Contacts of the helix formed by residues 210 - 233 (chain A) in PDB entry 5HJS
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 ASP 210 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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117A LEU* 4.8 5.6 - - + +
121A ASP* 3.0 16.7 + - - +
208A VAL* 4.1 3.4 - - - -
209A GLN* 1.3 75.6 - - + +
211A GLN* 1.3 61.6 + - - +
212A LEU* 3.7 8.1 + - - +
213A GLN* 3.1 34.6 + - + +
214A VAL* 3.1 25.5 + - - +
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Residues in contact with GLN 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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203A ALA* 3.2 45.3 + - + +
204A ASP* 4.7 4.6 - - - +
205A ARG 5.7 0.2 + - - -
208A VAL* 3.7 24.4 - - + +
209A GLN 3.0 10.9 + - - +
210A ASP* 1.3 71.4 + - - +
212A LEU* 1.3 57.0 + - - +
214A VAL* 3.4 0.7 + - - -
215A GLU* 2.9 26.6 + - - +
177B GLU* 3.1 31.8 + - - +
180B ARG* 4.3 10.3 + - - +
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Residues in contact with LEU 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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210A ASP* 3.3 7.5 + - - +
211A GLN* 1.3 77.9 - - - +
213A GLN* 1.3 56.7 + - - +
215A GLU* 3.5 16.0 + - - +
216A ARG* 3.0 72.8 + - + +
184B GLU* 5.9 2.2 - - - +
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Residues in contact with GLN 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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113A GLY* 5.5 2.6 + - - -
116A GLN* 6.1 3.4 - - - +
117A LEU* 4.0 17.3 - - + -
210A ASP* 3.1 33.5 + - + +
212A LEU* 1.3 73.4 - - - +
214A VAL* 1.4 66.1 + - - +
216A ARG* 3.2 22.8 + - - +
217A LEU* 2.9 47.2 + - + +
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Residues in contact with VAL 214 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117A LEU* 3.8 27.4 - - + -
121A ASP* 4.9 2.5 - - - +
125A LEU* 4.0 12.3 - - + -
201A PHE* 3.5 35.9 - - + +
202A SER 3.7 4.5 - - - +
203A ALA* 3.5 18.2 - - - +
208A VAL* 3.8 15.7 - - + -
210A ASP 3.1 18.1 + - - +
211A GLN 3.8 4.3 - - - +
213A GLN* 1.4 75.7 - - - +
215A GLU* 1.3 57.2 + - - +
217A LEU* 3.4 9.8 + - - +
218A GLN 3.0 22.3 + - - -
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Residues in contact with GLU 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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201A PHE 5.0 0.4 - - - -
203A ALA* 4.0 14.3 - - + +
211A GLN 2.9 18.8 + - - +
212A LEU* 3.8 17.4 - - - +
214A VAL* 1.3 75.1 - - - +
216A ARG* 1.3 64.5 + - - +
218A GLN* 3.3 10.9 + - - +
219A HIS* 3.1 52.0 + - + +
184B GLU* 5.5 3.3 - - - +
242B ARG* 4.4 16.0 + - - -
246B LYS* 4.4 15.4 + - - -
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Residues in contact with ARG 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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212A LEU* 3.0 62.4 + - + +
213A GLN* 3.2 24.8 + - - +
215A GLU* 1.3 74.6 - - + +
217A LEU* 1.4 60.6 + - - +
219A HIS* 3.3 19.4 + - - +
220A THR* 3.3 18.4 + - + +
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Residues in contact with LEU 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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112A PRO 3.9 8.3 - - - +
113A GLY* 3.8 36.3 - - - +
117A LEU* 4.3 7.4 - - + -
201A PHE* 3.7 35.0 - - + -
213A GLN* 2.9 44.8 + - + +
214A VAL* 3.6 6.5 - - - +
216A ARG* 1.4 71.8 - - - +
218A GLN* 1.3 65.7 + - - +
220A THR* 2.8 31.7 + - + +
221A TYR* 2.9 13.7 - - + -
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Residues in contact with GLN 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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198A ILE* 3.0 36.8 + - + +
201A PHE* 3.2 32.3 + - - +
202A SER* 3.9 14.3 + - - +
203A ALA 5.3 1.4 + - - -
214A VAL 3.0 7.9 + - - +
215A GLU* 3.3 13.6 + - - +
217A LEU* 1.3 75.8 - - - +
219A HIS* 1.4 69.3 + - - +
221A TYR* 3.2 7.6 + - - +
222A VAL* 2.9 33.9 + - + +
245B MET* 3.5 33.7 - - - +
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Residues in contact with HIS 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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215A GLU* 3.1 43.9 + - + +
216A ARG* 3.5 12.3 - - - +
217A LEU 3.2 0.4 - - - -
218A GLN* 1.4 84.9 + - + +
220A THR* 1.4 59.0 + - + +
222A VAL* 4.2 6.7 - - + -
223A GLU* 3.0 34.5 + - - +
238B LEU* 3.6 31.5 - - + +
242B ARG* 3.5 48.4 + - + +
245B MET* 6.4 2.0 - - + -
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Residues in contact with THR 220 (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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46A GLN* 4.9 2.1 + - - +
49A MET* 4.5 4.9 - - - +
216A ARG* 3.3 16.1 + - + +
217A LEU* 2.8 24.4 + - + +
219A HIS* 1.4 76.9 - - - +
221A TYR* 1.3 69.9 + - - +
223A GLU* 3.6 8.8 + - - +
224A ALA* 3.1 27.0 + - - +
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Residues in contact with TYR 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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49A MET* 3.7 33.0 - - + -
53A LEU* 4.1 6.7 - - + -
111A LEU* 3.7 4.1 - - + +
112A PRO* 2.7 46.9 + - + +
194A LEU* 4.0 14.3 - - + +
197A ALA* 3.6 22.9 - - + -
198A ILE* 3.8 19.3 - - + +
201A PHE* 3.4 33.9 - + - -
217A LEU* 2.9 29.1 + - + -
218A GLN* 3.2 7.8 + - - +
220A THR* 1.3 81.5 + - - +
222A VAL* 1.3 58.7 + - - +
224A ALA* 3.3 5.1 + - - +
225A LEU* 2.9 30.0 + - - +
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Residues in contact with VAL 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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198A ILE* 3.9 33.4 - - + -
218A GLN* 2.9 28.9 + - + +
219A HIS* 3.8 11.7 - - + +
220A THR 3.4 0.2 - - - -
221A TYR* 1.3 76.4 - - - +
223A GLU* 1.4 56.0 + - - +
225A LEU* 3.3 1.4 + - - +
226A HIS* 2.9 25.5 + - - +
240A PHE* 3.5 15.6 - - + -
244A LEU* 4.5 6.7 - - + -
238B LEU* 4.0 7.4 - - + -
241B PRO* 3.6 37.2 - - + -
245B MET* 5.1 8.3 - - + -
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Residues in contact with GLU 223 (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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46A GLN* 3.8 14.8 + - - +
219A HIS 3.0 20.1 + - - +
220A THR* 3.8 8.8 - - - +
222A VAL* 1.4 75.1 - - - +
224A ALA* 1.4 57.7 + - - +
226A HIS* 3.3 8.3 + - - +
227A ALA* 3.0 30.0 + - - +
237B ARG* 5.0 13.4 - - + +
238B LEU* 3.8 31.6 + - + +
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Residues in contact with ALA 224 (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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42A LEU* 4.1 0.3 - - - +
46A GLN* 3.8 20.8 - - + +
49A MET* 3.5 26.9 - - + -
50A ILE* 3.9 11.5 - - + +
194A LEU* 4.2 8.5 - - + -
220A THR 3.1 18.4 + - - +
221A TYR 3.3 4.7 + - - +
223A GLU* 1.4 72.8 - - - +
225A LEU* 1.4 58.2 + - - +
227A ALA* 3.5 1.4 + - - +
228A TYR* 2.9 31.3 + - - +
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Residues in contact with LEU 225 (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 GLU* 4.1 20.6 - - + +
194A LEU* 3.9 30.6 - - + +
195A LEU* 4.1 12.3 - - + -
198A ILE* 3.7 23.1 - - + -
221A TYR 2.9 17.2 + - - +
222A VAL 3.5 5.2 - - - +
224A ALA* 1.4 72.1 - - - +
226A HIS* 1.3 56.6 + - - +
228A TYR* 3.2 1.7 + - + +
229A VAL* 2.8 60.5 + - + +
240A PHE* 4.0 15.9 - - + -
243A MET* 4.1 14.8 - - + -
244A LEU* 4.1 11.9 - - + -
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Residues in contact with HIS 226 (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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222A VAL 2.9 15.1 + - - +
223A GLU* 3.3 11.2 + - - +
225A LEU* 1.3 75.8 - - - +
227A ALA* 1.3 60.0 + - - +
229A VAL* 3.9 1.2 - - - +
230A SER* 3.0 39.3 + - - -
240A PHE* 3.5 48.2 - + + +
226B HIS* 4.4 24.9 - - - -
237B ARG* 4.6 30.5 + - + +
240B PHE* 5.4 2.2 - + - -
241B PRO* 5.5 1.0 - - - +
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Residues in contact with ALA 227 (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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41A GLN* 4.0 11.5 - - - +
42A LEU* 3.8 25.8 + - + +
46A GLN* 3.8 21.3 - - - +
223A GLU 3.0 16.4 + - - +
224A ALA 3.9 0.4 - - - +
226A HIS* 1.3 75.6 - - - +
228A TYR* 1.3 62.9 + - - +
230A SER* 3.4 18.0 + - - -
231A ILE* 3.6 13.0 + - - +
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Residues in contact with TYR 228 (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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42A LEU* 4.0 16.9 - - + +
47A LEU* 6.3 1.6 - - + -
50A ILE* 3.8 26.2 - - + -
188A ASN* 2.7 34.7 + - - -
190A ALA* 3.5 27.0 - - + +
191A GLU* 3.7 26.0 - - + -
194A LEU* 4.6 3.1 - - + -
224A ALA 2.9 19.4 + - - +
225A LEU* 3.7 5.4 - - - +
227A ALA* 1.3 75.7 - - - +
229A VAL* 1.3 58.5 + - + +
231A ILE* 2.9 25.5 + - + +
232A HIS* 3.0 20.7 + - + -
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Residues in contact with VAL 229 (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 GLU* 3.8 8.1 - - + +
225A LEU* 2.8 36.5 + - + +
226A HIS 4.0 2.9 - - - +
228A TYR* 1.3 73.0 - - + +
230A SER* 1.3 53.9 + - - +
232A HIS* 4.3 3.8 - - - -
233A HIS* 2.7 42.1 + - + +
236A ASP 5.1 2.2 - - - +
239A MET* 3.8 16.4 - - + -
240A PHE* 3.7 33.2 - - + +
243A MET* 3.8 29.8 - - + -
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Residues in contact with SER 230 (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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41A GLN* 6.0 3.6 - - - -
226A HIS* 3.0 27.1 + - - -
227A ALA* 3.5 14.0 - - - -
228A TYR 3.2 0.2 - - - -
229A VAL* 1.3 75.2 - - - +
231A ILE* 1.4 59.5 + - - +
233A HIS 4.4 4.7 - - - -
234A PRO* 3.3 26.0 - - - +
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Residues in contact with ILE 231 (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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41A GLN* 5.1 11.2 - - - +
42A LEU* 3.7 42.6 - - + +
227A ALA 3.7 9.2 - - - +
228A TYR* 2.9 11.2 + - + +
230A SER* 1.4 77.1 - - - +
232A HIS* 1.3 65.5 + - - +
233A HIS 3.4 0.4 - - - -
234A PRO* 3.4 14.5 - - - +
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Residues in contact with HIS 232 (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 GLN 4.6 8.3 - - - -
188A ASN* 3.4 28.9 + - + -
191A GLU* 2.7 37.6 + - - +
228A TYR* 3.0 23.1 + - + +
229A VAL 4.0 2.9 - - - +
231A ILE* 1.3 79.1 - - - +
233A HIS* 1.3 79.2 + + + +
234A PRO* 3.6 5.0 - - - +
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Residues in contact with HIS 233 (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 LEU 4.9 4.0 + - - -
186A GLN 5.1 3.0 + - - -
191A GLU* 4.1 8.3 + - - -
229A VAL* 2.7 25.2 + - + +
230A SER* 4.0 3.5 - - - +
232A HIS* 1.3 109.3 + + + +
234A PRO* 1.4 64.5 - - - +
235A HIS 3.1 5.1 + - - -
236A ASP* 3.4 30.5 + - + +
239A MET* 3.7 45.0 - - + +
243A MET* 4.5 1.0 - - + +
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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