Contacts of the helix formed by residues 168 - 208 (chain B) in PDB entry 3E1R
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 HIS 168 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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167B ILE* 1.3 78.3 - - - +
169B GLU* 1.3 63.8 + - - +
170B MET 3.2 2.2 - - - -
171B GLU* 3.1 36.5 + - + +
172B ILE* 3.3 37.7 + - + +
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Residues in contact with GLU 169 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167B ILE* 3.7 23.9 - - + +
168B HIS* 1.3 78.8 - - - +
170B MET* 1.3 62.8 + - + +
171B GLU 3.4 0.2 - - - -
172B ILE* 3.7 6.8 + - - +
173B GLN* 3.0 41.2 + - - +
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Residues in contact with MET 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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167A ILE* 3.8 11.9 - - + +
170A MET* 3.6 39.7 - - + +
171A GLU* 3.4 51.1 - - + +
174A LEU* 4.4 14.6 - - + +
167B ILE* 3.6 26.0 - - + +
168B HIS 3.2 0.4 - - - -
169B GLU* 1.3 81.7 - - + +
171B GLU* 1.3 62.5 + - - +
172B ILE 3.1 1.3 - - - -
173B GLN* 3.6 13.0 - - - +
174B LEU* 2.8 29.6 + - - +
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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
----------------------------------------------------------
170A MET* 3.4 31.5 - - + +
167B ILE 3.9 11.0 - - - +
168B HIS* 3.1 33.7 + - + +
169B GLU 3.4 0.4 - - - -
170B MET* 1.3 80.5 - - - +
172B ILE* 1.3 63.5 + - - +
174B LEU* 3.6 2.9 + - + +
175B LYS* 3.4 21.0 + - - +
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Residues in contact with ILE 172 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168B HIS* 3.3 39.8 + - + +
169B GLU* 3.8 6.5 - - - +
170B MET 3.1 0.2 - - - -
171B GLU* 1.3 76.8 - - - +
173B GLN* 1.3 68.2 + - + +
174B LEU 3.1 0.3 + - - -
175B LYS* 3.3 4.5 + - - +
176B ASP* 2.9 41.6 + - - +
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Residues in contact with GLN 173 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A LEU* 3.5 28.7 - - + +
178A LEU* 5.0 7.6 - - - +
169B GLU* 3.0 36.4 + - - +
170B MET* 3.7 11.1 - - - +
171B GLU 3.4 0.4 - - - -
172B ILE* 1.3 78.3 - - + +
174B LEU* 1.3 55.3 + - - +
176B ASP* 3.4 8.6 + - - +
177B ALA* 3.0 29.6 + - - +
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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
----------------------------------------------------------
170A MET* 4.1 29.4 - - + +
173A GLN* 3.5 40.6 - - + +
174A LEU* 3.7 29.6 - - + +
177A ALA* 5.0 0.9 - - + -
170B MET 2.8 17.9 + - - +
171B GLU* 3.8 6.1 - - + +
172B ILE 3.1 0.2 - - - -
173B GLN* 1.3 75.1 - - - +
175B LYS* 1.3 62.8 + - - +
177B ALA* 3.2 2.8 + - - +
178B LEU* 2.9 44.3 + - + +
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Residues in contact with LYS 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 3.4 10.6 + - - +
172B ILE* 3.3 5.0 + - - +
174B LEU* 1.3 77.6 - - + +
176B ASP* 1.3 63.3 + - - +
178B LEU* 3.5 25.1 + - + +
179B GLU* 2.8 51.1 + - + +
182B GLN* 5.5 3.0 - - - +
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Residues in contact with ASP 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 ILE* 2.9 36.8 + - - +
173B GLN* 3.5 8.9 - - - +
175B LYS* 1.3 79.5 - - - +
177B ALA* 1.3 61.6 + - - +
179B GLU* 3.8 15.2 - - - +
180B LYS* 3.1 26.5 + - - +
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Residues in contact with ALA 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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174A LEU* 4.0 5.4 - - + -
177A ALA* 3.7 23.4 - - + +
178A LEU* 3.9 23.6 - - + -
181A ASN* 2.8 28.5 + - - +
173B GLN 3.0 17.7 + - - +
174B LEU 3.5 4.7 - - - +
176B ASP* 1.3 78.6 - - - +
178B LEU* 1.3 57.9 + - - +
180B LYS* 3.5 1.9 + - - -
181B ASN* 3.1 14.9 + - - +
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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
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173A GLN* 4.4 18.8 - - - +
177A ALA* 4.0 11.7 - - + -
174B LEU* 2.9 40.1 + - + +
175B LYS* 3.5 27.8 + - + +
177B ALA* 1.3 73.2 - - - +
179B GLU* 1.3 65.0 + - - +
181B ASN* 3.3 5.0 + - + +
182B GLN* 3.2 20.3 + - - +
797C GLN* 5.5 9.9 - - + -
798C ALA* 3.9 31.6 - - + +
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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
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175B LYS* 2.8 36.4 + - + +
176B ASP* 3.8 14.7 - - - +
178B LEU* 1.3 76.4 - - - +
180B LYS* 1.3 64.9 + - - +
182B GLN* 3.4 6.2 + - - +
183B GLN* 3.2 36.8 + - + +
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Residues in contact with LYS 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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181A ASN* 3.8 20.4 - - - +
185A LEU* 6.3 0.2 - - - +
176B ASP 3.1 16.6 + - - +
177B ALA* 3.6 5.8 - - - +
179B GLU* 1.3 82.3 - - - +
181B ASN* 1.3 61.0 + - - +
183B GLN* 3.2 19.4 + - + +
184B TRP* 3.0 53.8 + - + +
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Residues in contact with ASN 181 (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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177A ALA* 5.3 1.3 - - + +
180A LYS* 3.8 9.7 - - - +
181A ASN* 2.9 24.7 + - - +
184A TRP* 3.8 4.5 - - - -
177B ALA 3.1 11.5 + - - +
178B LEU* 3.5 13.0 - - + +
179B GLU 3.2 0.4 - - - -
180B LYS* 1.3 74.5 - - - +
182B GLN* 1.3 67.6 + - - +
184B TRP* 3.0 16.0 + - - +
185B LEU* 3.2 23.6 + - - +
797C GLN 4.5 1.6 + - - -
798C ALA* 3.3 16.5 - - + +
799C GLN* 2.7 48.6 + - - +
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Residues in contact with GLN 182 (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 LYS* 5.5 2.2 - - - +
178B LEU 3.2 10.1 + - - +
179B GLU* 3.4 9.4 + - - +
181B ASN* 1.3 80.9 + - - +
183B GLN* 1.3 63.3 + - - +
185B LEU* 3.3 25.9 + - - +
186B VAL* 3.3 30.3 + - + +
797C GLN* 4.6 20.4 + - - +
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Residues in contact with GLN 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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179B GLU* 3.2 26.7 + - + +
180B LYS* 3.3 27.4 + - + +
181B ASN 3.1 0.2 - - - -
182B GLN* 1.3 79.1 - - + +
184B TRP* 1.3 61.8 + - - +
186B VAL* 3.3 8.6 + - - +
187B TYR* 2.9 25.7 + - - +
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Residues in contact with TRP 184 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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181A ASN* 3.8 26.6 + - - -
184A TRP* 3.5 44.8 - + + -
185A LEU* 3.9 32.8 - - + -
188A ASP* 3.5 43.1 - - + -
191A ARG* 5.0 1.3 - - - -
180B LYS* 3.0 48.1 + - + +
181B ASN 3.0 9.4 + - - +
183B GLN* 1.3 77.8 - - - +
185B LEU* 1.3 56.5 + - - +
187B TYR* 3.4 23.5 + + + +
188B ASP* 2.8 33.1 + - - +
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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
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184A TRP* 3.6 32.3 - - + +
181B ASN* 3.2 17.9 + - - +
182B GLN* 3.5 34.8 - - - +
183B GLN 3.2 0.4 - - - -
184B TRP* 1.3 77.6 - - - +
186B VAL* 1.3 63.7 + - + +
188B ASP* 3.5 6.3 + - - +
189B GLN* 3.3 23.0 + - - +
797C GLN 5.4 1.6 - - - +
799C GLN* 4.0 41.7 - - + +
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Residues in contact with VAL 186 (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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182B GLN* 3.3 22.8 + - + +
183B GLN* 3.3 9.4 + - - +
185B LEU* 1.3 78.1 - - + +
187B TYR* 1.3 63.1 + - - +
189B GLN* 3.5 7.5 + - - +
190B GLN* 3.3 40.4 + - - +
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Residues in contact with TYR 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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188A ASP* 3.3 31.9 + - - -
191A ARG* 4.4 1.3 - - - -
192A GLU* 4.6 4.2 + - - -
183B GLN 2.9 18.2 + - - +
184B TRP* 3.7 24.2 - + + +
186B VAL* 1.3 78.0 - - - +
188B ASP* 1.3 58.0 + - - +
190B GLN* 3.1 20.5 + - + +
191B ARG* 2.8 63.5 + - + +
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Residues in contact with ASP 188 (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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184A TRP* 3.3 38.1 - - + -
187A TYR* 3.7 6.9 + - - -
191A ARG* 2.8 36.1 + - - +
184B TRP 2.8 22.7 + - - +
185B LEU* 3.7 4.8 - - - +
186B VAL 3.3 0.2 - - - -
187B TYR* 1.3 74.1 - - - +
189B GLN* 1.3 61.0 + - - +
191B ARG* 3.1 2.3 + - - +
192B GLU* 2.8 38.6 + - - +
802C PRO* 4.7 8.2 - - - +
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Residues in contact with GLN 189 (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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185B LEU 3.3 12.5 + - - +
186B VAL* 3.5 8.9 + - - +
187B TYR 3.3 0.2 - - - -
188B ASP* 1.3 82.9 - - - +
190B GLN* 1.3 77.1 + - + +
192B GLU* 3.5 6.6 + - - +
193B VAL* 3.3 33.9 + - - +
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Residues in contact with GLN 190 (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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186B VAL* 3.3 31.3 + - - +
187B TYR* 3.1 23.4 + - + +
189B GLN* 1.3 89.2 - - - +
191B ARG* 1.3 64.2 + - + +
193B VAL* 3.2 8.5 + - - +
194B TYR* 3.2 20.0 + - - +
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Residues in contact with ARG 191 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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188A ASP* 4.4 0.2 - - - +
191A ARG* 3.5 30.0 - - - +
192A GLU* 2.9 29.9 + - - -
195A VAL* 4.6 6.9 - - - +
187B TYR* 2.8 66.3 + - + +
188B ASP 3.6 0.7 - - - +
190B GLN* 1.3 76.8 - - - +
192B GLU* 1.3 58.4 + - - +
194B TYR* 3.1 50.1 + - - +
195B VAL* 2.8 31.9 + - - +
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Residues in contact with GLU 192 (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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187A TYR* 4.7 5.5 + - - +
191A ARG* 3.0 25.0 + - - +
188B ASP* 2.8 35.6 + - - +
189B GLN* 3.9 7.0 - - - +
191B ARG* 1.3 69.9 - - - +
193B VAL* 1.3 65.8 + - - +
195B VAL* 3.9 3.0 - - - +
196B LYS* 2.9 25.8 + - - +
806C TYR* 2.7 34.1 + - - -
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Residues in contact with VAL 193 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189B GLN* 3.3 34.3 + - - +
190B GLN* 3.2 9.1 + - - +
192B GLU* 1.3 75.1 - - - +
194B TYR* 1.3 64.7 + - - +
196B LYS* 3.4 6.5 + - - +
197B GLY* 3.0 19.8 + - - -
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Residues in contact with TYR 194 (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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195A VAL* 4.0 8.1 - - + +
199A LEU* 4.0 21.3 - - - +
190B GLN 3.2 9.6 + - - +
191B ARG* 3.1 53.3 + - - +
193B VAL* 1.3 80.8 - - - +
195B VAL* 1.3 68.6 + - + +
197B GLY* 3.2 3.4 + - - -
198B LEU* 3.1 59.2 + - + +
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Residues in contact with VAL 195 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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191A ARG* 3.8 26.2 - - + -
194A TYR* 3.9 23.8 - - + -
195A VAL* 3.9 20.0 - - + -
198A LEU* 4.0 7.0 - - + -
191B ARG* 2.8 23.4 + - + +
192B GLU* 4.0 5.6 - - - +
193B VAL 3.4 0.2 - - - -
194B TYR* 1.3 74.8 - - + +
196B LYS* 1.3 67.5 + - - +
198B LEU* 3.1 7.8 + - - +
199B LEU* 3.0 29.2 + - + +
806C TYR* 3.6 18.4 - - - +
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Residues in contact with LYS 196 (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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192B GLU 2.9 19.2 + - - +
193B VAL* 3.8 7.6 - - - +
195B VAL* 1.3 75.8 - - - +
197B GLY* 1.3 59.2 + - - +
199B LEU* 3.2 12.4 + - + +
200B ALA* 2.8 41.7 + - + +
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Residues in contact with GLY 197 (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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193B VAL 3.0 14.7 + - - -
194B TYR* 3.6 4.7 - - - -
195B VAL 3.1 0.4 - - - -
196B LYS* 1.3 80.5 - - - +
198B LEU* 1.3 61.6 + - - +
200B ALA* 3.3 6.6 + - - +
201B LYS* 3.0 24.7 + - - +
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Residues in contact with LEU 198 (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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195A VAL* 4.0 17.5 - - + -
198A LEU* 3.9 22.2 - - + -
199A LEU* 4.1 14.4 - - + -
202A ILE* 3.9 23.4 - - + +
194B TYR* 3.1 57.9 + - + +
195B VAL* 3.1 7.2 + - - +
197B GLY* 1.3 76.1 - - - +
199B LEU* 1.3 63.3 + - - +
201B LYS* 3.2 12.7 + - - +
202B ILE* 3.0 27.9 + - - +
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Residues in contact with LEU 199 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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194A TYR* 3.4 27.8 - - + +
198A LEU* 3.7 23.8 - - + -
195B VAL* 3.0 30.0 + - + +
196B LYS* 3.6 11.2 - - + +
198B LEU* 1.3 76.4 - - - +
200B ALA* 1.3 61.9 + - - +
202B ILE* 3.4 11.1 + - + +
203B PHE* 3.1 21.7 + - - +
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Residues in contact with ALA 200 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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196B LYS* 2.8 31.4 + - + +
197B GLY* 3.6 7.9 - - - +
198B LEU 3.2 0.2 - - - -
199B LEU* 1.3 73.6 - - - +
201B LYS* 1.3 65.8 + - - +
203B PHE* 3.2 9.6 + - - +
204B GLU* 3.0 23.6 + - - +
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Residues in contact with LYS 201 (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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202A ILE* 3.9 30.5 - - + +
206A GLU* 4.3 14.1 + - - +
197B GLY 3.0 14.5 + - - +
198B LEU* 3.5 16.2 - - - +
200B ALA* 1.3 77.2 - - - +
202B ILE* 1.3 56.7 + - - +
204B GLU* 3.2 7.9 + - + +
205B LEU* 2.9 40.4 + - + +
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Residues in contact with ILE 202 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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198A LEU* 3.8 46.2 - - + +
201A LYS* 4.0 19.7 - - + -
202A ILE* 3.5 20.4 - - + +
205A LEU* 4.1 9.0 - - + -
198B LEU 3.0 15.8 + - - +
199B LEU* 3.6 11.9 - - + +
200B ALA 3.2 0.4 - - - -
201B LYS* 1.3 77.0 - - - +
203B PHE* 1.3 58.7 + - - +
205B LEU* 3.3 7.2 + - - +
206B GLU* 2.9 51.7 + - + +
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Residues in contact with PHE 203 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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199B LEU 3.1 13.6 + - - +
200B ALA* 3.2 12.5 + - - +
202B ILE* 1.3 77.3 - - - +
204B GLU* 1.3 66.1 + - + +
206B GLU* 3.3 9.5 + - + +
207B LYS* 3.2 53.9 + - + +
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Residues in contact with GLU 204 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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200B ALA 3.0 12.2 + - - +
201B LYS* 3.5 11.4 - - + +
203B PHE* 1.3 80.0 - - + +
205B LEU* 1.3 68.0 + - + +
207B LYS* 3.0 41.6 + - - +
208B LYS* 2.7 40.8 + - - +
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Residues in contact with LEU 205 (chain B).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202A ILE* 4.2 12.1 - - + +
205A LEU* 3.9 24.1 - - + +
206A GLU* 3.9 33.0 - - + +
209A THR* 3.7 32.2 - - + +
201B LYS* 2.9 38.9 + - + +
202B ILE* 3.8 5.8 - - - +
204B GLU* 1.3 78.1 - - + +
206B GLU* 1.3 62.3 + - - +
208B LYS* 3.3 28.0 + - + +
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Residues in contact with GLU 206 (chain B).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201A LYS* 3.5 24.9 + - - -
205A LEU* 4.1 18.5 - - + +
208A LYS* 5.2 3.5 + - - -
202B ILE* 2.9 36.0 + - + +
203B PHE* 3.6 10.1 - - + +
204B GLU 3.2 0.2 - - - -
205B LEU* 1.3 74.0 - - - +
207B LYS* 1.3 64.8 + - - +
208B LYS 3.2 5.5 + - - -
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Residues in contact with LYS 207 (chain B).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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203B PHE* 3.2 45.7 + - + +
204B GLU* 3.0 33.5 + - - +
206B GLU* 1.3 77.0 - - - +
208B LYS* 1.3 62.2 + - + +
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Residues in contact with LYS 208 (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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209A THR* 3.9 28.6 - - + +
204B GLU* 2.7 40.3 + - - +
205B LEU* 3.4 23.7 - - + +
206B GLU 3.1 7.1 - - - -
207B LYS* 1.3 85.0 - - + +
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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
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Atomic class I II III IV V VI VII VIII
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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