Contacts of the helix formed by residues 167 - 196 (chain B) 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 LEU 167 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168B ASN* 1.3 85.2 + - + +
169B THR* 2.8 24.3 + - + +
170B LYS* 2.9 17.8 + - - +
171B ILE* 3.4 11.0 + - - +
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Residues in contact with ASN 168 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167B LEU* 1.3 86.7 - - + +
169B THR* 1.3 64.6 + - + +
171B ILE* 2.9 22.6 + - + +
172B ARG* 3.1 51.4 + - - +
167C LEU* 5.6 4.0 - - - +
170C LYS* 4.0 22.5 + - - +
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Residues in contact with THR 169 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167B LEU* 2.8 24.4 + - + +
168B ASN* 1.3 80.2 - - + +
170B LYS* 1.3 69.4 + - - +
172B ARG* 3.9 6.0 + - - +
173B ALA* 3.8 13.0 + - - +
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Residues in contact with LYS 170 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171A ILE* 5.3 12.0 - - + +
175A GLN* 3.0 38.9 + - - +
167B LEU 2.9 11.7 + - - +
169B THR* 1.3 81.2 + - - +
171B ILE* 1.3 61.8 + - - +
173B ALA* 3.2 24.9 - - + +
174B LEU* 3.4 15.6 + - + +
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Residues in contact with ILE 171 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171A ILE* 4.6 16.6 - - + -
167B LEU 3.4 7.5 + - - +
168B ASN* 2.9 20.5 + - - +
170B LYS* 1.3 74.7 - - - +
172B ARG* 1.3 69.6 + - + +
173B ALA 2.9 5.2 + - - -
174B LEU* 3.1 11.7 + - + +
175B GLN* 2.9 28.9 + - + +
170C LYS* 4.2 31.0 - - + -
171C ILE* 4.2 17.7 - - + -
174C LEU* 3.3 34.6 - - + +
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Residues in contact with ARG 172 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168B ASN* 3.1 52.2 + - - +
169B THR* 4.4 5.2 - - - +
171B ILE* 1.3 80.6 - - + +
173B ALA* 1.3 57.1 - - - +
175B GLN* 3.5 26.2 + - - +
176B GLY* 2.9 23.0 + - - -
170C LYS* 5.3 7.7 - - - +
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Residues in contact with ALA 173 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169B THR 3.8 5.5 + - - +
170B LYS* 3.2 28.0 - - + +
171B ILE 2.9 0.2 - - - -
172B ARG* 1.3 76.0 - - - +
174B LEU* 1.3 67.5 + - + +
176B GLY* 3.2 2.5 + - - -
177B SER* 3.0 25.5 + - - -
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Residues in contact with LEU 174 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171A ILE* 4.3 16.4 - - + +
174A LEU* 4.1 30.7 - - + -
175A GLN* 3.5 36.3 - - + +
178A LEU* 3.6 21.9 - - + +
170B LYS* 3.4 14.6 + - + +
171B ILE* 3.1 12.2 + - + +
173B ALA* 1.3 80.2 - - + +
175B GLN* 1.3 64.1 + - - +
177B SER* 3.2 6.0 + - - +
178B LEU* 3.0 27.5 + - - +
174C LEU* 4.4 15.7 - - + -
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Residues in contact with GLN 175 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171B ILE* 2.9 16.8 + - + +
172B ARG* 3.5 31.2 + - - +
174B LEU* 1.3 75.9 - - - +
176B GLY* 1.3 62.8 + - - +
178B LEU* 3.3 4.0 + - - +
179B GLU* 3.1 39.8 + - - +
174C LEU* 4.0 19.8 - - + +
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Residues in contact with GLY 176 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172B ARG 2.9 15.4 + - - -
173B ALA* 3.2 2.9 + - - -
175B GLN* 1.3 73.8 - - - +
177B SER* 1.3 66.6 + - - +
179B GLU* 2.9 32.6 - - - +
180B ASN* 3.0 16.7 + - - -
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Residues in contact with SER 177 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178A LEU* 3.1 26.2 - - - +
173B ALA 3.0 12.8 + - - -
174B LEU* 3.2 5.4 + - - +
176B GLY* 1.3 73.6 - - - +
178B LEU* 1.3 58.4 + - - +
180B ASN* 3.4 13.1 + - - +
181B MET* 3.1 34.8 + - - +
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Residues in contact with LEU 178 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A LEU* 6.6 0.2 - - + -
178A LEU* 3.5 30.7 - - + -
174B LEU 3.0 19.0 + - - +
175B GLN* 3.4 5.2 - - - +
177B SER* 1.3 75.4 + - - +
179B GLU* 1.3 64.0 + - - +
181B MET* 3.3 6.5 + - + -
182B SER* 3.1 19.6 + - - -
174C LEU* 3.8 33.9 - - + +
177C SER* 3.8 28.3 - - - -
178C LEU* 4.1 10.5 - - + +
181C MET* 3.4 33.5 - - + +
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Residues in contact with GLU 179 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175B GLN* 3.1 33.4 + - - +
176B GLY* 2.9 25.9 - - - +
178B LEU* 1.3 75.7 - - - +
180B ASN* 1.3 65.9 + - - +
182B SER* 3.5 8.8 - - - -
183B LYS* 3.1 36.8 + - - +
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Residues in contact with ASN 180 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176B GLY 3.0 17.8 + - - +
177B SER* 3.4 16.9 - - - +
178B LEU 3.2 0.2 - - - -
179B GLU* 1.3 79.4 - - - +
181B MET* 1.3 59.9 + - + +
183B LYS* 3.3 15.9 + - - +
184B LEU* 3.0 26.2 + - - +
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Residues in contact with MET 181 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178A LEU* 3.4 55.9 - - + +
181A MET* 3.7 12.8 - - + -
182A SER* 3.6 26.5 - - - +
185A LEU* 3.8 11.6 - - + +
177B SER* 3.1 22.9 + - - +
178B LEU* 3.3 14.6 + - + +
180B ASN* 1.3 73.2 - - + +
182B SER* 1.3 56.7 + - - +
184B LEU* 2.9 11.3 + - + +
185B LEU* 2.6 37.6 + - - +
181C MET* 3.4 17.3 - - + -
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Residues in contact with SER 182 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178B LEU 3.1 13.4 + - - -
179B GLU* 3.5 14.9 + - - -
180B ASN 3.3 0.2 - - - -
181B MET* 1.3 76.5 - - - +
183B LYS* 1.3 58.7 + - - +
185B LEU* 3.7 5.8 - - - +
186B LYS* 2.9 33.1 + - - +
181C MET* 3.8 17.1 - - - -
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Residues in contact with LYS 183 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179B GLU* 3.1 25.4 + - - +
180B ASN* 3.6 15.8 + - - +
181B MET 3.1 0.2 - - - -
182B SER* 1.3 78.3 - - - +
184B LEU* 1.3 61.5 + - - +
186B LYS* 3.4 19.2 + - - +
187B ARG* 3.0 24.5 + - - +
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Residues in contact with LEU 184 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A SER* 5.8 3.1 - - - +
185A LEU* 4.1 25.4 - - + -
186A LYS* 6.2 5.2 - - + +
189A ASN* 5.6 3.4 - - - +
180B ASN 3.0 12.9 + - - +
181B MET* 2.9 13.8 + - + +
183B LYS* 1.3 75.8 - - - +
185B LEU* 1.3 59.0 + - - +
187B ARG* 3.3 17.0 + - - +
188B GLN* 3.1 47.5 + - + +
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Residues in contact with LEU 185 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185A LEU* 3.5 28.5 - - + -
181B MET 2.6 20.4 + - - +
182B SER* 3.7 5.8 - - - +
184B LEU* 1.3 71.8 - - - +
186B LYS* 1.3 65.0 + - - +
188B GLN* 3.3 5.0 + - - +
189B ASN 3.0 17.7 + - - -
181C MET* 3.6 39.0 - - + +
184C LEU* 3.9 13.2 - - + -
185C LEU* 3.8 23.8 - - + +
188C GLN* 3.1 46.7 + - - +
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Residues in contact with LYS 186 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182B SER* 2.9 21.5 + - - +
183B LYS* 3.7 17.9 - - - +
185B LEU* 1.3 75.9 - - - +
187B ARG* 1.3 57.5 + - - +
189B ASN* 3.1 10.0 + - - +
190B ASP* 3.0 41.6 + - - +
325B PRO* 5.0 15.5 + - + +
188C GLN* 5.0 0.4 - - - +
179F GLU* 5.6 0.6 + - - -
183F LYS* 3.3 27.9 - - - +
186F LYS* 5.6 2.3 - - - +
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Residues in contact with ARG 187 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183B LYS 3.0 18.4 + - - +
184B LEU* 3.5 17.9 - - + +
185B LEU 3.2 0.2 - - - -
186B LYS* 1.3 78.4 - - + +
188B GLN* 1.3 62.0 + - + +
190B ASP* 3.3 5.2 + - - +
191B ILE* 3.3 30.0 + - + +
201B TYR* 4.3 15.2 + - - -
323B TYR* 3.5 35.5 - - + +
325B PRO* 5.7 2.9 - - + -
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Residues in contact with GLN 188 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185A LEU* 3.0 35.2 + - - +
188A GLN* 3.2 29.8 - - - +
189A ASN* 3.5 28.4 + - - +
192A LEU* 3.6 19.9 - - + +
184B LEU* 3.1 39.2 + - + +
185B LEU* 3.7 5.8 - - - +
186B LYS 3.3 0.2 - - - -
187B ARG* 1.3 77.0 - - + +
189B ASN* 1.3 58.2 + - - +
191B ILE* 3.4 4.1 + - + -
192B LEU* 2.9 29.3 + - - +
188C GLN* 3.9 10.0 - - - +
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Residues in contact with ASN 189 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185B LEU 3.0 6.4 + - - +
186B LYS* 3.1 11.6 + - - +
188B GLN* 1.3 74.3 - - - +
190B ASP* 1.3 65.6 + - - +
192B LEU* 3.2 4.9 + - - +
193B GLN* 2.8 68.6 + - - +
188C GLN* 3.4 37.7 + - - +
191C ILE* 5.6 0.9 - - - +
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Residues in contact with ASP 190 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186B LYS* 3.0 29.3 + - - +
187B ARG* 3.3 2.5 + - - +
189B ASN* 1.3 81.0 + - - +
191B ILE* 1.3 62.3 + - - +
193B GLN* 3.4 7.4 + - - +
194B VAL* 3.4 26.5 + - - +
206B PHE* 4.1 3.1 - - + -
323B TYR* 2.8 39.6 + - + +
324B VAL 5.4 0.4 - - - -
325B PRO* 3.4 22.7 - - - +
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Residues in contact with ILE 191 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189A ASN* 5.5 1.8 - - - +
192A LEU* 3.7 19.5 - - + -
193A GLN* 4.6 5.4 - - - +
196A SER* 3.7 23.1 - - - +
187B ARG* 3.3 25.2 + - + +
188B GLN* 3.7 7.9 - - + +
189B ASN 3.2 0.4 - - - -
190B ASP* 1.3 74.5 - - - +
192B LEU* 1.3 60.2 + - - +
194B VAL* 3.2 2.9 + - - +
195B VAL* 2.9 34.1 + - + +
201B TYR* 3.5 51.6 - - + +
206B PHE* 4.0 11.2 - - + -
323B TYR* 4.8 7.6 - - + -
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Residues in contact with LEU 192 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188A GLN* 5.9 0.2 - - - +
192A LEU* 4.2 13.4 - - + +
188B GLN 2.9 18.5 + - - +
189B ASN* 3.6 4.9 - - - +
191B ILE* 1.3 78.8 - - - +
193B GLN* 1.3 63.9 + - - +
195B VAL* 4.5 2.5 - - + -
196B SER* 2.6 49.8 + - - +
188C GLN* 3.5 45.8 - - + +
191C ILE* 4.1 15.5 - - + -
192C LEU* 3.8 34.3 - - + +
195C VAL* 4.9 7.0 - - + -
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Residues in contact with GLN 193 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189B ASN* 2.8 53.9 + - - +
190B ASP* 3.7 7.9 - - - +
191B ILE 3.2 0.2 - - - -
192B LEU* 1.3 88.9 - - - +
194B VAL* 1.3 62.0 + - + +
196B SER* 3.5 9.1 - - - -
197B GLN* 3.5 28.6 + - - +
191C ILE* 4.6 5.9 - - - +
201C TYR* 3.8 29.5 - - - +
202C PHE* 5.9 0.3 - - - -
203C LYS 5.5 1.2 + - - -
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Residues in contact with VAL 194 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190B ASP 3.4 12.1 + - - +
191B ILE 3.2 1.8 + - - -
193B GLN* 1.3 75.0 - - + +
195B VAL* 1.3 62.0 + - - +
196B SER 3.1 1.6 - - - -
197B GLN* 2.9 32.1 + - - +
199B TRP* 3.5 33.5 + - + +
206B PHE* 3.6 37.7 - - + -
321B ARG* 3.6 29.8 - - - +
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Residues in contact with VAL 195 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192A LEU* 5.0 5.2 - - + -
195A VAL* 4.3 18.6 - - + +
196A SER* 3.3 40.8 - - - +
191B ILE* 2.9 26.9 + - + +
192B LEU* 4.0 6.1 - - + +
194B VAL* 1.3 75.6 - - - +
196B SER* 1.3 56.2 + - - +
197B GLN 3.1 0.2 - - - -
198B GLY* 3.2 15.9 + - - -
199B TRP 3.4 23.8 - - - +
200B LYS 4.4 1.3 - - - -
201B TYR* 4.1 9.4 - - + +
206B PHE* 5.0 1.8 - - + -
195C VAL* 4.6 10.9 - - + +
200C LYS* 5.2 0.9 - - - +
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Residues in contact with SER 196 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192B LEU* 2.6 34.6 + - - +
193B GLN* 3.5 10.7 - - - -
194B VAL 3.1 0.2 - - - -
195B VAL* 1.3 76.1 - - - +
197B GLN* 1.3 56.7 + - - +
198B GLY 3.4 1.8 - - - -
191C ILE* 4.2 2.4 - - - +
195C VAL* 3.3 25.6 - - - +
200C LYS* 3.3 14.4 - - - +
201C TYR* 3.0 50.6 + - - +
241C PHE* 4.6 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
------------------------------------------------------------
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