Contacts of the helix formed by residues 177 - 206 (chain D) in PDB entry 3QNQ
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 PRO 177 (chain D).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
250C HIS* 4.1 24.5 - - + +
253C THR* 5.8 3.1 - - + +
334C GLU* 4.5 2.0 - - - +
175D THR 3.6 6.4 - - - +
176D VAL* 1.3 105.1 - - + +
178D PRO* 1.3 70.7 - - + +
179D ALA* 3.4 8.3 - - + +
180D VAL* 3.3 14.3 + - + +
181D THR* 3.0 19.6 + - - -
2I NAG 3.4 10.5 - - - +
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Residues in contact with PRO 178 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
600C ZDM 3.4 57.0 - - - +
176D VAL 4.4 0.2 - - - +
177D PRO* 1.3 85.7 - - + +
179D ALA* 1.3 57.7 + - + +
181D THR* 2.9 10.2 + - - +
182D ARG* 2.7 36.9 + - - +
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Residues in contact with ALA 179 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27C ASP* 5.0 10.5 - - - +
30C VAL* 4.5 13.9 - - + +
600C ZDM 4.0 30.6 + - - +
177D PRO* 3.4 6.3 - - + -
178D PRO* 1.3 82.7 - - + +
180D VAL* 1.3 63.3 + - + +
182D ARG* 3.5 2.1 + - - +
183D SER* 3.1 25.1 + - - -
1I NAG 4.4 6.6 - - + +
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Residues in contact with VAL 180 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
250C HIS* 5.5 0.2 - - - +
253C THR* 5.4 2.9 - - + -
382C TRP* 3.9 7.9 - - + -
172D MET* 3.6 27.4 - - + -
176D VAL* 3.3 29.6 - - + -
177D PRO* 3.3 22.1 + - + +
178D PRO 3.2 0.4 - - - -
179D ALA* 1.3 77.7 - - + +
181D THR* 1.3 68.7 + - - +
182D ARG 3.2 0.5 + - - -
183D SER* 3.3 2.9 + - - -
184D PHE* 3.3 21.8 - - + -
1I NAG 3.7 42.6 - - + +
2I NAG 4.6 0.9 - - - +
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Residues in contact with THR 181 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170D ILE 4.8 2.1 - - - +
172D MET* 4.0 31.9 - - + +
173D PRO 4.5 1.7 + - - -
174D GLU* 5.5 2.4 + - - -
176D VAL* 3.2 15.8 + - - +
177D PRO 3.0 16.0 + - - -
178D PRO* 2.9 11.8 + - - +
180D VAL* 1.3 76.7 - - - +
182D ARG* 1.3 61.9 + - - +
184D PHE* 4.3 1.4 - - - +
185D ALA* 3.3 22.3 + - + +
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Residues in contact with ARG 182 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90C TYR* 5.9 1.2 - - - -
94C GLU* 5.9 0.8 + - - -
600C ZDM 2.4 92.0 + - + +
99D ASP* 2.7 44.7 + - - +
101D LEU* 3.5 24.2 - - - +
178D PRO 2.7 16.3 + - - +
179D ALA 3.9 3.1 - - - +
181D THR* 1.3 71.6 - - - +
183D SER* 1.3 70.7 + - - +
185D ALA* 3.0 19.3 - - + +
186D ALA* 3.4 6.2 + - - +
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Residues in contact with SER 183 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30C VAL* 3.4 25.5 + - - +
33C MET* 5.1 2.4 - - - -
34C PRO* 4.0 24.0 - - - +
37C ILE* 6.3 0.7 - - - -
600C ZDM 4.3 9.6 - - - +
179D ALA 3.1 13.4 + - - -
180D VAL* 3.3 3.1 + - - -
182D ARG* 1.3 76.3 - - - +
184D PHE* 1.3 72.8 + - - +
185D ALA 2.7 0.5 + - - -
186D ALA* 2.6 31.4 + - - +
187D LEU 3.1 7.6 + - - -
1I NAG 4.4 3.1 - - - +
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Residues in contact with PHE 184 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33C MET* 6.1 2.0 - - + -
37C ILE* 5.0 5.2 - - + -
381C THR* 3.9 24.9 - - + -
382C TRP* 3.8 31.4 - + - -
383C THR* 3.1 33.7 - - + -
170D ILE* 3.3 43.2 + - + +
172D MET* 3.9 19.7 - - + -
180D VAL* 3.3 20.9 + - + +
181D THR 4.6 1.6 - - - +
183D SER* 1.3 89.1 - - - +
185D ALA* 1.3 64.3 + - - +
187D LEU* 3.3 32.6 + - + +
188D ILE 4.1 0.5 + - - -
1I NAG 4.8 6.5 - - + -
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Residues in contact with ALA 185 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169D ILE* 2.7 45.9 - - + +
170D ILE 4.2 8.4 + - - +
181D THR* 3.3 16.1 + - + +
182D ARG* 3.0 16.6 + - + +
183D SER 2.7 4.4 + - - -
184D PHE* 1.3 74.3 - - - +
186D ALA* 1.3 57.1 + - - +
189D PRO* 3.1 11.1 - - - +
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Residues in contact with ALA 186 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
600C ZDM 3.7 35.9 - - + -
99D ASP* 5.5 2.0 - - - +
102D ALA* 4.7 0.9 - - + -
160D TYR* 3.9 25.1 - - + +
164D VAL* 6.0 0.4 - - - -
182D ARG 3.4 3.6 + - - +
183D SER 2.6 13.4 + - - +
185D ALA* 1.3 74.9 - - - +
187D LEU* 1.3 55.0 + - - +
189D PRO* 3.1 7.0 - - - +
190D GLY* 2.6 35.0 + - - -
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Residues in contact with LEU 187 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34C PRO* 3.6 34.9 - - + +
37C ILE* 3.6 40.2 - - + -
38C ILE* 4.1 8.9 - - + +
381C THR* 4.6 2.0 - - + -
170D ILE* 4.2 11.7 - - + -
183D SER 3.1 6.6 + - - +
184D PHE* 3.4 40.6 - - + +
185D ALA 3.3 0.6 - - - -
186D ALA* 1.3 78.2 - - - +
188D ILE* 1.3 69.1 + - + +
190D GLY* 3.6 0.7 - - - -
191D PHE* 2.8 24.0 + - + +
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Residues in contact with ILE 188 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163D LEU* 5.8 0.2 - - + -
168D MET* 3.5 27.1 - - + +
169D ILE* 4.4 2.9 - - - +
170D ILE* 3.4 42.8 - - + +
184D PHE 4.1 0.6 + - - -
187D LEU* 1.3 80.8 - - + +
189D PRO* 1.3 71.8 - - + +
191D PHE* 3.2 15.7 + - + +
192D ILE* 3.3 25.7 + - + +
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Residues in contact with PRO 189 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160D TYR* 3.8 20.6 - - + -
163D LEU* 3.7 28.7 - - + +
164D VAL* 4.2 13.9 - - + +
168D MET 3.8 13.5 - - - +
169D ILE* 4.0 6.5 - - + -
185D ALA 3.1 18.6 - - - +
186D ALA* 3.1 10.8 - - - +
188D ILE* 1.3 94.1 - - + +
190D GLY* 1.3 59.8 + - - +
192D ILE* 3.0 12.1 + - - +
193D VAL* 2.8 23.1 + - - +
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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
----------------------------------------------------------
38C ILE* 3.3 12.2 - - - +
600C ZDM 5.8 1.8 - - - -
106D LEU* 3.7 18.3 - - - +
160D TYR* 4.5 3.5 - - - -
186D ALA* 2.6 22.5 + - - -
187D LEU 3.6 0.4 - - - -
189D PRO* 1.3 73.0 - - - +
191D PHE* 1.3 59.9 + - - +
193D VAL* 3.4 9.9 + - - +
194D VAL* 3.2 28.6 + - - +
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Residues in contact with PHE 191 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C ILE* 3.3 29.5 - - + +
41C ILE* 3.3 51.1 - - + -
42C PHE* 4.3 14.4 - + - -
45C ILE* 5.8 2.2 - - + -
187D LEU* 2.8 18.2 + - + +
188D ILE* 3.5 9.2 - - + +
189D PRO 3.1 0.2 - - - -
190D GLY* 1.3 77.1 - - - +
192D ILE* 1.3 71.2 + - + +
194D VAL* 3.2 10.9 - - - +
195D THR* 3.0 32.5 + - + -
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Residues in contact with ILE 192 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159D ILE* 5.1 4.7 - - + -
163D LEU* 3.9 28.3 - - + -
168D MET* 6.2 4.5 - - + -
188D ILE* 3.3 19.9 + - + +
189D PRO 3.0 8.5 + - - +
191D PHE* 1.3 89.4 - - + +
193D VAL* 1.3 59.1 + - - +
195D THR* 3.5 7.7 + - + -
196D VAL* 3.0 36.6 + - + +
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Residues in contact with VAL 193 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106D LEU* 3.3 28.7 - - + -
110D THR* 4.7 1.6 - - - +
155D ILE* 4.8 0.7 - - + +
156D SER* 3.3 43.7 - - - +
159D ILE* 4.1 23.6 - - + -
160D TYR* 4.6 7.4 - - + -
189D PRO 2.8 24.4 + - - +
190D GLY 3.4 3.1 + - - +
192D ILE* 1.3 71.0 - - - +
194D VAL* 1.3 66.4 + - - +
195D THR 3.0 1.1 - - - -
196D VAL* 3.0 5.5 + - + +
197D VAL* 2.9 27.5 + - + +
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Residues in contact with VAL 194 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C PHE* 5.2 2.7 - - + -
38C ILE* 3.2 37.9 - - + -
42C PHE* 4.4 9.4 - - + -
72C PRO* 5.4 3.5 - - + +
76C THR* 5.7 2.0 - - + -
106D LEU* 4.6 9.0 - - + -
109D VAL* 4.3 22.7 - - + -
110D THR* 4.5 11.0 - - - +
113D LEU* 3.3 15.5 - - + +
190D GLY 3.2 12.5 + - - +
191D PHE 3.2 15.5 - - - +
193D VAL* 1.3 75.9 - - - +
195D THR* 1.3 60.2 + - - +
197D VAL* 4.8 0.2 - - - -
198D TRP* 2.9 31.2 + - - +
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Residues in contact with THR 195 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C PHE* 3.6 18.6 - - - -
191D PHE* 3.0 30.3 + - + -
192D ILE* 3.6 9.4 - - + +
193D VAL 3.0 0.6 - - - -
194D VAL* 1.3 78.6 - - - +
196D VAL* 1.3 59.0 + - + +
198D TRP* 3.2 15.2 + - + +
199D ILE* 2.7 53.6 + - + +
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Residues in contact with VAL 196 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155D ILE* 5.0 7.0 - - + -
159D ILE* 4.3 28.9 - - + -
192D ILE* 3.0 29.4 + - + +
193D VAL* 3.0 4.5 + - + +
195D THR* 1.3 76.1 - - + +
197D VAL* 1.3 59.4 + - + +
199D ILE* 2.9 10.4 + - + +
200D ILE* 2.7 49.5 + - + +
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Residues in contact with VAL 197 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110D THR* 3.3 46.0 - - + +
113D LEU* 3.4 23.3 - - + -
114D ALA* 4.2 13.5 - - + -
152D ILE* 4.5 12.6 - - + -
155D ILE* 4.8 14.6 - - + -
156D SER* 4.3 6.3 - - - +
193D VAL* 2.9 16.3 + - + +
194D VAL 4.7 0.2 - - - -
196D VAL* 1.3 78.3 - - + +
198D TRP* 1.3 62.2 + - - +
200D ILE* 3.3 11.2 + - + +
201D ARG* 3.0 22.3 + - - +
212D ILE* 4.6 1.5 - - + +
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Residues in contact with TRP 198 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C PHE* 3.8 22.2 - + - -
68C ALA* 3.0 23.4 + - + -
69C LEU* 3.4 33.2 - - + -
71C TYR* 3.8 16.9 - + + -
72C PRO* 3.4 25.5 - - + +
113D LEU* 3.5 14.1 - - + -
194D VAL 2.9 24.2 + - - +
195D THR* 3.4 17.7 - - + +
197D VAL* 1.3 77.0 - - - +
199D ILE* 1.3 80.6 + - + +
201D ARG* 3.4 7.0 + - - +
202D LEU* 3.2 46.6 + - + +
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Residues in contact with ILE 199 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195D THR* 2.7 37.7 + - + +
196D VAL* 3.5 10.3 - - + +
198D TRP* 1.3 88.2 - - + +
200D ILE* 1.3 69.2 + - + +
202D LEU* 2.9 20.7 + - + +
203D ILE* 3.0 30.6 + - + +
----------------------------------------------------------
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Residues in contact with ILE 200 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152D ILE* 6.1 2.9 - - + -
155D ILE* 4.7 22.0 - - + -
196D VAL* 2.7 35.0 + - + +
197D VAL* 3.5 10.1 - - + +
199D ILE* 1.3 74.7 - - + +
201D ARG* 1.3 63.4 + - - +
203D ILE* 3.6 12.6 + - + +
204D PHE* 3.4 29.5 + - + +
212D ILE* 3.5 23.8 - - + -
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Residues in contact with ARG 201 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71C TYR* 2.9 63.0 + - - +
112D LEU 5.4 0.2 + - - -
113D LEU* 3.2 28.2 + - - +
114D ALA* 4.7 9.8 + - - +
115D THR 4.9 1.0 + - - -
116D PRO* 3.2 41.0 + - - +
117D PHE* 5.9 1.6 - - - -
197D VAL 3.0 12.5 + - - +
198D TRP* 3.4 12.6 - - - +
200D ILE* 1.3 74.4 - - - +
202D LEU* 1.3 57.0 + - - +
204D PHE* 2.9 5.9 + - - +
205D GLU* 2.7 54.8 + - - +
211D SER* 4.8 4.8 + - - +
212D ILE* 4.0 22.3 + - + +
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Residues in contact with LEU 202 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C ALA* 3.9 16.4 - - + -
71C TYR* 3.8 32.5 - - + -
800C CIT 4.2 10.5 - - - +
198D TRP* 3.4 48.5 - - + +
199D ILE* 2.9 12.0 + - + +
201D ARG* 1.3 78.0 - - + +
203D ILE* 1.3 64.5 + - + +
205D GLU* 3.0 21.4 + - + +
206D HIS* 3.2 23.4 + - + -
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Residues in contact with ILE 203 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199D ILE* 3.0 32.2 + - + +
200D ILE* 3.7 15.5 - - + +
202D LEU* 1.3 76.5 - - + +
204D PHE* 1.3 73.9 + - + +
206D HIS* 3.3 16.1 + - - +
207D THR* 2.9 20.5 - - + +
----------------------------------------------------------
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Residues in contact with PHE 204 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200D ILE* 3.4 17.2 + - + +
201D ARG 2.9 8.6 + - - +
203D ILE* 1.3 82.7 - - + +
205D GLU* 1.3 61.1 + - - +
206D HIS 2.9 6.5 + - - -
207D THR* 3.2 27.4 + - + +
209D PHE* 5.4 2.2 - + - -
210D GLY* 2.8 25.3 - - - +
211D SER* 4.4 1.6 - - - -
212D ILE* 4.1 33.4 - - + +
215D VAL* 3.3 48.2 - - + -
216D VAL* 6.0 2.2 - - + -
----------------------------------------------------------
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Residues in contact with GLU 205 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71C TYR* 2.5 42.8 + - - -
800C CIT 3.9 40.0 - - + +
201D ARG* 2.7 30.9 + - - +
202D LEU* 3.0 19.0 + - - +
204D PHE* 1.3 77.7 - - - +
206D HIS* 1.3 68.4 + - + +
207D THR 3.6 1.3 + - - +
210D GLY* 3.0 24.5 + - - +
211D SER* 3.5 13.2 + - - -
----------------------------------------------------------
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Residues in contact with HIS 206 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
800C CIT 3.3 43.5 + - + +
202D LEU* 3.2 23.2 + - + -
203D ILE* 3.7 7.3 - - - +
204D PHE 2.9 0.6 - - - -
205D GLU* 1.3 90.6 - - + +
207D THR* 1.3 65.0 + - - +
----------------------------------------------------------
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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