Contacts of the helix formed by residues 176 - 200 (chain A) in PDB entry 1TE6
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 176 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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174A ALA* 3.3 4.0 - - - +
175A GLU* 1.3 81.7 - - - +
177A PHE* 1.3 60.0 + - - +
178A ARG* 3.5 8.9 + - - +
179A ASP* 3.2 20.2 + - - +
180A ALA* 2.8 26.7 + - - +
413A GLU* 3.4 16.7 + - - -
422A PHE* 3.8 16.6 - - - -
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Residues in contact with PHE 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144A LEU* 4.0 22.7 - - + -
145A PRO* 3.1 30.5 - - + -
147A PRO* 3.7 20.4 - - + -
176A SER* 1.3 69.9 - - - +
178A ARG* 1.3 64.1 + - - +
180A ALA* 2.9 4.2 + - - +
181A MET* 2.9 52.6 + - + +
406A TYR* 3.6 15.0 - + - -
409A LEU* 3.3 48.2 - - + -
410A MET* 3.8 15.3 - - + -
413A GLU* 2.7 25.8 + - + +
422A PHE* 3.7 7.5 - - - -
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Residues in contact with ARG 178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176A SER* 3.8 6.6 + - - +
177A PHE* 1.3 75.1 - - - +
179A ASP* 1.3 62.9 + - - +
181A MET* 3.3 13.2 + - - +
182A ARG* 3.3 11.3 + - - +
410A MET* 3.1 57.6 + - - +
413A GLU* 2.9 34.3 + - - +
414A GLU* 3.2 41.3 + - - +
56B TYR* 4.6 1.7 + - - -
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Residues in contact with ASP 179 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A ALA* 3.6 7.0 - - - -
175A GLU* 2.9 36.1 + - + +
176A SER* 3.2 25.3 + - - +
177A PHE 3.1 0.6 - - - -
178A ARG* 1.3 77.0 - - - +
180A ALA* 1.3 66.4 + - - +
182A ARG* 3.0 28.0 + - - +
183A LEU* 3.1 29.1 + - - +
238A LYS* 5.8 1.4 + - - -
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Residues in contact with ALA 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147A PRO* 3.8 30.7 - - + -
149A PHE* 3.8 3.6 - - - -
171A PRO* 3.5 15.6 - - + +
174A ALA* 3.6 17.2 - - + +
176A SER 2.8 14.9 + - - +
177A PHE* 2.9 10.1 + - - +
179A ASP* 1.3 76.1 - - - +
181A MET* 1.3 58.0 + - - +
183A LEU 3.5 0.2 + - - -
184A GLY* 3.0 24.9 + - - -
422A PHE* 3.9 7.0 - - + -
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Residues in contact with MET 181 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A PHE* 3.5 26.9 - - + -
177A PHE* 2.9 39.5 + - + +
178A ARG 3.4 8.3 - - - +
180A ALA* 1.3 77.7 - - - +
182A ARG* 1.3 56.5 + - - +
184A GLY* 3.9 0.3 - - - -
185A ALA* 2.9 31.9 + - - +
397A PRO* 4.8 2.0 - - + -
403A LEU* 4.6 2.0 - - + -
406A TYR* 3.4 39.7 - - + -
410A MET* 3.9 22.9 - - + -
11B LEU* 3.5 28.3 - - + -
56B TYR* 3.6 9.6 + - - +
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Residues in contact with ARG 182 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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178A ARG 3.3 7.2 + - - +
179A ASP* 3.0 25.2 + - - +
181A MET* 1.3 77.8 - - - +
183A LEU* 1.3 63.3 + - + +
185A ALA* 3.8 0.9 - - - +
186A GLU* 2.8 51.2 + - - +
235A TYR* 3.8 12.5 + - - -
52B ASP* 5.6 0.2 + - - -
54B GLN* 2.8 31.5 + - - +
55B ARG* 3.3 38.9 - - - +
56B TYR* 3.3 28.2 + - + +
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Residues in contact with LEU 183 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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171A PRO* 4.2 7.4 - - + -
174A ALA* 4.3 15.9 - - + -
179A ASP* 3.1 37.1 + - - +
180A ALA 4.0 2.9 - - - +
182A ARG* 1.3 80.3 - - + +
184A GLY* 1.3 64.5 + - - +
186A GLU* 3.8 0.3 - - - +
187A VAL* 2.9 31.7 + - - +
235A TYR* 3.3 50.7 - - + +
238A LYS* 4.5 12.3 - - + +
239A ILE* 3.4 33.2 - - + -
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Residues in contact with GLY 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149A PHE* 3.7 26.5 - - - -
151A VAL* 5.3 0.7 - - - +
169A ILE* 3.7 17.3 - - - +
171A PRO* 4.2 1.0 - - - +
180A ALA 3.0 11.7 + - - -
181A MET 3.9 0.2 - - - -
183A LEU* 1.3 78.4 - - - +
185A ALA* 1.3 56.0 + - - +
187A VAL* 3.4 2.6 + - - +
188A TYR* 3.0 28.9 + - - +
397A PRO* 4.2 7.8 - - - +
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Residues in contact with ALA 185 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149A PHE* 5.3 0.2 - - - -
181A MET 2.9 18.6 + - - +
182A ARG 3.9 0.2 - - - +
184A GLY* 1.3 74.8 - - - +
186A GLU* 1.3 58.7 + - - +
188A TYR* 3.2 2.3 + - - +
189A HIS* 2.9 36.5 + - - +
397A PRO* 4.0 15.0 - - + +
11B LEU* 4.1 9.4 - - + -
15B GLY 3.8 16.8 - - - +
56B TYR* 3.5 25.4 - - + -
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Residues in contact with GLU 186 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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182A ARG* 2.8 46.4 + - + +
183A LEU 3.8 2.9 - - - +
185A ALA* 1.3 77.8 - - - +
187A VAL* 1.3 57.1 + - - +
189A HIS* 3.4 6.9 + - - +
190A THR* 2.8 34.1 + - - +
233A ALA* 4.6 5.3 - - + +
235A TYR* 2.7 37.2 + - + -
54B GLN 3.6 8.5 - - - +
55B ARG* 3.6 2.4 - - - -
56B TYR* 2.9 35.4 + - + +
57B LEU* 4.1 11.8 - - + +
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Residues in contact with VAL 187 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151A VAL* 5.8 2.0 - - + -
169A ILE* 4.6 17.5 - - + -
183A LEU 2.9 21.9 + - - +
184A GLY* 3.8 4.7 - - - +
186A GLU* 1.3 71.9 - - - +
188A TYR* 1.3 57.4 + - - +
190A THR* 3.6 5.3 - - - -
191A LEU* 2.7 37.0 + - + +
226A VAL* 4.8 1.1 - - + +
229A ALA* 3.9 19.6 - - + +
230A ILE* 4.0 23.8 - - + +
233A ALA* 3.9 19.7 - - + -
235A TYR* 4.2 10.3 - - + -
239A ILE* 4.6 14.6 - - + -
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Residues in contact with TYR 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151A VAL* 3.8 25.3 - - + +
184A GLY 3.0 18.6 + - - +
185A ALA 3.4 4.5 - - - +
187A VAL* 1.3 76.8 - - - +
189A HIS* 1.3 77.4 + + - +
191A LEU* 3.3 5.1 + - - -
192A LYS* 3.1 18.7 + - + -
206A VAL* 3.5 11.4 - - - +
210A GLY 2.6 30.3 + - - -
211A GLY* 4.4 2.7 - - - -
212A PHE* 3.3 48.5 - + - -
396A ALA* 3.8 7.6 - - + -
397A PRO* 3.6 22.2 - - + -
398A CYS* 3.2 27.0 - - + +
14B ARG 4.3 11.7 - - - -
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Residues in contact with HIS 189 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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185A ALA* 2.9 31.8 + - + +
186A GLU 3.9 3.6 - - - +
188A TYR* 1.3 84.6 - + - +
190A THR* 1.3 66.3 + - - +
192A LYS* 3.3 22.1 + - - +
193A GLY* 3.5 4.2 + - - -
14B ARG 3.3 27.3 + - - -
15B GLY* 2.9 25.8 + - - -
16B ASN* 3.5 18.7 + - - -
56B TYR* 5.0 7.9 - + - -
57B LEU* 3.8 39.4 - - + +
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Residues in contact with THR 190 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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186A GLU* 2.8 22.2 + - - +
187A VAL* 3.2 4.9 + - - -
189A HIS* 1.3 76.2 - - - +
191A LEU* 1.3 64.1 + - - +
193A GLY* 3.1 4.7 + - - -
194A VAL* 3.0 23.6 + - + +
229A ALA* 3.8 16.4 - - - +
232A LYS* 3.5 46.4 + - + +
233A ALA* 3.8 13.5 - - - +
57B LEU* 5.4 4.4 - - - +
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Residues in contact with LEU 191 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151A VAL* 3.6 38.6 - - + +
152A ILE* 3.7 20.0 - - + -
187A VAL* 2.7 18.4 + - + +
188A TYR* 3.4 5.8 - - - +
190A THR* 1.3 78.4 - - - +
192A LYS* 1.3 61.5 + - - +
194A VAL* 4.2 2.2 - - + -
195A ILE* 2.9 60.0 + - + +
212A PHE* 3.7 9.6 - - + -
225A LEU* 3.4 33.2 - - + +
226A VAL* 4.2 2.9 - - + +
229A ALA* 3.7 13.0 - - + +
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Residues in contact with LYS 192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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188A TYR* 3.1 8.6 + - + +
189A HIS* 3.5 15.7 - - - +
190A THR 3.1 0.6 - - - -
191A LEU* 1.3 75.3 - - - +
193A GLY* 1.3 58.3 - - - +
195A ILE* 3.5 2.1 + - - +
196A LYS* 2.9 33.2 + - + +
201A LYS* 5.9 6.1 - - - +
204A THR* 3.7 33.3 - - + +
212A PHE* 3.3 36.1 - - + -
14B ARG* 6.1 1.8 - - - +
208B ASP* 4.9 12.5 + - - -
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Residues in contact with GLY 193 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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189A HIS 3.5 4.9 + - - -
190A THR* 3.1 6.8 + - - -
192A LYS* 1.3 77.2 - - - +
194A VAL* 1.3 65.5 + - - +
196A LYS* 4.2 8.1 - - - -
197A ASP* 2.9 37.0 + - - -
232A LYS* 5.1 4.5 - - - -
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Residues in contact with VAL 194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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190A THR* 3.0 23.9 + - + +
191A LEU* 3.3 11.2 + - + +
193A GLY* 1.3 78.8 - - - +
195A ILE* 1.3 73.4 + - + +
197A ASP* 3.9 5.6 - - - +
198A LYS* 3.4 21.3 + - + +
225A LEU* 3.9 17.9 - - + +
228A GLU* 3.6 34.5 - - + +
229A ALA* 4.4 9.6 - - - -
232A LYS* 3.9 28.7 - - + +
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Residues in contact with ILE 195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152A ILE* 4.6 10.1 - - + -
191A LEU* 2.9 47.2 + - + +
192A LYS* 3.8 3.8 - - - +
194A VAL* 1.3 77.5 - - + +
196A LYS* 1.3 56.2 + - - +
199A TYR* 2.7 42.2 + - + +
203A ALA* 3.5 38.8 - - + +
204A THR* 4.5 3.8 - - + -
212A PHE* 5.0 4.7 - - + -
214A PRO* 4.0 11.7 - - + -
225A LEU* 3.5 33.7 - - + -
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Residues in contact with LYS 196 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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192A LYS* 2.9 22.1 + - + +
193A GLY* 3.8 8.3 - - - +
195A ILE* 1.3 77.6 - - - +
197A ASP* 1.3 66.5 + - - +
200A GLY* 2.7 47.7 + - - -
201A LYS* 4.2 30.1 - - + +
204A THR* 3.9 9.8 - - + +
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Residues in contact with ASP 197 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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193A GLY* 2.9 23.9 + - - +
194A VAL* 3.9 5.9 - - - +
195A ILE 3.3 0.2 - - - -
196A LYS* 1.3 85.8 - - - +
198A LYS* 1.3 59.7 + - + +
232A LYS* 4.5 10.9 + - - -
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Residues in contact with LYS 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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194A VAL* 3.4 13.5 + - + +
195A ILE 3.3 1.2 + - - -
196A LYS 3.2 0.2 - - - -
197A ASP* 1.3 81.8 - - + +
199A TYR* 1.3 90.0 + - + +
200A GLY 3.7 0.4 - - - -
221A GLU* 2.7 31.0 + - - +
224A GLU* 5.9 2.4 - - - +
225A LEU* 4.6 8.6 - - + +
228A GLU* 6.0 2.0 + - - +
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Residues in contact with TYR 199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195A ILE* 2.7 31.5 + - + +
198A LYS* 1.3 101.7 - - + +
200A GLY* 1.3 57.4 + - - +
202A ASP* 3.3 15.9 - - - +
203A ALA* 3.7 17.7 - - + +
214A PRO* 4.8 2.2 - - + -
215A ASN* 3.9 25.1 + - - +
216A ILE* 3.5 26.1 - - + +
221A GLU* 2.4 40.7 + - - +
225A LEU* 4.2 11.9 - - + -
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Residues in contact with GLY 200 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196A LYS* 2.7 37.9 + - - -
198A LYS 3.7 1.0 - - - -
199A TYR* 1.3 76.7 - - - +
201A LYS* 1.3 65.6 + - - -
202A ASP* 3.4 4.0 - - - -
203A ALA* 3.4 11.3 + - - +
204A THR* 4.1 1.2 - - - +
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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