Contacts of the helix formed by residues 287 - 314 (chain H) 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 H).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
286H ALA* 1.3 76.5 - - + +
288H TRP* 1.3 68.8 + - + +
289H GLN 3.1 2.7 - - - -
290H ALA* 3.1 11.3 + - + +
291H LEU* 2.9 27.9 + - + +
394H LYS* 6.3 2.2 - - - +
607H VAL* 3.6 31.9 - - + -
610H LEU* 4.5 19.5 - - + -
611H SER* 4.7 20.9 - - - +
614H LEU* 5.7 13.0 - - + -
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Residues in contact with TRP 288 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
286H ALA* 4.9 11.0 - - + -
287H ILE* 1.3 78.5 - - + +
289H GLN* 1.3 58.9 + - + +
291H LEU* 3.3 14.9 + - + +
292H SER* 2.9 33.1 + - - -
432H PHE* 6.6 0.2 - + - -
603H ALA 5.4 0.2 - - - -
604H LEU* 3.5 48.5 - - + -
607H VAL* 3.2 41.7 - - + +
608H GLN 5.9 0.2 - - - -
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Residues in contact with GLN 289 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
272H ALA* 5.4 5.4 - - + -
286H ALA 3.6 30.7 + - - +
287H ILE 3.1 0.6 - - - -
288H TRP* 1.3 78.7 - - + +
290H ALA* 1.3 56.9 + - - +
292H SER* 2.6 22.1 + - - -
293H HIS* 2.9 17.6 + - - +
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Residues in contact with ALA 290 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268H GLU* 4.5 3.1 - - - +
269H ALA* 4.5 18.4 - - + +
272H ALA* 4.3 21.6 - - + +
286H ALA 4.1 1.0 + - - +
287H ILE* 3.1 15.2 + - + +
289H GLN* 1.3 75.3 - - - +
291H LEU* 1.3 66.6 + - - +
293H HIS* 3.3 7.0 + - - +
294H ALA* 2.9 25.1 + - - +
394H LYS* 6.0 4.0 - - - +
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Residues in contact with LEU 291 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
287H ILE* 2.9 17.7 + - + +
288H TRP* 3.6 19.1 - - + +
290H ALA* 1.3 75.4 - - - +
292H SER* 1.3 67.4 + - - +
294H ALA* 3.0 6.4 + - - +
295H PHE* 2.9 48.2 + - + +
299H LEU* 5.2 2.7 - - + -
387H LEU* 3.7 38.4 - - + -
391H ILE* 5.8 1.6 - - + -
428H LEU* 6.4 0.9 - - + -
432H PHE* 4.1 23.6 - - + -
607H VAL* 6.6 0.2 - - + -
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Residues in contact with SER 292 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
288H TRP 2.9 18.1 + - - -
289H GLN* 2.6 26.5 + - - -
291H LEU* 1.3 78.2 - - - +
293H HIS* 1.3 62.4 + - - +
295H PHE* 2.9 0.4 + - - -
296H GLY* 2.9 32.4 + - - +
299H LEU* 6.4 0.9 - - - -
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Residues in contact with HIS 293 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268H GLU* 4.1 17.5 + - + +
271H ASP* 3.7 28.2 - - + +
272H ALA* 4.3 10.5 + - + +
275H ARG* 6.4 0.9 - - + -
289H GLN 2.9 16.8 + - - +
290H ALA* 3.7 7.2 - - - +
292H SER* 1.3 80.0 + - - +
294H ALA* 1.3 59.7 + - - +
296H GLY 5.1 0.2 + - - -
297H ARG* 5.6 3.6 + - - -
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Residues in contact with ALA 294 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
264H GLN* 4.8 9.4 - - + +
265H ARG* 4.8 9.2 - - + -
268H GLU* 3.4 24.7 - - + +
290H ALA 2.9 17.4 + - - +
291H LEU* 3.0 6.5 + - - +
293H HIS* 1.3 77.6 - - - +
295H PHE* 1.3 62.6 + - + +
297H ARG* 5.6 5.0 + - - +
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Residues in contact with PHE 295 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
291H LEU* 2.9 32.6 + - + +
292H SER* 2.9 0.8 + - - -
294H ALA* 1.3 83.1 - - + +
296H GLY* 1.3 65.1 + - - +
297H ARG* 3.1 7.5 + - - -
298H ARG* 3.5 22.0 + - + +
299H LEU* 3.8 31.1 + - + -
383H THR* 3.2 54.5 - - + -
386H ASN* 4.6 12.8 - - + -
387H LEU* 4.8 16.8 - - + -
432H PHE* 4.9 7.4 - + - -
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Residues in contact with GLY 296 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
292H SER* 2.9 20.4 + - - -
293H HIS 5.1 0.2 + - - -
295H PHE* 1.3 77.3 - - - +
297H ARG* 1.3 58.3 + - - +
298H ARG 3.3 0.2 - - - -
299H LEU* 3.3 13.7 + - - +
300H VAL* 2.9 36.8 + - - +
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Residues in contact with ARG 297 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
293H HIS 5.6 3.8 + - - -
294H ALA 5.6 3.9 + - - +
295H PHE* 4.7 4.5 - - - +
296H GLY* 1.3 77.9 - - - +
298H ARG* 1.3 64.2 + - + +
300H VAL* 3.1 14.3 - - + +
301H LEU* 2.9 28.6 + - - +
----------------------------------------------------------
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Residues in contact with ARG 298 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
295H PHE* 3.5 17.6 + - + +
296H GLY 3.3 0.2 - - - -
297H ARG* 1.3 84.0 - - + +
299H LEU* 1.3 58.6 + - - +
301H LEU* 3.2 11.8 + - + +
302H SER 3.0 23.6 + - - -
379H VAL* 3.5 18.4 - - + +
382H GLU* 3.1 35.0 + - - -
383H THR* 3.4 22.9 - - + +
386H ASN* 4.5 7.6 - - - +
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Residues in contact with LEU 299 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
291H LEU* 5.2 3.6 - - + -
292H SER* 6.4 1.1 - - - -
295H PHE* 3.8 32.3 + - + +
296H GLY* 3.3 13.6 + - - +
297H ARG 3.3 0.2 - - - -
298H ARG* 1.3 78.9 - - - +
300H VAL* 1.3 59.0 + - + +
302H SER* 3.2 7.0 + - - -
303H SER* 2.8 32.3 + - - +
380H ALA* 5.2 4.3 - - + -
383H THR* 3.8 29.4 - - + +
432H PHE* 4.0 17.0 - - + +
435H CYS* 3.7 36.3 - - + -
436H PRO* 4.8 1.7 - - + +
439H TRP* 5.9 2.0 - - + -
----------------------------------------------------------
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Residues in contact with VAL 300 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
296H GLY* 2.9 21.8 + - - +
297H ARG* 3.1 22.2 - - + +
299H LEU* 1.3 77.1 - - + +
301H LEU* 1.3 53.1 + - - +
303H SER* 3.6 9.6 - - - +
304H THR* 2.6 40.3 + - - +
----------------------------------------------------------
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Residues in contact with LEU 301 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
297H ARG 2.9 14.8 + - - +
298H ARG* 3.3 13.9 - - + +
300H VAL* 1.3 75.4 - - + +
302H SER* 1.3 67.0 + - - +
304H THR* 3.2 8.2 + - - -
305H PHE* 3.0 58.3 + - + -
379H VAL* 3.8 18.8 - - + -
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Residues in contact with SER 302 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
298H ARG 3.0 8.4 + - - -
299H LEU* 3.6 9.4 - - - -
301H LEU* 1.3 76.6 - - - +
303H SER* 1.3 63.4 + - - +
305H PHE* 3.2 8.0 + - - +
306H ARG 3.0 7.3 + - - -
376H SER* 2.1 55.3 + - - -
379H VAL* 3.5 25.4 - - - -
380H ALA* 3.5 16.9 + - - +
436H PRO* 4.0 5.6 - - - +
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Residues in contact with SER 303 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
299H LEU* 2.8 21.5 + - - +
300H VAL* 3.6 11.1 - - - +
301H LEU 3.2 0.2 - - - -
302H SER* 1.3 75.0 - - - +
304H THR* 1.3 55.2 + - - +
306H ARG* 2.6 26.3 + - - -
307H ILE* 2.8 27.9 + - - +
435H CYS* 5.7 0.3 - - - -
436H PRO* 3.4 30.9 + - - +
439H TRP* 4.6 15.3 - - - +
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Residues in contact with THR 304 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
300H VAL* 2.6 27.6 + - - +
301H LEU* 3.5 8.3 - - - -
303H SER* 1.3 70.4 - - - +
305H PHE* 1.3 69.1 + - + +
307H ILE* 3.9 9.5 - - + +
308H LEU* 2.9 32.6 + - + +
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Residues in contact with PHE 305 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
301H LEU* 3.0 46.4 + - + -
302H SER* 3.2 7.4 - - - +
304H THR* 1.3 81.3 - - + +
306H ARG* 1.3 58.0 + - - +
308H LEU* 3.9 5.3 - - + +
309H ALA* 2.9 31.2 + - - +
372H PHE* 4.0 11.9 - + + +
375H ALA* 3.4 36.8 - - + -
376H SER* 3.5 15.5 - - - +
379H VAL* 3.7 13.9 - - + -
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Residues in contact with ARG 306 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
302H SER 3.0 6.1 + - - +
303H SER* 2.6 17.6 + - - +
305H PHE* 1.3 71.4 - - - +
307H ILE* 1.3 55.8 + - - +
309H ALA* 3.4 2.8 + - - +
310H ASP* 2.9 40.2 + - - +
373H LEU* 3.9 22.8 + - - +
376H SER* 2.9 35.4 + - - +
377H TYR* 4.1 25.9 - - - +
433H PHE 5.2 2.8 + - - -
436H PRO* 3.8 17.4 - - + +
437H ASN* 3.6 34.1 - - - +
440H ALA* 3.5 24.2 - - + -
592H LEU* 5.6 4.2 - - - +
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Residues in contact with ILE 307 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
303H SER* 2.8 47.1 + - - +
304H THR* 3.9 8.7 - - + +
306H ARG* 1.3 69.9 - - - +
308H LEU* 1.3 67.5 + - - +
310H ASP* 2.5 22.7 - - - +
311H LEU* 2.9 22.6 + - + +
439H TRP* 4.6 4.9 - - + +
440H ALA* 4.0 29.4 - - + +
443H VAL* 4.2 32.5 - - + -
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Residues in contact with LEU 308 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
304H THR* 2.9 24.4 + - + +
305H PHE* 3.9 5.6 - - + +
307H ILE* 1.3 78.8 - - - +
309H ALA* 1.3 66.9 + - - +
311H LEU* 3.8 5.5 - - - +
312H LEU* 2.9 27.9 + - + +
372H PHE* 3.6 35.0 - - + -
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Residues in contact with ALA 309 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
305H PHE 2.9 19.4 + - - +
306H ARG 3.5 4.5 - - - +
308H LEU* 1.3 76.1 - - - +
310H ASP* 1.3 57.7 + - - +
312H LEU* 2.8 19.4 + - - -
369H GLN* 2.2 53.3 + - - +
372H PHE* 3.8 15.0 - - + +
373H LEU* 3.6 16.6 - - + +
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Residues in contact with ASP 310 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
306H ARG* 2.9 23.6 + - - +
307H ILE* 2.5 34.8 - - - +
309H ALA* 1.3 72.6 - - - +
311H LEU* 1.3 62.9 + - - +
313H GLY* 3.7 1.6 - - - +
314H PHE* 2.8 28.1 + - - +
369H GLN* 3.5 7.4 + - - +
373H LEU* 5.4 2.7 - - + -
440H ALA* 4.1 16.8 - - - +
443H VAL* 6.0 0.7 - - - +
444H GLN* 3.4 48.6 + - - +
----------------------------------------------------------
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Residues in contact with LEU 311 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
307H ILE* 2.9 24.2 + - + +
308H LEU* 3.8 4.9 - - - +
310H ASP* 1.3 81.5 + - - +
312H LEU* 1.3 65.6 + - - +
314H PHE* 3.1 21.3 - - + +
315H ALA* 3.7 3.5 + - - +
443H VAL* 6.1 4.3 - - + -
444H GLN* 6.4 1.8 - - - +
447H VAL* 3.6 41.3 - - + -
----------------------------------------------------------
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Residues in contact with LEU 312 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
308H LEU* 2.9 17.5 + - + +
309H ALA* 2.8 13.5 + - - +
311H LEU* 1.3 68.7 - - - +
313H GLY* 1.3 53.8 + - - +
314H PHE 3.0 3.8 - - - -
315H ALA* 2.6 41.3 + - + +
365H ALA* 3.7 39.2 - - + +
368H LEU* 4.0 23.8 - - + -
369H GLN* 3.6 8.3 - - - +
372H PHE* 4.8 9.2 - - + -
----------------------------------------------------------
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Residues in contact with GLY 313 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
309H ALA 2.9 2.8 + - - -
310H ASP* 3.7 4.0 - - - -
312H LEU* 1.3 71.2 - - - +
314H PHE* 1.3 54.4 + - - +
315H ALA 3.0 0.2 - - - -
316H GLY* 2.9 22.3 + - - -
317H PRO* 4.2 2.3 - - - +
365H ALA* 5.8 2.5 - - - -
366H LEU* 5.0 9.8 - - - +
369H GLN* 2.8 37.1 - - - +
370H ARG* 5.8 0.4 - - - -
585H ILE* 4.9 9.9 - - - +
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Residues in contact with PHE 314 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
310H ASP 2.8 15.9 + - - +
311H LEU* 3.1 19.7 - - + +
312H LEU 2.9 0.2 + - - -
313H GLY* 1.3 71.3 - - - +
315H ALA* 1.3 56.3 + - - +
316H GLY 3.0 8.8 + - - -
317H PRO* 3.3 16.0 - - + +
318H LEU* 4.8 5.7 - - + +
444H GLN* 5.0 15.0 - - + +
447H VAL* 3.4 28.3 - - + -
448H GLY* 3.3 35.9 - - - -
451H LEU* 3.3 38.2 - - + +
582H LEU* 4.0 22.8 - - + +
585H ILE* 5.4 12.3 - - + -
586H LEU* 6.1 2.7 - - + -
----------------------------------------------------------
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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