Contacts of the helix formed by residues 202 - 239 (chain A) in PDB entry 3D5K
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 202 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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196A TYR* 3.4 10.2 - - - -
200A VAL 3.9 1.2 + - - -
201A ALA* 1.3 77.1 - - - +
203A ALA* 1.3 63.7 + - - +
204A LEU* 3.6 11.7 + - - +
205A ASP* 2.7 46.5 + - - +
206A LEU* 3.4 9.7 + - - +
403B ARG* 5.4 11.6 - - - -
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Residues in contact with ALA 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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196A TYR* 3.5 25.7 - - + +
202A SER* 1.3 75.3 - - - +
204A LEU* 1.3 60.1 + - - +
206A LEU* 3.5 4.9 + - - +
207A ARG* 3.3 30.2 + - + +
399B LEU* 3.8 23.6 - - + -
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Residues in contact with LEU 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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202A SER* 3.2 10.5 + - - +
203A ALA* 1.3 76.5 - - - +
205A ASP* 1.3 67.0 + - - +
207A ARG* 3.4 2.6 + - - +
208A GLN* 3.0 39.6 + - - +
396B TYR* 3.7 31.1 - - + +
399B LEU* 3.9 13.8 - - + +
400B ALA* 3.8 28.3 - - + +
403B ARG* 3.4 35.4 - - - +
409B ASP* 3.7 10.8 - - - +
413B THR* 4.0 13.0 - - + -
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Residues in contact with ASP 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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192A THR* 4.0 8.6 - - + +
200A VAL 4.8 1.0 - - - +
201A ALA* 3.7 2.1 - - - -
202A SER* 2.7 39.1 + - - +
204A LEU* 1.3 79.4 - - - +
206A LEU* 1.3 59.1 + - - +
208A GLN* 3.5 11.2 + - - +
209A ALA* 3.1 26.5 + - - +
404A TYR* 3.3 31.7 + - + +
410A ASN* 5.3 2.6 - - - +
411A TYR* 3.5 26.7 + - + +
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Residues in contact with LEU 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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189A PHE* 3.5 19.5 - - + -
192A THR* 3.9 13.9 - - + +
193A GLN* 3.4 54.7 - - - +
196A TYR* 4.0 29.6 - - + -
202A SER 3.4 9.9 + - - +
203A ALA* 3.8 9.2 - - - +
204A LEU 3.2 0.6 - - - -
205A ASP* 1.3 77.8 - - - +
207A ARG* 1.3 67.4 + - + +
209A ALA* 3.4 3.3 + - - +
210A GLN* 2.9 27.6 + - - +
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Residues in contact with ARG 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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203A ALA* 3.3 18.8 + - - +
204A LEU* 3.4 3.3 + - - +
206A LEU* 1.3 81.6 - - + +
208A GLN* 1.3 60.9 + - - +
210A GLN* 3.0 33.6 + - - +
211A THR* 3.0 34.4 + - - +
391B LYS* 4.3 16.2 - - - +
392B ALA* 4.4 7.0 - - - +
395B GLU* 4.0 35.2 + - + +
396B TYR* 4.2 20.4 - - + +
399B LEU* 3.8 15.7 - - + +
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Residues in contact with GLN 208 (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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204A LEU* 3.0 34.7 + - - +
205A ASP* 3.5 9.3 + - - +
207A ARG* 1.3 76.0 - - - +
209A ALA* 1.3 62.7 + - - +
211A THR* 2.7 26.0 + - - -
212A ALA 3.5 1.2 + - - -
411A TYR* 3.7 27.2 - - + +
412A LEU* 3.8 30.1 + - - +
415A LEU* 3.4 20.6 - - + +
396B TYR* 3.3 44.8 + - + -
413B THR* 4.0 9.1 - - - +
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Residues in contact with ALA 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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185A TYR 5.0 0.9 - - - +
189A PHE* 3.7 26.3 - - + +
192A THR* 4.4 5.6 - - - +
205A ASP 3.1 16.3 + - - +
206A LEU* 3.5 9.0 - - - +
207A ARG 3.3 0.2 - - - -
208A GLN* 1.3 79.0 - - - +
210A GLN* 1.3 61.8 + - - +
212A ALA* 3.6 5.5 - - - +
213A VAL* 3.5 22.7 + - - +
411A TYR* 3.4 31.1 + - + +
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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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189A PHE* 3.7 22.1 - - + -
206A LEU* 2.9 14.9 + - - +
207A ARG* 3.0 44.8 + - - +
208A GLN 3.2 0.4 - - - -
209A ALA* 1.3 74.9 - - - +
211A THR* 1.3 66.2 + - - +
213A VAL* 2.9 16.4 + - + +
214A GLU* 3.1 36.4 + - - +
388B ASP* 4.6 4.8 + - - +
391B LYS* 5.2 9.1 - - - +
392B ALA* 3.7 20.4 - - + +
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Residues in contact with THR 211 (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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207A ARG 3.0 19.8 + - - +
208A GLN* 2.7 22.3 + - - -
210A GLN* 1.3 75.8 - - - +
212A ALA* 1.3 56.0 + - - +
214A GLU* 3.4 1.8 + - - -
215A GLY* 2.9 26.9 + - - -
415A LEU* 4.4 8.8 - - - +
389B LEU* 3.4 21.8 - - + +
392B ALA* 3.9 25.4 - - + +
393B SER* 3.8 21.3 - - - +
396B TYR* 4.4 13.1 - - + -
420B SER* 6.1 2.7 - - - -
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Residues in contact with ALA 212 (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 TYR* 3.4 31.7 - - + -
208A GLN 3.5 0.4 + - - -
209A ALA* 3.6 11.2 - - - +
210A GLN 3.2 0.4 - - - -
211A THR* 1.3 81.7 + - - +
213A VAL* 1.3 56.7 + - - +
215A GLY* 3.4 1.8 + - - -
216A ALA 3.0 22.7 + - - -
411A TYR* 5.3 0.7 - - - +
415A LEU* 3.9 23.8 - - + -
418A GLN* 4.1 10.8 - - + +
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Residues in contact with VAL 213 (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 LEU* 3.6 9.8 - - + +
185A TYR* 3.6 38.8 - - + +
186A GLN* 4.0 8.5 - - + +
189A PHE* 4.0 14.1 - - + -
209A ALA 3.5 12.3 + - - +
210A GLN* 2.9 10.5 + - + +
212A ALA* 1.3 76.4 - - - +
214A GLU* 1.3 63.0 + - + +
216A ALA* 3.3 2.3 + - - -
217A ARG* 2.9 62.7 + - - +
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Residues in contact with GLU 214 (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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210A GLN* 3.1 40.7 + - + +
211A THR* 3.8 3.6 - - - +
213A VAL* 1.3 76.0 - - - +
215A GLY* 1.3 64.4 + - - +
217A ARG* 3.4 31.5 + - - +
218A ALA* 3.2 19.4 + - - +
385B ALA* 3.7 26.1 - - - +
388B ASP* 3.7 28.4 - - - +
389B LEU* 3.7 22.8 - - - +
392B ALA* 4.9 0.2 - - + -
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Residues in contact with GLY 215 (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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211A THR 2.9 17.6 + - - -
212A ALA* 3.8 1.8 - - - -
214A GLU* 1.3 77.4 - - - +
216A ALA* 1.3 60.5 + - - +
218A ALA* 3.4 6.4 + - - +
219A THR* 3.2 24.0 + - - -
422A PHE* 6.1 0.2 - - - -
389B LEU* 4.2 17.2 - - - +
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Residues in contact with ALA 216 (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 THR* 3.5 14.8 - - + +
181A THR* 5.1 0.7 - - + -
182A LEU* 3.8 23.0 - - + +
185A TYR* 3.7 24.4 - - + -
212A ALA 3.0 17.4 + - - +
213A VAL 3.7 4.5 - - - +
215A GLY* 1.3 72.9 - - - +
217A ARG* 1.3 62.8 + - - +
219A THR* 3.6 4.9 + - - -
220A LEU* 3.2 19.4 + - - +
422A PHE* 5.0 9.0 - - + -
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Residues in contact with ARG 217 (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 LEU* 4.0 17.5 - - + +
186A GLN* 2.8 34.6 + - - +
213A VAL* 2.9 36.4 + - - +
214A GLU* 3.5 28.5 + - - +
215A GLY 3.2 0.4 - - - -
216A ALA* 1.3 76.9 - - - +
218A ALA* 1.3 61.2 + - - +
220A LEU* 3.6 10.0 - - + +
221A ALA* 3.4 20.3 + - - +
381B GLU 5.2 0.8 - - - +
385B ALA* 3.8 15.8 - - + +
388B ASP* 5.9 0.4 + - - -
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Residues in contact with ALA 218 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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214A GLU 3.2 15.5 + - - +
215A GLY* 3.8 6.1 - - - +
216A ALA 3.3 0.2 - - - -
217A ARG* 1.3 76.7 - - - +
219A THR* 1.3 63.0 + - - +
221A ALA* 3.6 1.0 + - - +
222A GLN* 3.3 19.1 + - - +
382B GLN* 3.5 29.0 + - + +
385B ALA* 3.6 14.3 - - + +
386B GLN* 4.0 22.0 - - - +
389B LEU* 5.9 0.2 - - + -
431B ASP* 5.6 0.4 - - - +
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Residues in contact with THR 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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178A THR* 4.1 10.3 - - + +
215A GLY 3.2 13.0 + - - -
216A ALA* 3.6 9.5 + - - -
218A ALA* 1.3 76.1 - - - +
220A LEU* 1.3 60.3 + - - +
222A GLN* 3.3 15.9 + - - +
223A TYR* 2.9 57.6 + - + -
422A PHE* 4.4 12.7 - - + -
426A GLN* 4.4 9.2 - - - +
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Residues in contact with LEU 220 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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175A LEU* 3.6 27.9 - - + +
178A THR* 3.6 9.1 - - + +
179A LYS* 3.6 39.0 - - + +
182A LEU* 3.7 26.9 - - + -
216A ALA 3.2 15.2 + - - +
217A ARG* 3.6 12.3 - - + +
219A THR* 1.3 75.4 - - - +
221A ALA* 1.3 58.3 + - - +
223A TYR 3.4 0.9 + - - -
224A THR* 2.8 36.9 + - - +
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Residues in contact with ALA 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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217A ARG 3.4 9.5 + - - +
218A ALA 3.9 3.4 - - - +
219A THR 3.4 0.4 - - - -
220A LEU* 1.3 78.6 - - - +
222A GLN* 1.3 62.4 + - - +
224A THR* 3.6 7.5 + - - -
225A ARG* 3.2 16.6 + - - +
378B THR* 3.6 33.9 - - - +
381B GLU* 4.3 9.2 - - + -
382B GLN* 3.8 26.5 - - + +
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Residues in contact with GLN 222 (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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218A ALA 3.3 12.9 + - - +
219A THR* 3.5 23.7 - - - +
220A LEU 3.3 0.4 - - - -
221A ALA* 1.3 78.9 - - - +
223A TYR* 1.3 81.4 + - - +
225A ARG* 3.2 21.3 + - - +
226A LEU* 2.9 41.3 + - + +
382B GLN* 3.7 22.4 + - - +
427B GLN* 5.9 1.4 + - - -
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Residues in contact with TYR 223 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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171A ASP* 4.5 9.2 - - - +
174A GLN* 3.4 52.5 + - + -
175A LEU* 3.9 23.1 - - + +
178A THR* 3.3 22.7 - - - -
219A THR* 2.9 38.7 + - + +
222A GLN* 1.3 84.4 + - - +
224A THR* 1.3 59.2 + - - +
226A LEU* 3.7 23.5 - - + +
227A VAL* 2.9 34.8 + - - +
426A GLN* 2.8 24.7 + - + +
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Residues in contact with THR 224 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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175A LEU* 3.4 18.7 - - - +
220A LEU* 2.8 27.0 + - - +
221A ALA* 3.6 9.3 - - - -
223A TYR* 1.3 76.6 - - - +
225A ARG* 1.3 59.5 + - - +
227A VAL* 3.9 2.8 - - - +
228A ALA* 3.3 15.4 + - - +
22B GLN* 3.5 39.5 + - + +
23B ALA* 3.5 22.0 - - + +
378B THR* 4.0 4.5 - - + -
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Residues in contact with ARG 225 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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221A ALA 3.2 5.3 + - - +
222A GLN* 3.2 25.1 + - - +
224A THR* 1.3 75.7 - - - +
226A LEU* 1.3 65.1 + - + +
228A ALA* 3.1 3.7 + - - +
229A GLN* 2.8 54.3 + - + +
23B ALA* 4.3 4.3 - - - -
374B ALA 4.0 4.7 - - - +
375B ALA* 3.7 18.2 - - - +
378B THR* 3.2 46.0 + - - +
379B PHE* 3.5 33.4 - - - -
382B GLN* 2.7 37.2 + - - +
434B ASN* 6.1 0.6 - - - +
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Residues in contact with LEU 226 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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171A ASP* 3.6 19.7 - - - +
222A GLN* 2.9 32.4 + - + +
223A TYR* 3.7 33.9 - - + +
225A ARG* 1.3 82.5 - - + +
227A VAL* 1.3 56.4 + - - +
229A GLN* 3.9 15.8 - - + +
230A ASP* 2.9 37.5 + - - +
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Residues in contact with VAL 227 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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168A LEU* 3.4 20.3 - - + +
171A ASP* 3.3 36.1 - - + +
172A GLN* 3.8 18.6 - - + +
175A LEU* 4.1 17.7 - - + -
223A TYR 2.9 21.4 + - - +
224A THR 3.9 4.3 - - - +
226A LEU* 1.3 74.3 - - - +
228A ALA* 1.3 65.1 + - - +
230A ASP* 3.3 5.4 + - - -
231A GLN* 3.0 33.2 + - - +
22B GLN* 5.8 1.3 - - - +
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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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224A THR 3.3 3.0 + - - +
225A ARG 3.1 8.6 + - - +
227A VAL* 1.3 79.1 - - - +
229A GLN* 1.3 57.1 + - - +
231A GLN* 3.1 17.1 + - - +
232A ASN* 3.1 31.5 + - - +
23B ALA* 3.5 31.0 - - + -
24B TYR* 3.7 20.8 + - + +
374B ALA* 3.7 6.5 - - + -
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Residues in contact with GLN 229 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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225A ARG* 2.8 48.1 + - - +
226A LEU* 4.2 15.5 - - + +
228A ALA* 1.3 71.7 - - - +
230A ASP* 1.3 59.3 + - - +
232A ASN* 3.6 2.4 - - - +
233A ALA* 3.0 27.5 + - - +
371B ASP* 2.8 56.3 + - - +
374B ALA* 3.8 11.9 - - + -
375B ALA* 4.2 3.8 - - - +
438B SER* 5.4 2.4 + - - -
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Residues in contact with ASP 230 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164A ALA* 4.8 4.4 - - - +
167A THR* 3.6 24.3 - - - +
168A LEU* 3.9 24.1 - - + +
171A ASP* 2.4 37.2 - - - +
226A LEU* 2.9 23.1 + - - +
227A VAL* 3.6 4.9 - - - +
229A GLN* 1.3 76.3 - - - +
231A GLN* 1.3 62.3 + - - +
233A ALA* 3.6 7.4 + - - +
234A LEU* 3.3 20.8 + - - +
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Residues in contact with GLN 231 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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168A LEU* 3.7 24.1 - - + +
172A GLN* 4.7 8.1 - - - +
227A VAL* 3.0 29.5 + - - +
228A ALA* 3.3 19.0 - - - +
230A ASP* 1.3 74.2 - - - +
232A ASN* 1.3 61.7 + - - +
234A LEU* 3.1 5.3 + - - +
235A VAL* 3.0 34.8 + - + +
242A ILE* 4.4 12.1 - - + +
19B PRO* 6.1 0.3 - - - +
24B TYR* 5.0 6.8 + - - -
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Residues in contact with ASN 232 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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228A ALA 3.1 11.0 + - - +
229A GLN* 3.6 3.5 - - - +
230A ASP 3.3 0.2 - - - -
231A GLN* 1.3 80.3 - - - +
233A ALA* 1.3 59.3 + - - +
235A VAL* 3.6 8.9 + - - +
236A LEU* 3.3 16.3 + - - +
19B PRO* 3.9 10.0 - - - +
24B TYR* 2.7 27.8 + - - -
366B PHE* 5.6 1.6 - - - -
367B GLN* 3.5 22.5 - - + +
370B ALA* 3.5 24.3 + - + +
371B ASP* 2.9 36.3 + - - +
374B ALA* 4.6 0.4 - - - +
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Residues in contact with ALA 233 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164A ALA* 5.1 4.9 - - + -
229A GLN 3.0 16.3 + - - +
230A ASP* 4.0 9.9 - - - +
231A GLN 3.3 0.2 - - - -
232A ASN* 1.3 75.9 - - - +
234A LEU* 1.3 62.3 + - - +
236A LEU* 3.7 5.3 + - - +
237A LEU* 3.5 27.4 + - + +
367B GLN* 4.4 13.2 - - + +
371B ASP* 5.8 0.2 - - - +
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Residues in contact with LEU 234 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A LEU* 4.4 17.9 - - + -
161A VAL* 4.1 19.3 - - + +
164A ALA* 3.8 28.0 - - + +
165A TYR* 4.1 13.7 - - + +
168A LEU* 4.2 16.4 - - + -
230A ASP 3.3 13.1 + - - +
231A GLN 3.1 9.2 + - - +
233A ALA* 1.3 75.0 - - - +
235A VAL* 1.3 60.0 + - - +
237A LEU* 3.1 7.3 + - + +
238A LEU* 2.9 50.2 + - + +
242A ILE* 3.8 24.9 - - + -
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Residues in contact with VAL 235 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231A GLN* 3.0 22.5 + - + +
232A ASN* 4.0 9.2 - - - +
233A ALA 3.5 0.2 - - - -
234A LEU* 1.3 73.6 - - - +
236A LEU* 1.3 63.4 + - - +
238A LEU* 3.3 2.6 + - - -
239A GLY* 3.1 18.0 + - - -
240A SER 3.3 30.3 + - - +
241A GLY* 4.0 4.9 - - - -
242A ILE* 4.1 27.8 - - + +
363B GLN* 5.8 0.3 - - - -
366B PHE* 5.7 11.0 - - + -
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Residues in contact with LEU 236 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A ASN* 4.2 5.5 + - - -
232A ASN 3.3 12.2 + - - +
233A ALA* 3.8 9.9 - - - +
234A LEU 3.2 0.8 - - - -
235A VAL* 1.3 78.1 - - - +
237A LEU* 1.3 62.9 + - + +
239A GLY* 3.4 11.8 + - - -
360B LYS* 4.7 12.1 - - + +
363B GLN* 3.7 20.1 - - + +
364B THR* 3.6 42.4 - - + +
367B GLN* 3.4 34.3 - - + +
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Residues in contact with LEU 237 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56A ALA* 3.9 8.1 - - - +
60A ASN* 2.9 29.6 + - - +
157A LEU* 3.9 13.2 - - + +
160A SER* 3.4 49.4 - - - +
161A VAL* 4.0 10.5 - - + +
164A ALA* 3.6 19.1 - - + -
233A ALA* 3.5 11.4 + - + +
234A LEU* 3.1 8.4 + - + +
236A LEU* 1.3 78.9 - - + +
238A LEU* 1.3 63.3 + - - +
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Residues in contact with LEU 238 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A LEU* 3.4 57.2 - - + +
55A VAL* 3.6 15.9 - - + +
56A ALA* 3.7 11.3 - - + +
59A ASN* 3.1 22.2 - - - +
60A ASN 3.6 5.1 + - - -
161A VAL* 4.5 4.3 - - + -
234A LEU* 2.9 31.8 + - + +
235A VAL* 3.3 1.5 + - - +
237A LEU* 1.3 76.8 - - - +
239A GLY* 1.3 56.1 + - - +
240A SER* 3.1 26.1 + - - +
241A GLY 3.9 8.1 - - - +
242A ILE* 3.9 21.5 - - + -
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Residues in contact with GLY 239 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A ASN* 3.6 17.7 - - - +
60A ASN* 4.2 2.9 - - - -
61A ARG* 3.6 10.2 + - - -
235A VAL 3.1 7.0 + - - -
236A LEU 3.4 4.4 + - - -
237A LEU 3.3 4.4 - - - -
238A LEU* 1.3 75.4 - - - +
240A SER* 1.3 62.7 + - - +
13B PRO* 4.6 2.4 - - - +
363B GLN* 2.9 39.3 + - - -
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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