 83.0 - - + +
214D LYS* 1.3 63.7 + - + +
216D ALA* 3.1 24.9 + - + +
217D THR* 3.3 16.7 + - + +
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Residues in contact with LYS 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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215C GLN* 3.2 45.5 - - + +
219C GLU* 6.4 0.4 - - + -
210D GLU* 3.2 20.7 + - - +
211D ALA* 3.8 2.2 - - - -
212D ASN 3.1 0.6 + - - -
213D ILE* 1.3 79.1 - - - +
215D GLN* 1.3 56.2 + - - +
217D THR* 2.7 26.3 + - + +
218D ALA* 2.9 17.1 + - - +
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Residues in contact with GLN 215 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211C ALA* 4.6 0.6 + - - +
214C LYS* 3.7 40.1 - - - +
215C GLN* 3.5 29.4 - - - +
218C ALA* 4.1 9.9 - - + +
211D ALA 3.9 10.1 + - - +
212D ASN* 2.8 22.5 + - - +
214D LYS* 1.3 75.3 - - - +
216D ALA* 1.3 54.2 + - - +
218D ALA* 3.1 6.2 - - - +
219D GLU* 2.6 62.9 + - - +
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Residues in contact with ALA 216 (chain D).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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212D ASN 3.6 2.7 + - - +
213D ILE* 3.1 20.2 + - + +
215D GLN* 1.3 77.8 - - - +
217D THR* 1.3 58.1 + - + +
219D GLU* 4.3 7.4 + - - -
220D LYS* 2.8 36.0 + - - +
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Residues in contact with THR 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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213D ILE* 3.3 17.6 + - + +
214D LYS* 2.7 30.1 + - - +
216D ALA* 1.3 77.6 - - + +
218D ALA* 1.3 56.6 + - - +
220D LYS* 4.1 3.9 - - - +
221D GLN* 3.1 39.5 + - - +
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Residues in contact with ALA 218 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215C GLN 5.5 0.2 - - - +
218C ALA* 4.1 9.6 - - - +
219C GLU* 3.9 33.4 - - + +
222C LEU* 3.8 31.6 - - + +
214D LYS 2.9 19.3 + - - +
215D GLN* 3.1 7.6 + - - +
217D THR* 1.3 77.2 + - - +
219D GLU* 1.3 59.7 + - - +
221D GLN* 4.3 1.6 - - - -
222D LEU* 5.0 2.6 + - - +
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Residues in contact with GLU 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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218C ALA* 4.4 12.1 - - + +
215D GLN* 2.6 47.4 + - - +
216D ALA* 4.0 4.4 + - - +
218D ALA* 1.3 79.6 - - - +
220D LYS* 1.3 54.1 + - - +
221D GLN 3.0 1.3 - - - -
222D LEU* 2.8 9.4 + - - +
223D LYS* 2.6 39.0 + - + +
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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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216D ALA 2.8 22.7 + - - +
217D THR* 4.4 4.3 - - - +
219D GLU* 1.3 71.8 - - - +
221D GLN* 1.3 56.2 + - - +
222D LEU 3.2 1.1 - - - -
223D LYS* 4.0 9.0 - - - +
224D GLU* 3.2 33.2 + - + +
225D ALA 4.0 0.5 + - - -
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Residues in contact with GLN 221 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222C LEU* 2.9 44.3 - - + +
217D THR* 3.1 26.6 + - - +
218D ALA* 4.5 1.3 - - - -
219D GLU 3.0 1.4 - - - -
220D LYS* 1.3 79.1 - - - +
222D LEU* 1.3 54.6 + - - +
225D ALA* 3.2 20.5 - - - +
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Residues in contact with LEU 222 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
221C GLN* 5.0 12.6 - - + +
222C LEU* 3.3 41.5 - - + +
225C ALA* 4.9 15.7 - - + -
218D ALA 5.1 1.3 - - - +
219D GLU* 2.8 14.0 + - - +
221D GLN* 1.3 80.5 - - - +
223D LYS* 1.3 52.1 + - - +
224D GLU 3.5 0.7 - - - -
225D ALA* 4.2 5.8 - - + -
226D GLN* 2.7 42.1 + - + +
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Residues in contact with LYS 223 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219D GLU 2.6 19.2 + - - +
220D LYS* 4.3 6.7 - - - -
222D LEU* 1.3 74.6 - - - +
224D GLU* 1.3 60.9 + - - +
226D GLN* 3.9 3.6 - - - +
227D GLY* 3.3 17.0 + - - -
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Residues in contact with GLU 224 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220D LYS* 3.2 21.6 + - + +
223D LYS* 1.3 78.1 - - - +
225D ALA* 1.3 56.9 + - - +
227D GLY 3.1 24.1 - - - +
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Residues in contact with ALA 225 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220D LYS 4.0 2.0 + - - -
221D GLN* 3.2 28.9 - - - +
222D LEU* 3.9 7.2 - - + -
223D LYS 3.4 0.2 - - - -
224D GLU* 1.3 75.7 - - - +
226D GLN* 1.3 60.5 + - - +
227D GLY 3.2 4.6 + - - +
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Residues in contact with GLN 226 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222D LEU* 2.7 29.2 + - + +
223D LYS* 3.9 5.4 - - - +
224D GLU 3.4 0.2 - - - -
225D ALA* 1.3 72.8 - - - +
227D GLY* 1.3 57.3 + - - +
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Residues in contact with GLY 227 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
223D LYS 3.3 11.4 + - - -
224D GLU* 3.1 18.4 - - - +
225D ALA 3.2 4.2 - - - +
226D GLN* 1.3 78.7 - - - +
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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