Contacts of the helix formed by residues 165 - 196 (chain F) in PDB entry 3KQG
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 SER 165 (chain F).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166F ALA* 1.3 70.4 + - - +
167F LEU* 3.1 9.7 - - - +
168F ASN* 2.9 45.8 + - - +
169F THR* 3.1 20.1 + - - +
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Residues in contact with ALA 166 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165F SER* 1.3 83.5 + - - +
167F LEU* 1.3 59.2 + - - +
168F ASN 3.1 0.7 - - - -
169F THR* 2.8 27.2 + - - +
170F LYS* 3.6 16.8 + - - +
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Residues in contact with LEU 167 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167D LEU* 6.0 4.9 - - + -
167E LEU* 4.6 12.3 - - + -
168E ASN* 3.5 41.5 - - - +
171E ILE* 4.8 13.7 - - + -
165F SER 3.1 6.2 - - - +
166F ALA* 1.3 77.8 - - - +
168F ASN* 1.3 62.2 + - - +
169F THR 3.4 0.2 - - - -
170F LYS* 3.9 24.9 + - + +
171F ILE* 3.5 21.5 - - + +
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Residues in contact with ASN 168 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167D LEU* 3.3 28.7 - - - +
170D LYS* 5.1 8.0 + - - +
165F SER* 2.9 37.4 + - - +
167F LEU* 1.3 79.7 - - - +
169F THR* 1.3 59.1 + - - +
170F LYS 3.3 0.4 - - - -
171F ILE* 3.4 9.8 + - - +
172F ARG* 3.2 39.5 + - - +
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Residues in contact with THR 169 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165F SER 3.1 16.2 - - - +
166F ALA* 2.8 24.6 + - - +
168F ASN* 1.3 74.4 - - - +
170F LYS* 1.3 65.7 + - - +
171F ILE 3.2 0.4 - - - -
172F ARG* 3.6 24.5 + - - +
173F ALA* 3.2 24.1 + - - +
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Residues in contact with LYS 170 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168E ASN* 4.6 16.8 - - - +
171E ILE* 4.5 22.7 - - + -
175E GLN* 4.9 17.2 + - - +
166F ALA* 3.6 13.9 + - - +
167F LEU* 3.9 24.3 - - + +
168F ASN 3.3 0.4 - - - -
169F THR* 1.3 81.7 + - - +
171F ILE* 1.3 56.0 - - + +
173F ALA* 4.0 4.0 - - - +
174F LEU* 3.2 34.1 + - - +
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Residues in contact with ILE 171 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167D LEU* 3.7 39.3 - - + -
170D LYS* 3.6 37.7 - - + +
171D ILE* 5.3 11.2 - - + +
174D LEU* 4.1 15.7 - - + +
171E ILE* 5.6 12.3 - - + -
167F LEU* 3.5 19.5 - - + +
168F ASN* 3.4 10.5 + - - +
169F THR 3.2 0.6 - - - -
170F LYS* 1.3 77.1 - - + +
172F ARG* 1.3 56.1 + - - +
173F ALA 3.1 1.3 - - - -
174F LEU* 3.3 6.5 + - + +
175F GLN* 2.8 37.3 + - - +
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Residues in contact with ARG 172 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170D LYS* 5.1 11.2 - - - +
168F ASN* 3.2 23.2 + - - +
169F THR* 3.8 31.6 - - - +
171F ILE* 1.3 77.4 - - - +
173F ALA* 1.3 58.3 + - - +
175F GLN* 3.3 16.7 - - - +
176F GLY* 3.0 25.5 + - - -
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Residues in contact with ALA 173 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169F THR 3.2 16.8 + - - +
170F LYS* 4.0 4.9 - - - +
171F ILE 3.1 0.2 - - - -
172F ARG* 1.3 77.5 - - - +
174F LEU* 1.3 66.5 + - + +
176F GLY* 3.5 1.0 + - - -
177F SER* 3.1 24.4 + - - -
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Residues in contact with LEU 174 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174D LEU* 4.1 15.9 - - + -
171E ILE* 4.1 20.6 - - + -
174E LEU* 3.6 34.3 - - + -
175E GLN* 3.9 29.6 - - + +
178E LEU* 3.6 26.1 - - + +
170F LYS 3.2 22.9 + - - +
171F ILE* 3.9 4.9 - - + +
173F ALA* 1.3 78.0 - - + +
175F GLN* 1.3 61.7 + - - +
177F SER* 3.5 2.5 + - - -
178F LEU* 3.2 26.7 + - - +
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Residues in contact with GLN 175 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170D LYS* 3.0 44.2 - - - +
174D LEU* 3.8 27.7 - - + +
171F ILE* 2.8 13.7 + - - +
172F ARG* 3.3 22.8 - - - +
174F LEU* 1.3 76.9 - - - +
176F GLY* 1.3 62.9 + - - +
178F LEU* 3.1 13.8 + - - +
179F GLU* 3.2 13.5 + - - +
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Residues in contact with GLY 176 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172F ARG 3.0 15.1 + - - -
173F ALA* 3.5 2.0 + - - -
174F LEU 3.4 0.2 - - - -
175F GLN* 1.3 73.0 - - - +
177F SER* 1.3 65.9 + - - +
178F LEU 3.1 0.2 + - - -
179F GLU* 3.3 6.2 + - - +
180F ASN* 2.9 30.4 + - - +
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Residues in contact with SER 177 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178E LEU* 3.5 28.0 - - - +
182E SER* 5.1 2.9 + - - -
173F ALA 3.1 17.7 + - - -
174F LEU* 3.8 0.7 - - - -
176F GLY* 1.3 74.4 - - - +
178F LEU* 1.3 57.9 + - - +
180F ASN* 3.6 9.5 - - - +
181F MET* 3.0 42.5 + - - +
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Residues in contact with LEU 178 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174D LEU* 4.0 28.3 - - + +
177D SER* 3.0 32.1 - - - +
178D LEU* 4.2 12.8 - - + +
181D MET* 4.4 11.6 - - + +
178E LEU* 3.5 30.3 - - + -
174F LEU 3.2 14.3 + - - +
175F GLN* 3.1 11.4 + - - +
176F GLY 3.0 0.8 - - - -
177F SER* 1.3 74.7 - - - +
179F GLU* 1.3 61.2 + - - +
181F MET* 3.2 16.9 + - + +
182F SER* 2.8 29.9 + - - -
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Residues in contact with GLU 179 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186B LYS* 5.6 0.7 + - - -
325B PRO* 3.4 26.6 - - - +
175F GLN 3.2 9.4 + - - +
176F GLY* 3.3 7.6 + - - +
178F LEU* 1.3 78.7 - - - +
180F ASN* 1.3 58.7 + - - +
182F SER* 3.7 16.8 + - - -
183F LYS* 2.9 68.7 + - - +
186F LYS* 3.9 4.7 + - - -
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Residues in contact with ASN 180 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176F GLY 2.9 21.3 + - - +
177F SER* 3.6 9.1 - - - +
179F GLU* 1.3 77.0 - - - +
181F MET* 1.3 64.6 + - + +
183F LYS* 3.1 9.9 + - - +
184F LEU* 3.0 23.8 + - - +
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Residues in contact with MET 181 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181D MET* 4.1 4.3 - - - +
178E LEU* 3.7 26.7 - - + +
181E MET* 3.6 24.7 - - + -
182E SER* 3.6 42.2 - - - +
185E LEU* 3.3 22.9 - - + +
177F SER* 3.0 20.2 + - - +
178F LEU* 3.6 29.8 - - + +
180F ASN* 1.3 80.3 - - + +
182F SER* 1.3 56.5 - - - +
184F LEU* 3.9 3.1 - - - -
185F LEU* 3.1 27.5 + - - +
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Residues in contact with SER 182 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
325B PRO 5.5 1.7 + - - -
181D MET* 3.7 26.4 - - - +
178F LEU 2.8 16.9 + - - -
179F GLU* 3.5 15.2 + - - -
181F MET* 1.3 77.2 - - - +
183F LYS* 1.3 65.2 + - - +
185F LEU* 3.4 2.4 + - - +
186F LYS* 3.1 45.5 + - - +
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Residues in contact with LYS 183 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186B LYS* 3.3 27.7 - - - +
325B PRO 5.7 0.6 + - - -
179F GLU* 2.9 58.9 + - + +
180F ASN* 3.6 7.9 - - - +
182F SER* 1.3 75.2 - - - +
184F LEU* 1.3 57.3 + - - +
186F LYS* 3.2 23.3 + - - +
187F ARG* 3.0 27.8 + - - +
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Residues in contact with LEU 184 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185E LEU* 4.4 16.4 - - + +
186E LYS* 6.0 5.6 - - + +
189E ASN* 4.0 6.3 - - + +
180F ASN 3.0 14.6 + - - +
181F MET* 4.1 4.9 - - - +
183F LYS* 1.3 74.3 - - - +
185F LEU* 1.3 60.9 + - - +
187F ARG* 3.4 38.1 - - - +
188F GLN* 3.0 53.3 + - + +
----------------------------------------------------------
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Residues in contact with LEU 185 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181D MET* 3.5 30.1 - - + +
184D LEU* 3.5 35.2 - - + +
185D LEU* 3.7 34.8 - - + +
188D GLN* 3.2 29.7 - - - +
181E MET* 6.1 1.3 - - + -
185E LEU* 3.7 11.6 - - + +
181F MET 3.1 19.9 + - - +
182F SER* 3.7 4.9 - - - +
184F LEU* 1.3 77.9 - - - +
186F LYS* 1.3 59.7 + - + +
188F GLN* 3.5 4.8 + - - -
189F ASN* 3.0 25.7 + - + +
----------------------------------------------------------
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Residues in contact with LYS 186 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186B LYS* 5.6 2.0 - - - +
325B PRO 4.9 6.7 + - - -
181D MET* 6.4 0.2 - - + -
179F GLU* 3.9 5.7 + - - -
182F SER* 3.1 43.4 + - - +
183F LYS* 3.2 32.7 + - - +
185F LEU* 1.3 76.6 - - + +
187F ARG* 1.3 64.8 + - - +
189F ASN* 3.4 6.6 + - - +
190F ASP* 2.9 31.6 + - - +
326F SER* 6.0 1.3 - - - +
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Residues in contact with ARG 187 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189E ASN* 3.9 20.4 + - - +
183F LYS 3.0 13.0 + - - +
184F LEU* 3.4 33.7 - - - +
185F LEU 3.4 0.2 - - - -
186F LYS* 1.3 73.8 - - - +
188F GLN* 1.3 65.7 + - - +
190F ASP* 3.1 4.7 + - - +
191F ILE* 3.0 46.3 + - + +
201F TYR* 4.2 12.8 + - - -
323F TYR* 3.7 29.6 - - + +
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Residues in contact with GLN 188 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188D GLN* 2.9 29.8 + - - +
185E LEU* 3.2 30.0 + - - +
188E GLN* 4.0 5.1 - - - +
189E ASN* 3.1 48.3 + - - +
192E LEU* 3.6 17.5 - - + +
184F LEU* 3.0 35.7 + - + +
185F LEU* 3.7 2.7 - - - +
187F ARG* 1.3 77.4 - - + +
189F ASN* 1.3 57.6 + - - +
191F ILE* 3.4 5.6 + - + +
192F LEU* 2.8 31.6 + - - +
----------------------------------------------------------
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Residues in contact with ASN 189 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187D ARG* 4.6 15.3 + - - +
188D GLN* 3.4 21.7 + - - +
191D ILE* 5.8 1.9 - - - +
185F LEU* 3.0 18.5 + - + +
186F LYS* 3.6 7.9 - - - +
188F GLN* 1.3 74.5 - - - +
190F ASP* 1.3 69.3 + - - +
192F LEU* 3.1 8.2 + - - +
193F GLN* 2.8 38.1 + - - +
----------------------------------------------------------
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Residues in contact with ASP 190 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186F LYS* 2.9 20.4 + - - +
187F ARG* 3.2 9.0 - - - +
189F ASN* 1.3 78.7 + - - +
191F ILE* 1.3 62.0 + - - +
193F GLN* 3.2 19.9 + - - +
194F VAL* 3.4 16.0 + - - +
206F PHE* 4.8 2.7 - - - -
323F TYR* 2.6 34.0 + - + +
325F PRO* 3.4 3.6 - - - +
326F SER* 3.1 39.3 + - - -
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Residues in contact with ILE 191 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189E ASN* 6.0 0.9 - - - +
192E LEU* 4.0 13.2 - - + -
196E SER* 3.9 10.8 - - - +
187F ARG* 3.0 42.8 + - + +
188F GLN* 3.6 9.0 - - + +
190F ASP* 1.3 76.4 - - - +
192F LEU* 1.3 59.0 + - - +
194F VAL* 3.0 4.3 + - - +
195F VAL* 2.8 48.1 + - + +
201F TYR* 3.6 51.1 - - + +
206F PHE* 4.0 10.9 - - + -
323F TYR* 4.7 4.7 - - + -
----------------------------------------------------------
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Residues in contact with LEU 192 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188D GLN* 3.7 40.6 - - + +
191D ILE* 4.0 17.5 - - + -
192D LEU* 4.0 32.8 - - + +
195D VAL* 4.5 12.8 - - + -
192E LEU* 4.1 15.0 - - + +
188F GLN 2.8 22.1 + - - +
189F ASN* 3.1 9.2 + - - +
191F ILE* 1.3 72.6 - - - +
193F GLN* 1.3 53.6 + - - +
195F VAL* 4.4 5.6 - - + -
196F SER* 2.6 51.4 + - - +
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Residues in contact with GLN 193 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201D TYR* 4.8 10.4 - - + +
189F ASN* 2.8 28.7 + - - +
190F ASP* 3.4 12.7 - - - +
192F LEU* 1.3 77.7 - - - +
194F VAL* 1.3 61.5 + - + +
196F SER* 3.6 8.2 - - - -
197F GLN* 3.2 40.7 + - - +
----------------------------------------------------------
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Residues in contact with VAL 194 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190F ASP 3.4 7.2 + - - +
191F ILE 3.0 2.4 + - - +
193F GLN* 1.3 79.5 - - + +
195F VAL* 1.3 66.2 + - - +
196F SER 3.0 1.3 - - - -
197F GLN* 2.9 19.7 + - - +
199F TRP* 3.5 31.9 + - + +
206F PHE* 3.3 52.5 - - + -
321F ARG* 3.9 24.7 - - - +
----------------------------------------------------------
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Residues in contact with VAL 195 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195D VAL* 4.5 10.4 - - + +
200D LYS* 5.3 0.3 - - - +
192E LEU* 4.6 5.2 - - + -
195E VAL* 4.0 34.5 - - + +
196E SER* 3.2 29.6 - - - +
191F ILE* 2.8 32.7 + - + +
192F LEU* 4.0 7.6 - - + +
194F VAL* 1.3 73.9 - - + +
196F SER* 1.3 58.2 + - - +
197F GLN 3.0 5.4 + - - -
198F GLY* 3.1 12.6 + - - -
199F TRP 3.2 21.5 - - - +
200F LYS* 4.9 0.7 - - - -
201F TYR* 4.5 6.7 - - + -
206F PHE* 5.3 0.2 - - + -
----------------------------------------------------------
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Residues in contact with SER 196 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191D ILE* 4.2 1.9 - - - +
195D VAL* 3.6 26.0 - - - +
200D LYS* 3.0 30.7 - - - +
201D TYR* 3.0 37.5 + - - +
241D PHE* 4.8 0.2 - - - -
192F LEU* 2.6 31.1 + - - +
193F GLN* 3.6 10.7 - - - -
194F VAL 3.0 0.4 - - - -
195F VAL* 1.3 76.4 - - - +
197F GLN* 1.3 57.0 + - - +
198F GLY 3.4 0.9 - - - -
----------------------------------------------------------
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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
------------------------------------------------------------
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) + - + + + + + -
------------------------------------------------------------
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