Contacts of the helix formed by residues 176 - 200 (chain B) in PDB entry 1TE6
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 SER 176 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174B ALA* 3.3 4.9 + - - +
175B GLU* 1.3 81.6 - - - +
177B PHE* 1.3 59.7 + - - +
178B ARG* 3.5 10.1 + - - +
179B ASP* 3.2 20.4 + - - +
180B ALA* 2.9 26.3 + - - +
413B GLU* 3.4 17.4 + - - -
422B PHE* 3.8 17.0 - - - -
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Residues in contact with PHE 177 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144B LEU* 4.0 22.9 - - + -
145B PRO* 3.0 32.3 - - + -
147B PRO* 3.7 19.5 - - + -
176B SER* 1.3 70.9 - - - +
178B ARG* 1.3 60.1 + - - +
180B ALA* 3.0 13.0 + - - +
181B MET* 3.0 38.7 + - + +
392B ILE* 5.2 0.2 - - + -
406B TYR* 3.5 20.9 - + - -
409B LEU* 3.3 45.3 - - + -
410B MET* 3.9 14.6 - - + -
413B GLU* 2.7 25.5 + - - +
422B PHE* 3.6 8.8 - + - -
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Residues in contact with ARG 178 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A GLU 6.0 0.4 - - - +
56A TYR* 4.4 2.3 + - - -
176B SER* 3.9 7.4 + - - +
177B PHE* 1.3 75.6 - - - +
179B ASP* 1.3 62.2 + - - +
181B MET* 3.3 6.1 + - - +
182B ARG* 3.3 18.0 + - - +
410B MET* 3.3 55.8 + - + +
413B GLU* 2.9 37.7 + - - +
414B GLU* 3.3 40.2 + - - +
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Residues in contact with ASP 179 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174B ALA* 3.5 9.1 - - - +
175B GLU* 3.0 33.0 + - + +
176B SER* 3.2 24.9 + - - +
177B PHE 3.2 0.4 - - - -
178B ARG* 1.3 76.8 - - - +
180B ALA* 1.3 65.8 + - - +
182B ARG* 2.9 37.9 + - - +
183B LEU* 3.0 29.9 + - - +
238B LYS* 5.3 3.6 + - - -
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Residues in contact with ALA 180 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147B PRO* 3.8 30.1 - - + -
149B PHE* 3.9 1.9 - - - -
171B PRO* 3.5 18.1 - - + +
174B ALA* 3.5 18.6 - - + +
176B SER 2.9 13.2 + - - +
177B PHE 3.0 10.7 + - - +
179B ASP* 1.3 78.0 - - - +
181B MET* 1.3 56.6 + - - +
183B LEU 3.5 0.3 + - - -
184B GLY* 3.0 23.7 + - - -
422B PHE* 3.9 8.1 - - + -
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Residues in contact with MET 181 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A LEU* 3.6 26.6 - - + +
56A TYR* 3.8 7.4 - - - +
147B PRO* 4.8 0.2 - - - -
149B PHE* 3.6 27.4 - - + -
177B PHE* 3.0 37.3 + - + +
178B ARG 3.6 7.9 - - - +
179B ASP 3.2 0.2 - - - -
180B ALA* 1.3 75.6 - - - +
182B ARG* 1.3 60.0 + - - +
184B GLY* 3.5 0.5 + - - -
185B ALA* 2.9 31.2 + - - +
397B PRO* 4.5 2.2 - - + -
403B LEU* 4.4 3.6 - - + -
406B TYR* 3.4 44.6 - - + -
410B MET* 3.9 23.1 - - + -
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Residues in contact with ARG 182 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A GLN 4.0 12.3 + - - -
55A ARG* 3.7 34.1 - - - +
56A TYR* 3.3 30.5 + - + +
178B ARG 3.3 7.4 + - - +
179B ASP* 2.9 34.4 + - - +
181B MET* 1.3 77.1 - - - +
183B LEU* 1.3 74.0 + - - +
185B ALA* 3.4 0.9 + - - +
186B GLU* 2.9 62.0 + - - +
235B TYR* 2.8 29.0 + - - -
238B LYS* 6.1 0.8 - - - +
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Residues in contact with LEU 183 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171B PRO* 4.1 13.7 - - + -
174B ALA* 4.2 25.8 - - + -
179B ASP* 3.0 21.7 + - - +
180B ALA 3.8 4.5 - - - +
182B ARG* 1.3 107.0 - - - +
184B GLY* 1.3 62.8 + - - +
186B GLU* 3.3 1.0 + - - +
187B VAL* 2.9 30.0 + - - +
235B TYR* 3.6 42.4 - - + -
238B LYS* 4.2 23.6 - - + +
239B ILE* 4.1 8.1 - - + -
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Residues in contact with GLY 184 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149B PHE* 3.7 30.2 - - - -
169B ILE* 5.1 6.9 - - - +
171B PRO* 4.2 4.6 - - - +
180B ALA 3.0 11.7 + - - -
181B MET 3.9 0.2 - - - -
183B LEU* 1.3 77.9 - - - +
185B ALA* 1.3 56.1 + - - +
187B VAL* 3.3 5.3 + - - +
188B TYR* 2.9 29.6 + - - +
239B ILE* 5.6 0.4 - - - -
397B PRO* 4.1 7.7 - - - +
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Residues in contact with ALA 185 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A LEU* 4.2 8.7 - - + -
15A GLY 3.7 17.3 - - - +
56A TYR* 3.6 25.1 - - + -
181B MET 2.9 18.6 + - - +
184B GLY* 1.3 75.0 - - - +
186B GLU* 1.3 60.8 + - - +
188B TYR* 3.3 1.8 + - - +
189B HIS* 2.8 34.0 + - + -
397B PRO* 4.1 14.6 - - + +
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Residues in contact with GLU 186 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A GLN 4.2 3.4 - - - +
55A ARG* 3.6 3.2 - - - -
56A TYR* 2.7 42.9 + - + +
57A LEU* 4.8 16.1 - - + +
182B ARG* 2.9 41.5 + - + +
183B LEU 3.8 2.9 - - - +
185B ALA* 1.3 76.3 - - - +
187B VAL* 1.3 58.5 + - - +
189B HIS* 3.5 7.1 + - - +
190B THR* 2.7 33.9 + - - -
233B ALA* 4.6 4.9 - - + +
235B TYR* 2.6 36.6 + - + -
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Residues in contact with VAL 187 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151B VAL* 6.0 1.6 - - + -
169B ILE* 4.6 12.8 - - + -
183B LEU 2.9 21.0 + - - +
184B GLY* 3.8 5.4 - - - +
186B GLU* 1.3 72.8 - - - +
188B TYR* 1.3 56.9 + - - +
190B THR* 3.2 6.1 + - - -
191B LEU* 2.8 36.0 + - + +
226B VAL* 5.0 0.4 - - + +
229B ALA* 4.1 18.3 - - + +
230B ILE* 3.2 26.7 - - + +
233B ALA* 3.8 19.1 - - + -
235B TYR* 4.1 2.0 - - + -
239B ILE* 3.4 26.7 - - + -
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Residues in contact with TYR 188 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14A ARG 4.3 10.1 - - - -
15A GLY* 5.7 0.2 - - - -
151B VAL* 4.0 23.7 - - + +
184B GLY 2.9 17.7 + - - +
185B ALA 3.5 4.9 - - - +
186B GLU 3.3 0.2 - - - -
187B VAL* 1.3 77.6 - - - +
189B HIS* 1.3 75.1 + + - +
191B LEU* 3.2 7.7 + - - +
192B LYS* 3.0 29.1 + - + +
206B VAL* 3.3 18.4 - - - +
210B GLY 2.7 28.6 + - - -
211B GLY* 4.6 1.6 - - - -
212B PHE* 3.3 35.9 - + - -
396B ALA* 4.0 8.1 - - + -
397B PRO* 3.7 22.7 - - + -
398B CYS* 3.4 22.4 - - + +
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Residues in contact with HIS 189 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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14A ARG 3.3 22.3 + - - -
15A GLY* 3.3 22.0 + - - -
16A ASN* 3.5 20.3 + - - -
56A TYR* 5.3 7.9 + + - -
57A LEU* 3.8 31.6 - - + +
59A LYS* 6.1 0.9 - - - +
185B ALA* 2.8 28.2 + - + +
186B GLU* 4.0 3.6 - - - +
188B TYR* 1.3 86.7 - + - +
190B THR* 1.3 66.1 + - - +
192B LYS* 3.3 21.8 + - + +
193B GLY* 3.3 9.7 + - - -
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Residues in contact with THR 190 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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57A LEU* 5.2 8.6 - - - +
186B GLU* 2.7 23.1 + - - +
187B VAL* 3.5 6.3 - - - -
189B HIS* 1.3 76.8 - - - +
191B LEU* 1.3 64.3 + - - +
193B GLY* 3.1 4.2 + - - -
194B VAL* 3.0 21.0 + - + +
229B ALA* 3.7 15.3 - - - +
232B LYS* 3.6 45.3 + - + +
233B ALA* 3.9 11.9 - - - +
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Residues in contact with LEU 191 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151B VAL* 3.6 41.3 - - + +
152B ILE* 3.7 20.4 - - + -
187B VAL* 2.8 15.0 + - + +
188B TYR* 3.3 9.9 - - - +
190B THR* 1.3 77.6 - - - +
192B LYS* 1.3 62.5 + - - +
194B VAL* 3.1 6.4 + - + +
195B ILE* 2.9 47.4 + - + +
212B PHE* 4.0 8.1 - - + -
225B LEU* 4.2 18.6 - - + +
226B VAL* 5.0 4.0 - - + -
229B ALA* 3.7 17.7 - - + +
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Residues in contact with LYS 192 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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14A ARG* 5.7 4.4 - - - +
208A ASP* 4.8 12.3 + - - -
188B TYR* 3.0 13.7 + - + +
189B HIS* 3.4 17.7 - - + +
190B THR 3.2 0.2 - - - -
191B LEU* 1.3 76.4 - - - +
193B GLY* 1.3 56.2 + - - +
195B ILE* 3.4 5.7 + - - +
196B LYS* 2.9 28.3 + - + +
204B THR* 3.9 33.1 + - + +
212B PHE* 3.6 32.3 - - + -
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Residues in contact with GLY 193 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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189B HIS 3.3 5.5 + - - -
190B THR* 3.1 8.1 + - - -
192B LYS* 1.3 77.6 - - - +
194B VAL* 1.3 63.5 + - - +
196B LYS* 3.3 7.7 + - - -
197B ASP* 3.0 35.5 + - - +
232B LYS* 5.2 4.5 - - - -
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Residues in contact with VAL 194 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190B THR* 3.0 18.3 + - + +
191B LEU* 3.5 12.1 - - + +
193B GLY* 1.3 75.7 - - - +
195B ILE* 1.3 63.8 + - + +
197B ASP* 3.5 5.9 + - - +
198B LYS* 3.1 26.6 + - + +
225B LEU* 3.9 27.4 - - + +
228B GLU* 3.5 36.3 - - + +
229B ALA* 4.7 8.3 - - - -
232B LYS* 3.9 26.4 - - + +
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Residues in contact with ILE 195 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152B ILE* 4.6 6.1 - - + -
191B LEU* 2.9 35.2 + - + +
192B LYS* 3.8 5.8 - - - +
194B VAL* 1.3 74.1 - - - +
196B LYS* 1.3 58.8 + - - +
199B TYR* 2.6 48.0 + - + -
200B GLY 3.3 2.8 + - - -
203B ALA* 3.6 36.1 - - + +
204B THR* 4.7 2.0 - - + -
212B PHE* 5.1 7.4 - - + -
214B PRO* 4.1 13.2 - - + -
225B LEU* 3.3 45.1 - - + -
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Residues in contact with LYS 196 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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192B LYS* 2.9 18.8 + - + +
193B GLY* 3.3 9.2 + - - +
195B ILE* 1.3 77.4 - - - +
197B ASP* 1.3 68.4 + - - +
200B GLY* 2.9 34.8 + - - -
201B LYS* 4.0 32.6 - - + +
204B THR* 3.7 11.4 - - + +
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Residues in contact with ASP 197 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193B GLY* 3.0 20.3 + - - +
194B VAL* 3.9 5.1 - - - +
196B LYS* 1.3 90.5 + - - +
198B LYS* 1.3 59.4 + - + +
200B GLY 4.7 0.4 + - - -
232B LYS* 4.6 11.3 + - - -
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Residues in contact with LYS 198 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194B VAL* 3.1 20.3 + - + +
197B ASP* 1.3 79.6 - - + +
199B TYR* 1.3 97.9 + - + +
200B GLY 3.8 0.2 - - - -
221B GLU* 4.7 13.5 + - - +
224B GLU* 5.8 5.7 - - - +
225B LEU* 4.3 12.4 - - + +
228B GLU* 5.7 4.3 + - - +
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Residues in contact with TYR 199 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195B ILE* 2.6 38.6 + - + +
198B LYS* 1.3 111.5 + - + +
200B GLY* 1.3 58.1 + - - +
202B ASP* 5.7 1.9 - - - +
203B ALA* 3.9 21.8 + - + +
214B PRO* 4.3 7.4 - - + -
215B ASN* 4.4 9.9 - - + +
216B ILE* 3.4 26.7 - - + +
221B GLU* 2.7 27.7 + - - +
225B LEU* 3.6 26.6 - - + +
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Residues in contact with GLY 200 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195B ILE 3.3 0.6 + - - +
196B LYS* 2.9 27.8 + - - -
197B ASP 4.7 0.2 - - - -
198B LYS 3.8 0.6 - - - -
199B TYR* 1.3 80.5 - - - +
201B LYS* 1.3 66.3 + - - -
202B ASP* 3.1 7.2 - - - -
203B ALA* 3.0 16.1 + - - +
204B THR* 3.9 1.4 - - - +
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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