Contacts of the helix formed by residues 171 - 196 (chain O) in PDB entry 6QY3
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 O).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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169O SER* 3.6 10.5 + - - +
170O ASP* 1.3 75.5 - - - +
172O ASP* 1.3 61.5 + - - +
173O ILE* 3.1 10.3 - - + +
174O ASN* 3.1 7.3 + - + +
175O ALA* 3.0 27.9 + - - +
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Residues in contact with ASP 172 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171O ASN* 1.3 73.8 - - - +
173O ILE* 1.3 57.5 + - - +
175O ALA* 3.9 7.6 - - - +
176O ALA* 2.9 29.3 + - - +
234O ARG 6.0 1.3 - - - +
236O ASN 5.2 5.8 - - - +
237O ASN* 5.7 0.7 - - - -
238O PHE* 4.2 32.2 - - + +
241O ILE* 5.5 0.5 - - - +
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Residues in contact with ILE 173 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161O PHE* 5.8 8.5 - - + -
171O ASN* 3.1 8.7 - - + +
172O ASP* 1.3 76.4 - - - +
174O ASN* 1.3 60.1 + - - +
176O ALA* 3.3 6.5 + - - +
177O LEU* 2.9 27.7 + - - +
230O VAL* 5.4 7.9 - - + +
234O ARG* 5.6 13.9 - - + +
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Residues in contact with ASN 174 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166O THR 5.0 6.3 - - - +
167O ARG* 4.3 13.7 - - - +
169O SER 3.6 23.3 - - - +
170O ASP* 5.2 0.4 - - - -
171O ASN* 3.1 11.3 + - + +
173O ILE* 1.3 78.5 - - - +
175O ALA* 1.3 58.6 + - - +
177O LEU* 3.2 7.8 + - - +
178O ASP* 2.9 28.6 + - - +
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Residues in contact with ALA 175 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171O ASN 3.0 15.6 + - - +
172O ASP* 4.0 7.9 - - - +
174O ASN* 1.3 76.5 - - - +
176O ALA* 1.3 58.2 + - - +
178O ASP* 3.4 7.1 + - - +
179O TYR* 2.9 27.0 + - - +
238O PHE* 5.8 4.9 - - + -
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Residues in contact with ALA 176 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172O ASP 2.9 21.1 + - - +
173O ILE* 3.6 6.7 - - - +
175O ALA* 1.3 75.9 - - - +
177O LEU* 1.3 60.6 + - - +
179O TYR* 3.2 6.9 + - - +
180O GLY* 2.9 25.8 + - - -
226O ILE* 6.1 0.2 - - - +
230O VAL* 5.0 14.4 - - + -
238O PHE* 6.0 1.5 - - + +
241O ILE* 4.2 24.7 - - + +
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Residues in contact with LEU 177 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173O ILE 2.9 14.0 + - - +
174O ASN* 3.5 11.2 - - - +
176O ALA* 1.3 76.8 - - - +
178O ASP* 1.3 57.5 + - - +
180O GLY* 3.5 1.3 + - - -
181O TYR* 2.9 30.6 + - - +
226O ILE* 6.1 3.6 - - - -
230O VAL* 5.5 7.1 - - + +
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Residues in contact with ASP 178 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174O ASN 2.9 16.6 + - - +
175O ALA* 3.8 7.9 - - - +
177O LEU* 1.3 75.5 - - - +
179O TYR* 1.3 58.4 + - - +
181O TYR* 3.7 7.1 + - - +
182O THR* 2.9 27.7 + - - -
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Residues in contact with TYR 179 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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175O ALA 2.9 17.8 + - - +
176O ALA* 3.2 9.6 + - - +
178O ASP* 1.3 74.0 - - - +
180O GLY* 1.3 59.9 + - - +
182O THR* 3.0 8.4 + - - -
183O LEU* 2.9 27.5 + - - +
242O LYS* 6.1 6.7 - - + -
245O LEU* 6.1 3.8 - - + -
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Residues in contact with GLY 180 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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176O ALA 2.9 15.0 + - - -
177O LEU 3.9 1.1 - - - -
179O TYR* 1.3 76.3 - - - +
181O TYR* 1.3 57.5 + - - +
183O LEU* 3.3 6.6 + - - +
184O LEU* 2.9 30.9 + - - +
226O ILE* 4.7 20.7 - - - +
245O LEU* 5.4 11.7 - - - +
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Residues in contact with TYR 181 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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177O LEU 2.9 18.8 + - - +
178O ASP* 3.9 7.2 - - - +
180O GLY* 1.3 75.5 - - - +
182O THR* 1.3 57.9 + - - +
184O LEU* 4.3 5.5 - - - +
185O LEU* 2.9 30.8 + - - +
226O ILE* 5.4 0.8 - - - +
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Residues in contact with THR 182 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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178O ASP 2.9 20.1 + - - -
179O TYR* 3.0 8.9 + - - -
181O TYR* 1.3 75.9 - - - +
183O LEU* 1.3 60.8 + - - +
185O LEU* 3.5 5.5 + - - +
186O SER* 2.9 27.5 + - - -
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Residues in contact with LEU 183 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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179O TYR 2.9 12.0 + - - +
180O GLY* 3.7 9.2 - - - +
182O THR* 1.3 74.7 - - - +
184O LEU* 1.3 60.3 + - - +
186O SER* 3.0 8.8 + - - -
187O MET* 2.9 28.1 + - - +
245O LEU 6.1 0.9 - - - +
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Residues in contact with LEU 184 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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180O GLY 2.9 16.7 + - - +
181O TYR* 4.3 5.8 - - - +
183O LEU* 1.3 74.8 - - - +
185O LEU* 1.3 58.4 + - - +
187O MET* 3.9 6.0 - - - +
188O PHE* 2.9 33.1 + - - +
219O MET* 4.3 16.1 - - + +
222O PHE* 6.0 7.0 - - + +
223O ARG* 6.4 1.6 - - - -
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Residues in contact with LEU 185 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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181O TYR 2.9 22.7 + - - +
182O THR* 3.7 7.2 - - - +
183O LEU 3.2 0.2 - - - -
184O LEU* 1.3 75.9 - - - +
186O SER* 1.3 57.8 + - - +
188O PHE* 4.7 2.9 - - - +
189O ALA* 2.8 33.0 + - - +
212O PHE* 5.7 9.6 - - + +
215O ALA* 4.5 4.8 - - + +
216O SER* 5.7 9.0 - - - +
219O MET* 5.0 5.4 - - + +
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Residues in contact with SER 186 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71O LYS 4.1 20.2 - - - -
72O ARG* 4.5 17.7 - - - +
73O LEU* 4.8 7.9 - - - +
182O THR 2.9 15.1 + - - -
183O LEU* 3.0 12.3 + - - -
185O LEU* 1.3 74.1 - - - +
187O MET* 1.3 59.3 + - - +
189O ALA* 3.8 3.8 - - - +
190O ARG* 2.9 29.6 + - - +
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Residues in contact with MET 187 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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183O LEU 2.9 14.2 + - - +
184O LEU* 3.9 6.7 - - - +
186O SER* 1.3 76.2 - - - +
188O PHE* 1.3 58.5 + - - +
190O ARG* 3.1 8.2 + - - +
191O GLU* 2.9 26.9 + - - +
263O SER* 6.4 2.0 - - - -
266O VAL* 5.4 10.9 - - + +
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Residues in contact with PHE 188 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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184O LEU 2.9 17.1 + - - +
185O LEU* 4.5 0.9 - - - +
187O MET* 1.3 76.7 - - - +
189O ALA* 1.3 56.9 + - - +
191O GLU* 3.3 8.5 + - - +
192O VAL* 2.9 29.1 + - - +
215O ALA* 3.9 26.0 - - + +
218O ILE* 5.1 5.4 - - + -
219O MET* 4.0 13.7 - - + +
266O VAL* 5.5 7.8 - - + +
270O THR* 5.6 1.0 - - - -
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Residues in contact with ALA 189 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73O LEU* 5.8 8.5 - - + -
74O PRO* 5.2 4.1 - - - +
185O LEU 2.8 23.3 + - - +
186O SER* 3.9 4.7 - - - +
188O PHE* 1.3 77.3 - - - +
190O ARG* 1.3 58.3 + - - +
192O VAL* 3.4 3.7 + - - +
193O VAL* 2.9 27.9 + - - +
199O THR* 5.9 5.8 - - - -
212O PHE* 5.6 6.5 - - + -
215O ALA* 3.6 17.2 - - + +
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Residues in contact with ARG 190 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72O ARG 4.9 9.6 - - - +
74O PRO* 5.3 7.1 - - + -
186O SER 2.9 19.2 + - - +
187O MET* 3.1 7.4 + - - +
189O ALA* 1.3 74.8 - - - +
191O GLU* 1.3 59.5 + - - +
193O VAL* 3.3 7.6 + - - +
194O VAL* 2.9 27.4 + - - +
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Residues in contact with GLU 191 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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187O MET 2.9 12.7 + - - +
188O PHE* 3.3 11.9 + - - +
190O ARG* 1.3 75.6 - - - +
192O VAL* 1.3 59.8 + - - +
194O VAL* 3.1 9.4 + - - +
195O CYS* 2.9 26.2 + - - +
266O VAL* 4.4 11.4 - - + +
267O SER* 4.8 7.4 - - - -
270O THR* 3.9 25.6 - - - -
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Residues in contact with VAL 192 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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188O PHE 2.9 16.7 + - - +
189O ALA* 3.8 7.2 - - - +
191O GLU* 1.3 75.9 - - - +
193O VAL* 1.3 60.6 + - - +
195O CYS* 3.2 9.9 + - - +
196O GLY 3.1 16.8 + - - -
197O CYS* 3.6 20.4 + - + +
199O THR* 5.2 10.3 - - - -
214O LEU* 5.6 4.7 - - + -
215O ALA* 4.8 12.8 - - + +
270O THR* 5.0 4.4 - - - -
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Residues in contact with VAL 193 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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74O PRO* 4.0 24.9 - - + -
189O ALA 2.9 18.7 + - - +
190O ARG* 3.7 6.3 - - - +
191O GLU 3.2 0.2 - - - -
192O VAL* 1.3 75.4 - - - +
194O VAL* 1.3 62.1 + - - +
196O GLY* 3.2 14.2 + - - +
197O CYS 5.0 2.7 - - - -
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Residues in contact with VAL 194 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87O SER* 5.8 1.0 - - - -
190O ARG 2.9 14.1 + - - +
191O GLU* 3.1 12.1 + - - +
193O VAL* 1.3 78.4 - - - +
195O CYS* 1.3 60.1 + - - +
196O GLY* 3.4 0.7 + - - -
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Residues in contact with CYS 195 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87O SER* 4.5 8.4 - - - -
90O GLN* 5.1 7.1 - - - +
191O GLU 2.9 12.5 + - - +
192O VAL* 3.2 12.5 + - - +
194O VAL* 1.3 76.5 - - - +
196O GLY* 1.3 56.1 + - - +
197O CYS* 3.3 11.2 + - + +
270O THR* 5.5 5.6 - - - +
271O LYS* 6.1 2.0 - - - -
274O ILE* 4.5 22.2 - - + -
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Residues in contact with GLY 196 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87O SER* 4.2 23.5 - - - +
90O GLN* 6.3 0.9 - - - -
91O ILE* 4.5 11.6 - - - +
192O VAL 3.1 4.9 + - - -
193O VAL* 3.2 10.9 + - - -
194O VAL 3.2 4.2 - - - -
195O CYS* 1.3 77.0 - - - +
197O CYS* 1.3 63.7 + - - +
198O MET* 3.7 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