Contacts of the helix formed by residues 157 - 180 (chain B) in PDB entry 6DWN
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 CYS 157 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146B SER 3.6 13.0 - - - -
147B ILE* 3.0 30.3 - - - +
148B ALA 3.0 9.2 - - - +
149B SER* 4.0 3.1 - - - +
150B ASP* 3.9 5.2 - - - +
156B SER* 1.3 76.9 - - - +
158B TYR* 1.3 67.5 + - - +
159B LEU* 4.4 0.9 - - - -
160B GLU* 3.4 24.3 + - - -
161B GLU* 3.0 22.2 + - - +
359B LEU* 4.2 16.6 - - - -
465B TRP* 5.3 2.5 - - - -
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Residues in contact with TYR 158 (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 SER 4.0 13.9 - - - -
145B PHE* 3.6 49.7 - + + +
146B SER 3.9 0.9 - - - +
148B ALA* 3.1 24.4 + - + -
149B SER 3.8 15.7 - - - -
150B ASP* 3.3 25.6 + - + +
151B PRO* 3.0 25.4 - - + +
157B CYS* 1.3 74.7 - - - +
159B LEU* 1.3 64.2 + - - +
161B GLU* 3.1 5.9 + - - +
162B HIS* 2.9 51.1 + + - +
278B ILE 5.3 3.5 + - - -
279B ARG 5.2 6.3 + - - -
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Residues in contact with LEU 159 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B SER* 2.8 29.0 + - - +
147B ILE* 5.7 0.7 - - + -
157B CYS* 4.4 3.4 - - - -
158B TYR* 1.3 73.2 - - - +
160B GLU* 1.3 64.9 + - - +
162B HIS* 3.8 5.3 - - - +
163B VAL* 3.0 46.9 + - + +
197B VAL* 4.1 15.3 - - + -
201B ILE* 4.2 9.2 - - + -
359B LEU* 5.0 2.7 - - + -
462B ILE* 4.0 40.4 - - + +
465B TRP* 3.9 37.9 - - + -
466B GLU* 4.3 8.1 - - + +
469B LEU* 5.7 2.0 - - + -
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Residues in contact with GLU 160 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156B SER* 3.7 13.7 + - - +
157B CYS* 3.4 19.3 + - - +
158B TYR 3.3 0.6 - - - -
159B LEU* 1.3 79.0 - - - +
161B GLU* 1.3 58.2 + - - +
164B SER* 2.5 40.4 + - - +
357B PRO 4.4 0.8 - - - +
358B ARG* 3.1 50.2 + - - +
359B LEU* 3.1 47.9 + - + +
360B SER 5.4 0.4 + - - -
469B LEU* 3.9 15.3 - - + +
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Residues in contact with GLU 161 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150B ASP* 4.1 19.0 - - + +
153B SER* 4.0 21.4 + - - -
155B THR* 5.3 0.5 + - - -
156B SER* 3.1 27.4 + - - -
157B CYS 3.0 15.3 + - - +
158B TYR* 3.5 4.5 - - - +
160B GLU* 1.3 78.4 - - - +
162B HIS* 1.3 66.0 + - + +
164B SER* 3.5 6.4 + - - -
165B LYS* 3.2 23.9 + - - +
356B ARG* 5.9 1.0 + - - -
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Residues in contact with HIS 162 (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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145B PHE 5.1 0.4 + - - -
150B ASP* 5.6 2.0 - - - -
158B TYR* 2.9 50.1 + + + +
159B LEU* 3.8 4.0 - - - +
161B GLU* 1.3 80.0 - - + +
163B VAL* 1.3 63.1 + - - +
165B LYS* 3.0 32.1 + - - +
166B GLU* 3.0 20.2 + - + +
197B VAL* 4.1 19.7 - - + -
200B ALA* 4.1 27.7 + - + +
201B ILE* 4.0 26.3 - - + +
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Residues in contact with VAL 163 (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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159B LEU* 3.0 24.7 + - + +
162B HIS* 1.3 75.3 - - - +
164B SER* 1.3 58.3 + - - +
166B GLU* 4.1 0.6 - - - +
167B ALA* 2.8 29.5 + - - +
197B VAL* 3.9 20.4 - - + -
466B GLU* 3.9 24.7 - - + -
469B LEU* 3.6 36.3 - - + -
470B PHE* 3.7 29.6 - - + +
473B ILE* 4.8 2.5 - - + -
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Residues in contact with SER 164 (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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160B GLU* 2.5 31.7 + - - +
161B GLU* 3.7 8.0 - - - -
163B VAL* 1.3 78.3 - - - +
165B LYS* 1.3 64.0 + - - +
167B ALA* 3.7 1.6 - - - +
168B GLU* 3.3 25.6 + - - +
356B ARG* 3.5 28.5 + - - +
357B PRO 5.4 2.3 + - - -
469B LEU* 4.8 2.4 - - - +
473B ILE* 4.1 18.7 - - - +
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Residues in contact with LYS 165 (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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161B GLU* 3.2 9.9 + - - +
162B HIS* 3.0 27.6 + - - +
164B SER* 1.3 78.9 - - - +
166B GLU* 1.3 71.2 + - - +
168B GLU* 3.2 16.6 + - - +
169B VAL* 3.2 20.9 + - + +
200B ALA* 5.7 4.4 - - - +
206B ARG* 3.7 37.8 - - - +
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Residues in contact with GLU 166 (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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162B HIS* 3.0 15.3 + - + +
163B VAL 4.1 2.0 - - - +
165B LYS* 1.3 82.5 + - - +
167B ALA* 1.3 60.5 + - - +
169B VAL* 3.2 7.1 + - - +
170B LEU* 2.7 32.2 + - - +
193B SER* 3.8 22.8 + - - +
196B ASN* 3.3 26.9 + - + +
197B VAL* 3.6 22.9 - - + +
206B ARG* 2.9 48.0 + - - +
209B HIS* 5.3 0.2 + - - -
470B PHE* 4.4 4.7 - - + -
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Residues in contact with ALA 167 (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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163B VAL* 2.8 23.2 + - + +
164B SER 3.7 5.2 - - - +
165B LYS 3.3 0.2 - - - -
166B GLU* 1.3 74.5 - - - +
168B GLU* 1.3 56.4 + - - +
170B LEU* 3.3 6.6 + - - +
171B ILE* 3.0 35.3 + - - +
470B PHE* 4.2 14.0 - - + -
473B ILE* 3.6 36.6 - - + -
474B LEU* 4.3 8.0 - - + +
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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
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164B SER 3.3 13.9 + - - +
165B LYS* 3.2 10.3 + - - +
167B ALA* 1.3 75.6 - - + +
169B VAL* 1.3 68.0 + - + +
171B ILE* 3.1 7.2 + - - +
172B SER* 2.9 28.1 + - - +
356B ARG* 3.7 29.6 + - - +
473B ILE* 5.0 3.1 - - - +
477B ARG* 2.7 35.9 + - - -
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Residues in contact with VAL 169 (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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165B LYS* 3.2 19.0 + - + +
166B GLU* 3.2 11.5 + - - +
168B GLU* 1.3 77.8 - - + +
170B LEU* 1.3 54.1 + - - +
172B SER* 3.4 6.9 + - - -
173B THR* 2.7 40.7 + - - +
206B ARG* 3.7 29.6 - - - +
209B HIS* 3.4 27.1 - - + +
208C ASP* 5.3 11.7 - - - +
210C ASN* 6.4 1.6 - - + +
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Residues in contact with LEU 170 (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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166B GLU 2.7 20.1 + - - +
167B ALA* 3.6 4.9 - - - +
169B VAL* 1.3 74.3 - - - +
171B ILE* 1.3 61.7 + - - +
173B THR* 3.3 4.2 + - - -
174B LEU* 3.0 45.2 + - + +
189B TYR* 3.8 31.6 - - + +
190B VAL* 4.4 18.6 - - + +
193B SER* 3.4 28.0 + - - +
209B HIS* 4.4 2.9 - - + -
326B ILE* 6.3 1.1 - - + -
470B PHE* 4.5 12.3 - - + -
474B LEU* 4.0 30.5 - - + -
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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
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167B ALA 3.0 18.8 + - - +
168B GLU* 3.1 6.9 + - - +
170B LEU* 1.3 74.8 - - - +
172B SER* 1.3 63.7 + - - +
174B LEU* 3.3 8.1 + - + +
175B GLN* 3.0 48.9 + - + +
473B ILE* 4.1 22.0 - - + +
474B LEU* 4.1 19.7 - - + -
477B ARG* 3.4 43.5 - - + +
478B VAL* 4.6 18.4 - - + -
508B MET* 4.4 1.9 - - + +
510B LEU* 5.6 0.7 - - + -
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Residues in contact with SER 172 (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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168B GLU* 2.9 17.5 + - - +
169B VAL* 3.8 7.4 - - - -
171B ILE* 1.3 77.8 - - - +
173B THR* 1.3 62.7 + - - +
175B GLN* 3.2 15.3 + - - +
176B GLU* 3.2 29.1 + - - +
208C ASP* 4.2 28.3 + - - -
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Residues in contact with THR 173 (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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169B VAL* 2.7 26.0 + - - +
170B LEU* 3.3 5.3 + - - -
172B SER* 1.3 76.8 - - - +
174B LEU* 1.3 61.3 + - - +
176B GLU* 3.7 17.4 + - - +
177B LEU* 3.3 22.2 + - + +
189B TYR* 3.6 26.2 - - + -
209B HIS* 3.5 40.9 + - + +
210B ASN* 6.2 0.4 - - - +
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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
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170B LEU* 3.0 39.4 + - + +
171B ILE* 3.8 3.8 - - + +
172B SER 3.2 0.2 - - - -
173B THR* 1.3 76.8 - - - +
175B GLN* 1.3 64.2 + - - +
176B GLU 3.2 0.4 - - - -
177B LEU* 3.2 23.3 + - + +
178B MET* 3.2 17.8 + - - +
184B PHE* 3.4 37.5 - - + -
186B PRO* 5.5 1.1 - - + -
189B TYR* 4.5 15.9 - - + -
190B VAL* 6.5 0.4 - - + -
474B LEU* 5.3 2.9 - - + -
480B PHE* 4.2 20.6 - - + -
508B MET* 3.7 28.9 - - - -
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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
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171B ILE* 3.0 34.5 + - - +
172B SER* 3.2 16.0 + - - +
174B LEU* 1.3 76.6 - - - +
176B GLU* 1.3 62.9 + - + +
178B MET* 3.3 5.8 + - - +
179B ALA* 3.1 20.8 + - - +
508B MET* 3.6 17.5 - - + -
510B LEU* 4.0 29.1 - - + +
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Residues in contact with GLU 176 (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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172B SER* 3.2 19.6 + - - +
173B THR* 3.7 16.6 + - - +
174B LEU 3.2 0.4 - - - -
175B GLN* 1.3 77.5 - - + +
177B LEU* 1.3 62.3 + - + +
179B ALA* 3.1 17.8 + - - +
180B GLY* 3.3 9.7 + - - -
181B PRO* 4.7 0.7 - - - +
205C ARG* 4.8 5.0 + - - +
206C ARG 4.9 6.7 - - - +
207C TYR* 4.2 18.1 - - + -
208C ASP* 4.5 11.1 + - - +
211C HIS* 3.0 42.3 + - - -
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Residues in contact with LEU 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 THR* 3.3 18.1 + - + +
174B LEU* 3.2 16.0 + - + +
176B GLU* 1.3 79.4 - - + +
178B MET* 1.3 60.1 + - - +
181B PRO* 3.2 23.5 - - + +
182B GLY* 2.9 22.7 + - - -
183B HIS 4.1 3.4 + - - +
184B PHE* 3.7 24.9 - - + -
189B TYR* 3.2 55.6 - - + +
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Residues in contact with MET 178 (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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174B LEU 3.2 13.6 + - - +
175B GLN* 3.8 8.5 - - - +
176B GLU 3.3 0.2 - - - -
177B LEU* 1.3 75.2 - - - +
179B ALA* 1.3 65.3 + - - +
180B GLY 3.5 0.7 + - - +
182B GLY* 3.3 43.5 - - - +
184B PHE* 4.1 11.0 - - + -
507B GLN* 4.0 14.4 - - + -
508B MET* 3.3 55.0 - - + +
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Residues in contact with ALA 179 (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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175B GLN 3.1 11.4 + - - +
176B GLU* 3.1 14.6 + - - +
178B MET* 1.3 78.8 - - - +
180B GLY* 1.3 58.8 + - - +
204C GLY 6.0 0.4 - - - +
205C ARG* 3.4 38.8 + - + +
268C GLU* 5.3 3.1 - - - +
272C THR* 5.4 4.7 + - - +
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Residues in contact with GLY 180 (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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176B GLU 3.3 8.6 + - - -
178B MET 3.3 0.7 - - - +
179B ALA* 1.3 82.1 - - - +
181B PRO* 1.3 74.7 - - - +
182B GLY* 3.1 2.2 + - - -
205C ARG* 4.0 1.1 - - - +
268C GLU* 3.7 33.0 - - - +
272C THR* 4.4 15.6 - - - +
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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