Contacts of the helix formed by residues 287 - 314 (chain G) in PDB entry 6C3P
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 ILE 287 (chain G).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
286G ALA* 1.3 76.6 - - + +
288G TRP* 1.3 70.5 + - + +
289G GLN 3.1 2.2 - - - -
290G ALA* 3.1 11.2 + - + +
291G LEU* 2.9 27.8 + - + +
394G LYS* 6.3 1.8 - - - +
607G VAL* 3.6 29.6 - - + -
610G LEU* 4.5 19.7 - - + -
611G SER* 4.7 21.8 - - - +
614G LEU* 5.7 13.0 - - + -
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Residues in contact with TRP 288 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
286G ALA* 3.2 11.4 - - + +
287G ILE* 1.3 78.0 - - + +
289G GLN* 1.3 57.7 - - + +
291G LEU* 3.3 15.5 + - + +
292G SER* 2.9 32.6 + - - -
432G PHE* 6.6 0.4 - + - -
603G ALA 5.4 0.4 - - - -
604G LEU* 3.5 47.8 - - + -
607G VAL* 3.2 41.7 - - + +
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Residues in contact with GLN 289 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
272G ALA* 5.4 4.3 - - + -
286G ALA 3.6 30.1 + - - +
287G ILE 3.1 0.6 - - - -
288G TRP* 1.3 78.5 - - + +
290G ALA* 1.3 57.3 + - - +
292G SER* 2.6 22.1 + - - -
293G HIS* 2.9 17.3 + - - +
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Residues in contact with ALA 290 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268G GLU* 4.5 2.7 - - - +
269G ALA* 4.5 18.6 - - + +
272G ALA* 4.3 21.4 - - + +
286G ALA 4.1 1.3 + - - +
287G ILE* 3.1 15.2 + - + +
289G GLN* 1.3 75.1 - - - +
291G LEU* 1.3 67.1 + - - +
293G HIS* 3.3 6.3 + - - +
294G ALA* 2.9 26.8 + - - +
394G LYS* 6.0 3.1 - - - +
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Residues in contact with LEU 291 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
287G ILE* 2.9 18.1 + - + +
288G TRP* 3.6 18.4 - - + +
290G ALA* 1.3 75.9 - - - +
292G SER* 1.3 67.4 + - - +
294G ALA* 3.0 6.9 + - - +
295G PHE* 2.9 48.7 + - + +
299G LEU* 5.2 2.7 - - + -
387G LEU* 3.7 39.5 - - + -
391G ILE* 5.8 1.3 - - + -
428G LEU* 6.4 0.7 - - + -
432G PHE* 4.1 22.4 - - + -
607G VAL* 6.6 0.4 - - + -
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Residues in contact with SER 292 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
288G TRP 2.9 18.9 + - - -
289G GLN* 2.6 26.2 + - - -
291G LEU* 1.3 78.1 - - - +
293G HIS* 1.3 63.4 + - - -
295G PHE 2.9 0.2 + - - -
296G GLY* 2.9 31.6 + - - +
299G LEU* 6.4 0.9 - - - -
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Residues in contact with HIS 293 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268G GLU* 4.1 17.8 + - + +
271G ASP* 3.7 28.0 - - + +
272G ALA* 4.3 10.6 + - + +
275G ARG* 6.4 1.1 - - + -
289G GLN 2.9 15.7 + - - +
290G ALA* 3.3 7.2 + - - +
292G SER* 1.3 78.4 + - - +
294G ALA* 1.3 60.5 + - - +
295G PHE 3.7 0.2 + - - -
297G ARG* 5.6 3.5 + - - -
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Residues in contact with ALA 294 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
264G GLN* 4.8 8.2 - - + +
265G ARG* 4.8 9.6 - - + +
268G GLU* 3.4 24.9 - - + +
290G ALA 2.9 17.8 + - - +
291G LEU* 3.0 6.9 + - - +
293G HIS* 1.3 77.4 - - - +
295G PHE* 1.3 62.5 + - + +
297G ARG* 5.6 5.2 + - - +
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Residues in contact with PHE 295 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
291G LEU* 2.9 33.2 + - + +
292G SER* 2.9 0.8 + - - -
293G HIS 3.4 0.2 - - - -
294G ALA* 1.3 83.2 - - + +
296G GLY* 1.3 66.6 + - - +
297G ARG* 3.1 7.2 + - - -
298G ARG* 3.5 22.2 + - + +
299G LEU* 3.8 30.3 + - + -
383G THR* 3.2 54.1 - - + -
386G ASN* 4.6 12.6 - - + -
387G LEU* 4.8 15.7 - - + -
432G PHE* 4.9 7.6 - + - -
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Residues in contact with GLY 296 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
292G SER* 2.9 20.6 + - - -
293G HIS 5.1 0.2 + - - -
295G PHE* 1.3 78.1 - - - +
297G ARG* 1.3 57.2 + - - +
298G ARG 3.3 0.2 - - - -
299G LEU* 3.3 13.4 + - - +
300G VAL* 2.9 37.1 + - - +
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Residues in contact with ARG 297 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
293G HIS 5.6 3.6 + - - -
294G ALA 5.6 4.9 + - - +
295G PHE* 4.7 4.5 - - - +
296G GLY* 1.3 77.8 - - - +
298G ARG* 1.3 62.7 + - + +
300G VAL* 3.1 13.7 - - + +
301G LEU* 2.9 29.7 + - - +
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Residues in contact with ARG 298 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
295G PHE* 3.5 17.2 + - + +
296G GLY 3.3 0.2 - - - -
297G ARG* 1.3 84.4 - - + +
299G LEU* 1.3 58.6 + - - +
301G LEU* 3.2 11.9 + - + +
302G SER 3.0 22.9 + - - -
379G VAL* 3.5 18.4 - - + +
382G GLU* 3.1 35.4 + - - -
383G THR* 3.4 25.6 - - + +
386G ASN* 4.5 6.7 - - - +
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Residues in contact with LEU 299 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
291G LEU* 5.2 3.8 - - + -
292G SER* 6.4 0.4 - - - -
295G PHE* 3.8 33.4 + - + +
296G GLY* 3.3 13.6 + - - +
297G ARG 3.3 0.4 - - - -
298G ARG* 1.3 77.4 - - - +
300G VAL* 1.3 59.2 + - + +
302G SER* 3.2 7.2 + - - -
303G SER* 2.8 31.2 + - - +
380G ALA* 5.2 4.3 - - + -
383G THR* 3.8 28.9 - - + +
432G PHE* 4.0 16.6 - - + +
435G CYS* 3.7 36.6 - - + -
436G PRO* 4.8 1.5 - - + +
439G TRP* 5.9 2.0 - - + -
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Residues in contact with VAL 300 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
296G GLY* 2.9 21.8 + - - +
297G ARG* 3.1 22.7 - - + +
299G LEU* 1.3 77.5 - - + +
301G LEU* 1.3 53.0 + - - +
303G SER* 3.6 9.7 - - - +
304G THR* 2.6 40.0 + - - +
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Residues in contact with LEU 301 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
297G ARG 2.9 14.8 + - - +
298G ARG* 3.3 14.4 - - + +
299G LEU 3.1 0.2 - - - -
300G VAL* 1.3 76.1 - - - +
302G SER* 1.3 67.0 + - - +
304G THR* 3.2 8.0 + - - -
305G PHE* 3.0 59.2 + - + -
379G VAL* 3.8 18.8 - - + -
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Residues in contact with SER 302 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
298G ARG 3.0 8.4 + - - -
299G LEU* 3.6 8.7 - - - -
301G LEU* 1.3 76.2 - - - +
303G SER* 1.3 63.3 + - - +
305G PHE* 3.2 8.2 + - - +
306G ARG 3.0 7.1 + - - -
376G SER* 2.1 56.1 + - - -
379G VAL* 3.5 24.9 - - - -
380G ALA* 3.5 16.5 + - - +
436G PRO* 4.0 5.7 - - - +
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Residues in contact with SER 303 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
299G LEU* 2.8 21.5 + - - +
300G VAL* 3.6 11.0 - - - +
302G SER* 1.3 75.8 - - - +
304G THR* 1.3 54.8 + - - +
306G ARG* 2.6 26.3 + - - +
307G ILE* 2.8 29.3 + - - +
435G CYS* 5.7 0.3 - - - -
436G PRO* 3.4 30.5 + - - +
439G TRP* 4.6 14.9 - - - +
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Residues in contact with THR 304 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
300G VAL* 2.6 27.8 + - - +
301G LEU* 3.2 8.1 + - - -
303G SER* 1.3 72.0 - - - +
305G PHE* 1.3 69.3 + - + +
307G ILE* 3.9 9.5 - - + +
308G LEU* 2.9 33.3 + - + +
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Residues in contact with PHE 305 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
301G LEU* 3.0 45.6 + - + -
302G SER* 3.2 7.9 - - - +
303G SER 3.1 0.2 - - - -
304G THR* 1.3 80.6 - - + +
306G ARG* 1.3 56.3 + - - +
308G LEU* 3.9 5.2 - - + +
309G ALA* 2.9 31.4 + - - +
372G PHE* 4.0 12.6 - + + +
375G ALA* 3.4 36.8 - - + -
376G SER* 3.5 15.9 - - - +
379G VAL* 3.7 13.2 - - + -
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Residues in contact with ARG 306 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
302G SER 3.0 5.9 + - - +
303G SER* 2.6 16.8 + - - +
305G PHE* 1.3 73.3 - - - +
307G ILE* 1.3 55.9 + - - +
309G ALA* 3.5 2.9 - - - +
310G ASP* 2.9 40.0 + - - +
373G LEU* 3.9 23.6 + - - +
376G SER* 2.9 34.3 + - - +
377G TYR* 4.1 27.3 - - - +
433G PHE 5.2 2.6 + - - -
436G PRO* 3.8 17.0 - - + +
437G ASN* 3.6 34.9 + - - +
440G ALA* 3.5 24.9 - - + -
592G LEU* 5.6 3.6 - - - +
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Residues in contact with ILE 307 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
303G SER* 2.8 46.7 + - - +
304G THR* 3.9 9.4 - - + +
306G ARG* 1.3 68.8 - - - +
308G LEU* 1.3 67.2 + - - +
310G ASP* 2.5 22.6 - - - +
311G LEU* 2.9 22.2 + - + +
439G TRP* 4.6 4.7 - - + +
440G ALA* 4.0 29.2 - - + +
443G VAL* 4.2 33.2 - - + -
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Residues in contact with LEU 308 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
304G THR* 2.9 23.3 + - + +
305G PHE* 3.9 5.6 - - + +
307G ILE* 1.3 78.5 - - - +
309G ALA* 1.3 66.8 + - - +
311G LEU* 3.8 5.4 - - - +
312G LEU* 2.9 28.6 + - + +
372G PHE* 3.6 34.8 - - + -
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Residues in contact with ALA 309 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
305G PHE 2.9 20.1 + - - +
306G ARG 3.5 3.8 - - - +
308G LEU* 1.3 75.5 - - - +
310G ASP* 1.3 58.3 + - - +
312G LEU* 2.8 17.8 + - - -
369G GLN* 2.2 51.6 + - - +
372G PHE* 3.8 15.0 - - + -
373G LEU* 3.6 17.7 - - + +
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Residues in contact with ASP 310 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
306G ARG* 2.9 23.6 + - - +
307G ILE* 2.5 34.5 - - - +
309G ALA* 1.3 73.2 - - + +
311G LEU* 1.3 61.9 + - - +
313G GLY* 3.7 1.7 - - - +
314G PHE* 2.8 28.6 + - - +
369G GLN* 4.0 7.2 - - - +
373G LEU* 5.4 2.9 - - + -
440G ALA* 4.1 17.5 - - - +
443G VAL* 6.0 0.9 - - - +
444G GLN* 3.4 48.1 + - - +
----------------------------------------------------------
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Residues in contact with LEU 311 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
307G ILE* 2.9 24.6 + - + +
308G LEU* 3.8 5.4 - - - +
310G ASP* 1.3 81.6 + - - +
312G LEU* 1.3 65.4 + - - +
314G PHE* 3.1 21.9 - - + +
315G ALA* 3.7 3.1 + - - +
443G VAL* 6.1 4.9 - - + -
444G GLN* 6.4 1.8 - - - +
447G VAL* 3.6 41.1 - - + -
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Residues in contact with LEU 312 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
308G LEU* 2.9 17.3 + - + +
309G ALA 2.8 13.9 + - - +
311G LEU* 1.3 67.3 - - - +
313G GLY* 1.3 53.4 + - - +
314G PHE 3.0 3.6 - - - -
315G ALA* 2.6 41.9 + - + +
365G ALA* 3.7 37.7 - - + +
368G LEU* 4.0 23.3 - - + -
369G GLN* 4.1 8.5 - - - +
372G PHE* 4.8 9.9 - - + -
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Residues in contact with GLY 313 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
309G ALA 2.9 2.6 + - - -
310G ASP* 3.7 3.8 - - - -
312G LEU* 1.3 69.8 - - - +
314G PHE* 1.3 55.7 + - - +
315G ALA 3.0 0.4 - - - -
316G GLY* 2.9 21.9 + - - -
317G PRO* 4.2 2.1 - - - +
365G ALA* 5.8 2.0 - - - -
366G LEU* 5.0 10.1 - - - +
369G GLN* 2.8 37.3 - - - +
370G ARG* 5.8 0.7 - - - -
585G ILE* 4.9 8.9 - - - +
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Residues in contact with PHE 314 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
310G ASP 2.8 15.4 + - - +
311G LEU* 3.1 19.1 - - + +
312G LEU 2.9 0.6 + - - -
313G GLY* 1.3 72.2 - - - +
315G ALA* 1.3 55.8 + - - +
316G GLY 3.0 9.3 + - - -
317G PRO* 3.3 15.7 - - + +
318G LEU* 4.8 6.6 - - + +
444G GLN* 5.0 14.6 - - + +
447G VAL* 3.4 28.9 - - + -
448G GLY* 3.3 35.4 - - - -
451G LEU* 3.3 36.6 - - + +
582G LEU* 4.0 23.3 - - + +
585G ILE* 5.4 12.3 - - + -
586G LEU* 6.1 3.1 - - + -
----------------------------------------------------------
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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