Contacts of the helix formed by residues 174 - 199 (chain B) in PDB entry 5DQZ
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 174 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159B THR 5.0 4.9 - - - +
161B ASN* 4.6 18.7 + - - +
173B GLY* 1.3 81.0 - - - +
175B THR* 1.3 67.4 + - - +
176B ILE* 3.3 18.7 - - + +
177B ASN* 3.3 17.1 + - - +
178B GLN* 3.2 19.7 + - - +
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Residues in contact with THR 175 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174B ASP* 1.3 73.5 - - - +
176B ILE* 1.3 58.8 + - - +
178B GLN* 3.1 11.6 + - - +
179B CYS* 2.9 49.6 + - - -
236B ALA* 4.2 17.9 - - - +
239B ASN* 4.1 14.2 + - - +
240B PRO* 4.4 13.7 + - + +
243B PRO* 4.1 15.7 - - + -
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Residues in contact with ILE 176 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158B VAL* 4.0 12.8 - - + -
159B THR 4.2 13.9 - - - +
160B TRP* 3.7 31.9 - - + -
161B ASN 6.1 0.2 - - - +
174B ASP* 4.1 13.0 - - + +
175B THR* 1.3 80.1 - - - +
177B ASN* 1.3 72.0 + - - +
179B CYS* 3.5 1.0 + - - -
180B ILE* 2.9 40.1 + - + +
232B ALA 4.0 3.4 - - - +
233B PHE* 3.6 46.4 - - + +
236B ALA* 3.8 21.2 - - + +
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Residues in contact with ASN 177 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160B TRP* 4.2 4.9 - - - -
161B ASN 6.1 0.4 - - - +
162B GLY 3.5 15.4 + - - -
163B ARG* 3.1 25.3 + - - +
164B ARG* 2.9 44.5 + - - +
165B TYR* 5.7 0.4 - - + -
173B GLY* 4.9 2.2 - - - -
174B ASP* 3.3 26.8 + - - +
175B THR 3.2 0.4 - - - -
176B ILE* 1.3 88.3 - - - +
178B GLN* 1.3 56.8 + - - +
180B ILE* 3.5 2.6 + - - -
181B SER* 2.7 38.5 + - - -
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Residues in contact with GLN 178 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81B ALA* 4.2 18.2 - - + +
172B LYS* 4.0 21.6 - - + +
173B GLY* 3.3 23.7 + - - +
174B ASP 3.2 12.0 + - - +
175B THR* 3.1 10.1 + - - +
177B ASN* 1.3 76.4 - - - +
179B CYS* 1.3 59.0 + - - +
181B SER* 3.2 8.5 + - - -
182B ALA* 2.9 30.0 + - - +
243B PRO* 4.2 23.7 - - + +
244B ASP* 4.9 7.1 - - - +
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Residues in contact with CYS 179 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175B THR* 2.9 36.6 + - - +
176B ILE 3.6 5.4 - - - +
178B GLN* 1.3 74.2 - - - +
180B ILE* 1.3 65.3 + - - +
182B ALA* 3.2 3.3 + - - +
183B ALA* 2.9 26.9 + - - +
232B ALA* 3.7 28.9 - - + +
235B ILE* 4.1 17.7 - - - -
236B ALA* 4.2 2.7 - - - -
243B PRO* 3.6 26.7 - - - -
247B VAL* 4.1 12.9 - - + +
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Residues in contact with ILE 180 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149B TYR* 3.9 21.3 - - + +
160B TRP* 3.6 36.6 - - + -
163B ARG* 3.5 27.1 - - - +
176B ILE* 2.9 34.5 + - + +
177B ASN* 3.8 5.2 - - - +
178B GLN 3.4 0.2 - - - -
179B CYS* 1.3 74.5 - - - +
181B SER* 1.3 55.3 + - - +
183B ALA* 3.9 1.1 - - - +
184B THR* 2.6 47.2 + - - +
224B LYS* 6.2 0.4 - - + -
229B VAL* 4.6 14.6 - - + -
232B ALA* 3.9 13.7 - - + +
233B PHE* 4.3 2.5 - - + -
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Residues in contact with SER 181 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81B ALA* 4.4 6.5 - - - -
83B VAL* 4.3 21.3 - - - +
163B ARG* 2.9 24.4 + - - +
165B TYR* 4.8 9.2 - - - +
177B ASN 2.7 22.9 + - - -
178B GLN* 3.4 8.0 - - - -
180B ILE* 1.3 76.7 - - - +
182B ALA* 1.3 57.1 + - - +
184B THR* 3.9 2.9 - - - -
185B SER* 3.0 28.3 + - - -
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Residues in contact with ALA 182 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81B ALA 3.5 19.9 + - - +
82B GLY* 4.5 5.1 - - - +
178B GLN 2.9 13.8 + - - +
179B CYS* 3.8 3.6 - - - +
181B SER* 1.3 74.0 - - - +
183B ALA* 1.3 66.1 + - - +
185B SER* 3.1 9.5 - - - -
186B CYS* 3.0 26.6 + - - -
244B ASP* 4.1 17.7 - - + +
247B VAL* 4.0 18.4 - - + -
248B ARG* 6.5 0.4 - - + -
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Residues in contact with ALA 183 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179B CYS 2.9 16.9 + - - +
180B ILE* 3.9 3.1 - - - +
182B ALA* 1.3 72.8 - - - +
184B THR* 1.3 67.4 + - - +
186B CYS* 3.0 15.4 + - - +
187B LEU* 3.0 12.8 + - - +
228B VAL* 3.8 30.7 - - + +
229B VAL* 5.4 0.4 - - + -
232B ALA* 4.3 6.5 - - + -
247B VAL* 3.5 18.3 - - + +
251B CYS* 3.8 15.3 - - - -
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Residues in contact with THR 184 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163B ARG* 4.9 3.0 + - - +
180B ILE* 2.6 35.6 + - - +
181B SER* 3.9 4.5 - - - -
183B ALA* 1.3 76.0 - - - +
185B SER* 1.3 58.1 + - - +
187B LEU* 3.2 4.0 + - + +
188B TYR* 2.9 66.4 + - + +
224B LYS* 4.2 23.6 - - + +
228B VAL* 4.1 10.7 - - - +
229B VAL* 5.0 0.7 - - - +
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Residues in contact with SER 185 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53B MET* 5.0 3.3 - - - +
78B VAL* 4.4 4.9 - - - +
82B GLY 2.5 30.7 + - - -
83B VAL* 4.1 1.3 - - - -
84B ARG* 3.1 25.7 + - - +
181B SER 3.0 16.7 + - - -
182B ALA 3.1 8.7 - - - -
183B ALA 3.1 0.2 - - - -
184B THR* 1.3 76.9 - - - +
186B CYS* 1.3 63.6 + - - +
188B TYR* 3.2 10.3 + - - +
189B GLY* 2.9 20.1 + - - -
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Residues in contact with CYS 186 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17B MET* 3.6 37.5 - - + -
19B PHE* 3.8 22.2 - - - -
53B MET* 4.5 6.8 - - - +
182B ALA* 3.0 20.2 + - - -
183B ALA 3.0 8.1 + - - +
185B SER* 1.3 76.1 - - - +
187B LEU* 1.3 63.7 + - - +
189B GLY* 3.1 3.1 + - - -
190B VAL* 3.0 26.5 + - - +
247B VAL* 5.1 1.8 - - - -
248B ARG* 4.7 8.5 - - - -
251B CYS* 4.3 16.6 - - + -
255B PHE* 4.3 4.0 - - + -
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Residues in contact with LEU 187 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183B ALA 3.0 11.4 + - - +
184B THR* 3.5 9.6 - - - +
186B CYS* 1.3 77.5 - - - +
188B TYR* 1.3 54.9 + - + +
190B VAL* 3.3 6.5 - - + +
191B THR* 2.6 48.9 + - - +
220B ALA* 3.6 33.4 - - + +
223B ILE* 4.0 22.2 - - + -
224B LYS* 3.7 27.4 - - + +
227B THR* 5.5 0.9 - - - -
228B VAL* 3.9 17.3 - - + -
255B PHE* 3.9 24.1 - - + -
260B THR* 5.2 1.1 - - + -
264B LEU* 5.8 0.2 - - + -
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Residues in contact with TYR 188 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84B ARG* 5.0 17.5 - - + -
184B THR* 2.9 46.6 + - + +
185B SER* 3.2 8.0 + - - +
187B LEU* 1.3 74.3 - - + +
189B GLY* 1.3 61.1 + - - +
191B THR* 4.3 0.2 - - - -
192B GLU* 2.9 33.8 + - - +
213B LEU* 5.4 5.4 - - + -
216B VAL* 3.9 18.5 - - + +
217B TYR* 3.7 38.6 - + - +
220B ALA* 3.4 31.4 - - + -
221B ASP* 3.9 5.9 + - - -
224B LYS* 3.8 14.6 + - + -
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Residues in contact with GLY 189 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51B CYS* 3.8 22.5 - - - -
53B MET* 4.4 5.6 - - - -
74B LEU* 4.0 1.2 - - - +
76B VAL* 4.7 11.4 - - - -
84B ARG* 5.8 2.1 - - - +
185B SER 2.9 14.2 + - - -
186B CYS 3.1 4.6 + - - -
188B TYR* 1.3 78.9 - - - +
190B VAL* 1.3 62.5 - - - +
192B GLU* 3.3 4.4 + - - +
193B ALA* 3.0 21.7 + - - +
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Residues in contact with VAL 190 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11B LEU* 4.7 2.1 - - - +
16B SER* 4.1 37.5 - - - +
17B MET* 4.9 4.5 - - - -
50B ALA* 5.3 0.9 - - + -
51B CYS* 4.4 6.3 - - + -
186B CYS 3.0 12.6 + - - +
187B LEU* 3.3 20.9 - - + +
189B GLY* 1.3 75.2 - - - +
191B THR* 1.3 62.8 + - - +
193B ALA* 3.3 8.9 - - - +
194B ALA* 2.9 28.1 + - - +
255B PHE* 4.0 19.7 - - + -
260B THR* 5.0 3.6 - - + -
261B LEU* 4.4 17.5 - - + -
264B LEU* 3.8 10.1 - - + +
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Residues in contact with THR 191 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187B LEU* 2.6 40.3 + - - +
188B TYR* 4.0 2.7 - - - -
190B VAL* 1.3 76.0 - - - +
192B GLU* 1.3 59.7 + - - +
194B ALA* 3.2 2.0 + - + +
195B ILE* 2.9 35.8 + - + +
216B VAL* 3.9 19.3 - - + +
219B ILE* 3.8 35.9 - - + -
220B ALA* 4.0 5.5 - - - +
223B ILE* 5.3 0.2 - - - +
264B LEU* 4.2 15.4 - - + +
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Residues in contact with GLU 192 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91A PRO* 4.1 16.1 - - - +
74B LEU* 3.9 17.4 - - + +
76B VAL* 5.2 1.6 - - - +
84B ARG* 3.0 44.0 + - - -
87B ALA* 3.9 10.0 - - - +
188B TYR 2.9 18.9 + - - +
189B GLY* 3.7 3.7 - - - +
191B THR* 1.3 76.3 - - - +
193B ALA* 1.3 63.4 + - - +
195B ILE* 3.3 2.3 + - - +
196B LEU* 3.0 32.8 + - + +
202B PRO* 4.2 14.1 - - + +
213B LEU* 4.0 11.3 - - - +
216B VAL* 4.1 23.4 - - + +
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Residues in contact with ALA 193 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11B LEU* 4.1 13.5 - - + +
50B ALA* 3.7 25.8 - - + +
51B CYS* 4.9 0.7 - - + -
74B LEU* 3.8 17.4 - - + +
189B GLY 3.0 13.4 + - - +
190B VAL* 3.3 13.5 - - - +
192B GLU* 1.3 78.3 - - - +
194B ALA* 1.3 57.1 + - - +
196B LEU* 3.4 4.7 + - - +
197B ALA* 2.9 29.8 + - - +
302B HIS* 4.9 2.3 + - - -
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Residues in contact with ALA 194 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11B LEU* 3.6 18.6 - - + +
190B VAL 2.9 17.2 + - - +
191B THR* 3.2 4.9 + - - +
193B ALA* 1.3 72.1 - - - +
195B ILE* 1.3 61.4 - - - +
197B ALA* 3.3 2.2 + - - +
198B ALA* 2.9 30.7 + - - +
264B LEU* 3.6 33.9 - - + -
265B ILE* 4.0 7.4 - - + +
268B ILE* 4.2 9.4 - - + -
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Residues in contact with ILE 195 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191B THR* 2.9 21.2 + - + +
192B GLU* 3.7 4.9 - - - +
194B ALA* 1.3 75.8 - - - +
196B LEU* 1.3 61.8 + - - +
198B ALA* 3.4 3.5 + - - +
199B GLY 3.2 5.0 + - - -
200B TYR* 3.1 41.4 + - + +
202B PRO* 3.9 17.0 - - + -
215B PHE* 3.5 39.0 - - + +
216B VAL* 3.6 38.6 - - + +
219B ILE* 4.2 4.9 - - + -
268B ILE* 3.8 21.8 - - + -
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Residues in contact with LEU 196 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91A PRO* 3.8 32.8 - - + +
92A GLY* 4.5 4.0 - - - +
74B LEU* 3.7 31.0 - - + -
89B GLY* 5.7 1.1 - - - -
90B GLN 5.6 2.5 - - - +
92B GLY* 5.7 4.0 - - - -
93B GLY* 5.2 4.7 - - - +
192B GLU* 3.0 26.9 + - + +
193B ALA* 3.8 3.8 - - - +
195B ILE* 1.3 76.3 - - - +
197B ALA* 1.3 63.3 + - - +
199B GLY* 3.1 14.4 + - - -
200B TYR 4.0 6.3 - - - +
202B PRO* 3.7 31.0 - - + -
301B GLY* 3.9 9.9 - - - +
302B HIS* 4.4 10.3 - - + +
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Residues in contact with ALA 197 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11B LEU* 4.1 15.3 - - + -
193B ALA 2.9 18.5 + - - +
194B ALA* 3.6 5.6 - - - +
196B LEU* 1.3 76.5 - - - +
198B ALA* 1.3 53.4 + - - +
265B ILE* 4.3 6.5 - - + -
299B ASP* 3.3 24.0 - - + +
301B GLY* 2.7 28.9 + - - -
302B HIS* 3.6 28.9 + - + -
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Residues in contact with ALA 198 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98B LYS* 3.0 29.4 + - - +
194B ALA 2.9 16.8 + - - +
195B ILE* 3.8 2.9 - - - +
196B LEU 3.3 0.2 - - - -
197B ALA* 1.3 76.3 - - - +
199B GLY* 1.3 59.8 + - - +
200B TYR* 3.8 23.5 - - + -
265B ILE* 3.9 29.1 - - + +
268B ILE* 4.7 7.2 - - + -
269B GLU* 4.4 2.0 - - - +
299B ASP* 5.2 0.4 - - - -
300B ALA* 4.3 2.6 - - - +
301B GLY 3.9 5.3 + - - -
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Residues in contact with GLY 199 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93B GLY* 4.4 10.9 - - - -
94B ALA 5.2 0.6 + - - -
95B ARG 4.6 1.8 - - - +
98B LYS* 3.6 19.5 - - - +
99B LEU* 3.3 18.8 - - - +
195B ILE 3.2 0.4 + - - -
196B LEU 3.1 6.9 + - - -
197B ALA 3.1 3.6 - - - -
198B ALA* 1.3 80.7 - - - +
200B TYR* 1.3 63.3 + - - +
301B GLY* 3.4 21.1 - - - -
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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