Contacts of the helix formed by residues 167 - 197 (chain B) in PDB entry 5IJ7
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 ASN 167 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166B ILE* 1.4 73.8 - - - +
168B ASP* 1.3 59.5 + - - +
169B GLU* 3.0 36.6 + - - +
170B ILE* 3.3 29.0 + - - +
171B PHE* 2.9 30.0 + - - +
234B LYS* 3.9 9.0 - - - +
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Residues in contact with ASP 168 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167B ASN* 1.3 73.4 - - - +
169B GLU* 1.3 64.4 + - - +
171B PHE* 4.0 8.0 - - - +
172B VAL* 3.5 26.9 + - - +
234B LYS* 3.6 18.0 + - - +
243B LYS* 4.9 9.7 - - - +
247B LEU* 3.7 33.1 - - + +
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Residues in contact with GLU 169 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30B LYS* 3.4 32.7 - - + +
167B ASN* 3.0 13.1 + - - +
168B ASP* 1.3 77.5 - - - +
170B ILE* 1.4 66.4 + - + +
172B VAL* 3.5 4.0 + - - +
173B GLU* 3.4 31.7 + - - +
321F LYS* 5.7 2.9 + - - -
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Residues in contact with ILE 170 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23B TYR* 5.1 24.7 - - + +
26B LEU* 3.7 35.0 - - + +
27B ARG* 4.7 17.3 - - + +
30B LYS* 5.2 14.6 - - + -
166B ILE* 5.3 3.6 - - + -
167B ASN* 3.3 35.4 + - - +
169B GLU* 1.4 74.3 - - + +
171B PHE* 1.4 55.7 + - - +
173B GLU* 3.1 13.4 + - - +
174B LEU* 2.8 36.5 + - + +
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Residues in contact with PHE 171 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166B ILE* 4.3 18.9 - - + +
167B ASN 2.9 21.4 + - - +
168B ASP* 4.1 5.6 - - - +
169B GLU 3.4 0.2 - - - -
170B ILE* 1.4 75.8 - - - +
172B VAL* 1.4 64.4 + - + +
174B LEU* 3.4 6.0 + - + +
175B VAL* 3.0 54.5 + - + +
224B PHE* 4.3 0.9 - + - -
227B ILE* 4.4 17.0 - - + -
234B LYS* 4.8 11.7 - - + -
240B LEU* 3.4 53.6 - - + -
243B LYS* 4.2 9.0 - - + -
244B TYR* 3.7 30.7 - + + -
247B LEU* 4.4 9.6 - - + -
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Residues in contact with VAL 172 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168B ASP 3.5 18.8 + - - +
169B GLU* 3.9 3.8 - - - +
170B ILE 3.3 0.6 - - - -
171B PHE* 1.4 76.8 - - + +
173B GLU* 1.4 67.3 + - + +
175B VAL* 3.2 3.3 + - - +
176B ASN* 3.0 40.4 + - - +
244B TYR* 4.2 20.0 - - + +
247B LEU* 3.8 33.9 - - + +
248B THR* 5.3 7.4 - - - +
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Residues in contact with GLU 173 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26B LEU* 3.7 27.3 - - + +
30B LYS* 3.4 39.1 + - - +
169B GLU* 3.4 26.8 + - - +
170B ILE* 3.1 12.4 + - - +
172B VAL* 1.4 76.6 - - + +
174B LEU* 1.3 57.7 + - - +
176B ASN* 3.4 6.9 + - - +
177B ALA* 2.9 30.5 + - - +
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Residues in contact with LEU 174 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19B VAL* 3.7 20.0 - - + +
22B GLU* 3.9 15.7 - - + -
23B TYR* 3.6 36.1 - - + +
26B LEU* 3.7 8.9 - - + +
166B ILE* 4.2 14.4 - - + -
170B ILE* 2.8 22.2 + - + +
171B PHE* 3.6 4.0 - - - +
173B GLU* 1.3 69.0 - - - +
175B VAL* 1.4 55.7 + - - +
177B ALA* 3.1 2.7 + - - +
178B LEU* 2.8 52.2 + - + +
227B ILE* 3.9 22.7 - - + -
231B PHE* 4.1 14.4 - - + -
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Residues in contact with VAL 175 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171B PHE* 3.0 47.5 + - + +
172B VAL 3.2 6.5 + - - +
174B LEU* 1.4 74.6 - - - +
176B ASN* 1.4 51.0 + - - +
178B LEU* 3.3 3.8 + - - +
179B GLY* 2.9 29.8 + - - -
219B PRO* 3.9 13.3 - - + +
223B ILE* 4.3 9.0 - - + +
224B PHE* 3.7 23.1 - - + -
227B ILE* 3.8 14.8 - - + -
244B TYR* 3.6 30.5 - - + -
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Residues in contact with ASN 176 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172B VAL* 3.0 32.8 + - - +
173B GLU* 3.7 6.5 - - - +
175B VAL* 1.4 70.6 - - - +
177B ALA* 1.4 59.7 + - - +
179B GLY* 3.1 4.5 + - - +
180B GLN* 3.0 29.5 + - - +
195B ARG* 4.9 2.1 + - - -
244B TYR* 3.1 29.5 + - - -
248B THR* 5.4 0.3 + - - -
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Residues in contact with ALA 177 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22B GLU* 3.9 24.9 - - + +
25B ARG* 4.3 4.7 - - - +
26B LEU* 4.2 14.8 - - + -
173B GLU 2.9 21.9 + - - +
174B LEU* 3.4 5.8 - - - +
176B ASN* 1.4 70.3 - - - +
178B LEU* 1.4 63.0 + - - +
180B GLN* 3.0 41.4 + - - +
193B LEU* 3.2 8.7 + - - +
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Residues in contact with LEU 178 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15B TRP* 3.4 21.0 - - + -
18B ARG* 3.8 43.1 - - + +
19B VAL* 3.7 23.8 - - + +
22B GLU* 4.3 4.9 - - + -
174B LEU* 2.8 28.6 + - + +
175B VAL 3.7 4.0 - - - +
177B ALA* 1.4 75.7 - - - +
179B GLY* 1.3 56.1 + - - +
193B LEU* 3.2 13.6 + - + +
194B ASP 3.0 22.9 + - - -
223B ILE* 3.5 19.0 - - + +
227B ILE* 3.8 24.9 - - + -
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Residues in contact with GLY 179 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175B VAL 2.9 15.3 + - - -
176B ASN* 3.1 7.5 + - - -
178B LEU* 1.3 77.7 - - - +
180B GLN* 1.3 54.4 + - - +
194B ASP* 3.7 3.8 + - - +
195B ARG* 3.3 36.9 + - - +
219B PRO* 5.0 10.1 - - - -
223B ILE* 3.9 12.7 - - - +
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Residues in contact with GLN 180 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22B GLU* 3.6 14.4 - - - +
25B ARG* 4.9 7.8 + - - +
176B ASN 3.0 8.7 + - - +
177B ALA* 3.0 34.5 + - - +
179B GLY* 1.3 73.7 - - - +
193B LEU* 1.3 68.9 + - + +
194B ASP 3.4 0.2 - - - -
195B ARG* 3.6 25.9 + - - +
196B ARG* 3.0 33.6 + - - +
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Residues in contact with LEU 193 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15B TRP* 4.3 0.4 - - + -
18B ARG* 3.8 42.6 + - + +
22B GLU* 3.8 32.1 - - + +
177B ALA 3.2 6.2 + - - +
178B LEU* 3.2 19.0 + - + +
180B GLN* 1.3 97.7 - - + +
194B ASP* 1.4 56.3 + - - +
196B ARG* 3.4 20.8 + - - +
197B ASP* 3.1 36.0 + - - +
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Residues in contact with ASP 194 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9B GLU* 4.6 0.9 - - - +
15B TRP* 3.8 9.5 - - + -
178B LEU 3.0 15.3 + - - +
179B GLY* 3.8 6.5 - - - +
193B LEU* 1.4 73.7 - - - +
195B ARG* 1.4 58.9 + - - +
197B ASP* 3.4 21.1 - - - +
198B GLU* 2.9 20.4 - - - +
219B PRO* 5.6 0.2 - - - +
220B SER* 3.2 27.7 + - - -
222B LYS* 2.9 31.3 + - - -
223B ILE* 3.8 5.8 - - + +
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Residues in contact with ARG 195 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176B ASN 4.9 1.8 + - - -
179B GLY* 3.3 28.8 + - - +
180B GLN* 3.6 30.6 + - - +
194B ASP* 1.4 75.7 - - - +
196B ARG* 1.4 62.1 + - - +
197B ASP 3.2 0.9 + - - -
198B GLU* 3.2 28.0 + - - +
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Residues in contact with ARG 196 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180B GLN* 3.0 22.6 + - - +
193B LEU* 3.4 20.6 + - - +
195B ARG* 1.4 74.1 - - - +
197B ASP* 1.4 62.3 + - - +
198B GLU 3.9 1.1 - - - +
199B LYS 3.5 15.2 - - - +
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Residues in contact with ASP 197 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9B GLU* 4.6 15.7 - - + +
10B LYS* 3.6 21.0 - - + +
15B TRP* 4.1 3.1 - - - -
18B ARG* 2.8 44.2 + - - -
193B LEU 3.1 17.9 + - - +
194B ASP* 3.4 19.0 - - - +
195B ARG 3.2 0.4 - - - -
196B ARG* 1.4 75.9 - - - +
198B GLU* 1.4 58.7 + - + +
199B LYS* 3.1 11.8 + - - +
222B LYS* 4.6 0.3 + - - -
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Residues in contact with GLU 198 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194B ASP* 2.9 26.9 - - - +
195B ARG* 3.2 21.3 + - - +
196B ARG 3.9 3.1 - - - +
197B ASP* 1.4 73.1 - - + +
199B LYS* 1.4 70.0 + - - +
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Residues in contact with LYS 199 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196B ARG 3.5 13.3 - - - +
197B ASP 3.1 9.4 + - - -
198B GLU* 1.4 79.7 - - - +
----------------------------------------------------------
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Residues in contact with PRO 219 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175B VAL* 3.9 17.9 - - + +
176B ASN* 6.3 0.4 - - - -
179B GLY* 5.0 8.5 - - - -
194B ASP* 5.6 0.2 - - - +
220B SER* 1.4 66.6 + - - +
221B ASP* 3.9 5.0 + - - +
223B ILE* 4.9 9.4 - - + -
224B PHE* 3.7 22.7 - - + -
244B TYR* 3.6 35.9 - - + +
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Residues in contact with SER 220 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194B ASP* 3.2 26.0 + - - -
219B PRO* 1.4 76.9 - - - +
221B ASP* 1.3 64.8 + - - +
222B LYS* 3.2 34.9 + - - +
223B ILE* 3.5 20.7 - - - +
224B PHE* 3.3 14.2 - - - -
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Residues in contact with ASP 221 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219B PRO 4.3 5.0 - - - +
220B SER* 1.3 73.7 + - - +
222B LYS* 1.4 64.7 + - - +
223B ILE 3.1 2.5 + - - -
224B PHE* 3.1 7.7 + - - +
225B GLU* 3.0 35.3 + - - +
237B ALA* 5.5 0.5 - - - +
241B LYS* 3.2 40.3 + - + +
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Residues in contact with LYS 222 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9B GLU* 2.8 35.5 + - - +
10B LYS 4.9 2.9 - - - +
15B TRP* 3.4 46.1 - - + +
194B ASP* 2.9 29.9 + - - -
197B ASP* 4.6 1.6 + - - -
220B SER* 3.2 20.1 + - - +
221B ASP* 1.4 75.7 - - - +
223B ILE* 1.3 56.9 + - - +
225B GLU* 3.4 20.7 - - - +
226B ALA* 3.1 28.2 + - - +
----------------------------------------------------------
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Residues in contact with ILE 223 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15B TRP* 3.6 31.6 - - + -
175B VAL* 4.3 16.8 - - + +
178B LEU* 3.5 51.5 - - + +
179B GLY* 3.9 7.2 - - - +
194B ASP* 3.8 13.2 - - + +
219B PRO* 4.9 2.5 - - + -
220B SER* 3.5 28.4 + - - +
221B ASP 3.1 0.4 - - - -
222B LYS* 1.3 74.3 - - - +
224B PHE* 1.4 61.3 + - + +
226B ALA* 3.1 7.9 + - - +
227B ILE* 3.0 35.6 + - + +
----------------------------------------------------------
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Residues in contact with PHE 224 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171B PHE* 4.3 3.1 - + - -
175B VAL* 3.7 24.7 - - + -
219B PRO* 3.7 24.0 - - + -
220B SER 3.3 23.1 - - - -
221B ASP* 3.1 8.2 + - - +
223B ILE* 1.4 76.5 - - + +
225B GLU* 1.3 56.7 + - - +
227B ILE* 3.4 6.0 + - + +
228B SER* 3.0 28.2 + - - -
237B ALA* 3.7 20.3 - - + +
240B LEU* 3.4 48.6 - - + +
241B LYS* 3.6 23.1 - - + -
244B TYR* 3.6 32.5 - + + -
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Residues in contact with GLU 225 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
221B ASP* 3.0 28.5 + - - +
222B LYS* 3.4 22.2 - - - +
224B PHE* 1.3 75.1 - - - +
226B ALA* 1.3 52.2 + - - +
228B SER* 4.0 5.2 - - - -
229B SER* 2.7 31.4 + - - -
237B ALA* 3.8 21.5 - - + +
----------------------------------------------------------
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Residues in contact with ALA 226 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12B PRO 5.4 0.4 - - - +
15B TRP* 3.7 38.6 - - + +
16B ARG* 4.1 6.3 - - + +
19B VAL* 3.9 6.3 - - + -
222B LYS 3.1 19.3 + - - +
223B ILE* 3.1 8.2 + - - +
225B GLU* 1.3 75.5 - - - +
227B ILE* 1.4 64.0 + - - +
229B SER* 3.2 20.9 + - - -
230B MET* 3.5 12.6 + - - +
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Residues in contact with ILE 227 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19B VAL* 4.0 10.3 - - + -
166B ILE* 4.8 1.8 - - + -
171B PHE* 4.4 12.6 - - + -
174B LEU* 3.9 17.7 - - + -
175B VAL* 3.8 31.0 - - + -
178B LEU* 3.8 28.9 - - + -
223B ILE* 3.0 22.1 + - + +
224B PHE* 3.4 7.8 + - + +
226B ALA* 1.4 75.3 - - - +
228B SER* 1.4 55.5 + - - +
230B MET 3.2 2.1 + - - -
231B PHE* 2.9 50.2 + - + +
234B LYS* 6.2 0.7 - - + -
240B LEU* 3.8 16.6 - - + -
----------------------------------------------------------
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Residues in contact with SER 228 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
224B PHE 3.0 17.6 + - - -
225B GLU* 4.0 7.2 - - - -
226B ALA 3.3 0.2 - - - -
227B ILE* 1.4 74.6 - - - +
229B SER* 1.3 61.1 + - - +
231B PHE 4.1 7.0 - - - -
232B PRO* 3.1 26.9 - - - +
235B GLY 3.5 14.3 + - - -
236B THR* 3.7 12.3 + - - -
237B ALA* 3.8 17.5 + - - -
240B LEU* 3.9 6.4 - - - +
----------------------------------------------------------
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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