Contacts of the helix formed by residues 171 - 196 (chain z) 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 z).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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169z SER* 3.3 12.8 - - - -
170z ASP* 1.3 81.9 - - - +
172z ASP* 1.3 64.5 + - - +
173z ILE* 3.0 15.5 + - + +
174z ASN* 3.1 5.8 + - + +
175z ALA* 3.0 16.6 + - - +
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Residues in contact with ASP 172 (chain z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170z ASP 3.8 0.8 + - - -
171z ASN* 1.3 72.7 - - - +
173z ILE* 1.3 56.1 + - - +
175z ALA* 3.7 11.5 - - + +
176z ALA* 2.9 29.6 + - - +
238z PHE* 4.4 24.8 - - + +
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Residues in contact with ILE 173 (chain z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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171z ASN* 3.0 9.0 - - + +
172z ASP* 1.3 78.6 - - - +
174z ASN* 1.3 58.0 + - - +
176z ALA* 3.3 5.9 + - - +
177z LEU* 2.9 27.2 + - - +
230z VAL* 5.5 6.9 - - + +
234z ARG* 5.8 8.5 - - + -
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Residues in contact with ASN 174 (chain z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166z THR 4.9 4.9 - - - +
167z ARG* 4.2 16.8 - - - +
169z SER* 3.4 27.4 - - - +
170z ASP 5.2 0.2 - - - -
171z ASN* 3.1 7.3 + - + +
173z ILE* 1.3 75.8 - - - +
175z ALA* 1.3 60.4 + - - +
177z LEU* 3.6 8.0 - - - +
178z ASP* 2.9 29.8 + - - +
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Residues in contact with ALA 175 (chain z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170z ASP 5.0 3.8 - - - +
171z ASN 3.0 12.7 + - - +
172z ASP* 3.7 14.4 - - + +
173z ILE 3.2 0.2 - - - -
174z ASN* 1.3 77.0 - - - +
176z ALA* 1.3 56.7 + - - +
178z ASP* 3.4 5.7 + - - +
179z TYR* 2.9 28.1 + - - +
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Residues in contact with ALA 176 (chain z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172z ASP 2.9 18.0 + - - +
173z ILE* 3.8 4.9 - - - +
175z ALA* 1.3 73.4 - - - +
177z LEU* 1.3 61.3 + - - +
179z TYR* 3.5 7.4 - - - +
180z GLY* 2.9 26.3 + - - -
226z ILE* 6.1 0.3 - - - +
230z VAL* 5.3 11.7 - - + -
238z PHE* 6.4 1.8 - - + -
241z ILE* 4.9 19.7 - - + +
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Residues in contact with LEU 177 (chain z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173z ILE 2.9 18.5 + - - +
174z ASN* 3.6 10.1 - - - +
175z ALA 3.3 0.4 - - - -
176z ALA* 1.3 77.4 - - - +
178z ASP* 1.3 56.2 + - - +
180z GLY* 3.9 0.7 - - - -
181z TYR* 2.9 30.5 + - - +
226z ILE* 5.9 5.1 - - - +
230z VAL* 5.7 4.0 - - - +
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Residues in contact with ASP 178 (chain z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174z ASN 2.9 17.4 + - - +
175z ALA* 3.9 5.6 - - - +
177z LEU* 1.3 73.0 - - - +
179z TYR* 1.3 60.8 + - - +
181z TYR* 3.8 6.6 - - - +
182z THR* 2.9 28.8 + - - -
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Residues in contact with TYR 179 (chain z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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175z ALA 2.9 18.5 + - - +
176z ALA* 3.5 9.9 - - - +
177z LEU 3.2 0.2 - - - -
178z ASP* 1.3 74.3 - - - +
180z GLY* 1.3 59.8 + - - +
182z THR* 3.0 7.4 + - - -
183z LEU* 2.9 27.9 + - - +
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Residues in contact with GLY 180 (chain z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176z ALA 2.9 14.9 + - - -
177z LEU* 4.0 1.1 - - - -
179z TYR* 1.3 76.5 - - - +
181z TYR* 1.3 56.5 + - - +
183z LEU* 3.9 6.4 - - - +
184z LEU* 2.9 32.4 + - - +
226z ILE* 5.1 17.5 - - - -
245z LEU* 5.7 8.9 - - - +
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Residues in contact with TYR 181 (chain z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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177z LEU 2.9 19.4 + - - +
178z ASP* 3.9 7.6 - - - +
180z GLY* 1.3 75.7 - - - +
182z THR* 1.3 57.8 + - - +
184z LEU* 4.4 4.2 - - - +
185z LEU* 2.8 31.2 + - - +
226z ILE* 5.7 0.6 - - - +
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Residues in contact with THR 182 (chain z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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81y TYR* 6.2 4.0 - - - -
74z PRO* 5.2 13.7 - - - -
178z ASP 2.9 19.3 + - - -
179z TYR* 3.0 8.2 + - - -
181z TYR* 1.3 75.7 - - - +
183z LEU* 1.3 59.9 + - - +
185z LEU* 3.7 5.0 - - - +
186z SER* 2.9 28.2 + - - -
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Residues in contact with LEU 183 (chain z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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179z TYR 2.9 14.3 + - - +
180z GLY* 3.9 6.7 - - - +
182z THR* 1.3 74.5 - - - +
184z LEU* 1.3 61.2 + - - +
186z SER* 3.0 8.7 + - - -
187z MET* 2.9 27.6 + - - +
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Residues in contact with LEU 184 (chain z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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180z GLY 2.9 17.5 + - - +
181z TYR* 4.4 3.8 - - - +
183z LEU* 1.3 76.7 - - - +
185z LEU* 1.3 56.3 + - - +
187z MET* 3.9 6.3 - - - +
188z PHE* 2.9 32.1 + - - +
219z MET* 4.5 13.1 - - + +
222z PHE* 5.9 7.2 - - + -
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Residues in contact with LEU 185 (chain z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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181z TYR 2.8 23.9 + - - +
182z THR* 3.8 7.2 - - - +
184z LEU* 1.3 78.0 - - - +
186z SER* 1.3 56.9 + - - +
188z PHE* 4.6 4.5 - - - -
189z ALA* 2.9 31.2 + - - +
212z PHE* 5.5 10.4 - - + +
215z ALA* 4.1 10.1 - - + +
216z SER* 5.8 4.5 - - - +
219z MET* 5.1 6.0 - - + +
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Residues in contact with SER 186 (chain z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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77z PHE* 5.4 12.8 - - - -
182z THR 2.9 19.0 + - - -
183z LEU* 3.0 8.5 + - - -
185z LEU* 1.3 75.7 - - - +
187z MET* 1.3 58.7 + - - +
189z ALA* 3.4 4.9 + - - +
190z ARG* 2.9 28.6 + - - +
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Residues in contact with MET 187 (chain z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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183z LEU 2.9 14.5 + - - +
184z LEU* 3.9 6.5 - - - +
186z SER* 1.3 77.0 - - - +
188z PHE* 1.3 57.4 + - - +
190z ARG* 3.2 7.3 + - - +
191z GLU* 2.9 27.2 + - - +
266z VAL* 5.8 8.9 - - + +
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Residues in contact with PHE 188 (chain z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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184z LEU 2.9 18.2 + - - +
185z LEU* 4.2 0.9 - - - +
187z MET* 1.3 76.4 - - - +
189z ALA* 1.3 57.9 + - - +
191z GLU* 3.2 8.5 + - - +
192z VAL* 2.9 27.7 + - - +
215z ALA* 3.8 28.1 - - + +
218z ILE* 5.1 6.4 - - + +
219z MET* 4.2 10.1 - - + +
266z VAL* 5.8 6.9 - - + +
270z THR* 5.9 0.2 - - - -
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Residues in contact with ALA 189 (chain z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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185z LEU 2.9 21.7 + - - +
186z SER* 3.7 5.8 - - - +
188z PHE* 1.3 77.8 - - - +
190z ARG* 1.3 57.4 + - - +
192z VAL* 3.3 5.8 + - - +
193z VAL* 2.9 27.2 + - - +
199z THR* 5.6 7.9 - - - -
211z GLN 6.1 0.9 - - - +
212z PHE* 6.1 3.1 - - + -
215z ALA* 3.7 15.8 - - + +
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Residues in contact with ARG 190 (chain z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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64z LEU* 4.3 23.6 - - + -
186z SER 2.9 17.6 + - - +
187z MET* 3.2 7.2 + - - +
189z ALA* 1.3 75.1 - - - +
191z GLU* 1.3 59.0 + - - +
193z VAL* 3.2 10.0 + - - +
194z VAL* 2.9 26.0 + - - +
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Residues in contact with GLU 191 (chain z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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187z MET 2.9 14.0 + - - +
188z PHE* 3.2 12.8 + - - +
190z ARG* 1.3 77.1 - - - +
192z VAL* 1.3 56.7 + - - +
194z VAL* 3.0 10.0 + - - +
195z CYS* 2.9 26.7 + - - +
266z VAL* 4.7 9.6 - - + +
267z SER* 5.0 9.0 - - - -
270z THR* 4.2 25.1 - - - -
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Residues in contact with VAL 192 (chain z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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188z PHE 2.9 14.0 + - - +
189z ALA* 3.3 11.6 + - - +
191z GLU* 1.3 75.9 - - - +
193z VAL* 1.3 56.6 + - - +
195z CYS* 3.3 9.8 + - - +
196z GLY 3.0 21.5 + - - -
197z CYS* 3.7 16.5 + - + +
199z THR* 4.9 17.0 - - - -
214z LEU* 5.8 3.4 - - + -
215z ALA* 5.2 8.5 - - + +
270z THR* 5.4 2.2 - - - -
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Residues in contact with VAL 193 (chain z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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79z THR* 6.0 5.6 - - - -
80z PRO* 5.2 14.8 - - + +
83z ALA* 3.3 20.6 + - + +
189z ALA 2.9 13.3 + - - +
190z ARG* 3.2 13.0 + - - +
192z VAL* 1.3 75.4 - - - +
194z VAL* 1.3 63.5 + - - +
196z GLY* 3.4 12.4 + - - +
197z CYS 5.3 1.6 - - - -
199z THR* 6.1 0.4 - - - -
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Residues in contact with VAL 194 (chain z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83z ALA* 4.2 13.4 - - - +
84z ARG* 4.9 10.2 - - - +
190z ARG 2.9 12.9 + - - +
191z GLU* 3.0 12.5 + - - +
193z VAL* 1.3 78.2 - - - +
195z CYS* 1.3 62.4 + - - +
196z GLY* 4.4 0.3 - - - -
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Residues in contact with CYS 195 (chain z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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86z ASP* 4.9 5.2 - - - +
87z SER* 4.7 3.5 + - - -
90z GLN* 4.5 10.9 - - - +
191z GLU 2.9 12.8 + - - +
192z VAL* 3.6 11.7 - - - +
193z VAL 3.3 0.2 - - - -
194z VAL* 1.3 77.4 - - - +
196z GLY* 1.3 58.4 + - - +
197z CYS* 3.4 8.5 + - + +
270z THR* 5.6 6.5 - - - +
271z LYS* 6.4 0.7 - - - -
274z ILE* 4.6 20.0 - - + -
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Residues in contact with GLY 196 (chain z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83z ALA* 6.0 0.2 - - - -
87z SER* 3.6 38.8 - - - +
90z GLN* 4.8 1.1 - - - -
91z ILE* 5.4 1.7 + - - +
192z VAL 3.0 6.8 + - - -
193z VAL* 3.4 11.8 + - - -
194z VAL 3.2 2.8 - - - -
195z CYS* 1.3 77.5 - - - +
197z CYS* 1.3 65.7 + - - +
198z MET 3.8 0.3 + - - -
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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
------------------------------------------------------------
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