Contacts of the helix formed by residues 508 - 542 (chain B) in PDB entry 5MKE
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 ASN 508 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
502B TYR* 2.2 70.8 + - + +
503B PHE* 4.2 3.2 - - - +
504B ARG 4.8 1.0 - - - +
505B SER* 4.7 1.8 - - - -
506B PHE* 3.2 21.7 + - - +
507B TRP* 1.3 70.4 - - - +
509B CYS* 1.3 83.9 + - - +
510B LEU 3.3 1.6 - - - -
511B ASP* 3.0 17.9 + - - +
512B VAL* 3.3 14.3 + - + +
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Residues in contact with CYS 509 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
502B TYR* 6.0 1.6 - - + -
508B ASN* 1.3 88.8 + - - +
510B LEU* 1.3 53.1 + - + +
512B VAL* 2.7 19.9 + - - +
513B VAL* 2.3 55.9 + - - +
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Residues in contact with LEU 510 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
506B PHE 4.3 17.9 - - - +
507B TRP* 5.3 3.6 - - - +
508B ASN 3.2 1.3 + - - -
509B CYS* 1.3 77.9 - - + +
511B ASP* 1.3 67.9 + - - +
513B VAL* 3.1 25.4 + - + +
514B ILE* 4.0 4.3 + - - +
568B PHE* 4.1 35.6 - - + +
571B ILE* 6.0 5.6 - - + -
575B LYS* 5.4 8.1 - - - +
1008B PLM 5.8 12.8 - - + -
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Residues in contact with ASP 511 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
507B TRP* 2.7 18.9 - - - +
508B ASN* 3.0 8.1 + - - +
510B LEU* 1.3 77.1 - - - +
512B VAL* 1.3 64.1 + - + +
514B ILE* 3.0 24.4 - - - +
515B VAL* 4.5 1.0 - - - +
572B LYS* 4.0 26.6 + - - +
575B LYS* 2.4 34.1 + - - -
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Residues in contact with VAL 512 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
491B GLU* 4.9 19.3 - - + -
495B ILE* 6.3 2.9 - - + -
502B TYR* 6.3 3.6 - - + -
508B ASN 3.6 7.2 - - - +
509B CYS* 2.7 37.4 + - + +
511B ASP* 1.3 77.4 - - + +
513B VAL* 1.3 62.8 + - - +
514B ILE 3.3 2.2 - - - -
515B VAL* 3.1 33.3 - - + +
516B VAL* 3.9 6.2 + - - +
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Residues in contact with VAL 513 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
509B CYS* 2.3 58.9 + - - +
510B LEU* 3.1 21.6 + - + +
512B VAL* 1.3 67.1 - - - +
514B ILE* 1.3 67.2 + - - +
515B VAL 2.9 1.4 + - - -
516B VAL* 3.2 9.5 + - + +
517B LEU* 3.0 46.3 + - + +
568B PHE* 4.9 14.4 - - + -
1007B PX6 5.1 10.5 - - + -
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Residues in contact with ILE 514 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230B PHE* 6.2 3.6 - - + -
484B ILE* 6.4 1.6 - - + -
510B LEU 4.0 3.1 + - - +
511B ASP 3.0 23.8 - - - +
513B VAL* 1.3 78.5 - - - +
515B VAL* 1.3 62.5 + - + +
517B LEU* 2.8 17.2 + - + +
518B SER* 2.4 52.1 + - - +
565B THR* 5.2 2.9 - - - -
568B PHE* 5.3 8.9 - - + +
569B VAL* 3.8 32.5 - - + -
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Residues in contact with VAL 515 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
487B TYR 5.8 2.0 - - - +
488B VAL* 5.4 17.9 - - + +
491B GLU* 5.5 10.3 - - + +
492B ILE* 5.9 5.4 - - + -
511B ASP 4.5 0.7 - - - +
512B VAL* 3.1 36.3 - - + +
513B VAL 2.9 0.6 + - - -
514B ILE* 1.3 82.2 - - + +
516B VAL* 1.3 66.7 + - + +
518B SER* 2.7 22.0 + - - -
519B VAL* 3.4 16.1 + - + +
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Residues in contact with VAL 516 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
512B VAL 4.6 6.1 - - - +
513B VAL* 3.2 9.0 + - - +
515B VAL* 1.3 78.9 - - + +
517B LEU* 1.3 69.9 + - + +
519B VAL* 3.1 16.5 - - + +
520B VAL* 3.0 29.4 - - + +
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Residues in contact with LEU 517 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
513B VAL* 3.0 36.1 + - + +
514B ILE* 2.8 17.3 + - + +
516B VAL* 1.3 82.9 - - + +
518B SER* 1.3 65.0 + - - +
520B VAL* 3.2 13.7 + - - +
521B ALA* 3.7 3.6 + - - +
561B ILE* 3.6 29.8 - - + +
564B VAL* 5.1 5.8 - - + -
565B THR* 3.5 31.4 - - + +
568B PHE* 4.2 20.6 - - + -
1007B PX6 5.3 16.2 - - + -
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Residues in contact with SER 518 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
484B ILE* 4.5 16.2 - - - +
488B VAL* 5.9 0.3 - - - +
514B ILE* 2.4 39.9 + - - +
515B VAL* 2.7 26.3 + - - +
517B LEU* 1.3 70.1 - - - +
519B VAL* 1.3 71.1 + - - +
520B VAL 3.0 0.5 + - - -
521B ALA* 3.3 6.6 + - - +
522B ILE* 3.0 33.8 + - - +
565B THR* 5.0 4.9 - - - -
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Residues in contact with VAL 519 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
488B VAL* 5.0 17.5 - - + -
515B VAL* 3.4 17.9 - - + +
516B VAL* 3.1 22.0 - - + +
518B SER* 1.3 85.7 + - - +
520B VAL* 1.3 58.9 + - + +
522B ILE* 3.6 17.5 - - + -
523B GLY* 2.4 35.6 + - - +
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Residues in contact with VAL 520 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
516B VAL* 3.0 30.1 - - + +
517B LEU 3.4 7.6 - - - +
518B SER 3.0 0.6 + - - -
519B VAL* 1.3 82.3 - - + +
521B ALA* 1.3 67.1 + - - +
524B ILE* 3.3 25.5 + - + +
525B ASN 4.4 0.2 + - - -
554B TRP* 5.8 7.0 - - + -
557B GLN* 5.7 8.7 - - + +
561B ILE* 4.1 23.8 - - + -
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Residues in contact with ALA 521 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
517B LEU 3.7 3.5 + - - +
518B SER* 3.3 8.4 + - - +
520B VAL* 1.3 79.4 - - - +
522B ILE* 1.3 65.7 + - + +
525B ASN* 2.8 32.5 + - - +
558B PHE* 3.6 32.8 - - + +
561B ILE* 4.8 11.9 - - + +
562B ALA* 5.0 9.0 - - + -
565B THR* 6.4 0.9 - - + -
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Residues in contact with ILE 522 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
480B PHE* 5.3 12.8 - - + -
481B CYS* 5.7 15.9 - - + +
484B ILE* 4.5 24.0 - - + -
488B VAL* 6.0 1.6 - - + -
518B SER* 3.0 33.2 + - - +
519B VAL* 2.9 18.3 + - + +
521B ALA* 1.3 78.2 - - + +
523B GLY* 1.3 65.3 + - - +
525B ASN* 2.6 33.4 + - - +
526B ILE* 5.6 0.3 - - - +
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Residues in contact with GLY 523 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
519B VAL* 2.4 20.3 + - - +
520B VAL 4.3 0.2 - - - -
522B ILE* 1.3 79.4 - - - +
524B ILE* 1.3 65.8 + - - +
525B ASN 3.6 0.2 + - - -
526B ILE* 5.4 0.2 - - - +
527B TYR* 3.2 20.1 + - - +
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Residues in contact with ILE 524 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
520B VAL* 3.3 17.1 + - + +
521B ALA 3.3 1.8 + - - -
523B GLY* 1.3 83.3 - - - +
525B ASN* 1.3 68.9 + - - +
526B ILE 3.6 0.2 - - - -
527B TYR* 3.7 21.1 - - + -
528B ARG* 3.1 38.3 + - + +
554B TRP* 4.6 31.7 - - + +
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Residues in contact with ASN 525 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
480B PHE* 6.0 4.8 - - - -
520B VAL 4.4 0.2 + - - -
521B ALA* 2.8 29.9 + - - +
522B ILE* 2.6 28.1 + - - +
524B ILE* 1.3 81.5 - - - +
526B ILE* 1.3 92.6 + - + +
529B THR* 2.5 42.2 + - + +
554B TRP* 6.6 0.2 - - - -
558B PHE* 3.9 32.1 - - + -
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Residues in contact with ILE 526 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
464B ARG* 5.7 11.7 - - + +
477B GLU* 3.7 23.1 - - - +
478B ILE* 6.1 3.4 - - + -
522B ILE 5.2 0.4 - - - +
523B GLY 5.4 0.2 - - - +
525B ASN* 1.3 101.1 + - - +
527B TYR* 1.3 66.5 - - - +
529B THR* 3.1 8.7 - - - +
530B SER* 2.9 40.3 + - - -
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Residues in contact with TYR 527 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
523B GLY 3.2 23.4 + - - +
524B ILE* 3.6 22.0 - - + +
526B ILE* 1.3 81.2 - - - +
528B ARG* 1.3 89.5 + - + +
531B ASN* 3.7 14.4 + - - +
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Residues in contact with ARG 528 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
524B ILE* 3.1 30.3 + - + +
525B ASN 4.3 0.4 - - - +
527B TYR* 1.3 101.7 - - - +
529B THR* 1.3 71.2 + - + +
531B ASN* 3.1 22.4 - - - +
532B VAL* 3.4 11.7 + - - +
550B HIS* 2.9 44.2 + - - -
551B LEU* 4.2 22.4 - - + +
554B TRP* 3.2 30.4 - - + +
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Residues in contact with THR 529 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
462B LEU 5.3 2.9 - - - +
464B ARG* 5.9 3.7 - - - +
525B ASN* 2.5 31.5 + - + +
526B ILE* 3.1 11.6 - - - +
528B ARG* 1.3 79.2 - - + +
530B SER* 1.3 71.5 + - - +
531B ASN 2.9 1.6 + - - -
532B VAL* 3.1 6.4 + - - +
533B GLU* 3.0 36.2 + - - +
548B PHE* 6.1 6.7 - - + -
551B LEU* 5.3 12.1 - - + +
554B TRP* 6.2 2.9 - - + -
555B GLN* 6.2 5.2 - - + +
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Residues in contact with SER 530 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
465B TYR* 5.7 5.3 + - - -
526B ILE* 2.9 34.2 + - - +
529B THR* 1.3 79.1 + - - +
531B ASN* 1.3 63.0 + - - +
533B GLU* 3.7 17.5 + - - +
534B VAL* 4.3 8.8 - - - +
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Residues in contact with ASN 531 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
527B TYR 3.7 13.8 + - - +
528B ARG* 3.1 18.3 + - - +
529B THR 2.9 1.0 + - - -
530B SER* 1.3 83.2 - - - +
532B VAL* 1.3 79.6 + - - +
533B GLU 3.4 0.3 + - - -
534B VAL* 3.5 16.8 - - - +
535B LEU* 5.5 1.5 - - - +
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Residues in contact with VAL 532 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
528B ARG* 3.7 7.0 - - - +
529B THR 3.1 3.4 + - - +
531B ASN* 1.3 94.4 - - - +
533B GLU* 1.3 66.8 + - - +
534B VAL 2.9 5.2 + - - -
535B LEU* 3.2 31.3 - - + +
536B LEU* 3.0 33.6 + - + +
547B ASN 5.5 1.3 - - - +
551B LEU* 3.5 39.7 - - + -
1F NAG 4.4 12.6 - - + -
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Residues in contact with GLU 533 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
462B LEU 3.0 22.6 - - - +
463B ILE* 3.6 34.7 - - + +
464B ARG* 4.5 4.0 + - - +
465B TYR* 4.8 10.9 - - - -
529B THR* 3.0 35.1 + - - +
530B SER* 3.7 15.1 + - - +
531B ASN 3.3 0.4 - - - -
532B VAL* 1.3 77.3 - - - +
534B VAL* 1.3 64.4 + - + +
536B LEU* 3.2 32.4 - - + +
537B GLN* 3.4 4.9 + - - +
548B PHE* 5.7 3.4 - - + -
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Residues in contact with VAL 534 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
530B SER 4.3 7.4 - - - +
531B ASN 3.5 16.6 - - - +
532B VAL 2.9 1.0 + - - -
533B GLU* 1.3 75.2 - - + +
535B LEU* 1.3 56.7 + - + +
537B GLN* 2.6 36.7 + - - +
538B PHE* 3.5 18.8 - - + -
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Residues in contact with LEU 535 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
531B ASN* 5.5 1.8 - - - +
532B VAL* 3.2 40.2 - - + +
534B VAL* 1.3 80.6 - - + +
536B LEU* 1.3 64.3 + - + +
538B PHE* 2.6 34.8 + - + -
539B LEU* 2.7 38.4 + - + +
546B PRO* 4.9 2.2 - - + -
547B ASN 5.9 1.1 - - - +
1F NAG 4.2 20.6 - - + +
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Residues in contact with LEU 536 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
436B PHE* 6.2 2.9 - - + -
462B LEU* 5.7 11.4 - - + -
532B VAL* 3.0 43.7 + - + +
533B GLU* 3.2 30.1 - - + +
534B VAL 3.0 0.2 - - - -
535B LEU* 1.3 83.3 - - + +
537B GLN* 1.3 51.1 + - - +
540B GLU* 2.7 43.7 - - - +
546B PRO* 4.9 14.4 - - + -
547B ASN 5.1 2.5 - - - +
548B PHE* 3.5 34.3 - - + -
551B LEU* 4.2 7.0 - - + -
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Residues in contact with GLN 537 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
533B GLU 3.4 4.0 + - - +
534B VAL* 2.6 22.7 + - - +
536B LEU* 1.3 75.2 - - - +
538B PHE* 1.3 75.0 + - + +
540B GLU* 4.3 6.1 + - - +
541B ASP* 2.9 33.0 + - - +
335C GLN* 5.5 1.8 - - - +
336C ASP* 3.0 46.3 + - - +
337C LEU* 4.6 14.5 - - - +
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Residues in contact with PHE 538 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
534B VAL* 3.5 31.0 - - + -
535B LEU* 2.6 20.5 + - + +
537B GLN* 1.3 83.1 - - + +
539B LEU* 1.3 62.2 + - - +
540B GLU 2.9 1.3 - - - -
541B ASP* 2.5 42.8 + - - +
542B GLN* 3.4 4.3 + - - +
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Residues in contact with LEU 539 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
320B ARG* 6.0 0.2 - - - +
535B LEU* 2.7 32.7 + - + +
538B PHE* 1.3 73.3 - - - +
540B GLU* 1.3 48.8 + - - +
542B GLN* 5.5 0.4 - - - -
544B THR* 2.7 57.6 - - + +
545B PHE 4.5 3.1 - - - +
546B PRO* 3.5 32.9 - - + +
547B ASN 4.8 2.0 - - - +
1F NAG 4.8 18.6 - - + +
2F NAG 2.6 40.6 - - - +
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Residues in contact with GLU 540 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
314B LEU* 5.0 2.6 - - - +
315B LEU 4.9 1.9 - - - +
316B LEU* 3.5 35.5 - - + +
317B GLY 4.2 10.0 + - - +
436B PHE* 6.4 0.4 - - - -
536B LEU* 2.7 36.7 + - + +
537B GLN* 4.3 7.0 + - - +
538B PHE 2.9 1.0 + - - -
539B LEU* 1.3 77.7 - - - +
541B ASP* 1.3 60.8 + - - +
542B GLN 2.5 20.6 - - - +
544B THR 3.4 2.6 - - - +
546B PRO* 3.4 22.3 - - + +
337C LEU* 4.5 24.9 - - - +
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Residues in contact with ASP 541 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
537B GLN* 2.9 30.8 + - - +
538B PHE* 2.5 38.6 + - - +
540B GLU* 1.3 81.2 - - + +
542B GLN* 1.3 82.0 + - - +
543B ASN* 3.7 1.2 + - - -
1001B NAG 5.6 1.6 - - - +
337C LEU* 6.2 2.9 - - + -
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Residues in contact with GLN 542 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
538B PHE 3.4 3.3 + - - +
539B LEU* 5.5 0.2 - - - -
540B GLU 2.5 22.9 - - - +
541B ASP* 1.3 91.6 + - - +
543B ASN* 1.3 60.1 + - + +
544B THR* 2.6 46.6 - - + +
----------------------------------------------------------
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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