Contacts of the helix formed by residues 206 - 238 (chain B) in PDB entry 2C6N
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 THR 206 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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204B SER* 2.7 9.3 + - - -
205B PRO* 1.3 92.7 - - + +
207B PHE* 1.3 52.7 + - - -
208B GLU 3.2 2.5 - - - -
209B ASP* 2.8 19.2 + - + +
210B ASP* 2.7 60.1 + - - +
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Residues in contact with PHE 207 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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199B ARG* 3.8 32.1 - - + +
202B TYR* 3.6 58.3 - + + -
204B SER* 3.0 23.2 + - - +
205B PRO 3.8 0.2 - - - -
206B THR* 1.3 76.2 + - - +
208B GLU* 1.3 62.2 + - - +
210B ASP* 3.3 9.7 + - + +
211B LEU* 2.8 59.1 + - + +
447B TRP* 4.4 4.9 - + - -
499B ILE* 3.9 23.1 - - + -
503B VAL* 4.2 6.3 - - + -
552B TRP* 5.3 2.2 - + - -
565B LEU* 5.3 7.0 - - + -
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Residues in contact with GLU 208 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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199B ARG* 3.8 29.3 + - + +
206B THR 3.2 1.2 - - - -
207B PHE* 1.3 79.0 - - - +
209B ASP* 1.3 66.8 + - - +
211B LEU* 3.5 7.6 + - - +
212B GLU* 3.2 21.1 + - - +
440B TYR* 4.9 2.8 + - - -
447B TRP* 3.7 38.5 - - + -
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Residues in contact with ASP 209 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206B THR* 2.8 24.1 + - + +
208B GLU* 1.3 76.6 - - - +
210B ASP* 1.3 67.1 + - - +
212B GLU* 3.0 18.2 + - - +
213B HIS* 2.9 38.2 + - + +
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Residues in contact with ASP 210 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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204B SER* 4.7 4.5 - - - -
206B THR* 2.7 50.0 + - - +
207B PHE* 3.7 9.8 + - + +
209B ASP* 1.3 74.4 - - - +
211B LEU* 1.3 59.2 + - + +
213B HIS* 3.7 11.7 + - - +
214B LEU* 3.0 35.8 + - + +
565B LEU* 6.2 4.7 - - + -
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Residues in contact with LEU 211 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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207B PHE* 2.8 58.4 + - + +
208B GLU* 3.5 7.4 + - - +
209B ASP 3.2 0.2 - - - -
210B ASP* 1.3 77.2 - - + +
212B GLU* 1.3 64.1 + - - +
214B LEU* 3.8 9.5 - - + +
215B TYR* 3.2 14.0 + - - +
440B TYR* 3.3 26.8 - - + -
447B TRP* 5.0 4.7 - - + -
499B ILE* 4.0 11.2 - - + -
502B PHE* 3.4 32.7 - - + -
503B VAL* 4.0 22.0 - - + -
565B LEU* 4.9 9.9 - - + -
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Residues in contact with GLU 212 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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208B GLU 3.2 12.6 + - - +
209B ASP* 3.0 18.0 + - - +
211B LEU* 1.3 77.6 - - - +
213B HIS* 1.3 72.7 + - + +
215B TYR* 2.9 14.5 + - - +
216B GLN* 3.0 22.6 + - + +
440B TYR* 3.7 20.1 + - - +
470B TYR* 4.9 5.7 + - - -
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Residues in contact with HIS 213 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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418A THR* 6.1 3.6 - - + -
209B ASP* 2.9 38.3 + - + +
210B ASP* 3.8 13.4 + - - +
212B GLU* 1.3 78.4 - - + +
214B LEU* 1.3 59.8 + - + +
216B GLN* 2.7 38.0 + - - +
217B GLN* 3.4 11.7 + - - +
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Residues in contact with LEU 214 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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210B ASP* 3.0 22.8 + - + +
211B LEU* 3.9 10.8 - - + +
212B GLU 3.1 0.2 - - - -
213B HIS* 1.3 83.6 - - + +
215B TYR* 1.3 60.2 + - - +
217B GLN* 3.8 14.4 + - - +
218B LEU* 3.7 28.2 + - + +
502B PHE* 5.0 8.3 - - + -
506B VAL* 3.6 40.6 - - + -
565B LEU* 4.0 36.8 - - + +
566B ASP* 4.6 2.5 - - - +
567B ALA* 4.6 12.1 - - + +
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Residues in contact with TYR 215 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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211B LEU 3.2 17.1 + - - +
212B GLU* 2.9 5.3 + - - +
214B LEU* 1.3 75.5 - - - +
216B GLN* 1.3 60.7 + - - +
217B GLN 3.1 0.7 - - - -
218B LEU* 3.0 7.2 + - + +
219B GLU* 2.7 77.8 + - + +
222B TYR* 4.3 7.6 - - + +
436B LEU* 4.3 6.3 - - + -
437B PRO* 3.5 42.7 - - + +
440B TYR* 4.3 15.9 - + + -
470B TYR* 3.5 41.7 + + - -
502B PHE* 4.2 22.7 - + + -
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Residues in contact with GLN 216 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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583A GLU* 3.1 44.0 + - + +
587A GLN* 4.8 12.3 + - - +
212B GLU* 3.0 22.7 + - + +
213B HIS* 2.7 26.2 + - - +
215B TYR* 1.3 80.5 - - - +
217B GLN* 1.3 60.7 - - + +
219B GLU* 4.5 3.8 + - - -
220B PRO* 3.3 11.6 - - - +
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Residues in contact with GLN 217 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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576A PRO* 6.1 2.0 - - - +
579A GLN* 3.0 40.6 - - + +
213B HIS* 3.8 15.3 + - - +
214B LEU* 3.9 17.0 - - - +
215B TYR 3.1 0.2 - - - -
216B GLN* 1.3 81.1 - - + +
218B LEU* 1.3 59.2 + - - +
220B PRO* 3.1 8.7 - - - +
221B LEU* 4.3 0.9 - - - +
566B ASP* 5.5 3.5 + - - +
567B ALA* 3.2 30.7 + - + +
568B GLN 4.8 0.5 + - - -
571B LEU* 4.0 12.4 - - + +
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Residues in contact with LEU 218 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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214B LEU* 3.7 17.5 + - + +
215B TYR* 3.0 12.6 + - + +
217B GLN* 1.3 79.5 - - - +
219B GLU* 1.3 66.0 + - - +
220B PRO* 3.2 1.8 - - - -
221B LEU* 3.0 39.7 + - + +
222B TYR* 3.4 4.7 + - - +
433B ILE* 5.6 0.2 - - + -
436B LEU* 4.0 32.8 - - + +
502B PHE* 5.1 4.0 - - + -
506B VAL* 3.9 27.4 - - + -
567B ALA* 4.4 16.8 - - + -
570B LEU* 4.4 29.8 - - + -
571B LEU* 4.8 7.0 - - + -
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Residues in contact with GLU 219 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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583A GLU* 2.7 34.2 - - - +
586A GLN* 5.1 2.9 - - - +
587A GLN* 4.6 3.8 - - - +
2433A GOL 3.9 28.8 + - - -
215B TYR* 2.7 55.1 + - + +
216B GLN* 4.5 3.6 + - - -
218B LEU* 1.3 71.6 - - - +
220B PRO* 1.3 68.7 - - + +
222B TYR* 3.2 4.4 + - - +
223B LEU* 3.0 36.5 + - + +
469B LYS 5.0 2.1 - - - +
470B TYR* 5.6 2.9 - - - +
594B TRP* 5.8 0.3 - - - -
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Residues in contact with PRO 220 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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579A GLN* 3.9 17.5 - - + +
582A GLN* 4.0 27.4 - - + +
583A GLU* 3.6 30.7 - - + +
216B GLN 3.3 9.4 - - - +
217B GLN 3.1 17.5 - - - +
218B LEU 3.2 0.7 - - - -
219B GLU* 1.3 92.9 - - + +
221B LEU* 1.3 62.5 + - - +
223B LEU* 3.2 10.6 + - + +
224B ASN* 2.9 30.7 + - - +
592B LEU* 6.4 0.4 - - + -
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Residues in contact with LEU 221 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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579A GLN* 3.2 30.5 - - - +
217B GLN 4.3 3.8 - - - +
218B LEU* 3.0 25.9 + - + +
220B PRO* 1.3 81.5 - - - +
222B TYR* 1.3 62.7 + - - +
224B ASN* 3.2 5.9 + - + +
225B LEU* 3.0 21.8 + - - +
433B ILE* 3.4 39.1 - - + +
570B LEU* 5.9 1.3 - - + -
571B LEU* 3.8 21.1 - - + -
574B PHE* 4.8 2.5 - - + -
577B VAL* 6.1 0.4 - - + -
578B THR* 3.4 33.7 - - + +
581B LEU* 5.4 4.1 - - + +
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Residues in contact with TYR 222 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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215B TYR* 4.3 11.9 - - + +
218B LEU 3.4 4.2 + - - +
219B GLU 3.2 7.6 + - - +
221B LEU* 1.3 79.7 - - - +
223B LEU* 1.3 63.3 + - + +
225B LEU* 2.9 5.5 + - + +
226B HIS* 2.7 45.9 + + + +
261B TRP* 3.0 36.9 - + - -
433B ILE* 3.9 16.8 - - + +
434B ALA* 3.4 28.9 + - - -
436B LEU* 5.6 1.8 - - + -
437B PRO* 3.5 27.1 - - + -
470B TYR 3.5 18.4 - - - -
471B GLN* 2.7 39.3 + - - +
473B ILE* 4.6 0.7 - - - +
594B TRP* 4.4 1.8 - + - -
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Residues in contact with LEU 223 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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583A GLU* 4.9 1.8 - - - +
586A GLN* 3.4 44.6 - - + +
2433A GOL 3.7 19.3 - - - +
219B GLU* 3.0 38.5 + - + +
220B PRO* 3.2 10.5 + - + +
222B TYR* 1.3 79.1 - - + +
224B ASN* 1.3 57.1 + - - +
226B HIS* 3.7 5.6 + - - +
227B ALA* 3.0 30.0 + - - +
470B TYR 5.5 0.2 - - - +
592B LEU* 3.7 18.8 - - + +
593B GLY* 4.5 4.7 + - - +
594B TRP* 3.7 24.9 - - + -
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Residues in contact with ASN 224 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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582A GLN* 3.1 27.3 + - - +
220B PRO* 2.9 20.7 + - - +
221B LEU* 3.7 5.1 - - - +
223B LEU* 1.3 76.2 - - - +
225B LEU* 1.3 66.5 + - - +
228B PHE* 3.0 22.2 + - - +
578B THR* 5.2 1.9 + - - +
581B LEU* 4.5 13.9 - - + +
582B GLN* 3.7 25.4 - - + +
585B ASN* 2.9 33.1 + - - +
592B LEU* 3.5 25.2 - - - +
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Residues in contact with LEU 225 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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221B LEU 3.0 11.4 + - - +
222B TYR* 2.9 8.3 + - + +
224B ASN* 1.3 76.0 - - - +
226B HIS* 1.3 56.9 + - - +
228B PHE* 3.4 3.9 + - + +
229B VAL* 2.9 44.0 + - + +
261B TRP* 4.5 4.5 - - + -
426B LEU* 3.5 31.6 - - + -
429B ALA* 3.5 34.1 - - + +
430B LEU* 3.9 19.5 - - + +
433B ILE* 4.0 10.3 - - + -
434B ALA* 3.9 20.9 - - + +
581B LEU* 4.1 15.4 - - + +
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Residues in contact with HIS 226 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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222B TYR* 2.7 35.5 + - + +
223B LEU* 3.7 7.9 + - - +
225B LEU* 1.3 70.9 - - - +
227B ALA* 1.3 64.5 + - - +
229B VAL* 3.4 1.9 + - - +
230B ARG* 2.9 51.0 + - - +
246B GLY 4.7 0.7 - - - -
248B ILE* 3.3 30.8 - - + +
261B TRP* 4.0 12.1 - + + -
471B GLN 3.5 20.2 - - - -
472B GLY 3.0 20.5 + - - -
473B ILE* 5.2 0.4 - - + -
593B GLY 4.8 2.2 + - - -
594B TRP* 3.2 32.2 - + - -
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Residues in contact with ALA 227 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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223B LEU 3.0 17.9 + - - +
224B ASN 4.1 0.2 - - - +
226B HIS* 1.3 81.2 + - - +
228B PHE* 1.3 63.2 + - - +
230B ARG* 3.4 11.6 + - - +
231B ARG* 3.1 24.6 + - - +
585B ASN* 3.9 9.0 - - - +
590B GLU* 4.1 10.9 - - + +
591B VAL 3.7 17.0 - - - +
592B LEU* 3.6 22.0 - - + -
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Residues in contact with PHE 228 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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224B ASN 3.0 19.0 + - - +
225B LEU* 3.6 3.8 - - + +
227B ALA* 1.3 80.2 - - - +
229B VAL* 1.3 70.2 + - + +
231B ARG* 3.5 8.1 + - + +
232B ALA* 3.4 17.1 + - + +
235B ARG* 5.4 8.7 + - - -
268B VAL* 3.7 29.6 - - + -
270B PRO* 4.7 1.1 - - + -
426B LEU* 4.2 19.3 - - + -
580B TRP* 3.6 30.1 - + - -
581B LEU* 3.2 27.6 - - + -
584B GLN* 4.4 15.9 - - + -
585B ASN* 3.5 15.0 + - - +
588B ASN* 6.0 2.5 - - - -
590B GLU* 5.1 1.3 - - - -
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Residues in contact with VAL 229 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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225B LEU* 2.9 36.0 + - + +
226B HIS 3.9 0.9 - - - +
228B PHE* 1.3 75.7 - - + +
230B ARG* 1.3 68.8 + - - +
232B ALA* 2.7 18.3 + - - +
233B LEU* 2.8 23.9 + - + +
248B ILE* 5.2 0.2 - - + -
253B LEU* 4.1 13.7 - - + -
261B TRP* 3.6 34.3 - - + -
264B ILE* 4.8 8.3 - - + -
268B VAL* 4.0 19.7 - - + -
430B LEU* 4.1 9.2 - - + -
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Residues in contact with ARG 230 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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226B HIS* 2.9 29.9 + - - +
227B ALA* 3.7 14.4 + - - +
229B VAL* 1.3 75.3 - - - +
231B ARG* 1.3 52.9 + - - +
233B LEU* 2.8 9.7 + - - +
234B HIS* 2.7 32.6 + - - +
242B ILE* 3.7 17.9 - - + +
243B ASN 3.2 17.5 - - - -
244B LEU* 3.0 32.1 + - + +
245B ARG 4.0 0.2 - - - -
246B GLY 2.7 34.7 + - - +
247B PRO 5.3 0.4 - - - -
248B ILE* 4.0 26.2 - - + +
590B GLU* 5.0 2.6 - - - +
591B VAL* 2.8 30.5 + - - +
593B GLY 3.0 21.8 + - - +
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Residues in contact with ARG 231 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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227B ALA 3.1 6.8 + - - +
228B PHE* 3.6 11.0 - - + +
229B VAL 3.2 0.2 - - - -
230B ARG* 1.3 78.5 - - - +
232B ALA* 1.3 62.7 + - - +
234B HIS* 3.4 6.8 + - - +
235B ARG* 3.0 56.8 + - - +
244B LEU* 4.0 24.2 - - + +
588B ASN* 3.8 33.5 + - + +
590B GLU* 2.7 43.5 + - - +
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Residues in contact with ALA 232 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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228B PHE* 3.4 7.4 + - + +
229B VAL* 2.7 14.1 + - + +
231B ARG* 1.3 80.3 - - - +
233B LEU* 1.3 57.2 + - + +
235B ARG* 2.9 40.3 - - - +
236B ARG* 3.2 8.1 + - - +
267B MET* 3.5 27.9 - - + +
268B VAL* 3.6 19.1 - - + -
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Residues in contact with LEU 233 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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229B VAL* 2.8 31.7 + - + +
230B ARG* 3.4 6.3 - - - +
232B ALA* 1.3 77.4 - - + +
234B HIS* 1.3 57.0 + - - +
236B ARG* 4.6 1.8 - - - +
237B TYR* 2.8 61.3 + - + +
242B ILE* 3.7 16.2 - - + -
248B ILE* 3.7 33.7 - - + -
252B LEU* 4.0 12.8 - - + +
253B LEU* 4.3 8.3 - - + -
264B ILE* 3.9 25.1 - - + -
267B MET* 4.5 7.6 - - + -
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Residues in contact with HIS 234 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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230B ARG 2.7 15.7 + - - +
231B ARG* 3.4 15.0 + - - +
233B LEU* 1.3 69.5 - - - +
235B ARG* 1.3 72.3 + - - +
238B GLY* 2.9 22.0 + - - +
239B ASP* 2.8 43.5 + - + -
242B ILE* 3.8 29.5 - - + +
244B LEU* 3.5 39.0 - - + +
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Residues in contact with ARG 235 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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228B PHE* 5.4 8.5 + - - -
231B ARG* 3.0 54.9 + - - +
232B ALA* 2.9 25.5 + - - +
234B HIS* 1.3 85.0 + - - +
236B ARG* 1.3 63.3 + - + +
238B GLY* 4.1 2.9 + - - -
588B ASN* 5.9 1.2 + - - -
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Residues in contact with ARG 236 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151B ARG* 3.9 25.6 + - - +
232B ALA 3.2 8.7 + - - +
233B LEU* 4.4 1.3 - - - +
235B ARG* 1.3 82.7 - - + +
237B TYR* 1.3 89.4 + - + +
266B ASP* 5.0 5.1 + - - -
267B MET* 2.3 47.1 - - + +
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Residues in contact with TYR 237 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150B SER 4.5 0.2 + - - -
151B ARG* 3.9 38.8 - - - -
153B TYR* 4.5 23.8 - + + -
156B LEU* 3.8 17.1 - - + +
233B LEU* 2.8 56.2 + - + +
236B ARG* 1.3 92.4 - - + +
238B GLY* 1.3 58.8 + - - +
240B ARG* 5.1 0.7 + - - +
241B TYR* 4.0 26.7 - + + -
242B ILE* 4.2 9.6 - - + -
252B LEU* 3.9 35.2 + - + +
264B ILE* 5.0 0.9 - - - +
267B MET* 4.5 3.5 - - + +
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Residues in contact with GLY 238 (chain B).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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234B HIS* 2.9 20.6 + - - -
235B ARG 4.1 2.6 + - - -
236B ARG 3.5 1.8 - - - -
237B TYR* 1.3 81.1 - - - +
239B ASP* 1.3 63.5 + - - -
240B ARG* 2.9 7.8 + - - -
241B TYR 3.3 10.9 + - - -
242B ILE* 3.4 13.7 + - - +
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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