Contacts of the helix formed by residues 172 - 200 (chain B) in PDB entry 4QI1
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 ASP 172 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171B ALA* 1.3 78.6 - - - +
173B GLU* 1.3 65.3 + - - +
174B ASP* 3.4 10.0 + - - +
175B THR* 2.8 34.6 + - - -
176B ARG* 3.0 19.7 + - - +
236B ALA* 5.4 1.3 - - - -
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Residues in contact with GLU 173 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172B ASP* 1.3 76.5 - - - +
174B ASP* 1.4 77.7 + - - +
176B ARG* 3.5 27.3 + - - +
177B SER* 3.0 33.1 + - - -
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Residues in contact with ASP 174 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172B ASP* 3.3 10.1 + - - +
173B GLU* 1.4 91.6 - - - +
175B THR* 1.3 57.8 + - - +
177B SER* 3.4 5.1 + - - -
178B THR* 3.0 34.6 + - - +
235B ARG* 3.7 36.6 + - + +
236B ALA* 4.1 18.2 - - - +
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Residues in contact with THR 175 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45B ARG* 5.6 1.9 + - - +
108B LEU* 3.4 35.5 - - + +
168B VAL* 3.8 13.9 - - + -
171B ALA* 3.8 13.2 - - + +
172B ASP* 2.8 30.2 + - - -
174B ASP* 1.3 75.5 - - - +
176B ARG* 1.3 59.9 + - - +
178B THR* 3.8 1.6 - - - -
179B PHE* 2.9 28.9 + - - +
236B ALA* 3.6 23.8 + - - +
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Residues in contact with ARG 176 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168B VAL* 3.4 36.3 - - + +
169B SER* 3.9 17.7 + - - +
171B ALA 2.7 31.7 + - - +
172B ASP* 3.0 20.7 + - - +
173B GLU* 3.6 26.4 - - - +
175B THR* 1.3 76.8 - - - +
177B SER* 1.3 56.6 + - - +
179B PHE* 3.4 2.6 + - - +
180B ASN* 3.0 39.0 + - - +
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Residues in contact with SER 177 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173B GLU* 3.0 21.9 + - - -
174B ASP* 3.9 6.3 - - - -
175B THR 3.3 0.2 - - - -
176B ARG* 1.3 73.4 - - - +
178B THR* 1.3 65.0 + - - +
180B ASN* 3.4 9.7 + - - +
181B ALA* 3.1 21.8 + - - +
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Residues in contact with THR 178 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108B LEU* 4.4 7.0 - - + -
174B ASP* 3.0 19.4 + - - +
175B THR 3.9 2.9 - - - -
177B SER* 1.3 72.1 + - - +
179B PHE* 1.3 66.1 + - - +
181B ALA* 3.1 7.2 + - - +
182B LEU* 3.0 42.7 + - + +
230B ILE* 4.5 10.1 - - + +
231B LEU* 4.7 3.4 - - + -
234B SER* 3.4 38.1 - - - +
236B ALA* 3.9 7.7 + - + +
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Residues in contact with PHE 179 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105B ILE* 3.7 30.5 - - + -
108B LEU* 3.6 14.9 - - + +
109B ALA* 3.9 18.4 - - + -
160B LEU* 3.9 7.4 - - + -
161B VAL 5.2 0.2 - - - -
164B PHE* 3.7 21.1 - + + -
165B GLY* 3.7 33.9 - - - -
168B VAL* 3.7 21.1 - - + -
175B THR 2.9 19.7 + - - +
176B ARG 3.6 3.4 - - - +
178B THR* 1.3 74.7 - - - +
180B ASN* 1.3 69.7 + - - +
182B LEU* 3.3 3.0 + - - +
183B ARG* 2.7 59.4 + - + +
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Residues in contact with ASN 180 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168B VAL* 5.5 0.9 - - - +
176B ARG* 3.0 27.3 + - - +
177B SER* 3.8 7.9 - - - +
178B THR 3.2 0.4 - - - -
179B PHE* 1.3 88.0 - - - +
181B ALA* 1.4 61.2 + - - +
183B ARG* 3.3 34.3 + - - +
184B ASN* 3.0 36.2 + - - +
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Residues in contact with ALA 181 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177B SER 3.1 14.0 + - - +
178B THR* 3.1 9.4 + - - +
180B ASN* 1.4 77.0 - - - +
182B LEU* 1.3 58.0 + - - +
184B ASN* 3.3 8.7 + - - +
185B ILE* 3.0 33.3 + - + +
230B ILE* 4.1 20.0 - - + -
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Residues in contact with LEU 182 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105B ILE* 3.9 14.6 - - + -
108B LEU* 4.5 11.2 - - + -
178B THR* 3.0 30.4 + - + +
179B PHE 3.8 2.5 - - - +
181B ALA* 1.3 72.9 - - - +
183B ARG* 1.3 67.0 + - - +
185B ILE* 3.2 6.8 + - + +
186B ILE* 3.0 26.0 + - - +
227B PHE* 3.6 55.0 - - + +
230B ILE* 3.7 21.8 - - + -
231B LEU* 3.7 32.8 - - + +
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Residues in contact with ARG 183 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105B ILE* 3.6 9.5 - - + +
160B LEU* 4.5 12.3 - - + -
161B VAL* 4.1 33.8 + - + +
165B GLY* 6.2 0.4 - - - -
179B PHE* 2.7 46.9 + - + +
180B ASN* 3.3 33.1 + - - +
182B LEU* 1.3 73.6 - - - +
184B ASN* 1.3 86.8 + - - +
186B ILE* 3.3 6.0 + - - +
187B LEU* 2.8 46.6 + - + +
305B MPG 6.3 0.6 - - - +
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Residues in contact with ASN 184 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180B ASN* 3.0 27.0 + - - +
181B ALA* 3.6 7.1 - - - +
182B LEU 3.2 0.2 - - - -
183B ARG* 1.3 105.1 + - - +
185B ILE* 1.3 66.3 + - + +
187B LEU* 4.1 10.9 - - - +
188B VAL* 3.1 33.3 + - + +
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Residues in contact with ILE 185 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181B ALA* 3.0 21.7 + - + +
182B LEU* 3.2 15.2 + - + +
184B ASN* 1.3 77.7 - - + +
186B ILE* 1.3 61.9 + - + +
188B VAL* 4.1 4.9 - - - -
189B THR* 2.9 45.4 + - + +
190B TRP* 6.3 0.2 - - - +
222B VAL* 4.2 22.4 - - + +
223B ALA* 4.7 2.7 - - - -
226B GLY 4.5 1.6 - - - +
227B PHE* 4.2 27.8 - - + +
230B ILE* 4.1 26.9 - - + -
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Residues in contact with ILE 186 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101B LEU* 5.1 2.5 - - + +
102B LEU* 4.9 5.6 - - + -
105B ILE* 3.9 31.6 - - + -
157B LEU* 3.8 9.9 - - + -
160B LEU* 3.7 23.8 - - + -
182B LEU 3.0 11.5 + - - +
183B ARG 3.6 6.1 - - - +
185B ILE* 1.3 76.2 - - - +
187B LEU* 1.3 58.3 + - - +
190B TRP* 2.9 82.7 + - + +
227B PHE* 3.8 29.8 - - + -
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Residues in contact with LEU 187 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157B LEU* 3.9 37.0 - - + +
160B LEU* 4.7 3.1 - - + -
161B VAL* 3.9 24.7 - - + -
183B ARG* 2.8 44.2 + - + +
184B ASN* 3.9 15.5 - - - +
186B ILE* 1.3 73.5 - - - +
188B VAL* 1.3 60.5 + - + +
191B ALA* 3.1 27.2 + - - +
305B MPG 4.1 17.8 + - + +
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Residues in contact with VAL 188 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184B ASN* 3.1 21.3 + - + +
185B ILE* 3.4 9.6 - - - +
187B LEU* 1.3 80.7 - - + +
189B THR* 1.3 83.0 + - + +
191B ALA* 3.7 2.6 + - - +
192B ILE* 3.2 29.3 + - + +
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Residues in contact with THR 189 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185B ILE* 2.9 30.2 + - + +
188B VAL* 1.3 83.0 - - + +
190B TRP* 1.3 85.5 + - - +
192B ILE* 3.2 18.1 + - + +
193B TYR* 3.2 15.8 - - - -
219B LEU* 3.8 18.3 - - + +
222B VAL* 3.6 29.8 - - + -
223B ALA* 3.9 15.3 - - - +
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Residues in contact with TRP 190 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98B THR* 3.7 27.1 - - + -
101B LEU* 4.0 21.8 - - + +
102B LEU* 4.0 16.2 - - + -
123B ASP* 3.4 21.1 - - - -
126B MET* 4.5 2.5 - - + -
153B MET* 3.5 13.9 - - + +
156B LEU* 4.0 17.9 - - + -
157B LEU* 4.4 12.1 - - + -
186B ILE* 2.9 48.2 + - + +
189B THR* 1.3 105.6 + - - +
191B ALA* 1.3 60.9 + - - +
193B TYR* 3.1 27.6 + + - +
223B ALA* 4.2 6.6 + - + +
301B RET 3.2 51.2 - - + +
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Residues in contact with ALA 191 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153B MET* 3.8 19.0 - - + +
157B LEU* 4.6 7.0 - - + +
187B LEU 3.1 21.9 + - - +
188B VAL* 3.9 4.7 - - - +
189B THR 3.3 0.6 - - - -
190B TRP* 1.3 78.1 - - - +
192B ILE* 1.3 59.2 + - + +
193B TYR 3.4 0.2 - - - -
194B PRO* 3.4 16.3 - - - +
195B VAL* 4.1 9.7 - - - +
305B MPG 4.8 7.0 - - - +
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Residues in contact with ILE 192 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188B VAL* 3.2 24.9 - - + +
189B THR* 3.6 7.6 - - - +
190B TRP 3.1 0.8 + - - -
191B ALA* 1.3 79.5 - - + +
193B TYR* 1.3 59.3 + - - +
194B PRO 3.4 0.2 - - - -
195B VAL* 3.1 15.1 + - + +
196B ALA* 2.9 26.5 + - - +
215B LEU* 4.6 15.0 - - + -
219B LEU* 3.9 29.4 - - + -
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Residues in contact with TYR 193 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94B TRP* 3.6 12.3 - + - -
189B THR* 3.2 32.8 - - - -
190B TRP* 3.1 14.8 + - - +
192B ILE* 1.3 75.6 - - - +
194B PRO* 1.3 63.8 - - + +
196B ALA* 3.1 6.4 + - - +
197B TRP* 3.0 26.5 + - - +
216B PHE* 3.7 26.6 - + - -
219B LEU* 3.3 28.6 + - + -
220B ASP* 2.7 44.4 + - - -
223B ALA* 3.9 2.1 - - - +
301B RET 3.5 63.8 - - + +
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Residues in contact with PRO 194 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B TRP* 2.9 40.3 + - + +
150B THR* 3.6 18.6 - - + +
153B MET* 3.6 25.8 - - + -
190B TRP 3.5 7.0 - - - +
191B ALA 3.4 18.4 - - - +
193B TYR* 1.3 94.1 - - + +
195B VAL* 1.3 55.5 + - + +
197B TRP* 3.3 2.7 + - + -
198B LEU* 3.0 19.2 + - - +
301B RET 3.8 16.2 - - + -
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Residues in contact with VAL 195 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B TRP* 5.3 2.9 - - + -
191B ALA 4.1 13.7 - - - +
192B ILE* 3.1 17.4 + - + +
194B PRO* 1.3 78.6 - - + +
196B ALA* 1.3 58.1 + - - +
198B LEU* 3.3 8.6 + - + +
199B VAL* 2.9 42.6 + - + +
215B LEU* 6.1 1.1 - - + -
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Residues in contact with ALA 196 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192B ILE 2.9 12.9 + - - +
193B TYR* 3.1 10.7 + - - +
195B VAL* 1.3 76.3 - - - +
197B TRP* 1.3 55.3 + - - +
199B VAL* 3.5 4.9 - - - +
200B GLY* 3.0 28.4 + - - -
212B GLU* 4.7 3.0 - - - +
215B LEU* 3.4 37.6 - - + +
216B PHE* 3.9 25.7 - - + -
219B LEU* 4.4 2.2 - - + -
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Residues in contact with TRP 197 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91B TYR* 3.5 18.4 - - - -
130B GLY 4.5 0.8 + - - -
133B ALA* 3.6 29.4 - - + -
134B THR* 2.8 19.2 + - - +
142B ARG* 3.7 26.0 - - + -
143B TYR* 4.1 13.2 - + - -
146B TRP* 3.2 33.7 - + + -
193B TYR 3.0 12.6 + - - +
194B PRO 3.6 7.4 - - - +
196B ALA* 1.3 76.5 - - - +
198B LEU* 1.3 67.2 + - - +
200B GLY* 3.5 6.7 + - - +
202B GLU* 3.6 39.4 - - + +
203B GLY* 3.3 32.8 + - - -
212B GLU* 5.9 1.3 - - - -
216B PHE* 4.1 11.1 - + + -
301B RET 3.8 25.2 - - + +
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Residues in contact with LEU 198 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143B TYR* 3.7 33.0 - - + -
146B TRP* 3.7 38.8 - - + +
194B PRO 3.0 13.8 + - - +
195B VAL* 3.6 8.7 - - + +
197B TRP* 1.3 82.9 - - + +
199B VAL* 1.3 59.4 + - + +
204B LEU* 2.6 58.1 + - + +
304B MPG 6.3 1.1 - - + -
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Residues in contact with VAL 199 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195B VAL* 2.9 34.0 + - + +
196B ALA* 3.5 14.8 - - - +
198B LEU* 1.3 78.2 - - + +
200B GLY* 1.3 65.3 + - - +
204B LEU* 6.0 0.7 - - + -
206B LEU* 2.8 51.0 + - + -
207B THR* 3.1 21.1 + - + -
212B GLU* 6.4 0.2 - - - -
215B LEU* 4.8 9.6 - - + -
----------------------------------------------------------
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Residues in contact with GLY 200 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196B ALA 3.0 17.6 + - - -
197B TRP 3.5 1.5 + - - -
198B LEU 3.4 0.8 - - - -
199B VAL* 1.3 76.2 - - - +
201B THR* 1.3 60.2 + - - -
202B GLU 3.3 3.4 - - - -
203B GLY 3.1 13.9 + - - -
205B ALA* 3.0 21.9 + - - -
207B THR* 3.9 16.6 - - - -
212B GLU* 4.0 11.0 - - - -
----------------------------------------------------------
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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