Contacts of the helix formed by residues 171 - 196 (chain i) 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 i).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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169i SER* 3.6 10.0 + - - +
170i ASP* 1.3 74.3 - - - +
172i ASP* 1.3 61.7 + - - +
173i ILE* 3.1 10.8 - - + +
174i ASN* 3.1 7.7 + - + +
175i ALA* 3.0 28.2 + - - +
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Residues in contact with ASP 172 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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171i ASN* 1.3 74.2 - - - +
173i ILE* 1.3 56.5 + - - +
175i ALA* 3.9 7.6 - - - +
176i ALA* 2.9 29.6 + - - +
234i ARG 6.0 1.8 - - - +
236i ASN 5.2 6.3 - - - +
237i ASN* 5.6 0.4 - - - -
238i PHE* 4.2 32.3 - - + +
241i ILE* 5.5 0.5 - - - +
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Residues in contact with ILE 173 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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171i ASN* 3.1 7.9 - - + +
172i ASP* 1.3 76.0 - - - +
174i ASN* 1.3 61.2 + - - +
176i ALA* 3.3 6.0 + - - +
177i LEU* 2.9 28.2 + - - +
230i VAL* 5.4 7.7 - - + +
234i ARG* 5.6 14.8 - - + +
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Residues in contact with ASN 174 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166i THR 5.0 5.4 - - - +
167i ARG* 4.3 14.4 - - - +
169i SER 3.6 23.1 - - - +
170i ASP* 5.2 0.7 - - - -
171i ASN* 3.1 12.1 + - + +
173i ILE* 1.3 75.1 - - - +
175i ALA* 1.3 61.5 + - - +
177i LEU* 3.2 8.1 + - - +
178i ASP* 2.9 28.5 + - - +
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Residues in contact with ALA 175 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171i ASN 3.0 16.3 + - - +
172i ASP* 4.0 7.2 - - - +
174i ASN* 1.3 76.5 - - - +
176i ALA* 1.3 58.1 + - - +
178i ASP* 3.4 7.0 + - - +
179i TYR* 2.9 28.1 + - - +
238i PHE* 5.8 5.4 - - + -
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Residues in contact with ALA 176 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172i ASP 2.9 20.3 + - - +
173i ILE* 3.6 7.4 - - - +
175i ALA* 1.3 74.0 - - - +
177i LEU* 1.3 58.9 + - - +
179i TYR* 3.2 7.6 + - - +
180i GLY* 2.9 25.5 + - - -
226i ILE* 6.1 0.2 - - - +
230i VAL* 5.0 14.1 - - + -
238i PHE* 6.0 1.9 - - + +
241i ILE* 4.2 24.7 - - + -
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Residues in contact with LEU 177 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173i ILE 2.9 14.2 + - - +
174i ASN* 3.2 11.4 + - - +
176i ALA* 1.3 77.2 - - - +
178i ASP* 1.3 56.5 + - - +
180i GLY* 3.5 0.7 + - - -
181i TYR* 2.9 30.5 + - - +
226i ILE* 5.8 4.3 - - - +
230i VAL* 5.5 6.7 - - + +
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Residues in contact with ASP 178 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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174i ASN 2.9 16.7 + - - +
175i ALA* 3.8 7.4 - - - +
177i LEU* 1.3 77.0 - - - +
179i TYR* 1.3 57.3 + - - +
181i TYR* 3.8 6.8 - - - +
182i THR* 2.9 27.4 + - - -
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Residues in contact with TYR 179 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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175i ALA 2.9 18.1 + - - +
176i ALA* 3.2 9.1 + - - +
178i ASP* 1.3 74.1 - - - +
180i GLY* 1.3 60.2 + - - +
182i THR* 3.0 8.8 + - - -
183i LEU* 2.9 28.1 + - - +
242i LYS* 6.1 6.3 - - + -
245i LEU* 6.1 4.0 - - + -
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Residues in contact with GLY 180 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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176i ALA 2.9 15.5 + - - -
177i LEU 3.9 1.1 - - - -
179i TYR* 1.3 75.2 - - - +
181i TYR* 1.3 56.5 + - - +
183i LEU* 3.2 6.6 + - - +
184i LEU* 2.9 31.4 + - - +
226i ILE* 4.7 19.7 - - - +
245i LEU* 5.3 12.9 - - - +
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Residues in contact with TYR 181 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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177i LEU 2.9 19.0 + - - +
178i ASP* 3.9 7.0 - - - +
180i GLY* 1.3 76.1 - - - +
182i THR* 1.3 57.0 + - - +
184i LEU* 4.3 5.3 - - - +
185i LEU* 2.9 30.1 + - - +
226i ILE* 5.4 1.0 - - - +
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Residues in contact with THR 182 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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178i ASP 2.9 19.2 + - - -
179i TYR* 3.0 9.6 + - - -
181i TYR* 1.3 76.1 - - - +
183i LEU* 1.3 59.0 + - - +
185i LEU* 3.4 5.6 + - - +
186i SER* 2.9 28.1 + - - -
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Residues in contact with LEU 183 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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179i TYR 2.9 11.2 + - - +
180i GLY* 3.7 9.4 - - - +
182i THR* 1.3 74.5 - - - +
184i LEU* 1.3 61.0 + - - +
186i SER* 3.0 9.1 + - - -
187i MET* 2.9 27.4 + - - +
245i LEU 6.0 1.6 - - - +
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Residues in contact with LEU 184 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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180i GLY 2.9 17.4 + - - +
181i TYR* 4.3 5.4 - - - +
183i LEU* 1.3 76.5 - - - +
185i LEU* 1.3 57.0 + - - +
187i MET* 3.9 5.9 - - - +
188i PHE* 2.9 32.8 + - - +
219i MET* 4.3 16.9 - - + +
222i PHE* 6.0 7.2 - - + +
223i ARG* 6.4 1.6 - - - -
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Residues in contact with LEU 185 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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181i TYR 2.9 22.5 + - - +
182i THR* 3.7 6.7 - - - +
184i LEU* 1.3 76.7 - - - +
186i SER* 1.3 57.9 + - - +
188i PHE* 4.8 2.9 - - - -
189i ALA* 2.8 33.7 + - - +
212i PHE* 5.7 9.0 - - + -
215i ALA* 4.5 4.8 - - + +
216i SER* 5.7 8.7 - - - +
219i MET* 5.0 4.7 - - + +
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Residues in contact with SER 186 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71i LYS 4.1 20.0 - - - -
72i ARG* 4.5 17.9 - - - +
73i LEU* 4.8 8.4 - - - +
182i THR 2.9 14.5 + - - -
183i LEU* 3.0 11.0 + - - -
185i LEU* 1.3 75.2 - - - +
187i MET* 1.3 59.9 + - - +
189i ALA* 3.8 3.8 - - - +
190i ARG* 2.9 29.6 + - - +
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Residues in contact with MET 187 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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183i LEU 2.9 14.5 + - - +
184i LEU* 3.9 6.3 - - - +
186i SER* 1.3 76.8 - - - +
188i PHE* 1.3 58.0 + - - +
190i ARG* 3.1 8.4 + - - +
191i GLU* 2.9 26.9 + - - +
263i SER* 6.4 1.8 - - - -
266i VAL* 5.4 11.2 - - + +
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Residues in contact with PHE 188 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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184i LEU 2.9 17.7 + - - +
185i LEU* 4.5 0.7 - - - +
187i MET* 1.3 77.3 - - - +
189i ALA* 1.3 57.8 + - - +
191i GLU* 3.2 8.7 + - - +
192i VAL* 2.9 29.1 + - - +
215i ALA* 3.9 25.5 - - + +
218i ILE* 5.1 5.4 - - + -
219i MET* 4.1 14.1 - - + +
266i VAL* 5.5 7.6 - - + +
270i THR* 5.6 0.5 - - - -
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Residues in contact with ALA 189 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73i LEU* 5.8 8.3 - - + -
74i PRO* 5.3 3.9 - - - +
185i LEU 2.8 22.7 + - - +
186i SER* 3.9 5.2 - - - +
188i PHE* 1.3 77.7 - - - +
190i ARG* 1.3 57.4 + - - +
192i VAL* 3.4 4.1 + - - +
193i VAL* 2.9 29.3 + - - +
199i THR* 5.9 6.4 - - - -
212i PHE* 5.6 5.8 - - + -
215i ALA* 3.6 17.4 - - + +
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Residues in contact with ARG 190 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72i ARG 4.9 9.6 - - - +
74i PRO* 5.3 6.9 - - + -
186i SER 2.9 18.9 + - - +
187i MET* 3.1 7.6 + - - +
189i ALA* 1.3 77.8 - - - +
191i GLU* 1.3 56.6 + - - +
193i VAL* 3.3 7.9 + - - +
194i VAL* 2.9 27.4 + - - +
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Residues in contact with GLU 191 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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187i MET 2.9 12.2 + - - +
188i PHE* 3.2 11.4 + - - +
190i ARG* 1.3 73.3 - - - +
192i VAL* 1.3 60.0 + - - +
194i VAL* 3.1 9.5 + - - +
195i CYS* 2.9 26.0 + - - +
266i VAL* 4.4 10.8 - - + +
267i SER* 4.8 8.7 - - - +
270i THR* 3.9 25.6 - - - -
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Residues in contact with VAL 192 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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188i PHE 2.9 16.0 + - - +
189i ALA* 3.8 7.2 - - - +
190i ARG 3.3 0.2 - - - -
191i GLU* 1.3 76.0 - - - +
193i VAL* 1.3 61.8 + - - +
195i CYS* 3.2 10.1 + - - +
196i GLY 3.0 17.0 + - - -
197i CYS* 3.6 19.7 + - + +
199i THR* 5.2 10.3 - - - -
214i LEU* 5.6 4.5 - - + -
215i ALA* 4.8 12.3 - - + +
270i THR* 5.0 4.2 - - - -
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Residues in contact with VAL 193 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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74i PRO* 4.0 25.1 - - + -
189i ALA 2.9 17.6 + - - +
190i ARG* 3.6 5.8 - - - +
192i VAL* 1.3 76.3 - - - +
194i VAL* 1.3 61.3 + - - +
196i GLY* 3.2 14.1 + - - +
197i CYS 5.0 3.1 - - - -
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Residues in contact with VAL 194 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87i SER* 5.7 1.7 - - - -
190i ARG 2.9 13.6 + - - +
191i GLU* 3.1 12.5 + - - +
193i VAL* 1.3 78.6 - - - +
195i CYS* 1.3 60.6 + - - +
196i GLY* 3.4 0.7 + - - -
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Residues in contact with CYS 195 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87i SER* 4.5 8.5 - - - -
90i GLN* 5.1 7.6 - - - +
191i GLU 2.9 13.1 + - - +
192i VAL* 3.2 12.8 + - - +
194i VAL* 1.3 76.3 - - - +
196i GLY* 1.3 56.1 + - - +
197i CYS* 3.3 11.1 + - + +
270i THR* 5.5 5.2 - - - +
271i LYS* 6.1 1.8 - - - -
274i ILE* 4.5 22.4 - - + -
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Residues in contact with GLY 196 (chain i).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87i SER* 4.2 23.7 - - - +
90i GLN* 6.3 0.9 - - - -
91i ILE* 4.6 11.5 - - - +
192i VAL 3.0 5.2 + - - -
193i VAL* 3.2 14.5 + - - -
194i VAL 3.2 1.1 - - - -
195i CYS* 1.3 76.3 - - - +
197i CYS* 1.3 64.1 + - - +
198i MET* 3.6 1.6 + - - -
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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