Contacts of the helix formed by residues 197 - 234 (chain A) in PDB entry 5AZS
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 THR 197 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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191A ARG* 4.6 0.7 - - - +
195A ALA 3.8 1.8 + - - -
196A ALA* 1.3 79.7 - - - +
198A ALA* 1.3 65.8 + - - +
199A LEU* 3.7 18.4 - - + +
200A ASP* 3.4 30.6 + - - +
201A TYR* 3.4 18.5 + - - +
399C ARG* 3.2 33.1 + - - +
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Residues in contact with ALA 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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191A ARG* 4.9 17.0 - - + +
196A ALA 3.8 1.4 + - - -
197A THR* 1.3 74.3 - - + +
199A LEU* 1.3 60.9 + - - +
201A TYR* 3.3 10.6 + - + +
202A GLN* 3.1 31.0 + - - +
395C LEU* 3.6 20.6 - - + -
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Residues in contact with LEU 199 (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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197A THR* 3.7 12.2 - - + +
198A ALA* 1.3 76.2 - - - +
200A ASP* 1.3 59.6 + - - +
202A GLN* 3.3 1.7 + - - +
203A GLU* 2.9 53.5 + - + +
392C ALA* 3.3 38.6 - - + +
395C LEU* 3.4 16.7 - - + +
396C ALA* 3.9 20.0 - - + +
399C ARG* 3.7 17.3 - - - +
409C ARG* 3.2 37.9 - - - +
413C ALA* 6.1 0.4 - - + -
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Residues in contact with ASP 200 (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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187A ILE* 4.2 9.4 - - + +
196A ALA* 5.5 1.3 - - + -
197A THR* 3.4 33.8 + - - +
198A ALA 3.3 0.4 - - - -
199A LEU* 1.3 73.5 - - - +
201A TYR* 1.3 57.7 + - - +
203A GLU* 3.5 9.4 + - - +
204A ALA* 3.0 29.8 + - - +
400A TYR* 3.2 27.8 + - - +
407A HIS* 3.3 26.6 + - + +
409C ARG* 2.8 26.5 + - - -
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Residues in contact with TYR 201 (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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184A PHE* 3.3 47.4 - + - -
187A ILE* 3.7 16.3 - - + +
188A ASP* 3.4 42.1 + - + -
191A ARG* 5.2 9.9 - - + -
197A THR 3.4 11.2 + - - +
198A ALA* 3.3 13.9 + - + +
199A LEU 3.3 0.4 - - - -
200A ASP* 1.3 78.7 - - - +
202A GLN* 1.3 82.1 + - - +
204A ALA* 3.4 1.2 + - - +
205A LEU* 3.0 29.7 + - + +
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Residues in contact with GLN 202 (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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198A ALA* 3.1 17.2 + - + +
199A LEU 3.8 3.6 - - - +
201A TYR* 1.3 93.5 - - - +
203A GLU* 1.3 60.7 + - - +
205A LEU* 3.0 15.3 + - - +
206A GLY* 2.8 28.2 + - - -
388C SER* 3.5 31.0 - - - +
391C GLU* 4.1 19.2 - - + +
392C ALA* 3.8 26.7 - - + +
395C LEU* 4.2 13.9 - - + -
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Residues in contact with GLU 203 (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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199A LEU* 2.9 37.6 + - + +
200A ASP* 3.7 3.7 - - - +
202A GLN* 1.3 74.5 - - - +
204A ALA* 1.3 59.5 + - - +
206A GLY* 3.8 2.4 + - - +
207A LEU* 3.3 15.9 + - - +
407A HIS* 2.7 36.9 + - + +
408A LEU* 5.3 2.3 - - - +
411A LEU* 3.3 40.3 - - + +
392C ALA* 4.7 6.0 - - + +
409C ARG* 3.3 40.0 + - - +
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Residues in contact with ALA 204 (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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180A ARG 5.0 0.5 - - - +
183A SER* 5.2 2.2 - - - +
184A PHE* 3.7 23.1 - - + -
187A ILE* 4.5 19.3 - - + -
200A ASP 3.0 17.2 + - - +
201A TYR 3.7 2.0 - - - +
203A GLU* 1.3 73.7 - - - +
205A LEU* 1.3 64.2 + - - +
207A LEU* 3.4 9.4 - - - +
208A VAL* 3.3 25.5 + - - +
407A HIS* 4.2 9.6 - - - +
414A GLN* 5.9 1.3 - - - -
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Residues in contact with LEU 205 (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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184A PHE* 3.6 29.6 - - + -
201A TYR* 3.0 24.9 + - + +
202A GLN* 3.0 25.0 + - - +
204A ALA* 1.3 73.5 - - - +
206A GLY* 1.3 59.7 + - - +
208A VAL* 2.9 26.7 + - + +
209A GLU* 3.0 30.8 + - + +
384C ALA* 6.5 0.7 - - + -
388C SER* 3.3 22.4 - - - +
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Residues in contact with GLY 206 (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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202A GLN 2.8 17.7 + - - -
203A GLU* 4.1 2.9 - - - -
205A LEU* 1.3 72.3 - - - +
207A LEU* 1.3 62.7 + - - +
209A GLU* 4.7 2.0 - - - -
210A GLN* 3.2 17.3 + - - +
385C LEU* 3.1 35.3 - - - +
388C SER* 4.3 10.2 - - - -
389C SER* 5.8 0.7 - - - -
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Residues in contact with LEU 207 (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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180A ARG* 3.1 74.1 + - + +
203A GLU 3.3 9.1 + - - +
204A ALA* 3.4 13.5 - - - +
205A LEU 3.1 0.2 - - - -
206A GLY* 1.3 75.3 - - - +
208A VAL* 1.3 65.0 + - - +
210A GLN* 3.5 11.3 + - - +
211A ALA 3.3 7.4 + - - -
411A LEU* 3.2 35.9 - - + +
414A GLN* 3.7 30.3 - - + +
415A ARG* 4.4 19.5 - - + +
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Residues in contact with VAL 208 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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177A LEU* 3.7 2.9 - - + +
180A ARG* 3.2 40.8 - - + +
181A GLU* 4.1 14.4 - - + +
184A PHE* 3.9 15.0 - - + -
204A ALA 3.5 12.6 - - - +
205A LEU* 2.9 16.4 + - + +
207A LEU* 1.3 72.3 - - - +
209A GLU* 1.3 68.3 + - + +
211A ALA* 3.3 7.2 + - - +
212A ARG* 3.1 54.4 + - - +
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Residues in contact with GLU 209 (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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205A LEU* 3.0 35.6 + - + +
206A GLY 4.1 1.1 - - - +
208A VAL* 1.3 77.1 - - - +
210A GLN* 1.3 65.6 + - - +
212A ARG* 3.0 22.9 + - - +
213A ALA* 2.8 26.0 + - - +
381C ALA* 3.6 34.3 - - - +
384C ALA* 3.5 27.4 - - + +
385C LEU* 3.8 18.4 - - + +
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Residues in contact with GLN 210 (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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180A ARG* 4.2 13.4 - - - +
206A GLY 3.2 18.8 + - - +
207A LEU* 3.5 22.7 - - - +
208A VAL 3.4 0.2 - - - -
209A GLU* 1.3 75.7 - - - +
211A ALA* 1.3 57.4 + - - +
213A ALA* 3.3 4.2 + - - +
214A GLU* 2.8 31.6 + - - +
415A ARG* 4.5 26.9 + - - +
418A PHE* 5.4 7.8 - - + -
385C LEU* 3.6 26.7 - - + +
416C SER* 5.3 4.9 + - - -
420C ASN* 5.3 4.3 + - - +
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Residues in contact with ALA 211 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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173A THR* 3.3 16.3 - - + +
176A THR* 4.7 2.9 - - + -
177A LEU* 3.6 27.4 - - + +
180A ARG* 3.9 22.6 - - - +
207A LEU 3.3 8.7 + - - +
208A VAL 3.3 10.2 + - - +
209A GLU 3.2 0.6 - - - -
210A GLN* 1.3 80.9 - - - +
212A ARG* 1.3 55.7 + - - +
214A GLU* 4.5 4.3 - - - -
215A GLN* 3.0 24.1 + - - +
418A PHE* 4.8 3.4 - - + -
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Residues in contact with ARG 212 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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177A LEU* 3.7 15.1 - - + +
181A GLU* 3.5 27.1 + - - +
208A VAL* 3.1 37.1 + - - +
209A GLU* 3.0 22.2 + - - +
211A ALA* 1.3 75.9 - - - +
213A ALA* 1.3 62.8 + - - +
215A GLN* 3.3 13.0 + - - +
216A GLU* 3.2 28.7 + - + +
381C ALA* 4.1 13.7 - - + -
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Residues in contact with ALA 213 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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209A GLU 2.8 15.6 + - - +
210A GLN* 3.7 6.1 - - - +
212A ARG* 1.3 75.3 - - - +
214A GLU* 1.3 63.6 + - - +
216A GLU* 3.4 6.1 + - - +
217A ARG* 3.2 25.2 + - - +
378C GLU* 3.6 24.3 - - + +
381C ALA* 3.9 15.8 - - + +
382C LEU* 4.3 20.0 - - + +
385C LEU* 5.7 1.8 - - + -
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Residues in contact with GLU 214 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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169A ARG* 5.6 0.5 + - - -
173A THR* 3.9 9.0 - - + +
210A GLN 2.8 20.9 + - - +
211A ALA 4.0 3.4 - - - +
213A ALA* 1.3 70.2 - - - +
215A GLN* 1.3 60.3 + - - +
217A ARG* 3.2 35.5 + - - +
218A ASN* 2.9 58.3 + - - +
221A GLN* 5.4 0.9 + - - -
418A PHE* 4.0 22.0 - - + -
422A ILE* 4.3 20.4 - - + +
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Residues in contact with GLN 215 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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170A LEU* 3.9 5.4 - - + +
173A THR* 3.5 16.9 - - + +
174A ARG* 2.9 43.2 + - - +
177A LEU* 3.8 19.4 - - - +
211A ALA 3.0 19.0 + - - +
212A ARG* 3.3 12.2 + - - +
214A GLU* 1.3 74.8 - - - +
216A GLU* 1.3 71.1 + - - +
218A ASN* 3.2 5.7 + - - +
219A LEU* 2.8 44.6 + - + +
377C ARG* 5.0 1.8 - - - +
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Residues in contact with GLU 216 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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212A ARG* 3.2 14.1 + - + +
213A ALA 3.6 6.5 - - - +
215A GLN* 1.3 94.5 + - - +
217A ARG* 1.3 56.5 + - - +
219A LEU* 3.3 8.3 + - - +
220A ARG* 3.0 31.4 + - - +
374C THR* 3.4 29.8 - - - +
377C ARG* 2.6 54.2 + - + +
378C GLU* 3.5 27.4 - - + +
381C ALA* 5.7 0.2 - - + -
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Residues in contact with ARG 217 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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213A ALA* 3.2 18.0 + - - +
214A GLU* 3.2 35.2 + - - +
216A GLU* 1.3 79.6 - - - +
218A ASN* 1.3 61.7 + - - +
220A ARG* 3.4 30.0 + - - +
221A GLN* 3.1 49.4 + - + +
378C GLU* 2.9 29.9 + - - +
382C LEU* 5.5 5.1 - - - +
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Residues in contact with ASN 218 (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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166A ALA* 4.3 4.7 - - - +
169A ARG* 3.2 24.7 - - + +
170A LEU* 4.0 22.4 - - + +
173A THR* 2.9 28.1 + - - -
214A GLU* 2.9 41.6 + - - +
215A GLN* 3.2 4.7 + - - +
217A ARG* 1.3 77.5 - - - +
219A LEU* 1.3 60.5 + - - +
221A GLN* 3.4 21.1 + - - +
222A LYS* 3.0 29.5 + - - +
422A ILE* 5.6 0.7 - - - +
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Residues in contact with LEU 219 (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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170A LEU* 3.6 29.6 - - + +
174A ARG* 4.1 9.9 - - - +
215A GLN* 2.8 38.9 + - + +
216A GLU* 3.6 10.1 - - - +
218A ASN* 1.3 68.8 - - - +
220A ARG* 1.3 65.8 + - - +
222A LYS* 3.6 12.6 - - + +
223A GLN* 3.2 27.5 + - - +
374C THR* 4.1 9.7 - - + +
377C ARG* 3.7 29.8 - - - +
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Residues in contact with ARG 220 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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216A GLU 3.0 9.3 + - - +
217A ARG* 3.5 40.5 + - - +
219A LEU* 1.3 74.2 - - - +
221A GLN* 1.3 61.6 + - + +
223A GLN* 3.2 3.7 + - - +
224A GLN* 2.9 63.2 + - + +
370C ALA* 4.8 3.8 - - - +
371C ALA* 3.9 17.9 - - - +
374C THR* 3.5 31.0 + - - +
375C LEU* 3.9 19.6 - - - +
378C GLU* 2.8 30.2 + - - -
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Residues in contact with GLN 221 (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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162A SER 5.4 0.2 - - - +
166A ALA* 4.0 10.3 - - + +
169A ARG* 3.9 27.9 + - - +
214A GLU* 5.4 0.6 + - - -
217A ARG* 3.1 40.7 + - + +
218A ASN* 3.4 23.1 + - - +
219A LEU 3.5 0.2 - - - -
220A ARG* 1.3 79.5 - - + +
222A LYS* 1.3 62.9 + - - +
224A GLN* 4.0 8.5 - - - +
225A ALA* 3.0 26.2 + - - +
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Residues in contact with LYS 222 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163A TYR* 3.8 17.5 - - + -
166A ALA* 3.5 17.6 - - + +
167A LEU* 3.6 36.3 - - + -
170A LEU* 4.0 18.4 - - + -
218A ASN 3.0 19.1 + - - +
219A LEU* 3.6 13.4 - - + +
221A GLN* 1.3 77.0 - - - +
223A GLN* 1.3 78.8 + - - +
225A ALA* 3.3 5.0 + - - +
226A PHE* 2.9 30.0 + - - +
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Residues in contact with GLN 223 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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219A LEU* 3.2 16.5 + - - +
220A ARG 4.1 1.1 - - - +
222A LYS* 1.3 91.8 + - - +
224A GLN* 1.3 55.6 + - - +
226A PHE* 3.1 15.0 + - + +
227A ASN* 2.8 56.2 + - - +
19C SER* 5.5 11.3 + - - -
370C ALA* 4.3 21.0 - - + +
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Residues in contact with GLN 224 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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220A ARG* 2.9 48.7 + - + +
221A GLN* 4.1 8.0 - - - +
223A GLN* 1.3 76.0 - - - +
225A ALA* 1.3 57.1 + - - +
228A ALA* 3.1 27.7 + - - +
363C ARG* 5.5 0.3 + - - -
367C ASP* 3.6 54.9 + - + +
370C ALA* 5.0 3.4 - - + -
371C ALA* 4.2 5.5 - - - +
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Residues in contact with ALA 225 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159A ALA* 4.3 5.6 - - - +
162A SER* 3.8 13.5 - - - +
163A TYR* 3.7 35.4 - - + +
221A GLN 3.0 20.5 + - - +
222A LYS 3.5 4.0 - - - +
224A GLN* 1.3 75.5 - - - +
226A PHE* 1.3 63.3 - - - +
228A ALA* 3.5 6.5 + - - +
229A LEU* 3.1 23.0 + - - +
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Residues in contact with PHE 226 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163A TYR* 3.7 32.5 - + + -
222A LYS* 2.9 19.9 + - - +
223A GLN* 3.1 20.4 + - + +
225A ALA* 1.3 75.8 - - - +
227A ASN* 1.3 70.5 + - - +
229A LEU* 3.3 6.5 + - - +
230A VAL* 3.0 42.2 + - + +
239A ALA* 3.8 33.0 - - + -
242A ILE* 3.6 32.5 - - + -
243A PRO 6.5 0.2 - - - -
244A ARG* 5.9 6.5 - - + -
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Residues in contact with ASN 227 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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223A GLN* 2.8 38.2 + - - +
224A GLN* 3.9 1.0 - - - +
226A PHE* 1.3 83.5 - - - +
228A ALA* 1.3 59.7 + - - +
230A VAL* 3.1 9.2 + - - +
231A LEU* 3.0 28.8 + - - +
362C PHE* 5.8 3.4 - - + -
363C ARG* 4.2 11.5 - - + +
366C ALA* 3.6 33.2 - - + +
367C ASP* 3.0 30.7 + - - +
370C ALA* 4.7 1.0 - - - +
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Residues in contact with ALA 228 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159A ALA* 5.0 9.0 - - + -
224A GLN 3.1 16.5 + - - +
225A ALA* 3.7 7.9 - - - +
227A ASN* 1.3 77.9 - - - +
229A LEU* 1.3 60.4 + - - +
231A LEU* 3.5 3.6 - - - +
232A LEU* 3.1 31.7 + - + +
363C ARG* 4.1 34.4 + - - +
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Residues in contact with LEU 229 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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47A LEU* 3.6 26.5 - - + -
156A VAL* 3.6 14.6 - - + +
159A ALA* 3.3 32.8 - - + +
160A TYR* 3.5 26.9 - - + +
163A TYR* 5.5 4.9 - - + -
225A ALA 3.1 11.5 + - - +
226A PHE* 3.4 9.6 - - - +
228A ALA* 1.3 75.0 - - - +
230A VAL* 1.3 65.3 + - - +
232A LEU* 3.0 6.1 + - + +
233A LEU* 2.9 36.6 + - + +
242A ILE* 3.5 28.7 - - + -
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Residues in contact with VAL 230 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
226A PHE* 3.0 43.5 + - + +
227A ASN* 3.1 11.6 + - - +
229A LEU* 1.3 73.7 - - - +
231A LEU* 1.3 64.3 + - - +
234A GLY* 3.2 15.6 + - - -
235A SER 4.6 4.8 - - - +
238A ALA* 3.7 20.6 - - + +
239A ALA* 3.9 20.2 - - + +
242A ILE* 3.9 12.6 - - + -
14C VAL* 5.5 5.8 - - + -
362C PHE* 5.0 20.2 - - + -
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Residues in contact with LEU 231 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A ASN* 4.5 5.3 - - - +
227A ASN 3.0 12.6 + - - +
228A ALA 3.5 9.4 - - - +
230A VAL* 1.3 76.1 - - - +
232A LEU* 1.3 64.5 + - + +
234A GLY* 2.7 28.8 + - - -
356C GLY 4.8 0.2 - - - +
359C GLN* 3.3 50.9 + - + +
360C THR* 3.4 20.0 - - + +
363C ARG* 3.6 39.7 - - + +
----------------------------------------------------------
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Residues in contact with LEU 232 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A ALA* 3.3 15.6 - - - +
55A ASN* 3.5 27.6 - - - +
152A LEU* 4.2 14.7 - - + +
155A GLU* 3.6 48.7 - - + +
156A VAL* 3.9 17.9 - - + +
159A ALA* 4.4 9.9 - - + -
228A ALA* 3.1 17.3 + - + +
229A LEU* 3.0 6.5 + - - +
231A LEU* 1.3 88.0 - - + +
233A LEU* 1.3 62.7 + - + +
363C ARG* 6.4 0.2 - - - +
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Residues in contact with LEU 233 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A LEU* 3.9 49.1 - - + +
50A MET* 3.6 26.7 - - + +
51A ALA* 3.6 15.8 - - + +
54A ASN* 3.3 21.0 - - - +
55A ASN 4.6 0.2 - - - -
156A VAL* 4.6 6.1 - - + -
229A LEU* 2.9 30.4 + - + +
232A LEU* 1.3 79.4 - - + +
234A GLY* 1.3 62.3 + - - +
235A SER 3.2 1.7 + - - +
238A ALA* 3.4 40.2 - - + +
241A ALA* 4.2 1.3 - - + -
242A ILE* 4.4 5.6 - - + -
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Residues in contact with GLY 234 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A ASN* 4.0 18.2 + - - +
55A ASN* 4.9 1.1 - - - -
56A ARG* 4.1 10.0 + - - -
230A VAL 3.2 7.0 + - - -
231A LEU 2.7 21.3 + - - -
232A LEU 4.5 0.4 - - - -
233A LEU* 1.3 72.7 - - - +
235A SER* 1.3 60.5 + - - +
236A ASP 4.1 0.5 + - - -
13C PRO* 4.5 0.7 - - - +
359C GLN* 2.9 34.4 + - - +
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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