Contacts of the helix formed by residues 171 - 196 (chain s) in PDB entry 6QXT
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 171 (chain s).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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169s SER* 3.3 13.3 - - - -
170s ASP* 1.3 82.8 - - - +
172s ASP* 1.3 64.2 + - - +
173s ILE* 3.0 15.4 + - + +
174s ASN* 3.1 5.5 + - - +
175s ALA* 3.0 16.8 + - - +
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Residues in contact with ASP 172 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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170s ASP 3.8 0.8 + - - -
171s ASN* 1.3 73.6 - - - +
173s ILE* 1.3 56.8 + - - +
175s ALA* 3.7 12.0 - - + +
176s ALA* 2.9 29.8 + - - +
238s PHE* 4.4 24.0 - - + +
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Residues in contact with ILE 173 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161s PHE* 6.2 4.9 - - + -
171s ASN* 3.0 9.4 - - + +
172s ASP* 1.3 78.0 - - - +
174s ASN* 1.3 58.1 + - - +
176s ALA* 3.3 5.7 + - - +
177s LEU* 2.9 27.3 + - - +
230s VAL* 5.5 5.7 - - + +
234s ARG* 5.8 9.0 - - + -
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Residues in contact with ASN 174 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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166s THR 4.9 5.4 - - - +
167s ARG* 4.2 17.0 - - - +
169s SER* 3.4 28.0 - - - +
171s ASN* 3.1 6.8 + - + +
173s ILE* 1.3 76.2 - - - +
175s ALA* 1.3 59.9 + - - +
177s LEU* 3.6 8.0 - - - +
178s ASP* 2.9 29.3 + - - +
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Residues in contact with ALA 175 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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170s ASP 5.0 3.6 - - - +
171s ASN 3.0 13.6 + - - +
172s ASP* 3.7 14.6 - - + +
173s ILE 3.2 0.2 - - - -
174s ASN* 1.3 77.3 - - - +
176s ALA* 1.3 56.5 + - - +
178s ASP* 3.4 6.1 + - - +
179s TYR* 2.9 28.1 + - - +
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Residues in contact with ALA 176 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172s ASP 2.9 17.8 + - - +
173s ILE* 3.8 5.4 - - - +
175s ALA* 1.3 73.9 - - - +
177s LEU* 1.3 59.4 + - - +
179s TYR* 3.5 7.5 - - - +
180s GLY* 2.9 26.9 + - - -
226s ILE* 6.1 0.2 - - - +
230s VAL* 5.3 12.3 - - + -
238s PHE* 6.4 2.2 - - + -
241s ILE* 4.9 19.1 - - + +
242s LYS* 6.5 0.2 - - - -
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Residues in contact with LEU 177 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173s ILE 2.9 17.4 + - - +
174s ASN* 3.6 9.2 - - - +
175s ALA 3.3 0.2 - - - -
176s ALA* 1.3 78.0 - - - +
178s ASP* 1.3 57.7 + - - +
180s GLY* 3.5 0.7 + - - -
181s TYR* 2.9 30.1 + - - +
226s ILE* 5.9 5.1 - - - +
230s VAL* 5.7 6.8 - - + +
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Residues in contact with ASP 178 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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174s ASN 2.9 17.6 + - - +
175s ALA* 3.9 5.4 - - - +
177s LEU* 1.3 74.9 - - - +
179s TYR* 1.3 60.1 + - - +
181s TYR* 3.8 6.9 - - - +
182s THR* 2.9 29.1 + - - -
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Residues in contact with TYR 179 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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175s ALA 2.9 17.4 + - - +
176s ALA* 3.5 9.2 - - - +
177s LEU 3.2 0.2 - - - -
178s ASP* 1.3 74.4 - - - +
180s GLY* 1.3 60.8 + - - +
182s THR* 3.0 7.5 + - - -
183s LEU* 2.9 28.6 + - - +
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Residues in contact with GLY 180 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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176s ALA 2.9 16.2 + - - -
177s LEU* 4.0 0.9 - - - -
179s TYR* 1.3 76.5 - - - +
181s TYR* 1.3 57.2 + - - +
183s LEU* 3.9 5.9 - - - +
184s LEU* 2.9 32.4 + - - +
226s ILE* 5.1 16.8 - - - -
245s LEU* 5.7 9.7 - - - +
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Residues in contact with TYR 181 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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177s LEU 2.9 19.2 + - - +
178s ASP* 3.9 8.1 - - - +
180s GLY* 1.3 76.7 - - - +
182s THR* 1.3 57.1 + - - +
184s LEU* 4.7 4.3 - - - +
185s LEU* 2.8 31.5 + - - +
226s ILE* 5.7 0.6 - - - +
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Residues in contact with THR 182 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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81r TYR* 6.2 4.0 - - - -
74s PRO* 5.2 13.2 - - - -
178s ASP 2.9 18.8 + - - -
179s TYR* 3.0 8.0 + - - -
181s TYR* 1.3 75.5 - - - +
183s LEU* 1.3 60.0 + - - +
185s LEU* 3.7 5.2 - - - +
186s SER* 2.9 28.2 + - - -
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Residues in contact with LEU 183 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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179s TYR 2.9 14.7 + - - +
180s GLY* 3.9 6.3 - - - +
182s THR* 1.3 74.9 - - - +
184s LEU* 1.3 59.7 + - - +
186s SER* 3.0 8.3 + - - -
187s MET* 2.9 27.9 + - - +
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Residues in contact with LEU 184 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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180s GLY 2.9 17.5 + - - +
181s TYR* 4.4 3.4 - - - +
183s LEU* 1.3 77.1 - - - +
185s LEU* 1.3 57.8 + - - +
187s MET* 3.9 5.9 - - - +
188s PHE* 2.9 32.3 + - - +
219s MET* 4.5 12.6 - - + +
222s PHE* 5.9 7.2 - - + -
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Residues in contact with LEU 185 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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181s TYR 2.8 23.7 + - - +
182s THR* 3.8 6.3 - - - +
183s LEU 3.2 0.2 - - - -
184s LEU* 1.3 77.9 - - - +
186s SER* 1.3 58.0 + - - +
188s PHE* 4.6 4.3 - - - -
189s ALA* 2.9 31.0 + - - +
212s PHE* 5.5 10.4 - - + +
215s ALA* 4.1 9.6 - - + +
216s SER* 5.8 4.3 - - - +
219s MET* 5.1 6.7 - - + +
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Residues in contact with SER 186 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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64s LEU* 5.5 1.0 - - - +
66s ILE* 5.9 6.1 - - - -
77s PHE* 5.4 13.0 - - - -
182s THR 2.9 18.3 + - - -
183s LEU* 3.0 8.3 + - - -
185s LEU* 1.3 75.5 - - - +
187s MET* 1.3 60.3 + - - +
189s ALA* 3.7 4.8 - - - +
190s ARG* 2.9 29.5 + - - +
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Residues in contact with MET 187 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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183s LEU 2.9 13.8 + - - +
184s LEU* 4.0 6.3 - - - +
186s SER* 1.3 77.2 - - - +
188s PHE* 1.3 59.0 + - - +
190s ARG* 3.2 7.5 + - - +
191s GLU* 2.9 27.7 + - - +
266s VAL* 5.8 7.9 - - + -
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Residues in contact with PHE 188 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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184s LEU 2.9 17.9 + - - +
185s LEU 4.2 0.7 - - - +
187s MET* 1.3 76.0 - - - +
189s ALA* 1.3 57.3 + - - +
191s GLU* 3.2 9.0 + - - +
192s VAL* 2.9 27.5 + - - +
215s ALA* 3.8 28.1 - - + +
218s ILE* 5.1 6.2 - - + +
219s MET* 4.2 11.0 - - + +
266s VAL* 5.8 6.7 - - + +
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Residues in contact with ALA 189 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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185s LEU 2.9 21.0 + - - +
186s SER* 3.7 5.8 - - - +
188s PHE* 1.3 78.7 - - - +
190s ARG* 1.3 56.9 + - - +
192s VAL* 3.3 6.2 + - - +
193s VAL* 2.9 26.7 + - - +
199s THR* 5.8 5.8 - - - -
211s GLN 6.1 0.9 - - - +
212s PHE* 6.1 3.1 - - + -
215s ALA* 3.7 15.6 - - + +
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Residues in contact with ARG 190 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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64s LEU* 4.3 23.1 - - + -
186s SER 2.9 19.1 + - - +
187s MET* 3.5 7.0 - - - +
189s ALA* 1.3 77.2 - - - +
191s GLU* 1.3 57.9 + - - +
193s VAL* 3.2 9.5 + - - +
194s VAL* 2.9 25.8 + - - +
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Residues in contact with GLU 191 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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187s MET 2.9 13.1 + - - +
188s PHE* 3.2 12.1 + - - +
190s ARG* 1.3 77.0 - - - +
192s VAL* 1.3 55.3 + - - +
194s VAL* 3.0 11.0 + - - +
195s CYS* 2.9 26.5 + - - +
266s VAL* 4.7 10.5 - - + +
267s SER* 5.0 8.7 - - - -
270s THR* 4.2 24.6 - - - -
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Residues in contact with VAL 192 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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188s PHE 2.9 13.5 + - - +
189s ALA* 3.3 11.2 + - - +
191s GLU* 1.3 74.8 - - - +
193s VAL* 1.3 57.3 + - - +
195s CYS* 3.3 9.4 + - - +
196s GLY 3.0 22.0 + - - -
197s CYS* 3.7 15.1 + - + +
198s MET 6.1 0.2 - - - -
199s THR* 4.9 17.3 - - - -
214s LEU* 5.8 3.6 - - + -
215s ALA* 5.2 8.5 - - + +
270s THR* 5.4 2.4 - - - -
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Residues in contact with VAL 193 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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79s THR* 6.0 5.2 - - - -
80s PRO* 5.3 14.8 - - + +
83s ALA* 3.3 20.5 - - + +
189s ALA 2.9 13.6 + - - +
190s ARG* 3.2 13.2 + - - +
192s VAL* 1.3 75.2 - - - +
194s VAL* 1.3 63.1 + - - +
196s GLY* 3.4 12.4 + - - +
197s CYS 5.3 1.6 - - - -
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Residues in contact with VAL 194 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62s ASN* 6.6 0.7 - - + -
83s ALA* 4.2 13.8 - - + +
84s ARG* 4.9 10.0 - - - +
190s ARG 2.9 12.9 + - - +
191s GLU* 3.0 12.3 + - - +
193s VAL* 1.3 77.3 - - - +
195s CYS* 1.3 63.6 + - - +
196s GLY* 3.4 0.5 + - - -
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Residues in contact with CYS 195 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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86s ASP* 4.9 4.7 - - - +
87s SER* 4.7 3.5 + - - -
90s GLN* 4.5 10.9 - - - +
191s GLU 2.9 12.3 + - - +
192s VAL* 3.3 12.1 + - - +
194s VAL* 1.3 79.7 - - - +
196s GLY* 1.3 57.6 + - - +
197s CYS* 3.4 9.0 + - + +
270s THR* 5.6 6.1 - - - +
271s LYS* 6.4 0.7 - - - -
274s ILE* 4.6 20.2 - - + -
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Residues in contact with GLY 196 (chain s).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83s ALA* 6.0 0.4 - - - -
87s SER* 3.6 39.2 - - - +
90s GLN* 4.8 1.1 - - - -
91s ILE* 5.4 1.7 + - - +
192s VAL 3.0 6.6 + - - -
193s VAL* 3.4 11.6 + - - -
194s VAL 3.3 3.0 - - - -
195s CYS* 1.3 76.3 - - - +
197s CYS* 1.3 65.7 + - - +
198s MET 3.8 0.2 + - - -
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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
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Atomic class I II III IV V VI VII VIII
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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