Contacts of the helix formed by residues 439 - 468 (chain A) in PDB entry 6P5C
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 ASP 439 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
438A PRO* 1.3 78.4 - - - +
440A GLU* 1.3 65.5 + - - +
441A PRO* 3.2 12.3 - - + -
442A VAL* 3.2 12.0 + - + +
443A LEU 3.0 17.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 440 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
303A LEU* 3.6 14.5 - - + +
345A PHE* 4.1 23.4 - - + -
347A ARG* 3.0 52.8 + - - +
438A PRO 3.9 0.2 + - - -
439A ASP* 1.3 72.7 - - - +
441A PRO* 1.4 64.2 - - + +
443A LEU* 4.2 9.9 - - + -
444A ALA* 2.9 29.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 441 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
301A PHE* 4.8 3.7 - - + -
303A LEU* 5.2 8.3 - - + -
439A ASP* 3.2 15.7 - - + +
440A GLU* 1.4 96.1 - - + +
442A VAL* 1.3 62.9 + - + +
444A ALA* 4.2 3.1 - - + +
445A GLU* 3.2 24.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 442 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
423A ARG* 4.3 15.9 - - - +
428A VAL* 4.2 12.6 - - + +
438A PRO* 3.9 24.0 - - + -
439A ASP* 3.2 13.8 + - + +
441A PRO* 1.3 77.2 - - + +
443A LEU* 1.3 64.6 + - - +
445A GLU* 3.4 5.5 + - - +
446A HIS* 3.0 22.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 443 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
333A VAL* 3.5 38.6 - - + +
345A PHE* 4.4 13.0 - - + -
428A VAL* 5.3 0.2 - - - -
429A TYR* 3.7 32.1 - - + +
437A VAL* 3.9 19.1 - - + -
438A PRO* 4.2 14.5 - - + +
439A ASP 3.0 15.7 + - - +
440A GLU* 3.3 9.8 + - + +
442A VAL* 1.3 76.1 - - - +
444A ALA* 1.3 58.1 + - - +
446A HIS* 3.1 7.0 + - + +
447A LEU* 2.9 46.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 444 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
301A PHE* 3.8 19.7 - - + -
303A LEU* 4.6 5.2 - - + -
345A PHE* 3.4 44.0 - - + -
440A GLU 2.9 18.0 + - - +
441A PRO 4.2 0.9 - - - +
443A LEU* 1.3 73.2 - - - +
445A GLU* 1.3 61.7 + - - +
447A LEU* 3.3 0.9 + - - +
448A VAL* 2.9 34.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 445 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
298A LYS* 3.8 10.9 - - - +
299A MET* 3.4 19.5 + - + +
301A PHE* 3.9 20.0 - - + -
441A PRO 3.2 17.5 + - - +
442A VAL* 3.9 5.1 - - - +
444A ALA* 1.3 76.7 - - - +
446A HIS* 1.3 62.5 + - - +
448A VAL* 3.9 2.1 - - - +
449A ARG* 3.0 61.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 446 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
422A VAL* 4.5 2.1 - - + +
423A ARG* 3.3 36.8 + - - +
425A ASP* 2.8 26.8 + - - -
428A VAL* 3.6 39.3 - - + +
429A TYR* 3.5 24.5 - + - -
442A VAL* 3.0 13.7 + - + +
443A LEU* 3.1 9.2 + - - +
445A GLU* 1.3 77.6 - - - +
447A LEU* 1.3 65.7 + - + +
449A ARG* 3.3 7.8 + - - +
450A LYS* 3.0 38.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 447 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
319A VAL* 3.8 12.3 - - + +
321A GLU* 3.6 28.0 - - + +
334A GLY* 3.5 40.6 - - - +
335A ILE* 3.8 3.1 - - - +
336A ALA* 3.4 19.7 - - + +
345A PHE* 4.2 8.7 - - + -
429A TYR* 3.6 23.3 - - - +
443A LEU* 2.9 27.9 + - + +
444A ALA 3.9 3.6 - - - +
446A HIS* 1.3 81.1 - - + +
448A VAL* 1.3 59.5 + - - +
450A LYS* 3.3 8.2 + - - +
451A ALA* 3.0 24.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 448 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
299A MET* 4.0 10.3 - - + -
301A PHE* 3.7 42.8 - - + -
336A ALA* 4.0 6.1 - - + -
338A VAL* 4.3 2.8 - - + +
343A ARG* 3.8 29.8 - - + -
344A PHE 4.1 20.4 - - - +
345A PHE* 4.1 6.5 - - + -
444A ALA 2.9 20.1 + - - +
445A GLU 3.9 3.1 - - - +
447A LEU* 1.3 76.1 - - - +
449A ARG* 1.3 57.5 + - - +
451A ALA* 3.2 4.2 + - - +
452A ALA* 2.8 26.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 449 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
297A ALA 2.6 30.7 + - - -
298A LYS* 3.8 0.4 - - - +
299A MET* 3.5 39.2 - - + +
419A TYR* 4.7 0.9 + - - -
421A ALA* 2.8 54.2 + - - +
422A VAL* 4.1 18.4 - - + +
423A ARG* 5.1 9.9 - - - +
445A GLU* 3.0 49.6 + - - +
446A HIS* 3.6 7.4 - - - +
448A VAL* 1.3 77.0 - - - +
450A LYS* 1.3 56.5 + - - +
452A ALA* 3.8 1.3 - - - +
453A ALA* 2.9 30.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 450 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
319A VAL* 4.2 11.4 - - + -
321A GLU* 2.8 42.4 + - - -
371A PHE* 6.4 0.2 - - - -
410A VAL* 3.8 30.7 - - + +
422A VAL* 3.9 13.5 - - + -
423A ARG 5.3 0.7 - - - +
425A ASP* 2.9 33.4 + - - +
446A HIS* 3.0 31.4 + - + +
447A LEU* 3.7 15.0 - - - +
448A VAL 3.3 0.2 - - - -
449A ARG* 1.3 74.6 - - - +
451A ALA* 1.3 57.2 + - - +
453A ALA* 3.3 4.0 + - - +
454A ILE* 2.9 35.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 451 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
317A ALA* 3.2 28.4 - - - +
319A VAL* 3.8 15.6 - - + +
336A ALA* 4.1 11.2 - - + -
338A VAL* 3.7 17.9 - - + +
447A LEU 3.0 16.6 + - - +
448A VAL 3.6 3.6 - - - +
450A LYS* 1.3 76.9 - - - +
452A ALA* 1.3 56.1 + - - +
454A ILE* 3.2 3.5 + - - -
455A TRP* 2.8 26.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 452 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
299A MET* 3.6 30.1 - - + -
338A VAL* 3.9 7.1 - - + +
343A ARG* 4.3 14.1 - - - +
419A TYR* 4.0 7.2 - - - +
448A VAL 2.8 17.0 + - - +
449A ARG 3.8 2.7 - - - +
451A ALA* 1.3 75.1 - - - +
453A ALA* 1.3 56.7 + - - +
455A TRP* 3.2 10.0 - - - +
456A GLU* 2.9 33.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 453 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
410A VAL* 3.7 20.4 - - + -
419A TYR* 3.7 34.0 + - + -
422A VAL* 4.2 4.9 - - + -
449A ARG 2.9 18.1 + - - +
450A LYS 3.4 5.4 - - - +
452A ALA* 1.3 73.4 - - - +
454A ILE* 1.3 51.6 + - - +
456A GLU* 3.0 3.5 + - - +
457A LEU* 2.7 46.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 454 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
317A ALA* 3.9 3.4 - - + -
318A LEU 4.6 1.3 - - - +
319A VAL* 4.2 17.7 - - + -
369A SER* 3.6 38.3 - - - +
370A MET* 3.9 8.3 - - - +
371A PHE* 3.6 30.5 - - + +
392A PHE* 4.9 6.6 - - + -
394A LEU* 3.9 24.7 - - + -
410A VAL* 4.3 7.0 - - + -
450A LYS 2.9 27.5 + - - +
451A ALA* 3.2 7.6 + - - +
453A ALA* 1.3 70.9 - - - +
455A TRP* 1.3 65.1 + - - +
457A LEU* 4.3 0.4 - - - +
458A GLU* 3.2 25.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 455 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315A LYS* 4.0 32.3 - - + -
316A ALA* 3.8 18.8 - - - -
317A ALA* 3.6 19.3 - - + +
338A VAL* 3.6 32.6 - - + +
339A ASN* 3.9 15.4 + - - -
340A GLU* 3.9 22.4 - - + +
369A SER* 5.7 2.7 - - - -
451A ALA 2.8 16.1 + - - +
452A ALA* 3.2 10.3 - - - +
454A ILE* 1.3 76.0 - - - +
456A GLU* 1.3 78.8 + - + +
458A GLU* 4.0 13.5 + - - +
459A ARG* 5.1 0.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 456 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
419A TYR* 4.0 28.9 - - + +
452A ALA* 2.9 17.8 + - + +
453A ALA 3.0 5.6 + - - +
455A TRP* 1.3 92.6 + - + +
457A LEU* 1.3 62.6 + - + +
458A GLU 3.6 0.3 + - - -
459A ARG* 4.3 2.6 + - - +
460A PRO* 3.5 16.5 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 457 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
392A PHE* 4.9 1.3 - - - -
394A LEU* 4.2 18.2 - - + -
410A VAL 5.1 0.2 - - - +
414A ALA* 3.4 37.0 - - + +
417A LYS* 3.8 32.1 - - + +
419A TYR* 4.0 21.3 - - + -
453A ALA* 2.7 34.1 + - + +
454A ILE 3.2 2.2 + - - +
456A GLU* 1.3 74.7 - - + +
458A GLU* 1.3 65.0 + - - +
459A ARG 3.3 1.3 + - - -
460A PRO* 3.5 7.8 - - + +
461A PHE* 3.1 38.3 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 458 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315A LYS* 3.0 33.7 + - - -
369A SER* 2.6 28.0 + - - +
391A SER* 4.9 1.9 + - - -
392A PHE* 3.8 30.5 - - + +
454A ILE 3.2 14.2 + - - +
455A TRP* 4.2 10.8 - - - +
456A GLU 3.4 1.0 - - - -
457A LEU* 1.3 78.5 - - - +
459A ARG* 1.3 63.1 + - + +
461A PHE* 3.8 1.4 - - - +
462A LEU* 2.9 53.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 459 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
455A TRP 5.1 0.8 + - - +
456A GLU 4.3 3.0 + - - +
458A GLU* 1.3 81.1 + - - +
460A PRO* 1.3 67.7 - - + +
462A LEU* 3.2 38.8 + - - +
463A ASP* 2.9 56.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 460 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
417A LYS* 4.0 30.9 + - + +
456A GLU 3.5 18.4 - - - +
457A LEU* 3.5 16.4 - - + +
459A ARG* 1.3 95.7 - - + +
461A PHE* 1.3 62.3 + - - +
463A ASP* 3.7 9.6 - - + +
464A GLU* 3.1 25.1 + - - +
467A ARG* 4.9 0.9 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 461 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
392A PHE* 3.8 14.4 - - + -
394A LEU* 3.8 26.0 - - + -
397A ALA* 3.9 14.6 - - + -
398A ALA* 3.8 25.6 - - + -
401A LEU* 3.8 21.4 - - + +
413A ALA* 3.2 27.4 - - + -
416A MET* 4.0 16.2 - - + -
417A LYS* 3.5 25.4 - - + +
457A LEU* 3.1 38.1 + - + +
458A GLU 3.8 2.5 - - - +
460A PRO* 1.3 75.1 - - - +
462A LEU* 1.3 57.7 + - - +
464A GLU* 3.4 1.7 + - - +
465A LEU* 2.9 36.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 462 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
391A SER 6.0 1.1 - - - +
392A PHE* 3.9 21.8 - - + -
458A GLU* 2.9 42.5 + - + +
459A ARG* 3.5 34.3 - - - +
461A PHE* 1.3 77.0 - - - +
463A ASP* 1.3 56.9 + - - +
465A LEU* 3.5 7.7 + - + +
466A ARG* 3.0 29.5 + - - +
471A ASP* 5.1 8.6 - - + +
474A LEU* 4.1 17.7 - - + -
475A VAL* 5.3 8.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 463 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
459A ARG* 2.9 53.9 + - - +
460A PRO* 3.7 9.4 - - + +
462A LEU* 1.3 74.8 - - - +
464A GLU* 1.3 57.1 + - - +
466A ARG* 3.2 9.7 + - - +
467A ARG* 2.9 47.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 464 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
401A LEU* 3.3 33.4 - - + +
416A MET* 5.6 1.4 - - - +
417A LYS* 2.7 29.9 + - - +
460A PRO 3.1 16.9 + - - +
461A PHE 3.9 2.2 - - - +
463A ASP* 1.3 73.4 - - - +
465A LEU* 1.3 66.7 + - - +
467A ARG* 3.2 28.9 + - - +
468A ASN* 3.0 33.0 + - - +
772A TYR* 4.7 7.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 465 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
397A ALA* 3.9 24.0 - - + +
400A LEU* 3.9 11.7 - - + -
401A LEU* 3.4 27.7 - - + +
461A PHE 2.9 29.1 + - - +
462A LEU* 3.7 11.2 - - + +
464A GLU* 1.3 71.4 - - - +
466A ARG* 1.3 54.8 + - - +
468A ASN* 3.1 3.3 + - - +
469A GLU 3.0 8.7 + - - -
470A GLN* 2.7 52.4 + - + +
471A ASP* 4.0 12.8 - - + +
474A LEU* 3.7 32.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 466 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
462A LEU 3.0 18.7 + - - +
463A ASP* 3.3 9.4 - - - +
465A LEU* 1.3 73.1 - - - +
467A ARG* 1.3 66.6 + - + +
469A GLU* 3.0 20.1 + - - +
471A ASP* 3.2 48.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 467 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
417A LYS* 4.5 6.9 - - - +
460A PRO 4.9 0.8 + - - -
463A ASP* 2.9 33.7 + - - +
464A GLU* 3.2 43.0 + - - +
466A ARG* 1.3 77.5 - - + +
468A ASN* 1.3 63.6 + - - +
469A GLU* 3.5 6.1 + - - +
770A ARG* 5.2 0.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 468 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
401A LEU* 3.5 18.4 + - - +
464A GLU* 3.0 23.3 + - - +
465A LEU 3.5 6.1 - - - +
467A ARG* 1.3 78.8 - - - +
469A GLU* 1.3 69.3 - - - +
470A GLN* 3.0 34.7 + - - +
768A HIS* 4.6 5.0 - - - +
770A ARG* 3.5 49.9 + - - +
772A TYR* 4.1 5.9 + - - -
----------------------------------------------------------
Back to top of page
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