Contacts of the helix formed by residues 206 - 233 (chain A) in PDB entry 6UQY
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 ARG 206 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149A PHE* 4.4 3.3 - - + -
153A GLU* 2.8 46.1 + - - +
201A VAL* 3.0 26.3 + - + +
204A GLY* 3.0 29.5 + - - +
205A ASN* 1.3 74.5 - - - +
207A VAL* 1.3 63.7 + - - +
208A GLU 3.3 2.7 - - - +
209A ARG* 3.2 31.6 + - + +
210A ALA 2.9 19.1 + - - -
402A GOL 3.3 28.0 + - - +
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Residues in contact with VAL 207 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196A SER* 3.6 25.9 - - - +
201A VAL* 4.1 6.1 - - + -
202A VAL* 4.0 29.4 - - + +
205A ASN* 3.6 5.1 + - - +
206A ARG* 1.3 77.2 - - - +
208A GLU* 1.3 57.5 + - - +
210A ALA* 3.3 3.9 + - - +
211A GLN* 2.9 54.5 + - - +
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Residues in contact with GLU 208 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205A ASN 5.4 0.2 + - - -
206A ARG 3.3 0.4 - - - -
207A VAL* 1.3 79.6 - - - +
209A ARG* 1.3 68.3 + - + +
211A GLN* 3.3 18.7 + - + +
212A ARG* 2.8 66.2 + - - +
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Residues in contact with ARG 209 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A PHE* 3.8 10.1 - - + -
152A HIS* 5.9 0.8 - - - -
153A GLU* 2.8 42.9 + - - +
161A LEU* 3.6 26.5 - - + +
206A ARG* 3.2 36.5 + - + +
208A GLU* 1.3 84.4 - - - +
210A ALA* 1.3 63.1 + - - +
212A ARG* 3.3 13.9 + - - +
213A TYR* 3.0 25.3 + - - +
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Residues in contact with ALA 210 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A PHE* 3.4 21.7 - - + -
195A LEU* 3.7 11.3 - - + +
196A SER* 3.6 26.2 - - - +
201A VAL* 3.8 5.2 - - + -
206A ARG 2.9 13.6 + - - +
207A VAL 3.6 7.9 - - - +
209A ARG* 1.3 79.0 - - - +
211A GLN* 1.3 57.2 + - - +
213A TYR* 3.4 2.0 + - - +
214A LEU* 2.9 35.8 + - - +
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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
----------------------------------------------------------
196A SER* 3.6 17.3 + - - +
207A VAL* 2.9 35.4 + - - +
208A GLU* 3.6 23.1 - - + +
210A ALA* 1.3 74.7 - - - +
212A ARG* 1.3 64.2 + - - +
214A LEU* 4.0 10.1 - - + -
215A GLN* 3.0 35.0 + - + +
246A ARG* 6.4 0.2 - - - +
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Residues in contact with ARG 212 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161A LEU* 3.9 29.6 - - + +
162A GLU* 3.2 39.6 + - + +
208A GLU* 2.8 53.4 + - - +
209A ARG* 3.6 14.1 - - - +
210A ALA 3.2 0.2 - - - -
211A GLN* 1.3 76.5 - - - +
213A TYR* 1.3 63.1 + - - +
215A GLN* 4.0 4.6 - - - +
216A ALA* 3.1 23.9 + - - +
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Residues in contact with TYR 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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145A SER* 3.4 24.8 + - - -
148A ASP* 3.6 2.1 - - + +
149A PHE* 3.8 29.6 - + + -
161A LEU* 4.0 15.1 - - + +
164A LEU* 3.8 25.8 - - + -
165A ALA* 3.6 33.2 - - + -
168A SER* 2.8 24.7 + - - -
192A SER* 4.7 5.2 - - - -
195A LEU* 3.8 24.5 - - + -
209A ARG 3.0 16.6 + - - +
210A ALA 3.7 2.2 - - - +
212A ARG* 1.3 76.7 - - - +
214A LEU* 1.3 65.0 + - - +
216A ALA* 3.1 7.1 + - - +
217A VAL* 3.0 34.7 + - + +
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Residues in contact with LEU 214 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192A SER* 3.4 27.1 - - - +
193A THR 3.9 3.6 - - - +
194A ASP* 3.5 25.6 - - - +
195A LEU* 3.7 16.8 - - + +
196A SER* 4.0 3.6 - - - +
210A ALA 2.9 22.8 + - - +
211A GLN* 3.6 12.3 - - + +
213A TYR* 1.3 84.0 - - + +
215A GLN* 1.3 72.7 + - + +
217A VAL* 3.4 1.6 + - - +
218A ASN* 2.9 38.3 + - - +
242A LEU* 3.6 32.8 - - + -
246A ARG* 5.5 0.9 - - - +
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Residues in contact with GLN 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 GLN* 3.0 29.2 + - + +
212A ARG* 4.0 4.9 - - - +
214A LEU* 1.3 80.2 - - + +
216A ALA* 1.3 60.3 + - - +
218A ASN* 4.5 4.1 - - - +
219A ALA* 2.9 34.8 + - - +
242A LEU* 3.8 17.6 - - - +
246A ARG* 3.7 26.9 - - - +
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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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162A GLU* 5.1 13.7 - - + +
165A ALA* 3.5 20.2 - - + -
169A VAL* 4.7 0.5 - - - +
212A ARG 3.1 17.6 + - - +
213A TYR* 3.1 5.9 + - - +
215A GLN* 1.3 73.8 - - - +
217A VAL* 1.3 65.6 + - - +
219A ALA* 4.1 3.9 - - - +
220A SER* 3.3 25.5 + - - -
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Residues in contact with VAL 217 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A SER* 4.7 9.4 - - - +
165A ALA* 3.8 17.7 - - + +
168A SER* 4.4 4.3 - - - -
169A VAL* 3.9 14.8 - - + -
172A ILE* 5.2 2.2 - - + -
192A SER* 4.4 12.6 - - - +
213A TYR* 3.0 46.9 + - + +
214A LEU 3.8 6.3 - - - +
216A ALA* 1.3 75.3 - - - +
218A ASN* 1.3 69.3 + - - +
221A LEU* 2.9 51.2 + - + +
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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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191A SER* 3.4 15.8 + - - -
192A SER* 2.8 50.5 + - - -
214A LEU* 2.9 22.3 + - + +
215A GLN* 4.4 4.3 - - - +
217A VAL* 1.3 79.2 - - - +
219A ALA* 1.3 57.7 + - - +
222A PRO* 3.1 24.0 - - - +
238A TRP* 4.2 9.3 + - + -
240A ASP* 4.6 2.9 + - - +
242A LEU* 4.0 25.5 - - + +
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Residues in contact with ALA 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 GLN* 2.9 20.5 + - - +
216A ALA* 4.1 3.6 - - - +
218A ASN* 1.3 79.3 - - - +
220A SER* 1.3 61.5 - - - +
222A PRO* 3.9 4.2 - - - +
223A ILE* 3.3 23.5 - - + +
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Residues in contact with SER 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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169A VAL* 3.7 20.6 - - - +
216A ALA 3.3 15.4 + - - -
217A VAL 4.2 0.7 - - - -
219A ALA* 1.3 80.2 - - - +
221A LEU* 1.3 66.5 + - - +
223A ILE* 3.2 19.0 + - - +
224A GLN* 3.2 21.8 + - - +
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Residues in contact with LEU 221 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169A VAL* 3.9 37.0 - - + +
172A ILE* 3.9 38.8 - - + -
173A ARG* 4.5 3.6 - - + +
189A VAL* 4.4 3.6 - - + -
190A VAL 4.9 3.4 - - - +
191A SER* 5.4 0.4 - - - -
192A SER 5.8 0.2 - - - +
217A VAL* 2.9 27.6 + - + +
220A SER* 1.3 76.7 - - - +
222A PRO* 1.3 60.7 - - + +
224A GLN* 3.1 3.4 + - + -
225A LEU* 2.9 55.0 + - + +
238A TRP* 3.6 23.6 - - + -
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Residues in contact with PRO 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 ASN 3.1 24.9 - - - +
219A ALA 3.9 4.9 - - - +
220A SER 3.6 2.2 - - - -
221A LEU* 1.3 94.9 - - + +
223A ILE* 1.3 56.7 + - + +
225A LEU* 3.9 6.3 - - + +
226A ALA* 2.9 31.7 + - - +
229A ARG* 5.0 1.6 + - - -
238A TRP* 3.7 45.1 - - + +
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Residues in contact with ILE 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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219A ALA* 3.3 23.3 - - + +
220A SER* 3.2 9.6 + - - +
222A PRO* 1.3 78.4 - - + +
224A GLN* 1.3 66.7 + - + +
226A ALA* 3.4 6.0 + - - +
227A ALA* 3.3 21.0 + - + +
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Residues in contact with GLN 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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169A VAL* 3.8 20.7 - - + +
170A ALA* 5.1 3.1 - - - +
173A ARG* 4.0 36.9 + - + +
220A SER* 3.3 23.6 + - - +
221A LEU* 3.1 7.7 + - + +
223A ILE* 1.3 77.5 - - + +
225A LEU* 1.3 66.7 + - - +
227A ALA* 3.3 8.3 + - - +
228A LEU* 3.1 22.2 + - - +
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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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172A ILE* 5.0 0.7 - - + -
173A ARG* 4.4 11.2 - - - +
176A VAL* 3.9 31.0 - - + -
189A VAL* 3.8 30.7 - - + -
221A LEU* 2.9 47.7 + - + +
222A PRO* 3.9 4.3 - - + +
224A GLN* 1.3 79.7 - - - +
226A ALA* 1.3 56.6 + - - +
228A LEU* 3.3 6.9 + - + +
229A ARG* 2.8 33.4 + - - +
236A LEU* 4.0 24.9 - - + +
238A TRP* 3.9 12.8 - - + -
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Residues in contact with ALA 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 PRO 2.9 19.3 + - - +
223A ILE* 3.8 7.2 - - - +
224A GLN 3.3 0.4 - - - -
225A LEU* 1.3 75.5 - - - +
227A ALA* 1.3 61.9 + - - +
229A ARG* 3.4 36.9 + - - +
230A LYS* 3.1 24.0 + - - +
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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
----------------------------------------------------------
173A ARG* 5.1 6.1 - - - +
223A ILE 3.3 11.2 + - - +
224A GLN* 3.7 9.6 - - - +
225A LEU 3.2 0.4 - - - -
226A ALA* 1.3 78.7 - - - +
228A LEU* 1.3 57.1 + - - +
230A LYS* 3.3 9.7 + - - +
231A THR* 2.9 34.0 + - - -
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Residues in contact with LEU 228 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173A ARG* 3.8 46.6 - - + +
176A VAL* 3.6 31.9 - - + -
177A GLN* 3.8 27.6 - - + +
224A GLN 3.1 12.7 + - - +
225A LEU* 3.6 11.7 - - + +
227A ALA* 1.3 75.6 - - - +
229A ARG* 1.3 64.1 + - - +
231A THR* 3.3 7.5 + - + -
232A ARG* 3.0 41.5 + - + +
234A LEU* 4.2 5.5 - - + +
236A LEU* 5.6 0.4 - - + -
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Residues in contact with ARG 229 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222A PRO 5.0 1.4 + - - -
225A LEU* 2.8 22.4 + - - +
226A ALA* 3.4 43.0 + - - +
228A LEU* 1.3 72.3 - - - +
230A LYS* 1.3 60.8 + - - +
233A GLY* 3.0 10.4 + - - -
234A LEU* 2.8 59.8 + - - +
236A LEU* 3.3 47.8 + - + +
238A TRP* 5.4 6.9 - - - +
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Residues in contact with LYS 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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226A ALA 3.1 13.7 + - - +
227A ALA* 3.7 8.3 - - - +
228A LEU 3.2 0.2 - - - -
229A ARG* 1.3 86.0 - - + +
231A THR* 1.3 67.8 + - - +
232A ARG 3.3 0.3 + - - -
233A GLY* 3.5 6.1 + - - -
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Residues in contact with THR 231 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173A ARG* 5.6 1.9 + - - +
227A ALA* 2.9 19.3 + - - +
228A LEU* 3.3 11.6 + - + -
230A LYS* 1.3 80.2 - - - +
232A ARG* 1.3 68.2 + - + +
233A GLY 3.6 0.3 + - - -
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Residues in contact with ARG 232 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177A GLN* 4.2 14.2 - - - +
180A GLY* 3.1 31.5 + - - -
181A GLU* 3.2 45.1 + - - +
185A ARG* 3.2 22.3 + - - +
228A LEU* 3.0 31.8 + - + +
231A THR* 1.3 84.5 - - + +
233A GLY* 1.3 64.0 + - - +
234A LEU* 3.3 19.8 + - + +
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Residues in contact with GLY 233 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185A ARG* 3.3 22.9 + - - +
229A ARG 3.0 7.6 + - - -
230A LYS 3.5 5.3 + - - -
231A THR 3.4 3.6 + - - -
232A ARG* 1.3 76.3 - - - +
234A LEU* 1.3 62.6 + - - +
235A GLU 4.1 0.2 + - - -
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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