Contacts of the helix formed by residues 171 - 196 (chain j) 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 j).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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169j SER* 3.3 14.1 + - - -
170j ASP* 1.3 82.9 - - - +
172j ASP* 1.3 64.5 + - - +
173j ILE* 3.0 15.1 + - + +
174j ASN* 3.1 5.7 + - - +
175j ALA* 3.0 16.6 + - - +
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Residues in contact with ASP 172 (chain j).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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170j ASP 3.8 0.2 + - - -
171j ASN* 1.3 72.9 - - - +
173j ILE* 1.3 56.7 + - - +
175j ALA* 3.7 12.0 - - + +
176j ALA* 2.9 29.3 + - - +
238j PHE* 4.4 25.2 - - + +
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Residues in contact with ILE 173 (chain j).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161j PHE* 6.2 4.5 - - + -
171j ASN* 3.0 8.1 - - + +
172j ASP* 1.3 78.8 - - - +
174j ASN* 1.3 58.1 + - - +
176j ALA* 3.3 6.1 + - - +
177j LEU* 2.9 27.2 + - - +
230j VAL* 5.5 5.9 - - + +
234j ARG* 5.8 8.7 - - + -
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Residues in contact with ASN 174 (chain j).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166j THR 4.9 5.4 - - - +
167j ARG* 4.2 17.5 - - - +
169j SER* 3.4 27.1 - - - +
171j ASN* 3.1 7.4 + - + +
173j ILE* 1.3 76.2 - - - +
175j ALA* 1.3 60.5 + - - +
177j LEU* 3.6 8.0 - - - +
178j ASP* 2.9 29.8 + - - +
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Residues in contact with ALA 175 (chain j).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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170j ASP 5.0 3.3 - - - +
171j ASN 3.0 13.4 + - - +
172j ASP* 3.7 14.6 - - + +
173j ILE 3.2 0.4 - - - -
174j ASN* 1.3 76.4 - - - +
176j ALA* 1.3 56.8 + - - +
178j ASP* 3.4 6.1 + - - +
179j TYR* 2.9 28.2 + - - +
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Residues in contact with ALA 176 (chain j).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172j ASP 2.9 18.8 + - - +
173j ILE* 3.3 4.9 + - - +
175j ALA* 1.3 73.9 - - - +
177j LEU* 1.3 61.1 + - - +
179j TYR* 3.5 7.5 - - - +
180j GLY* 2.9 26.3 + - - -
226j ILE* 6.1 0.2 - - - +
230j VAL* 5.3 11.9 - - + -
238j PHE* 6.4 1.8 - - + -
241j ILE* 4.9 18.8 - - + +
242j LYS 6.1 0.2 - - - +
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Residues in contact with LEU 177 (chain j).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173j ILE 2.9 17.2 + - - +
174j ASN* 3.6 9.2 - - - +
175j ALA 3.3 0.2 - - - -
176j ALA* 1.3 78.4 - - - +
178j ASP* 1.3 56.7 + - - +
180j GLY* 3.5 0.7 + - - -
181j TYR* 2.9 29.7 + - - +
226j ILE* 5.9 4.7 - - - +
230j VAL* 5.7 6.4 - - + +
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Residues in contact with ASP 178 (chain j).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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174j ASN 2.9 17.8 + - - +
175j ALA* 3.9 5.6 - - - +
177j LEU* 1.3 73.8 - - - +
179j TYR* 1.3 61.3 + - - +
181j TYR* 3.8 7.1 - - - +
182j THR* 2.9 28.9 + - - -
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Residues in contact with TYR 179 (chain j).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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175j ALA 2.9 18.3 + - - +
176j ALA* 3.5 9.6 - - - +
177j LEU 3.2 0.4 - - - -
178j ASP* 1.3 75.0 - - - +
180j GLY* 1.3 59.3 + - - +
182j THR* 3.0 7.2 + - - -
183j LEU* 2.9 28.5 + - - +
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Residues in contact with GLY 180 (chain j).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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176j ALA 2.9 15.5 + - - -
177j LEU 4.0 1.1 - - - -
179j TYR* 1.3 75.5 - - - +
181j TYR* 1.3 56.9 + - - +
183j LEU* 3.9 5.6 - - - +
184j LEU* 2.9 32.3 + - - +
226j ILE* 5.1 16.6 - - - +
245j LEU* 5.7 9.7 - - - +
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Residues in contact with TYR 181 (chain j).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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177j LEU 2.9 19.6 + - - +
178j ASP* 3.9 7.2 - - - +
180j GLY* 1.3 76.6 - - - +
182j THR* 1.3 57.0 + - - +
184j LEU* 4.7 4.0 - - - +
185j LEU* 2.8 31.2 + - - +
226j ILE* 5.7 0.6 - - - +
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Residues in contact with THR 182 (chain j).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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81i TYR* 6.2 4.3 - - - -
74j PRO* 5.2 14.8 - - - -
178j ASP 2.9 18.2 + - - -
179j TYR* 3.0 8.7 + - - -
181j TYR* 1.3 76.1 - - - +
183j LEU* 1.3 58.9 + - - +
185j LEU* 3.7 5.2 - - - +
186j SER* 2.9 27.9 + - - -
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Residues in contact with LEU 183 (chain j).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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179j TYR 2.9 15.4 + - - +
180j GLY* 3.9 6.3 - - - +
182j THR* 1.3 74.2 - - - +
184j LEU* 1.3 61.4 + - - +
186j SER* 3.0 8.0 + - - -
187j MET* 2.9 28.3 + - - +
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Residues in contact with LEU 184 (chain j).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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180j GLY 2.9 17.5 + - - +
181j TYR* 4.4 3.8 - - - +
183j LEU* 1.3 76.6 - - - +
185j LEU* 1.3 57.6 + - - +
187j MET* 3.9 6.7 - - - +
188j PHE* 2.9 31.8 + - - +
219j MET* 4.5 12.1 - - + +
222j PHE* 5.9 6.7 - - + -
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Residues in contact with LEU 185 (chain j).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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181j TYR 2.8 24.2 + - - +
182j THR* 3.8 6.3 - - - +
184j LEU* 1.3 77.5 - - - +
186j SER* 1.3 57.7 - - - +
188j PHE* 4.6 4.0 - - - -
189j ALA* 2.9 30.7 + - - +
212j PHE* 5.5 10.9 - - + +
215j ALA* 4.1 10.5 - - + +
216j SER* 5.8 4.7 - - - +
219j MET* 5.1 6.5 - - + +
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Residues in contact with SER 186 (chain j).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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64j LEU* 5.5 1.0 - - - +
66j ILE* 5.9 5.8 - - - -
77j PHE* 5.4 12.6 - - - -
182j THR 2.9 17.9 + - - -
183j LEU* 3.0 8.0 + - - -
185j LEU* 1.3 75.2 - - - +
187j MET* 1.3 60.2 + - - +
189j ALA* 3.4 4.9 + - - +
190j ARG* 2.9 28.9 + - - +
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Residues in contact with MET 187 (chain j).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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183j LEU 2.9 14.9 + - - +
184j LEU* 3.9 5.8 - - - +
186j SER* 1.3 78.1 - - - +
188j PHE* 1.3 57.2 + - - +
190j ARG* 3.2 7.5 + - - +
191j GLU* 2.9 27.4 + - - +
266j VAL* 5.8 8.5 - - + -
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Residues in contact with PHE 188 (chain j).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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184j LEU 2.9 19.3 + - - +
185j LEU* 4.2 0.7 - - - +
187j MET* 1.3 76.9 - - - +
189j ALA* 1.3 58.0 + - - +
191j GLU* 3.2 8.6 + - - +
192j VAL* 2.9 28.4 + - - +
215j ALA* 3.8 27.5 - - + +
218j ILE* 5.1 6.2 - - + +
219j MET* 4.2 10.1 - - + +
266j VAL* 5.8 6.9 - - + +
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Residues in contact with ALA 189 (chain j).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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185j LEU 2.9 22.1 + - - +
186j SER* 3.7 6.1 - - - +
188j PHE* 1.3 77.7 - - - +
190j ARG* 1.3 56.3 + - - +
192j VAL* 3.3 6.2 + - - +
193j VAL* 2.9 26.9 + - - +
199j THR* 5.6 7.7 - - - -
211j GLN 6.1 0.9 - - - +
212j PHE* 6.1 3.1 - - + -
215j ALA* 3.7 15.2 - - + +
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Residues in contact with ARG 190 (chain j).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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64j LEU* 4.3 22.9 - - + -
186j SER 2.9 18.2 + - - +
187j MET* 3.2 7.4 + - - +
189j ALA* 1.3 75.7 - - - +
191j GLU* 1.3 58.3 + - - +
193j VAL* 3.2 10.4 + - - +
194j VAL* 2.9 25.8 + - - +
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Residues in contact with GLU 191 (chain j).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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187j MET 2.9 14.0 + - - +
188j PHE* 3.5 11.4 - - - +
190j ARG* 1.3 77.6 - - - +
192j VAL* 1.3 57.4 + - - +
194j VAL* 3.0 9.4 + - - +
195j CYS* 2.9 27.0 + - - +
266j VAL* 4.7 9.9 - - + +
267j SER* 5.0 8.7 - - - -
270j THR* 4.2 24.2 - - - -
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Residues in contact with VAL 192 (chain j).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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188j PHE 2.9 14.0 + - - +
189j ALA* 3.3 11.4 + - - +
191j GLU* 1.3 75.5 - - - +
193j VAL* 1.3 57.1 + - - +
195j CYS* 3.3 8.3 + - - +
196j GLY 3.0 22.3 + - - -
197j CYS* 3.7 16.2 + - + +
199j THR* 4.9 17.7 - - - -
214j LEU* 5.8 3.8 - - + -
215j ALA* 5.2 8.1 - - + +
270j THR* 5.4 2.4 - - - -
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Residues in contact with VAL 193 (chain j).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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79j THR* 6.0 5.8 - - - -
80j PRO* 5.2 15.0 - - + +
83j ALA* 3.3 19.2 + - + +
189j ALA 2.9 14.2 + - - +
190j ARG* 3.2 13.2 + - - +
192j VAL* 1.3 74.4 - - - +
194j VAL* 1.3 63.4 + - - +
196j GLY* 3.4 11.9 + - - +
197j CYS 5.3 1.6 - - - -
199j THR* 6.1 0.2 - - - -
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Residues in contact with VAL 194 (chain j).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62j ASN* 6.6 0.2 - - + -
83j ALA* 4.2 13.3 - - - +
84j ARG* 4.9 10.0 - - - +
190j ARG 2.9 12.3 + - - +
191j GLU* 3.0 13.4 + - - +
193j VAL* 1.3 78.3 - - - +
195j CYS* 1.3 60.9 + - - +
196j GLY* 3.4 0.5 + - - -
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Residues in contact with CYS 195 (chain j).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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86j ASP* 4.9 5.0 - - - +
87j SER* 4.7 3.3 + - - -
90j GLN* 4.5 10.9 - - - +
191j GLU 2.9 12.5 + - - +
192j VAL* 3.3 11.4 + - - +
194j VAL* 1.3 78.4 - - - +
196j GLY* 1.3 58.5 + - - +
197j CYS* 3.4 9.9 + - + +
270j THR* 5.6 5.8 - - - +
271j LYS* 6.4 0.9 - - - -
274j ILE* 4.6 20.0 - - + -
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Residues in contact with GLY 196 (chain j).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83j ALA* 6.0 0.2 - - - -
87j SER* 3.6 39.1 - - - +
90j GLN* 4.8 1.1 - - - -
91j ILE* 5.4 1.9 + - - +
192j VAL 3.0 7.0 + - - -
193j VAL* 3.4 11.4 + - - -
194j VAL 3.2 2.4 - - - -
195j CYS* 1.3 76.8 - - - +
197j CYS* 1.3 65.1 + - - +
198j MET* 3.8 0.5 + - - -
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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