Contacts of the helix formed by residues 171 - 196 (chain Y) 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 Y).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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169Y SER* 3.6 10.2 + - - +
170Y ASP* 1.3 76.1 - - - +
172Y ASP* 1.3 61.7 + - - +
173Y ILE* 3.1 10.5 - - + +
174Y ASN* 3.1 7.3 + - + +
175Y ALA* 3.0 28.8 + - - +
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Residues in contact with ASP 172 (chain Y).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171Y ASN* 1.3 73.2 - - - +
173Y ILE* 1.3 57.7 + - - +
175Y ALA* 4.0 7.0 - - - +
176Y ALA* 2.9 29.6 + - - +
234Y ARG 6.0 1.6 - - - +
236Y ASN 5.2 6.1 - - - +
237Y ASN* 5.6 0.7 - - - -
238Y PHE* 4.2 31.6 - - + +
241Y ILE* 5.5 0.5 - - - +
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Residues in contact with ILE 173 (chain Y).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161Y PHE* 5.8 8.5 - - + -
171Y ASN* 3.1 8.3 - - + +
172Y ASP* 1.3 76.6 - - - +
174Y ASN* 1.3 59.8 + - - +
176Y ALA* 3.3 6.7 + - - +
177Y LEU* 2.9 28.1 + - - +
230Y VAL* 5.4 8.1 - - + +
234Y ARG* 5.6 14.4 - - + +
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Residues in contact with ASN 174 (chain Y).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166Y THR 5.0 6.1 - - - +
167Y ARG* 4.2 14.1 - - - +
169Y SER 3.6 23.3 - - - +
170Y ASP* 5.2 0.4 - - - -
171Y ASN* 3.1 10.6 + - + +
173Y ILE* 1.3 75.8 - - - +
175Y ALA* 1.3 61.0 + - - +
177Y LEU* 3.2 7.9 + - - +
178Y ASP* 2.9 28.9 + - - +
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Residues in contact with ALA 175 (chain Y).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171Y ASN 3.0 15.9 + - - +
172Y ASP* 4.0 7.9 - - - +
174Y ASN* 1.3 75.8 - - - +
176Y ALA* 1.3 58.2 + - - +
178Y ASP* 3.4 7.2 + - - +
179Y TYR* 2.9 27.7 + - - +
238Y PHE* 5.8 5.2 - - + -
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Residues in contact with ALA 176 (chain Y).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172Y ASP 2.9 20.1 + - - +
173Y ILE* 3.6 7.6 - - - +
174Y ASN 3.2 0.2 - - - -
175Y ALA* 1.3 75.8 - - - +
177Y LEU* 1.3 58.8 + - - +
179Y TYR* 3.2 7.7 + - - +
180Y GLY* 2.9 26.2 + - - -
226Y ILE* 6.1 0.2 - - - +
230Y VAL* 5.0 14.6 - - + -
238Y PHE* 6.0 1.5 - - + +
241Y ILE* 4.2 24.7 - - + +
245Y LEU* 5.9 2.1 - - - +
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Residues in contact with LEU 177 (chain Y).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173Y ILE 2.9 15.2 + - - +
174Y ASN* 3.2 11.4 + - - +
176Y ALA* 1.3 76.0 - - - +
178Y ASP* 1.3 55.6 + - - +
180Y GLY* 3.5 1.5 + - - +
181Y TYR* 2.9 30.8 + - - +
226Y ILE* 5.8 4.5 - - - +
230Y VAL* 5.5 6.7 - - + +
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Residues in contact with ASP 178 (chain Y).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174Y ASN 2.9 15.8 + - - +
175Y ALA* 3.8 7.4 - - - +
177Y LEU* 1.3 75.9 - - - +
179Y TYR* 1.3 58.4 + - - +
181Y TYR* 3.8 6.1 - - - +
182Y THR* 2.9 28.2 + - - -
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Residues in contact with TYR 179 (chain Y).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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175Y ALA 2.9 18.7 + - - +
176Y ALA* 3.2 8.9 + - - +
178Y ASP* 1.3 74.4 - - - +
180Y GLY* 1.3 61.0 + - - +
182Y THR* 3.0 9.0 + - - -
183Y LEU* 2.9 27.3 + - - +
242Y LYS* 6.1 6.1 - - + -
245Y LEU* 6.1 3.4 - - + -
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Residues in contact with GLY 180 (chain Y).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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176Y ALA 2.9 14.2 + - - -
177Y LEU* 3.9 1.3 - - - -
179Y TYR* 1.3 75.0 - - - +
181Y TYR* 1.3 56.8 + - - +
183Y LEU* 3.2 6.9 + - - +
184Y LEU* 2.9 30.0 + - - +
226Y ILE* 4.7 19.5 - - - -
245Y LEU* 5.3 12.0 - - - +
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Residues in contact with TYR 181 (chain Y).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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177Y LEU 2.9 18.8 + - - +
178Y ASP* 3.9 7.0 - - - +
180Y GLY* 1.3 75.0 - - - +
182Y THR* 1.3 58.8 + - - +
184Y LEU* 4.3 5.3 - - - +
185Y LEU* 2.9 30.2 + - - +
226Y ILE* 5.4 1.0 - - - +
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Residues in contact with THR 182 (chain Y).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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178Y ASP 2.9 19.7 + - - -
179Y TYR* 3.0 9.4 + - - -
181Y TYR* 1.3 75.2 - - - +
183Y LEU* 1.3 60.8 + - - +
185Y LEU* 3.7 5.7 - - - +
186Y SER* 2.9 27.7 + - - -
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Residues in contact with LEU 183 (chain Y).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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179Y TYR 2.9 12.8 + - - +
180Y GLY* 3.2 9.2 + - - +
182Y THR* 1.3 73.3 - - - +
184Y LEU* 1.3 60.5 + - - +
186Y SER* 3.0 8.3 + - - -
187Y MET* 2.9 28.3 + - - +
245Y LEU 6.0 1.6 - - - +
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Residues in contact with LEU 184 (chain Y).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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180Y GLY 2.9 17.0 + - - +
181Y TYR* 4.3 5.6 - - - +
183Y LEU* 1.3 76.2 - - - +
185Y LEU* 1.3 58.2 + - - +
187Y MET* 3.9 6.0 - - - +
188Y PHE* 2.9 33.3 + - - +
219Y MET* 4.3 16.7 - - + +
222Y PHE* 6.0 7.0 - - + +
223Y ARG* 6.4 1.8 - - - -
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Residues in contact with LEU 185 (chain Y).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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181Y TYR 2.9 22.8 + - - +
182Y THR* 3.7 7.2 - - - +
184Y LEU* 1.3 76.0 - - - +
186Y SER* 1.3 58.3 + - - +
188Y PHE* 4.8 2.9 - - - -
189Y ALA* 2.8 33.3 + - - +
212Y PHE* 5.7 9.0 - - + -
215Y ALA* 4.5 4.6 - - + +
216Y SER* 5.7 8.7 - - - +
219Y MET* 5.0 4.9 - - + +
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Residues in contact with SER 186 (chain Y).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71Y LYS 4.1 19.7 - - - -
72Y ARG* 4.5 18.2 - - - +
73Y LEU* 4.8 8.8 - - - +
182Y THR 2.9 14.9 + - - -
183Y LEU* 3.0 11.4 + - - -
185Y LEU* 1.3 75.6 - - - +
187Y MET* 1.3 60.2 + - - +
189Y ALA* 3.8 4.1 - - - +
190Y ARG* 2.9 29.3 + - - +
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Residues in contact with MET 187 (chain Y).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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183Y LEU 2.9 14.9 + - - +
184Y LEU* 3.4 6.7 + - - +
186Y SER* 1.3 76.1 - - - +
188Y PHE* 1.3 58.2 + - - +
190Y ARG* 3.1 7.8 + - - +
191Y GLU* 2.9 27.3 + - - +
263Y SER* 6.4 1.8 - - - -
266Y VAL* 5.4 10.3 - - + +
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Residues in contact with PHE 188 (chain Y).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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184Y LEU 2.9 17.2 + - - +
185Y LEU* 4.5 0.7 - - - +
187Y MET* 1.3 76.0 - - - +
189Y ALA* 1.3 57.7 + - - +
191Y GLU* 3.2 8.3 + - - +
192Y VAL* 2.9 29.1 + - - +
215Y ALA* 3.9 25.5 - - + +
218Y ILE* 5.1 5.4 - - + -
219Y MET* 4.1 14.1 - - + +
266Y VAL* 5.5 8.7 - - + +
270Y THR* 5.6 0.5 - - - -
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Residues in contact with ALA 189 (chain Y).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73Y LEU* 5.8 8.3 - - + -
74Y PRO* 5.3 3.7 - - - +
185Y LEU 2.8 23.5 + - - +
186Y SER* 3.9 5.2 - - - +
188Y PHE* 1.3 76.9 - - - +
190Y ARG* 1.3 58.2 + - - +
192Y VAL* 3.4 3.7 + - - +
193Y VAL* 2.9 29.1 + - - +
199Y THR* 6.0 4.5 - - - -
212Y PHE* 5.6 6.3 - - + -
215Y ALA* 3.6 18.0 - - + +
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Residues in contact with ARG 190 (chain Y).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72Y ARG 4.9 9.4 - - - +
74Y PRO* 5.3 6.9 - - + -
186Y SER 2.9 19.2 + - - +
187Y MET* 3.1 8.3 + - - +
189Y ALA* 1.3 77.7 - - - +
191Y GLU* 1.3 55.9 + - - +
193Y VAL* 3.3 7.8 + - - +
194Y VAL* 2.9 26.9 + - - +
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Residues in contact with GLU 191 (chain Y).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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187Y MET 2.9 11.6 + - - +
188Y PHE* 3.2 11.6 + - - +
190Y ARG* 1.3 74.1 - - - +
192Y VAL* 1.3 59.1 + - - +
194Y VAL* 3.1 9.6 + - - +
195Y CYS* 2.9 26.3 + - - +
266Y VAL* 4.4 11.4 - - + +
267Y SER* 4.8 8.7 - - - -
270Y THR* 3.9 25.3 - - - -
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Residues in contact with VAL 192 (chain Y).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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188Y PHE 2.9 16.3 + - - +
189Y ALA* 3.8 6.7 - - - +
190Y ARG 3.3 0.2 - - - -
191Y GLU* 1.3 76.1 - - - +
193Y VAL* 1.3 61.7 + - - +
195Y CYS* 3.2 10.3 + - - +
196Y GLY 3.0 16.6 + - - -
197Y CYS* 3.6 20.9 + - + +
199Y THR* 5.2 10.3 - - - -
214Y LEU* 5.6 4.7 - - + -
215Y ALA* 4.8 11.9 - - + +
270Y THR* 5.0 4.0 - - - -
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Residues in contact with VAL 193 (chain Y).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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74Y PRO* 4.0 24.5 - - + -
189Y ALA 2.9 18.4 + - - +
190Y ARG* 3.6 6.1 - - - +
192Y VAL* 1.3 76.9 - - - +
194Y VAL* 1.3 62.7 + - - +
196Y GLY* 3.2 14.0 + - - +
197Y CYS 5.0 2.9 - - - -
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Residues in contact with VAL 194 (chain Y).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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190Y ARG 2.9 14.5 + - - +
191Y GLU* 3.1 12.5 + - - +
193Y VAL* 1.3 78.2 - - - +
195Y CYS* 1.3 61.3 + - - +
196Y GLY* 3.4 0.9 + - - -
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Residues in contact with CYS 195 (chain Y).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87Y SER* 4.5 8.5 - - - -
90Y GLN* 5.1 6.9 - - - +
191Y GLU 2.9 12.0 + - - +
192Y VAL* 3.2 12.5 + - - +
194Y VAL* 1.3 76.5 - - - +
196Y GLY* 1.3 56.8 + - - +
197Y CYS* 3.3 11.7 + - + +
270Y THR* 5.5 5.6 - - - +
271Y LYS* 6.1 1.8 - - - -
274Y ILE* 4.5 21.1 - - + -
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Residues in contact with GLY 196 (chain Y).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87Y SER* 4.2 22.9 - - - +
90Y GLN* 6.3 0.9 - - - -
91Y ILE* 4.6 11.1 - - - +
192Y VAL 3.0 5.4 + - - -
193Y VAL* 3.2 14.9 + - - -
194Y VAL 3.2 0.8 - - - -
195Y CYS* 1.3 77.6 - - - +
197Y CYS* 1.3 64.5 + - - +
198Y MET* 3.6 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
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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