Contacts of the helix formed by residues 162 - 188 (chain B) in PDB entry 4OL0
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 GLY 162 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161B ILE* 1.3 93.4 - - - +
163B ALA* 1.3 66.4 + - - +
164B ASN 3.4 2.5 - - - -
165B ARG* 3.5 11.6 + - - +
166B ARG* 3.6 7.6 - - - +
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Residues in contact with ALA 163 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161B ILE 3.8 0.6 + - - -
162B GLY* 1.3 70.4 - - - +
164B ASN* 1.3 70.4 + - - +
165B ARG 3.4 0.3 + - - -
166B ARG* 3.4 20.4 + - - +
167B THR* 3.7 7.1 + - - +
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Residues in contact with ASN 164 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162B GLY* 4.5 0.2 - - - -
163B ALA* 1.3 80.1 - - - +
165B ARG* 1.3 64.6 + - - +
167B THR* 2.4 27.9 + - - +
168B GLU* 3.0 20.9 + - - +
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Residues in contact with ARG 165 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117B LEU 5.6 1.8 + - - -
120B PRO* 5.4 8.5 - - - +
122B TRP* 4.6 21.0 - - - +
161B ILE* 3.3 35.2 - - + -
162B GLY* 3.5 8.6 + - - +
163B ALA 3.2 0.2 - - - -
164B ASN* 1.3 79.3 - - - +
166B ARG* 1.3 56.9 + - - +
168B GLU* 3.1 34.0 + - - +
169B ILE* 2.8 56.7 + - + +
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Residues in contact with ARG 166 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153B GLU 5.5 0.2 + - - -
154B VAL* 3.5 34.3 + - + +
155B HIS* 5.2 6.8 - - - +
156B SER 4.4 7.6 + - - -
159B LEU* 3.8 36.2 + - - +
161B ILE* 3.6 41.4 + - - +
162B GLY 3.6 11.4 + - - +
163B ALA* 3.7 10.3 - - - +
164B ASN 3.2 0.6 - - - -
165B ARG* 1.3 76.3 - - - +
167B THR* 1.3 53.3 + - + +
169B ILE* 3.1 12.2 + - - +
170B ILE* 2.8 49.5 + - + +
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Residues in contact with THR 167 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163B ALA 3.7 3.8 + - - +
164B ASN* 2.4 38.3 + - - +
166B ARG* 1.3 78.0 - - + +
168B GLU* 1.3 58.1 + - - +
170B ILE* 3.6 14.0 + - + +
171B GLU* 3.4 22.0 + - - +
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Residues in contact with GLU 168 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164B ASN* 3.0 29.3 - - - +
165B ARG* 3.1 45.6 + - - +
167B THR* 1.3 77.0 - - - +
169B ILE* 1.3 60.9 + - - +
171B GLU* 3.7 12.6 - - - +
172B ASP* 2.9 22.3 - - - +
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Residues in contact with ILE 169 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117B LEU* 4.0 48.0 - - + +
123B LYS* 5.6 7.9 - - - +
154B VAL* 4.4 18.8 - - + -
161B ILE* 4.6 10.8 - - + -
165B ARG* 2.8 55.8 + - + +
166B ARG* 3.5 10.5 - - - +
168B GLU* 1.3 74.3 - - - +
170B ILE* 1.3 65.3 + - - +
171B GLU 3.1 1.8 - - - -
172B ASP* 3.0 22.9 + - - +
173B LEU* 3.5 11.2 + - + +
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Residues in contact with ILE 170 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154B VAL* 3.8 21.1 - - + -
155B HIS* 3.9 25.4 - - + +
166B ARG* 2.8 30.9 + - + +
167B THR* 3.8 13.7 - - + +
168B GLU 3.4 0.2 - - - -
169B ILE* 1.3 76.7 - - - +
171B GLU* 1.3 60.8 + - - +
172B ASP 3.4 0.7 + - - -
173B LEU* 3.7 5.6 + - + -
174B ALA* 3.4 18.9 + - + +
211B LEU* 3.6 26.4 - - + +
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Residues in contact with GLU 171 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167B THR 3.4 12.1 + - - +
168B GLU* 3.7 15.7 - - - +
169B ILE 3.1 0.8 - - - -
170B ILE* 1.3 80.5 - - - +
172B ASP* 1.3 61.4 + - - +
174B ALA* 3.8 7.4 - - + +
175B PHE* 3.5 16.3 + - - +
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Residues in contact with ASP 172 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122B TRP* 4.0 19.5 - - - -
123B LYS* 3.4 40.7 - - - +
168B GLU 2.9 19.4 - - - +
169B ILE* 3.0 11.3 + - - +
171B GLU* 1.3 79.1 - - - +
173B LEU* 1.3 59.7 + - + +
174B ALA 3.1 1.8 - - - -
175B PHE* 2.6 28.9 + - - +
176B TYR* 2.8 23.0 + - + -
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Residues in contact with LEU 173 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117B LEU* 5.3 2.5 - - + -
123B LYS* 5.3 6.5 - - - +
126B VAL* 5.2 1.8 - - + -
150B LEU* 3.8 29.4 - - + +
151B PRO* 4.0 13.5 - - + -
154B VAL* 3.6 31.9 - - + -
169B ILE* 3.5 17.2 + - + +
170B ILE* 3.7 6.0 + - - +
171B GLU 3.6 0.2 - - - -
172B ASP* 1.3 79.1 - - + +
174B ALA* 1.3 53.3 + - - +
176B TYR* 3.0 11.1 + - + +
177B SER* 2.7 34.8 + - - -
208B TRP* 3.1 18.3 - - + -
211B LEU* 3.5 29.4 - - + -
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Residues in contact with ALA 174 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170B ILE* 3.4 16.5 + - + +
171B GLU* 3.8 8.3 - - - +
172B ASP 3.1 0.2 - - - -
173B LEU* 1.3 78.6 - - - +
175B PHE* 1.3 59.9 + - - +
177B SER* 3.1 23.9 + - - -
211B LEU* 3.9 20.5 - - + +
213B VAL* 4.6 21.2 - - + +
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Residues in contact with PHE 175 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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171B GLU 3.5 8.5 + - - +
172B ASP* 2.6 25.4 + - - +
174B ALA* 1.3 75.8 - - - +
176B TYR* 1.3 73.4 + + + -
177B SER 3.4 0.5 + - - -
178B SER* 3.9 13.7 + - - -
179B THR* 5.0 4.6 - - + +
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Residues in contact with TYR 176 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123B LYS* 2.9 54.8 - - + +
124B GLY* 4.6 2.6 + - - -
126B VAL* 3.7 43.1 - - + -
127B GLN* 3.9 24.8 - - + +
172B ASP* 2.8 36.5 + - + -
173B LEU* 3.0 12.1 + - + +
175B PHE* 1.3 87.1 - + + +
177B SER* 1.3 65.2 + - - +
178B SER 3.3 0.4 - - - -
179B THR* 2.3 35.1 + - + +
180B VAL* 2.9 10.9 + - + +
208B TRP* 4.4 7.6 - - + -
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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
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173B LEU 2.7 22.6 + - - -
174B ALA* 3.1 22.4 + - - -
175B PHE 3.2 0.4 - - - -
176B TYR* 1.3 70.2 - - - +
178B SER* 1.3 58.7 + - - +
180B VAL* 3.1 6.4 + - - +
181B VAL* 2.8 35.9 + - - +
208B TRP* 4.1 15.1 + - - -
211B LEU* 3.5 19.6 + - - +
212B GLY* 5.3 4.7 - - - -
213B VAL* 5.4 5.8 - - - -
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Residues in contact with SER 178 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174B ALA 4.9 0.2 + - - -
175B PHE 3.9 11.8 + - - -
177B SER* 1.3 78.5 - - - +
179B THR* 1.3 73.0 + - - +
181B VAL* 3.0 11.3 + - - +
182B SER* 2.8 29.0 + - - -
215B ASP* 5.1 11.0 - - - -
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Residues in contact with THR 179 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126B VAL* 4.8 3.3 - - - +
127B GLN* 3.2 27.2 + - - +
130B VAL* 5.8 7.3 - - - +
175B PHE* 5.0 4.3 - - + +
176B TYR* 2.3 44.2 + - + +
178B SER* 1.3 87.5 + - - +
180B VAL* 1.3 58.2 + - - +
182B SER* 3.2 8.3 + - - -
183B LEU* 2.9 29.1 + - - +
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Residues in contact with VAL 180 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126B VAL* 4.9 9.4 - - + -
147B LEU* 4.8 15.0 - - + -
176B TYR* 2.9 22.1 + - + +
177B SER* 3.4 7.2 - - - +
179B THR* 1.3 79.1 + - - +
181B VAL* 1.3 58.4 + - + +
183B LEU* 3.2 9.1 + - + +
184B LEU* 2.8 37.8 + - + +
204B CYS* 4.2 13.5 - - - -
208B TRP* 3.7 55.0 - - + +
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Residues in contact with VAL 181 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177B SER* 2.8 22.7 + - - +
178B SER* 3.0 12.3 + - - +
180B VAL* 1.3 77.9 - - + +
182B SER* 1.3 56.6 + - - +
184B LEU* 3.3 8.4 + - + +
185B MET* 2.8 45.3 + - + +
205B LEU* 5.0 14.4 - - + -
214B LEU 6.1 0.7 - - - +
215B ASP* 5.5 15.0 - - + -
222B ASN* 5.6 5.4 - - + +
224B LEU* 4.0 15.2 - - + +
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Residues in contact with SER 182 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178B SER 2.8 15.8 + - - -
179B THR* 3.2 11.9 + - - -
181B VAL* 1.3 70.2 - - - +
183B LEU* 1.3 53.4 + - - +
185B MET* 3.1 17.9 + - - +
186B THR* 2.7 45.1 + - - -
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Residues in contact with LEU 183 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130B VAL* 4.1 32.1 - - + -
134B SER* 4.2 17.3 - - - -
140B LEU* 4.7 3.1 - - + -
143B LEU* 4.5 12.6 - - + -
144B LEU* 4.6 8.5 - - + -
147B LEU* 3.1 36.1 - - + -
179B THR 2.9 14.0 + - - +
180B VAL* 3.3 11.2 - - + +
182B SER* 1.3 75.9 + - - +
184B LEU* 1.3 51.5 + - + +
186B THR* 3.0 11.7 + - + -
187B CYS* 2.7 53.1 + - - -
190B LYS* 6.3 0.4 - - - +
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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
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144B LEU* 3.5 31.6 - - + -
180B VAL* 2.8 36.1 + - + +
181B VAL* 3.6 5.4 - - + +
183B LEU* 1.3 73.7 - - + +
185B MET* 1.3 59.7 + - - +
187B CYS* 2.9 19.8 + - - +
188B VAL* 3.2 18.0 + - - +
201B VAL* 4.0 29.0 - - + +
204B CYS* 4.1 7.9 - - + -
205B LEU* 3.9 46.7 - - + +
208B TRP* 6.2 0.2 - - + -
224B LEU* 3.8 12.3 - - + -
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Residues in contact with MET 185 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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181B VAL* 2.8 28.4 + - + +
182B SER* 3.5 22.9 - - - +
184B LEU* 1.3 72.7 - - - +
186B THR* 1.3 58.0 + - - +
188B VAL* 3.1 24.5 - - + +
189B GLU* 3.2 16.2 - - - +
222B ASN* 3.4 43.5 - - - +
223B LYS* 4.6 7.4 - - + -
224B LEU* 3.8 23.8 - - + +
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Residues in contact with THR 186 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182B SER* 2.7 28.4 + - - -
183B LEU* 3.3 13.8 - - + -
185B MET* 1.3 76.6 - - - +
187B CYS* 1.3 63.3 + - - +
188B VAL 3.2 2.7 - - - -
189B GLU* 3.2 35.7 + - - +
190B LYS* 3.4 34.5 + - + +
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Residues in contact with CYS 187 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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140B LEU* 3.9 26.6 - - - +
144B LEU* 4.2 13.5 - - - -
183B LEU* 2.7 37.3 + - - +
184B LEU* 2.9 13.8 + - - +
186B THR* 1.3 74.2 - - - +
188B VAL* 1.3 54.4 + - - +
189B GLU 3.4 0.2 - - - -
190B LYS* 2.7 22.4 - - - +
192B GLY* 4.1 4.5 + - - -
197B MET* 3.8 37.3 - - + +
198B LEU* 5.7 0.2 - - - +
201B VAL* 4.0 9.9 - - + +
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Residues in contact with VAL 188 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184B LEU 3.6 10.1 - - - +
185B MET* 3.1 27.1 - - + +
187B CYS* 1.3 77.8 - - - +
189B GLU* 1.3 67.7 + - + +
190B LYS 3.5 2.5 - - - -
191B ALA 4.0 0.3 - - - +
192B GLY* 3.6 19.5 - - - -
198B LEU* 3.9 15.7 - - + -
201B VAL* 4.4 14.6 - - + -
223B LYS* 6.1 5.6 - - + -
224B LEU* 4.5 5.4 - - + -
227B LEU* 3.9 28.0 - - + -
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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