Contacts of the helix formed by residues 548 - 578 (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 PHE 548 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
316B LEU* 6.3 1.8 - - + -
427B SER* 5.1 7.6 - - - -
436B PHE* 4.2 25.6 - + + -
438B VAL* 4.6 2.5 - - + -
460B LEU* 3.4 35.2 - - + -
462B LEU* 5.5 5.2 - - + -
529B THR* 6.1 6.3 - - + -
533B GLU* 5.7 4.5 - - + -
536B LEU* 3.5 31.6 - - + -
545B PHE* 5.0 3.9 - - + -
546B PRO* 3.3 7.9 + - + +
547B ASN* 1.3 74.6 + - - +
549B GLU* 1.3 65.6 + - - +
550B HIS 3.5 0.9 - - - -
551B LEU* 3.0 42.3 - - + +
552B ALA* 2.9 38.3 + - + -
555B GLN* 5.8 0.9 - - + -
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Residues in contact with GLU 549 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
376B GLY* 4.0 11.8 - - - -
377B SER* 4.2 11.7 + - - +
378B SER 4.6 2.6 - - - +
425B ASP* 6.5 1.1 - - + -
427B SER* 6.3 0.6 - - - -
438B VAL* 5.8 2.2 - - - -
440B ARG* 3.6 43.3 + - + +
547B ASN* 2.3 32.3 + - - +
548B PHE* 1.3 68.9 - - - +
550B HIS* 1.3 78.2 + - - +
552B ALA* 2.5 15.6 + - + +
553B TYR* 2.5 47.6 + - + +
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Residues in contact with HIS 550 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
375B ASN 5.5 0.7 - - - -
376B GLY* 3.9 14.8 - - - -
377B SER* 3.9 27.9 - - - -
528B ARG* 2.9 34.7 + - - +
547B ASN* 3.8 3.1 + - - +
548B PHE 3.5 0.6 - - - -
549B GLU* 1.3 93.6 + - - +
551B LEU* 1.3 64.0 + - + +
553B TYR* 3.1 20.6 - + - +
554B TRP* 2.9 51.1 + + - -
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Residues in contact with LEU 551 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
528B ARG* 4.2 33.7 - - + +
529B THR* 5.2 9.2 - - + +
532B VAL* 3.5 50.5 - - + -
536B LEU* 4.2 1.6 - - + -
547B ASN 4.3 3.8 - - - +
548B PHE* 3.0 53.2 - - + +
550B HIS* 1.3 77.0 - - + +
552B ALA* 1.3 64.1 + - - +
554B TRP* 2.8 21.4 + - - +
555B GLN* 3.1 9.6 + - - +
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Residues in contact with ALA 552 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
438B VAL* 3.6 27.8 - - + -
458B GLN* 5.9 0.9 - - + -
460B LEU* 5.6 1.3 - - + -
548B PHE* 2.9 33.6 + - + +
549B GLU* 2.5 16.5 + - + +
551B LEU* 1.3 71.7 - - - +
553B TYR* 1.3 52.8 + - - +
555B GLN* 2.7 11.5 + - + +
556B ILE* 2.6 40.8 + - + +
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Residues in contact with TYR 553 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
440B ARG* 4.4 15.9 - - - +
549B GLU* 2.5 29.6 + - - +
550B HIS* 3.1 21.5 - + - +
552B ALA* 1.3 72.5 - - - +
554B TRP* 1.3 88.1 - + - +
556B ILE* 3.2 17.7 - - + +
557B GLN* 2.8 43.1 + - + +
1007B PX6 3.8 55.1 + - - -
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Residues in contact with TRP 554 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
520B VAL* 5.8 7.2 - - + -
524B ILE* 4.6 28.3 - - + +
525B ASN* 6.6 0.2 - - - -
528B ARG* 3.2 30.3 - - + +
529B THR* 6.2 3.6 - - + -
550B HIS* 2.9 54.3 + + - -
551B LEU* 2.8 11.1 + - - +
553B TYR* 1.3 90.7 - + - +
555B GLN* 1.3 54.3 + - - +
557B GLN* 2.8 27.7 + - + +
558B PHE* 2.1 43.2 + - + +
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Residues in contact with GLN 555 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242B MET* 5.6 6.8 - - - +
458B GLN* 4.7 4.5 - - + -
459B PRO 4.0 14.8 - - - +
460B LEU* 3.1 39.1 - - + +
461B LYS* 4.4 15.4 + - - +
548B PHE* 5.5 0.9 - - + -
551B LEU 3.1 6.7 + - - +
552B ALA* 2.7 21.3 + - + +
554B TRP* 1.3 70.2 - - - +
556B ILE* 1.3 54.0 + - - +
558B PHE* 3.1 32.3 - - - -
559B ASN* 2.2 50.5 + - - +
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Residues in contact with ILE 556 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
438B VAL* 5.0 4.0 - - + -
440B ARG* 4.8 10.1 - - - +
456B GLN* 5.5 10.8 - - + +
458B GLN* 3.2 50.9 - - + +
552B ALA* 2.6 21.8 + - + +
553B TYR* 3.2 25.6 - - + +
555B GLN* 1.3 72.2 - - - +
557B GLN* 1.3 53.7 + - - +
559B ASN* 3.3 0.9 - - - +
560B ASN* 2.5 59.6 + - - +
1007B PX6 4.8 24.2 - - + +
653C ASN* 5.0 7.2 - - - +
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Residues in contact with GLN 557 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
520B VAL* 5.7 7.0 - - + -
553B TYR* 2.8 39.7 + - + +
554B TRP* 3.2 35.0 - - + +
556B ILE* 1.3 70.8 - - - +
558B PHE* 1.3 64.7 + - - +
560B ASN* 3.2 10.8 + - - +
561B ILE* 3.0 31.9 + - + +
1007B PX6 3.3 52.1 + - - +
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Residues in contact with PHE 558 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241B MET* 5.4 12.1 - - + -
461B LYS* 5.1 13.5 - - - -
464B ARG* 5.6 6.7 - - - -
521B ALA* 3.6 36.3 - - + +
525B ASN* 3.9 31.0 - - + -
554B TRP* 2.1 32.3 + - + +
555B GLN* 3.0 38.6 - - - +
557B GLN* 1.3 65.9 - - - +
559B ASN* 1.3 72.7 + - - +
561B ILE* 3.4 5.8 - - - +
562B ALA* 2.9 36.5 + - + +
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Residues in contact with ASN 559 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242B MET* 5.5 8.9 - - - +
458B GLN* 2.9 30.4 - - - +
459B PRO* 4.9 7.3 + - - +
555B GLN* 2.2 44.1 + - - +
556B ILE* 3.3 4.0 - - - +
558B PHE* 1.3 70.4 - - - +
560B ASN* 1.3 69.9 + - - +
562B ALA* 3.9 3.4 - - - +
563B ALA* 3.1 22.3 + - - +
617C LEU* 4.2 19.0 + - - +
618C VAL* 5.4 1.5 + - - -
621C THR* 5.6 2.0 - - - +
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Residues in contact with ASN 560 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
458B GLN* 4.9 3.2 + - - -
556B ILE* 2.5 52.9 + - - +
557B GLN* 3.2 15.3 + - - +
558B PHE 3.0 0.6 + - - -
559B ASN* 1.3 80.1 - - - +
561B ILE* 1.3 64.0 + - - +
563B ALA* 3.0 5.3 + - - +
564B VAL* 2.9 25.0 + - + +
1007B PX6 3.8 28.6 - - + +
618C VAL* 5.4 3.3 - - - +
653C ASN* 4.9 1.2 + - - -
656C LEU* 3.7 32.2 - - + +
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Residues in contact with ILE 561 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
517B LEU* 3.6 46.4 - - + +
520B VAL* 4.1 26.9 - - + -
521B ALA* 4.8 10.3 - - + +
557B GLN* 3.0 26.1 + - + +
558B PHE* 3.4 7.6 - - - +
560B ASN* 1.3 77.0 - - - +
562B ALA* 1.3 56.6 + - - +
564B VAL* 2.6 15.2 + - + -
565B THR* 2.6 48.7 + - + +
1007B PX6 5.0 14.6 - - + -
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Residues in contact with ALA 562 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238B THR* 6.5 1.1 - - + -
521B ALA* 5.0 6.5 - - + -
558B PHE* 2.9 38.8 + - + +
559B ASN* 3.9 4.5 - - - +
561B ILE* 1.3 78.2 - - + +
563B ALA* 1.3 59.3 + - - +
565B THR* 2.1 31.8 + - - -
566B VAL* 3.0 12.9 - - - +
617C LEU* 5.1 0.2 - - - -
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Residues in contact with ALA 563 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
559B ASN* 3.1 15.1 + - - +
560B ASN* 3.0 10.8 + - - +
562B ALA* 1.3 77.4 - - - +
564B VAL* 1.3 56.0 + - - +
566B VAL* 2.7 28.4 + - - +
567B PHE 3.4 3.6 + - - -
614C LEU* 3.6 17.9 - - + +
617C LEU* 3.6 38.6 - - + -
618C VAL* 4.2 10.1 - - + +
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Residues in contact with VAL 564 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
517B LEU* 5.3 6.5 - - + -
560B ASN* 3.2 17.0 - - + +
561B ILE* 2.6 23.4 + - + +
563B ALA* 1.3 72.5 - - + +
565B THR* 1.3 63.1 + - - +
567B PHE* 3.5 10.4 - - + +
568B PHE* 3.5 26.4 - - + -
1007B PX6 4.2 38.8 - - + -
1008B PLM 5.5 9.4 - - + -
614C LEU* 4.3 13.2 - - + -
618C VAL* 5.6 4.0 - - + -
656C LEU* 5.9 5.6 - - + -
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Residues in contact with THR 565 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234B LEU* 5.8 2.4 - - - +
514B ILE* 5.2 4.0 - - + -
517B LEU* 3.5 45.5 - - + -
518B SER* 4.6 3.8 - - - +
521B ALA* 6.4 1.1 - - + -
561B ILE* 2.6 28.4 + - + +
562B ALA* 2.1 35.3 + - - -
564B VAL* 1.3 70.2 - - - +
566B VAL* 1.3 58.4 + - - +
568B PHE* 2.7 7.4 + - - +
569B VAL* 2.4 49.0 + - - +
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Residues in contact with VAL 566 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234B LEU* 5.7 9.9 - - + -
235B CYS* 5.8 2.7 - - - -
238B THR* 5.0 10.8 - - + -
562B ALA 3.0 16.8 - - - +
563B ALA* 2.7 16.9 + - - +
565B THR* 1.3 75.9 + - - +
567B PHE* 1.3 49.9 + - - +
569B VAL* 3.2 14.1 - - + +
570B TRP* 2.2 41.8 + - + +
613C GLN* 3.5 34.1 - - + +
614C LEU* 5.7 2.2 - - + +
617C LEU* 3.5 27.1 - - + -
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Residues in contact with PHE 567 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
563B ALA 3.4 4.3 + - - +
564B VAL* 3.5 11.0 - - + +
565B THR 2.8 0.6 + - - -
566B VAL* 1.3 77.0 - - - +
568B PHE* 1.3 93.6 + + + +
570B TRP* 2.6 11.6 + - - +
571B ILE* 2.5 58.5 + - + +
1008B PLM 3.3 57.0 - - + -
607C ILE* 3.4 24.9 - - + -
610C ALA* 3.8 22.9 - - + +
611C TYR* 4.8 5.8 - + - -
614C LEU* 4.9 20.1 - - + +
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Residues in contact with PHE 568 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
510B LEU* 4.1 38.1 - - + +
513B VAL* 4.9 8.7 - - + -
514B ILE* 5.3 9.6 - - + +
517B LEU* 4.2 20.0 - - + -
564B VAL* 3.5 28.0 - - + -
565B THR* 2.7 9.4 + - - +
567B PHE* 1.3 99.0 - + - +
569B VAL* 1.3 62.1 + - - +
571B ILE* 3.1 25.8 - - + +
572B LYS* 3.0 22.7 + - - +
1007B PX6 4.8 18.4 - - + -
1008B PLM 4.1 25.4 - - + -
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Residues in contact with VAL 569 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230B PHE* 5.5 6.3 - - + -
231B LEU* 5.3 20.2 - - + +
234B LEU* 4.7 26.5 - - + -
235B CYS* 6.5 0.7 - - - -
514B ILE* 3.8 25.1 - - + +
565B THR* 2.4 44.4 + - - +
566B VAL* 3.2 16.4 - - + +
568B PHE* 1.3 74.8 - - - +
570B TRP* 1.3 67.0 + - - +
572B LYS* 3.1 16.9 - - - +
573B LEU 4.5 0.2 + - - -
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Residues in contact with TRP 570 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231B LEU* 4.3 26.2 - - + +
235B CYS* 4.5 6.3 - - - -
566B VAL* 2.2 33.1 + - + +
567B PHE* 2.6 10.0 + - - +
569B VAL* 1.3 68.6 - - - +
571B ILE* 1.3 58.5 + - + +
572B LYS 2.7 12.3 + - - -
573B LEU* 2.9 40.9 + - + +
1005B CHS 3.3 42.2 - - + -
1006B CHS 4.6 11.2 - - + -
606C ILE* 3.0 38.3 + - + +
609C LEU* 5.2 9.2 - - + -
610C ALA* 4.7 15.0 - - + -
613C GLN* 2.8 45.8 - - - +
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Residues in contact with ILE 571 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
510B LEU* 6.0 5.4 - - + -
567B PHE* 2.5 54.8 + - + +
568B PHE* 3.1 43.5 - - + +
570B TRP* 1.3 79.0 - - + +
572B LYS* 1.3 56.7 + - - +
573B LEU 2.9 1.1 - - - -
574B PHE* 2.5 49.1 + - + +
575B LYS* 3.5 4.9 + - - +
1008B PLM 5.3 11.2 - - + -
606C ILE* 5.3 3.6 - - + -
607C ILE* 5.0 3.6 - - + -
610C ALA* 4.9 2.7 - - + -
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Residues in contact with LYS 572 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
227B TYR* 3.3 38.5 + - + -
511B ASP* 4.0 35.1 + - - +
514B ILE* 6.3 0.2 - - - +
568B PHE 3.0 11.4 + - - +
569B VAL* 3.1 18.2 - - - +
570B TRP 2.7 6.5 + - - -
571B ILE* 1.3 74.6 - - - +
573B LEU* 1.3 57.0 + - - +
575B LYS* 3.6 11.3 + - + +
576B PHE* 3.0 59.1 + - + -
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Residues in contact with LEU 573 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231B LEU* 4.2 20.3 - - + +
570B TRP* 2.9 52.1 + - + +
572B LYS* 1.3 77.3 - - - +
574B PHE* 1.3 66.2 + - - +
576B PHE* 2.5 18.3 + - + -
577B ILE* 2.3 45.9 + - + +
1006B CHS 6.2 2.2 - - + -
606C ILE* 1.8 48.9 - - + -
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Residues in contact with PHE 574 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
507B TRP* 6.3 2.9 - + - -
571B ILE* 2.5 39.1 + - + +
573B LEU* 1.3 79.5 - - + +
575B LYS* 1.3 67.0 + - + -
577B ILE* 3.1 14.8 - - + +
578B ASN* 2.7 30.4 + - - +
587B SER* 4.6 14.4 - - - -
1008B PLM 4.0 36.8 - - + -
603C MET* 3.7 41.1 - - + -
606C ILE* 4.4 14.8 - - + -
607C ILE* 6.3 0.9 - - + -
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Residues in contact with LYS 575 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
507B TRP* 3.4 49.1 + - + +
510B LEU* 5.4 8.9 - - - +
511B ASP* 2.4 43.3 + - - +
571B ILE 3.5 4.8 + - - +
572B LYS* 4.1 13.5 - - + +
573B LEU 3.1 0.2 - - - -
574B PHE* 1.3 88.6 - - + +
576B PHE* 1.3 71.9 + - + +
578B ASN* 3.3 19.6 - - - +
579B PHE* 3.5 13.7 - - + -
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Residues in contact with PHE 576 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
223B GLU* 5.5 1.3 - - - -
224B LEU* 3.5 30.3 - - + -
227B TYR* 3.2 43.3 - + + -
228B LEU* 6.4 2.0 - - + -
572B LYS* 3.0 51.4 - - + -
573B LEU* 2.5 19.8 + - + +
575B LYS* 1.3 81.0 - - + +
577B ILE* 1.3 64.7 + - - +
578B ASN 3.1 3.1 + - - -
579B PHE* 3.1 34.9 - + + -
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Residues in contact with ILE 577 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
573B LEU* 2.3 44.4 + - + +
574B PHE* 3.1 28.5 - - + +
576B PHE* 1.3 68.6 - - - +
578B ASN* 1.3 64.5 + - + +
579B PHE 3.9 1.6 + - - -
580B ASN* 4.1 10.9 + - - +
602C ILE* 2.6 43.7 - - + -
603C MET* 6.3 1.3 - - - -
606C ILE* 4.9 2.0 - - + -
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Residues in contact with ASN 578 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
574B PHE* 2.7 34.1 + - - +
575B LYS* 3.3 13.9 - - - +
577B ILE* 1.3 80.0 - - + +
579B PHE* 1.3 61.6 + - - +
580B ASN* 3.9 11.2 - - - +
583B MET* 4.7 5.4 + - + -
584B SER* 3.0 36.0 + - - +
587B SER* 4.8 11.9 - - - -
600C PHE* 5.5 3.8 - - - -
603C MET* 6.3 0.4 - - - +
----------------------------------------------------------
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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