Contacts of the helix formed by residues 300 - 330 (chain B) in PDB entry 6V3O
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 300 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
293B ARG* 4.0 2.5 - - - -
297B PRO 3.7 18.2 - - - +
298B ARG* 3.2 9.0 + - - +
299B VAL* 1.3 74.1 - - - +
301B PRO* 1.3 75.1 - - + +
302B GLU* 3.5 10.0 + - - +
303B VAL* 3.1 34.8 + - + +
304B THR* 3.2 14.7 + - - -
513B ASP* 4.5 6.7 - - - +
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Residues in contact with PRO 301 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
293B ARG* 4.3 4.9 - - - +
300B THR* 1.3 86.9 - - - +
302B GLU* 1.3 60.5 + - - +
304B THR* 3.2 10.0 + - - +
305B ARG* 3.1 18.7 + - - +
512B ALA 5.3 0.2 - - - +
513B ASP* 3.9 27.6 - - - +
516B GLY* 3.6 11.4 - - - +
517B ALA* 3.5 26.0 - - - +
520B VAL* 3.6 31.8 - - + +
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Residues in contact with GLU 302 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238B GLN* 5.6 1.1 - - - +
300B THR* 3.2 8.6 + - - +
301B PRO* 1.3 77.2 - - - +
303B VAL* 1.3 61.6 + - + +
305B ARG* 2.6 47.6 + - - +
306B ASP* 2.9 49.5 + - - +
520B VAL* 5.5 0.7 - - - -
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Residues in contact with VAL 303 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
237B PRO* 4.0 26.2 - - + -
238B GLN* 3.6 28.7 - - - +
290B GLY* 4.1 19.7 - - - +
298B ARG 3.9 13.5 - - - +
299B VAL* 4.6 6.7 - - + -
300B THR* 3.1 28.5 + - - +
302B GLU* 1.3 76.5 - - + +
304B THR* 1.3 61.6 + - - +
306B ASP* 3.0 2.8 + - - +
307B VAL* 2.9 28.7 + - + +
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Residues in contact with THR 304 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
290B GLY 3.0 13.6 + - - +
293B ARG* 2.6 32.2 + - - +
299B VAL* 4.4 0.3 - - - +
300B THR 3.2 10.7 + - - -
301B PRO* 3.2 8.9 + - - -
303B VAL* 1.3 76.5 - - - +
305B ARG* 1.3 62.9 + - - +
307B VAL* 3.1 17.5 - - - +
308B CYS* 3.2 16.1 + - - -
453B LEU* 3.7 22.4 - - + -
455B ILE* 4.1 9.9 - - + -
520B VAL* 4.5 10.1 - - + -
521B LEU* 5.0 2.7 - - + -
529B PHE* 4.5 10.1 - - + -
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Residues in contact with ARG 305 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
301B PRO 3.1 13.3 + - - +
302B GLU* 2.6 43.1 + - - +
304B THR* 1.3 75.5 - - - +
306B ASP* 1.3 74.1 + - - +
308B CYS* 3.4 3.5 + - - +
309B LEU* 3.1 35.8 + - + +
392B LEU* 2.7 34.5 + - - +
393B LEU* 3.5 13.7 + - - +
396B GLY* 3.8 16.3 + - - +
520B VAL* 4.1 14.0 - - + +
523B GLU* 5.6 5.6 - - - -
524B LEU* 4.1 26.5 - - + -
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Residues in contact with ASP 306 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238B GLN* 3.0 37.1 + - + +
302B GLU* 2.9 47.0 + - - +
303B VAL 3.0 5.4 + - - +
305B ARG* 1.3 88.4 + - - +
307B VAL* 1.3 57.2 + - - +
309B LEU* 3.2 3.3 + - - +
310B LEU* 2.9 35.1 + - + +
393B LEU* 3.5 22.3 - - + +
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Residues in contact with VAL 307 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
237B PRO 4.6 0.9 - - - +
238B GLN* 4.6 13.0 - - + -
241B MET* 3.4 44.6 - - + +
289B MET 4.0 12.6 - - - +
290B GLY* 4.0 9.2 - - - -
303B VAL* 2.9 21.5 + - + +
304B THR* 3.1 22.0 - - - +
306B ASP* 1.3 77.4 - - - +
308B CYS* 1.3 57.3 + - - +
310B LEU* 4.1 6.7 - - + -
311B ALA* 3.0 25.5 + - - +
453B LEU* 3.9 21.1 - - + -
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Residues in contact with CYS 308 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
304B THR 3.2 23.5 + - - -
305B ARG 3.7 7.2 - - - +
306B ASP 3.2 0.2 - - - -
307B VAL* 1.3 77.8 - - - +
309B LEU* 1.3 61.7 + - + +
311B ALA* 3.5 6.9 + - - +
312B ARG* 3.2 30.2 + - - +
449B SER* 5.3 0.7 - - - -
453B LEU* 3.9 14.8 - - - -
524B LEU* 4.1 21.8 - - + -
528B SER* 4.4 18.2 - - - +
529B PHE* 3.8 29.8 - - - -
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Residues in contact with LEU 309 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
305B ARG* 3.1 43.8 + - + +
306B ASP 3.8 3.1 - - - +
308B CYS* 1.3 74.6 - - + +
310B LEU* 1.3 65.3 + - - +
312B ARG* 3.2 15.2 + - - +
313B MET* 3.0 27.3 + - - +
389B ALA* 4.0 19.2 - - + +
392B LEU* 3.9 27.6 - - + -
393B LEU* 3.7 37.7 - - + +
524B LEU* 5.0 12.6 - - + -
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Residues in contact with LEU 310 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
362A TRP* 4.4 15.9 - - + -
238B GLN* 4.1 31.4 - - + +
241B MET* 4.1 10.8 - - - -
242B ARG* 4.1 21.3 - - + -
306B ASP* 2.9 26.6 + - + +
307B VAL* 3.8 8.7 - - - +
309B LEU* 1.3 76.3 - - - +
311B ALA* 1.3 63.5 + - - +
313B MET* 3.0 18.5 + - + +
314B MET* 3.0 30.7 + - + +
393B LEU* 3.9 25.5 - - + +
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Residues in contact with ALA 311 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241B MET* 3.9 9.4 - - + -
245B MET* 6.0 0.7 - - - -
307B VAL 3.0 19.3 + - - +
308B CYS* 3.6 7.2 - - - +
309B LEU 3.3 0.2 - - - -
310B LEU* 1.3 76.5 - - - +
312B ARG* 1.3 63.5 + - - +
314B MET* 3.4 14.3 + - - +
315B ALA* 3.1 24.4 + - - +
449B SER* 3.4 29.1 - - - +
450B LEU* 4.5 3.6 - - + +
451B VAL* 4.9 8.1 - - + +
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Residues in contact with ARG 312 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
308B CYS* 3.2 17.1 + - - +
309B LEU* 3.2 20.6 + - - +
311B ALA* 1.3 77.2 - - - +
313B MET* 1.3 61.7 + - - +
315B ALA* 3.7 2.3 + - - +
316B ALA* 3.2 22.2 + - - +
385B THR* 5.6 10.0 - - + +
386B ARG* 5.3 1.0 - - - -
389B ALA* 4.5 11.0 - - + -
406B PHE 5.8 1.4 + - - -
407B THR 5.7 3.0 + - - -
448B LEU* 3.6 43.3 + - - +
449B SER* 4.3 12.6 + - - -
524B LEU* 6.0 1.7 - - - +
525B PRO* 3.6 20.4 - - - +
527B ASP* 2.8 31.7 + - - -
528B SER* 3.0 26.7 + - - +
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Residues in contact with MET 313 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
362A TRP* 3.5 49.6 - - + +
309B LEU 3.0 16.6 + - - +
310B LEU* 3.0 13.0 + - + +
312B ARG* 1.3 77.3 - - - +
314B MET* 1.3 63.4 - - + +
316B ALA* 3.1 5.9 + - - +
317B ASN* 3.0 29.0 + - - +
386B ARG* 3.9 27.4 - - + +
389B ALA* 3.7 17.3 - - + +
390B ARG* 3.8 37.0 - - + -
393B LEU* 4.4 11.9 - - - -
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Residues in contact with MET 314 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241B MET* 3.5 36.6 - - + -
242B ARG* 4.7 15.9 - - + +
245B MET* 3.8 23.3 - - + -
249B HIS* 3.7 30.4 - - + +
310B LEU* 3.0 27.8 + - + +
311B ALA* 3.7 6.1 - - - +
313B MET* 1.3 76.3 - - + +
315B ALA* 1.3 63.7 + - - +
317B ASN* 3.3 11.0 + - - +
318B LEU* 3.1 29.0 + - - +
450B LEU* 4.3 6.7 - - + -
1003B FLC 6.0 1.8 - - - +
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Residues in contact with ALA 315 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
311B ALA 3.1 13.8 + - - +
312B ARG 3.8 1.1 - - - +
314B MET* 1.3 75.6 - - - +
316B ALA* 1.3 62.8 + - - +
318B LEU* 3.0 6.1 + - - +
319B TYR* 2.9 37.9 + - + -
448B LEU* 3.3 34.5 - - - +
450B LEU* 4.1 26.5 - - + +
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Residues in contact with ALA 316 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
312B ARG 3.2 10.7 + - - +
313B MET 3.1 9.4 + - - +
315B ALA* 1.3 77.0 - - - +
317B ASN* 1.3 57.6 + - - +
319B TYR* 3.3 9.5 + - - +
320B ILE* 2.8 35.8 + - + +
382B LEU* 4.0 21.1 - - + +
385B THR* 5.0 5.6 - - + -
386B ARG* 3.7 26.9 - - + +
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Residues in contact with ASN 317 (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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359A ILE* 3.2 42.0 + - + +
362A TRP* 5.2 8.3 - - - +
249B HIS* 5.8 2.9 - - + -
313B MET* 3.0 26.1 + - - +
314B MET* 3.7 10.8 - - - +
315B ALA 3.2 0.2 - - - -
316B ALA* 1.3 76.0 - - - +
318B LEU* 1.3 63.0 + - + +
320B ILE* 3.3 15.8 + - - +
321B ASP* 3.3 20.4 + - - +
386B ARG* 3.2 36.2 + - - +
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Residues in contact with LEU 318 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
248B ILE* 5.2 0.7 - - + -
249B HIS* 3.6 44.9 - - + +
253B TRP* 3.5 54.6 + - + +
314B MET 3.1 18.3 + - - +
315B ALA 3.0 6.5 + - - +
317B ASN* 1.3 77.9 - - + +
319B TYR* 1.3 62.4 + - - +
321B ASP* 3.6 5.0 + - + +
322B GLN* 3.2 26.7 + - - +
450B LEU* 4.0 20.4 - - + -
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Residues in contact with TYR 319 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
253B TRP* 3.6 25.1 - + - -
315B ALA* 2.9 33.6 + - + -
316B ALA* 3.7 8.7 - - - +
318B LEU* 1.3 75.5 - - - +
320B ILE* 1.3 57.9 + - - +
322B GLN* 3.3 2.0 + - - +
323B ILE* 2.8 35.0 + - + +
382B LEU* 3.7 22.2 - - + -
412B PHE* 3.9 28.5 - + + -
439B LEU* 4.0 16.8 - - + -
442B GLN* 3.5 7.7 + - + -
443B VAL* 3.3 40.2 - - + +
446B PHE* 4.1 2.3 - - - +
447B GLY 2.6 31.0 + - - -
448B LEU* 4.6 5.8 - - + -
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Residues in contact with ILE 320 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
359A ILE* 3.8 22.7 - - + -
316B ALA* 2.8 25.0 + - + +
317B ASN* 3.3 9.1 + - - +
319B TYR* 1.3 76.6 - - - +
321B ASP* 1.3 57.4 + - - +
323B ILE* 3.5 3.8 + - - +
324B GLU* 3.0 42.4 + - - +
379B ARG* 4.2 8.9 - - + +
382B LEU* 3.6 24.9 - - + +
383B TYR* 3.7 57.9 - - + +
386B ARG* 5.2 3.1 - - + -
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Residues in contact with ASP 321 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
359A ILE* 3.7 22.5 - - - +
360A GLU* 4.4 13.2 - - - +
317B ASN 3.3 16.0 + - - +
318B LEU* 4.1 4.8 - - + +
319B TYR 3.2 0.4 - - - -
320B ILE* 1.3 76.2 - - - +
322B GLN* 1.3 65.2 + - - +
324B GLU* 3.2 17.4 + - - +
325B GLU* 3.0 29.0 + - + +
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Residues in contact with GLN 322 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
253B TRP* 3.6 25.1 + - + +
254B LYS* 3.4 32.9 + - - +
318B LEU 3.2 14.3 + - - +
319B TYR* 3.7 4.3 - - - +
321B ASP* 1.3 78.2 - - - +
323B ILE* 1.3 58.1 + - - +
325B GLU* 3.3 17.3 + - - +
326B LEU* 2.9 28.1 + - - +
435B SER* 5.6 9.5 + - - -
438B ASP* 6.0 2.8 - - - +
439B LEU* 4.1 21.8 - - + +
442B GLN* 3.8 18.3 + - - +
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Residues in contact with ILE 323 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
319B TYR* 2.8 19.9 + - - +
320B ILE* 3.9 5.4 - - - +
322B GLN* 1.3 76.6 - - - +
324B GLU* 1.3 57.5 + - - +
326B LEU* 3.3 7.8 + - - +
327B MET* 2.9 29.6 + - - +
375B LEU* 3.5 36.5 - - + +
378B VAL* 3.5 30.3 - - + -
379B ARG* 4.3 10.3 - - + -
382B LEU* 3.6 17.5 - - + -
412B PHE* 4.2 10.1 - - + -
416B LEU* 4.6 9.6 - - + -
439B LEU* 4.2 17.3 - - + -
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Residues in contact with GLU 324 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
359A ILE* 5.8 0.2 - - - +
320B ILE* 3.0 30.6 + - - +
321B ASP* 3.2 18.5 + - - +
323B ILE* 1.3 75.6 - - - +
325B GLU* 1.3 65.3 + - + +
327B MET* 3.4 11.5 + - - +
328B PHE* 3.3 21.3 + - - +
379B ARG* 3.3 41.3 + - - +
383B TYR* 4.1 8.0 + - - -
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Residues in contact with GLU 325 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
254B LYS* 4.9 13.8 + - - -
321B ASP* 3.0 18.3 + - + +
322B GLN* 3.7 16.2 + - - +
324B GLU* 1.3 76.5 - - - +
326B LEU* 1.3 60.9 + - - +
328B PHE* 3.5 8.6 + - - +
329B GLU* 3.4 30.4 + - - +
----------------------------------------------------------
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Residues in contact with LEU 326 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
322B GLN 2.9 17.5 + - - +
323B ILE* 3.6 6.5 - - - +
324B GLU 3.2 0.2 - - - -
325B GLU* 1.3 75.0 - - - +
327B MET* 1.3 64.9 + - - +
329B GLU* 3.1 4.0 + - - -
330B LEU* 3.0 51.1 + - + +
375B LEU* 3.7 22.9 - - + -
435B SER* 3.4 29.8 - - - +
436B LEU* 3.8 32.3 - - + +
439B LEU* 3.8 28.3 - - + -
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Residues in contact with MET 327 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
323B ILE* 2.9 23.4 + - - +
324B GLU* 3.4 14.3 + - - +
326B LEU* 1.3 76.5 - - - +
328B PHE* 1.3 58.0 + - - +
329B GLU 3.2 0.5 + - - -
330B LEU* 3.4 6.1 + - - +
372B ARG* 2.7 64.3 + - + +
375B LEU* 3.5 29.8 - - + +
376B GLY* 3.9 22.4 - - - -
379B ARG* 4.3 25.1 - - - +
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Residues in contact with PHE 328 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184A ARG* 3.5 37.0 - - + -
185A SER* 3.8 27.2 - - - -
188A GLN* 3.1 46.0 - - + +
189A LYS* 4.1 1.0 + - - -
192A ARG* 5.7 1.1 - - - -
1002A SO4 3.7 17.9 - - - -
324B GLU 3.3 9.7 + - - +
325B GLU* 3.6 12.1 - - - +
326B LEU 3.2 0.6 - - - -
327B MET* 1.3 78.4 - - - +
329B GLU* 1.3 63.4 + - + +
331B SER* 4.3 0.2 + - - -
372B ARG* 2.9 26.3 + - - +
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Residues in contact with GLU 329 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189A LYS* 2.9 31.2 + - - +
192A ARG* 3.5 41.6 + - - +
220A GLU* 5.1 2.5 - - - +
223A ALA* 5.5 0.9 - - - +
325B GLU* 3.4 18.2 + - - +
326B LEU* 3.1 14.6 + - - +
328B PHE* 1.3 80.1 - - + +
330B LEU* 1.3 65.1 + - + +
331B SER* 3.0 5.0 + - - -
332B MET* 4.3 4.0 - - - +
435B SER* 2.5 32.4 + - - -
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Residues in contact with LEU 330 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
326B LEU* 3.0 48.9 + - + +
327B MET* 3.4 4.7 + - - +
329B GLU* 1.3 81.9 - - + +
331B SER* 1.3 57.4 + - - +
332B MET* 3.3 24.1 + - + +
369B GLU* 5.3 0.3 - - - +
371B TYR* 3.9 33.9 + - + +
372B ARG* 3.6 18.4 + - - +
375B LEU* 5.0 7.0 - - + -
419B CYS* 5.5 1.6 - - + -
423B LEU* 3.8 24.5 - - + -
431B ILE* 4.9 7.4 - - + -
435B SER* 5.0 0.9 - - - +
436B LEU* 4.7 18.2 - - + +
----------------------------------------------------------
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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