Contacts of the helix formed by residues 212 - 244 (chain A) in PDB entry 4ASQ
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 212 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210A ASP* 3.0 4.9 + - - -
211A ASP* 1.3 93.0 - - - +
213A PHE* 1.3 63.7 + - - +
214A GLU* 3.4 2.9 - - - -
215A GLN* 3.3 13.0 + - - +
216A GLN* 2.9 43.9 + - - +
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Residues in contact with PHE 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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205A LEU* 4.4 9.0 - - + +
208A TYR* 3.4 55.0 - + + -
210A ASP* 3.2 32.4 + - + +
211A ASP 3.5 1.4 + - - -
212A THR* 1.3 77.5 - - - +
214A GLU* 1.3 62.2 + - - +
216A GLN* 3.3 10.3 + - - +
217A LEU* 3.1 38.5 + - + +
390A ASN* 4.9 0.7 - - - -
505A LEU* 4.0 6.1 - - + -
509A VAL* 3.6 27.8 - - + -
564A TRP* 3.9 22.7 - + - -
577A MET* 3.6 28.3 - - + -
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Residues in contact with GLU 214 (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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205A LEU* 3.4 36.9 - - + +
211A ASP 5.8 0.2 - - - +
212A THR 3.4 0.4 - - - -
213A PHE* 1.3 77.0 - - - +
215A GLN* 1.3 58.6 + - - +
217A LEU* 3.3 11.2 + - - +
218A GLU* 3.0 34.5 + - + +
446A PHE* 4.7 2.3 - - + -
453A TRP* 3.8 20.6 - - + -
457A ARG* 2.9 33.5 + - - -
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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
----------------------------------------------------------
212A THR* 3.3 16.5 + - - +
214A GLU* 1.3 76.4 - - - +
216A GLN* 1.3 61.0 + - - +
218A GLU* 3.2 17.1 + - - +
219A ASP* 2.9 64.0 + - - +
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Residues in contact with GLN 216 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210A ASP* 2.7 32.8 + - - +
212A THR* 2.9 34.2 + - - +
213A PHE* 3.4 13.0 - - - +
215A GLN* 1.3 77.0 - - + +
217A LEU* 1.3 56.9 + - - +
219A ASP* 3.4 8.6 + - - +
220A ILE* 3.0 36.2 + - + +
564A TRP* 4.9 4.5 - - - -
576A ILE* 5.3 3.8 - - - +
577A MET* 4.0 33.4 + - + +
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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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213A PHE* 3.1 37.3 + - + +
214A GLU* 3.7 9.4 - - - +
215A GLN 3.2 0.2 - - - -
216A GLN* 1.3 76.9 - - - +
218A GLU* 1.3 59.4 + - - +
220A ILE* 4.0 3.2 - - + +
221A PHE* 2.8 32.7 + - - +
446A PHE* 4.0 14.3 - - + -
453A TRP* 5.5 0.2 - - + -
505A LEU* 3.7 33.0 - - + -
508A LEU* 4.0 13.9 - - + +
509A VAL* 4.4 5.6 - - + -
512A ILE* 3.7 28.8 - - + +
577A MET* 3.8 22.4 - - + -
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Residues in contact with GLU 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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214A GLU* 3.0 24.3 + - + +
215A GLN* 3.5 25.1 - - - +
217A LEU* 1.3 74.9 - - - +
219A ASP* 1.3 58.1 + - - +
221A PHE* 3.8 5.4 - - - +
222A ALA* 2.9 30.8 + - - +
446A PHE* 3.7 18.2 - - + -
450A LYS* 2.6 33.6 + - - -
453A TRP* 6.0 0.7 - - - -
476A TYR* 4.7 6.1 + - - -
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Residues in contact with ASP 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 46.5 + - - +
216A GLN* 3.6 8.4 - - - +
218A GLU* 1.3 74.0 - - - +
220A ILE* 1.3 64.1 + - + +
222A ALA* 3.4 7.9 + - - +
223A ASP* 3.3 28.9 + - - +
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Residues in contact with ILE 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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216A GLN* 3.0 23.2 + - + +
217A LEU* 3.4 3.6 + - - +
219A ASP* 1.3 74.7 - - + +
221A PHE* 1.3 63.8 + - - +
223A ASP* 3.2 19.0 + - - +
224A ILE* 3.3 21.3 + - + +
512A ILE* 3.7 28.7 - - + -
577A MET* 3.7 49.4 - - + +
578A SER* 4.3 0.9 - - - -
579A GLY* 4.0 32.8 - - - +
582A ILE* 5.7 0.2 - - + -
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Residues in contact with PHE 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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217A LEU 2.8 19.2 + - - +
218A GLU* 3.8 6.5 - - - +
220A ILE* 1.3 78.9 - - - +
222A ALA* 1.3 58.8 + - - +
224A ILE* 3.1 5.8 + - + +
225A ARG* 2.8 68.7 + - + +
228A TYR* 6.0 1.3 - + + -
442A LEU* 4.5 14.6 - - + -
443A PRO* 3.6 48.5 - - + -
446A PHE* 3.9 28.0 - + + -
476A TYR* 3.5 31.6 - + - -
508A LEU* 5.3 6.5 - - + -
512A ILE* 5.8 0.4 - - - +
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Residues in contact with ALA 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 GLU 2.9 18.3 + - - +
219A ASP* 3.6 8.3 - - - +
220A ILE 3.3 0.2 - - - -
221A PHE* 1.3 78.6 - - - +
223A ASP* 1.3 64.9 + - - +
225A ARG* 3.9 9.0 - - - +
226A PRO* 3.3 19.2 - - - +
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Residues in contact with ASP 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 ASP* 3.3 16.5 + - - +
220A ILE* 3.2 12.8 + - - +
222A ALA* 1.3 80.5 - - - +
224A ILE* 1.3 64.8 + - + +
226A PRO* 3.5 13.2 - - - +
227A LEU* 5.2 0.9 + - - +
579A GLY* 6.5 1.1 - - - -
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Residues in contact with ILE 224 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220A ILE* 3.4 22.9 - - + +
221A PHE* 3.1 7.6 + - + +
223A ASP* 1.3 82.2 - - + +
225A ARG* 1.3 65.6 + - - +
226A PRO* 3.3 2.0 - - - -
227A LEU* 3.1 22.5 + - + +
228A TYR* 3.3 7.7 + - + +
439A ILE* 4.0 24.9 - - + -
442A LEU* 3.7 29.2 - - + -
512A ILE* 6.4 0.2 - - + -
579A GLY* 4.1 11.7 - - - +
582A ILE* 3.9 27.4 - - + -
583A ALA* 4.3 14.6 - - + +
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Residues in contact with ARG 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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221A PHE* 2.8 54.1 + - + +
222A ALA* 3.9 8.3 - - - +
224A ILE* 1.3 77.3 - - - +
226A PRO* 1.4 67.2 - - + +
228A TYR* 3.1 11.5 + - + +
229A GLN* 3.0 45.8 + - + +
475A GLU* 2.9 39.0 + - - +
476A TYR* 3.7 22.2 + - - +
606A TRP* 5.4 1.2 - - - -
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Residues in contact with PRO 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 ALA 3.3 18.2 - - - +
223A ASP* 3.5 9.4 - - - +
224A ILE 3.4 4.3 - - - -
225A ARG* 1.4 90.5 - - + +
227A LEU* 1.3 59.6 + - - +
229A GLN* 3.3 13.3 + - + +
230A GLN* 3.2 27.5 + - - +
594A GLU* 6.2 0.2 - - - +
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Residues in contact with LEU 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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223A ASP 5.2 1.0 + - - +
224A ILE* 3.1 17.0 + - + +
226A PRO* 1.3 75.7 - - - +
228A TYR* 1.3 65.8 + - - +
230A GLN* 3.2 8.7 + - + +
231A ILE* 3.1 39.4 + - + +
439A ILE* 4.1 21.3 - - + -
583A ALA* 6.0 3.6 - - - -
586A PHE* 3.9 29.2 - - + +
589A LEU* 5.0 4.9 - - + -
590A ARG* 4.1 41.5 - - + +
593A LEU* 4.4 10.1 - - + -
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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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221A PHE* 6.0 1.6 - + + -
224A ILE* 3.3 6.6 + - + +
225A ARG* 3.1 15.1 + - + +
227A LEU* 1.3 78.9 - - - +
229A GLN* 1.3 69.3 + - - +
231A ILE* 3.1 4.8 + - + +
232A HIS* 2.8 40.4 + - + +
267A TRP* 3.4 32.1 - + - -
439A ILE* 4.0 17.6 - - + +
440A VAL* 3.7 38.9 + - + -
443A PRO* 3.9 23.8 - - + -
476A TYR 3.6 16.2 - - - -
477A SER* 2.5 38.3 + - - -
606A TRP* 4.4 1.1 - + - -
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Residues in contact with GLN 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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225A ARG* 3.0 40.3 + - + +
226A PRO* 3.4 11.2 - - + +
227A LEU 3.3 0.2 - - - -
228A TYR* 1.3 89.2 - - - +
230A GLN* 1.3 59.4 + - + +
232A HIS* 3.5 6.8 + - - +
233A GLY* 2.9 25.3 + - - -
476A TYR 4.7 0.4 + - - -
604A ILE* 3.8 25.7 - - + +
605A GLY* 4.4 10.0 + - - -
606A TRP* 3.2 39.7 - - - -
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Residues in contact with GLN 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 PRO 3.4 15.7 + - - +
227A LEU* 3.2 12.7 + - + +
229A GLN* 1.3 75.5 - - - +
231A ILE* 1.3 63.7 - - - +
233A GLY 3.5 0.3 + - - -
234A TYR* 3.0 21.5 + - - +
590A ARG* 6.3 0.2 - - + -
593A LEU* 3.8 14.8 - - + -
594A GLU* 3.8 32.0 - - + +
597A ASN* 2.9 46.0 + - - +
604A ILE* 4.0 25.8 - - - +
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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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227A LEU* 3.1 21.5 + - + +
228A TYR* 3.5 6.3 - - - +
230A GLN* 1.3 71.8 - - - +
232A HIS* 1.3 61.2 + - - +
234A TYR* 3.3 3.6 + - - +
235A VAL* 2.9 42.9 + - + +
267A TRP* 4.3 1.1 - - + -
432A PHE* 4.4 11.2 - - + -
435A ALA* 3.8 20.2 - - + +
436A LEU* 4.3 8.5 - - + -
439A ILE* 3.7 37.0 - - + -
440A VAL* 4.0 23.1 - - + -
589A LEU* 4.7 2.2 - - + -
593A LEU* 3.6 20.2 - - + -
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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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228A TYR* 2.8 33.2 + - + +
229A GLN* 3.6 9.1 + - - +
231A ILE* 1.3 74.4 - - - +
233A GLY* 1.3 58.6 + - - +
235A VAL* 3.4 0.3 + - - +
236A ARG* 3.0 56.2 + - - +
252A GLY 4.7 0.4 - - - -
254A ILE* 3.5 27.4 - - + +
267A TRP* 4.2 13.0 - + - -
477A SER 3.3 23.1 - - - -
478A GLY 2.8 24.4 + - - -
605A GLY 5.2 0.8 + - - -
606A TRP* 3.4 30.5 - + + -
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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
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229A GLN 2.9 17.8 + - - -
230A GLN 3.9 1.3 - - - -
232A HIS* 1.3 80.8 + - - +
234A TYR* 1.3 57.0 + - - +
236A ARG* 3.4 7.1 + - - +
237A PHE* 3.0 22.9 + - - +
602A VAL* 3.4 17.1 - - - +
603A HIS 3.8 20.6 - - - +
604A ILE* 4.1 3.1 - - - -
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Residues in contact with TYR 234 (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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230A GLN 3.0 15.9 + - - +
231A ILE* 3.8 3.1 - - - +
233A GLY* 1.3 71.3 - - - +
235A VAL* 1.3 61.0 + - - +
237A PHE* 3.3 27.9 + + - +
238A ARG* 2.9 59.5 + - + +
274A VAL 3.5 21.3 - - - -
276A PRO* 3.7 18.5 + - + +
432A PHE* 3.8 24.2 - + - -
592A TRP* 4.3 9.1 - + - -
593A LEU* 3.8 14.4 - - + -
596A GLU* 3.9 25.0 + - + +
597A ASN* 3.4 23.5 + - - +
600A ASN* 5.1 1.8 - - - -
602A VAL* 4.0 3.0 - - + +
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Residues in contact with VAL 235 (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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231A ILE* 2.9 21.6 + - + +
232A HIS 3.8 2.5 - - - +
234A TYR* 1.3 75.3 - - - +
236A ARG* 1.3 53.9 + - - +
238A ARG* 3.2 3.4 + - - +
239A LEU* 2.8 52.7 + - + +
254A ILE* 4.5 2.2 - - + -
259A LEU* 3.9 17.7 - - + -
267A TRP* 3.9 14.1 - - + -
270A ILE* 4.1 10.3 - - + -
274A VAL* 4.3 11.7 - - + -
432A PHE* 3.9 23.8 - - + -
436A LEU* 3.9 19.1 - - + -
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Residues in contact with ARG 236 (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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232A HIS* 3.0 34.7 + - - +
233A GLY* 3.6 3.9 + - - +
235A VAL* 1.3 75.0 - - - +
237A PHE* 1.3 63.2 + - - +
239A LEU* 3.3 7.4 + - - +
240A ARG* 3.0 31.4 + - - +
248A VAL* 4.0 9.8 - - + +
249A SER 3.4 25.4 - - - +
250A GLU 3.0 17.9 + - - +
251A THR 3.7 4.9 - - - -
252A GLY 2.9 25.5 + - - -
254A ILE* 3.9 22.2 - - + +
603A HIS* 2.9 34.4 + - - -
604A ILE* 4.0 0.2 - - - +
605A GLY 2.7 34.5 + - - +
606A TRP* 3.7 2.2 - - - +
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Residues in contact with PHE 237 (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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233A GLY 3.0 14.5 + - - +
234A TYR* 3.3 31.4 - + - +
236A ARG* 1.3 75.9 - - - +
238A ARG* 1.3 82.3 + - + +
240A ARG* 3.3 32.2 + - - +
241A LYS* 3.4 39.3 + - + +
600A ASN* 3.8 35.7 - - + -
602A VAL* 4.0 21.3 - - + -
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Residues in contact with ARG 238 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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234A TYR* 2.9 58.0 + - + +
235A VAL 3.7 3.6 - - - +
237A PHE* 1.3 90.2 - - + +
239A LEU* 1.3 64.4 + - - +
241A LYS* 3.4 20.5 + - - +
242A HIS* 3.3 20.1 + - - +
272A ASP 5.5 0.4 + - - -
273A ILE 3.3 28.5 + - - +
274A VAL* 3.5 23.2 + - + +
275A SER* 2.7 33.3 + - - +
276A PRO* 4.1 3.8 + - - +
278A PRO* 3.6 19.0 - - - +
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Residues in contact with LEU 239 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
235A VAL* 2.8 40.1 + - + +
236A ARG* 3.3 6.0 + - - +
238A ARG* 1.3 69.5 - - - +
240A ARG* 1.3 60.0 + - - +
242A HIS* 3.2 2.5 + - - +
243A TYR* 2.8 59.7 + - + +
248A VAL* 4.2 13.9 - - + -
254A ILE* 3.8 29.6 - - + -
258A LEU* 4.0 14.1 - - + +
259A LEU* 3.9 9.6 - - + -
270A ILE* 4.0 17.0 - - + -
273A ILE* 4.1 13.5 - - + -
274A VAL* 4.4 3.6 - - + -
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Residues in contact with ARG 240 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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236A ARG* 3.0 23.3 + - - +
237A PHE* 3.5 23.8 - - + +
238A ARG 3.3 0.2 - - - -
239A LEU* 1.3 77.4 - - - +
241A LYS* 1.3 58.8 + - + +
244A GLY* 2.9 32.4 + - - +
245A ASP* 2.8 39.5 + - - +
248A VAL* 3.4 27.8 - - + +
249A SER 4.0 1.1 - - - -
250A GLU* 3.4 57.3 + - - +
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Residues in contact with LYS 241 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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237A PHE* 3.4 44.9 + - + +
238A ARG* 3.4 22.1 + - - +
239A LEU 3.3 0.4 - - - -
240A ARG* 1.3 76.9 - - + +
242A HIS* 1.3 61.4 + - - +
244A GLY* 4.7 0.7 + - - -
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Residues in contact with HIS 242 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157A ARG* 3.9 27.3 + - + +
238A ARG 3.3 9.9 + - - +
239A LEU* 3.2 8.8 + - - +
241A LYS* 1.3 82.5 - - - +
243A TYR* 1.3 92.4 + + + +
244A GLY 3.6 0.2 - - - -
273A ILE* 3.7 39.8 - - + +
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Residues in contact with TYR 243 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A SER 4.3 0.2 + - - -
157A ARG* 3.3 49.8 - - - +
159A HIS* 4.0 27.0 - + + -
162A LEU* 3.9 10.7 - - - +
239A LEU* 2.8 44.1 + - + +
242A HIS* 1.3 94.3 - + - +
244A GLY* 1.3 63.1 + - - +
246A ALA* 5.7 0.5 - - - +
247A VAL* 3.7 31.8 - - + +
248A VAL* 4.3 2.0 - - + -
258A LEU* 3.8 33.5 + - + +
270A ILE* 6.1 0.3 - - - +
273A ILE* 4.5 3.3 - - + +
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Residues in contact with GLY 244 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
240A ARG 2.9 20.9 + - - +
241A LYS 4.6 0.8 + - - -
242A HIS 3.6 1.6 - - - -
243A TYR* 1.3 79.8 - - - +
245A ASP* 1.3 60.9 + - - -
246A ALA* 3.2 4.5 - - - -
247A VAL 3.2 4.0 + - - -
248A VAL* 3.2 24.7 + - - +
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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
------------------------------------------------------------
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