Contacts of the helix formed by residues 587 - 615 (chain H) in PDB entry 6BAA
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 VAL 587 (chain H).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
470H LEU* 4.9 8.4 - - + +
547H ASN* 4.9 16.4 - - + +
550H ILE* 5.9 5.2 - - + -
551H PRO* 3.9 30.3 - - + -
583H PHE 3.4 18.6 - - - +
584H HIS* 4.6 7.9 - - - +
585H ILE 3.0 1.8 + - - -
586H LEU* 1.3 79.6 - - - +
588H THR* 1.3 67.4 + - - +
589H PRO 3.4 0.2 - - - -
590H LEU* 3.2 8.7 + - - +
591H PHE* 3.0 29.2 + - + +
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Residues in contact with THR 588 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
444H GLN* 6.1 0.4 - - - +
584H HIS 4.9 3.6 + - - -
585H ILE 3.9 7.9 + - - -
587H VAL* 1.3 78.0 - - - +
589H PRO* 1.4 66.3 - - + +
591H PHE* 4.7 3.1 - - - -
592H LEU* 2.8 49.3 + - + +
1293H ASN* 5.7 3.1 + - - -
1297H TRP* 4.9 15.2 - - + -
2001H GBM 3.7 20.6 - - + -
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Residues in contact with PRO 589 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
441H MET* 3.5 22.3 - - + +
444H GLN* 3.5 26.0 - - + +
445H ILE* 4.3 17.7 - - + -
585H ILE* 3.4 17.5 - - + +
586H LEU* 3.5 26.5 - - + +
587H VAL 3.5 3.1 - - - -
588H THR* 1.4 88.9 - - + +
590H LEU* 1.3 62.2 + - + +
592H LEU* 3.7 0.8 - - + -
593H LEU* 2.8 32.2 + - - +
2001H GBM 5.9 0.7 - - + -
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Residues in contact with LEU 590 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
445H ILE* 3.7 28.5 - - + -
467H ILE* 3.6 38.1 - - + +
470H LEU* 3.7 25.8 - - + -
471H ALA* 4.6 14.6 - - + +
474H GLN* 3.1 12.6 - - - +
586H LEU* 3.2 25.4 - - + +
587H VAL 3.2 4.2 + - - +
589H PRO* 1.3 78.5 - - + +
591H PHE* 1.3 62.4 + - - +
593H LEU* 3.0 23.0 + - + +
594H SER* 3.1 8.8 + - - -
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Residues in contact with PHE 591 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
474H GLN* 3.5 21.9 - - + +
543H SER* 6.1 0.9 - - - -
544H ILE* 6.4 0.9 - - + -
547H ASN* 3.2 40.8 - - - +
587H VAL* 3.0 23.6 + - + +
588H THR* 4.2 3.1 - - - +
590H LEU* 1.3 77.2 - - - +
592H LEU* 1.3 76.3 + - + +
594H SER* 4.2 3.8 + - - -
595H SER* 4.1 10.2 + - - -
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Residues in contact with LEU 592 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
434H LEU* 5.7 5.6 - - + -
437H ASN* 4.5 9.0 - - - +
441H MET* 5.1 0.7 - - - -
588H THR* 2.8 40.6 + - + +
589H PRO* 4.0 3.4 - - + +
591H PHE* 1.3 95.8 - - + +
593H LEU* 1.3 58.8 + - - +
594H SER 3.3 0.4 - - - -
595H SER* 2.5 27.4 + - - +
596H VAL* 3.0 16.1 + - + +
2001H GBM 3.2 59.0 - - + +
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Residues in contact with LEU 593 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
437H ASN 4.9 1.6 - - - +
438H LEU* 5.8 3.6 - - + +
441H MET* 3.8 32.5 - - + -
442H PRO* 5.7 1.8 - - + -
445H ILE* 4.5 15.7 - - + -
471H ALA* 5.6 7.4 - - + -
589H PRO 2.8 19.5 + - - +
590H LEU* 3.0 12.3 + - + +
592H LEU* 1.3 76.5 - - - +
594H SER* 1.3 59.2 + - - +
596H VAL* 3.4 17.7 - - + +
597H VAL* 2.9 41.3 + - + +
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Residues in contact with SER 594 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
471H ALA* 3.4 14.0 + - - +
474H GLN* 2.5 47.4 + - - +
475H TYR* 4.4 15.7 - - - +
478H ALA* 6.0 4.1 - - - +
590H LEU 3.1 5.6 + - - -
591H PHE 4.6 3.1 - - - -
592H LEU 3.3 0.2 - - - -
593H LEU* 1.3 77.8 - - - +
595H SER* 1.3 61.8 + - - +
597H VAL* 3.2 9.3 + - - +
598H ARG* 3.1 22.2 + - - +
----------------------------------------------------------
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Residues in contact with SER 595 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
434H LEU* 4.2 12.3 - - - +
591H PHE 4.1 5.4 + - - -
592H LEU* 2.5 34.3 + - - +
594H SER* 1.3 74.7 - - - +
596H VAL* 1.3 54.4 + - - +
598H ARG* 3.4 23.5 + - - +
599H SER* 2.4 40.4 + - - -
----------------------------------------------------------
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Residues in contact with VAL 596 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
434H LEU* 3.7 42.6 - - + +
437H ASN* 4.4 20.2 - - + +
438H LEU* 5.0 15.0 - - + +
592H LEU* 3.0 17.6 + - + +
593H LEU* 3.2 23.7 + - + +
595H SER* 1.3 82.2 + - - +
597H VAL* 1.3 58.4 + - + +
599H SER* 3.1 7.4 + - - -
600H THR* 2.9 39.0 + - + +
----------------------------------------------------------
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Residues in contact with VAL 597 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
475H TYR* 3.9 26.5 - - + -
593H LEU* 2.9 32.5 + - + +
594H SER* 3.2 10.5 + - - +
596H VAL* 1.3 77.7 - - + +
598H ARG* 1.3 63.0 + - - +
600H THR* 2.6 23.1 + - - +
601H VAL* 3.1 16.5 + - + +
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Residues in contact with ARG 598 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
475H TYR* 5.2 8.7 - - + -
478H ALA* 3.4 42.6 + - + +
481H LEU* 4.5 13.3 - - - +
482H SER* 5.8 6.1 - - - -
594H SER 3.1 16.0 + - - +
595H SER* 3.8 20.4 + - - +
597H VAL* 1.3 77.1 - - - +
599H SER* 1.3 57.4 + - - +
601H VAL* 3.3 9.9 + - + +
602H LYS* 3.0 63.3 + - + +
----------------------------------------------------------
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Residues in contact with SER 599 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
427H GLN* 5.3 2.2 - - - +
430H TRP* 5.9 2.3 - - - +
431H PHE* 4.0 24.0 - - - +
434H LEU* 4.1 15.4 - - - +
595H SER* 2.4 25.5 + - - -
596H VAL* 3.1 9.7 + - - -
598H ARG* 1.3 77.9 + - - +
600H THR* 1.3 57.7 + - - +
602H LYS* 3.3 12.5 + - - +
603H ALA* 2.8 26.5 + - - +
----------------------------------------------------------
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Residues in contact with THR 600 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
431H PHE* 3.4 25.6 - - + -
438H LEU* 4.8 17.7 - - + -
596H VAL* 2.9 25.2 + - + +
597H VAL* 2.6 26.3 + - - +
599H SER* 1.3 74.0 - - - +
601H VAL* 1.3 63.8 + - - +
603H ALA* 3.3 7.6 - - - +
604H LEU* 3.0 31.3 + - - +
----------------------------------------------------------
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Residues in contact with VAL 601 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
475H TYR* 5.2 10.1 - - + +
597H VAL* 3.1 23.1 + - + +
598H ARG* 3.3 11.6 + - + +
600H THR* 1.3 76.8 + - - +
602H LYS* 1.3 63.9 + - + +
604H LEU* 3.2 9.9 + - - +
605H VAL* 3.1 30.7 + - + +
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Residues in contact with LYS 602 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
424H ASP* 5.3 0.5 - - - +
427H GLN* 3.3 41.2 + - + +
598H ARG* 3.0 50.4 + - + +
599H SER* 3.6 9.6 - - - +
601H VAL* 1.3 78.8 - - + +
603H ALA* 1.3 56.6 + - - +
605H VAL* 3.3 11.2 + - + +
606H SER* 2.8 31.2 + - - -
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Residues in contact with ALA 603 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
288H TRP* 5.6 0.6 + - - -
427H GLN* 6.0 2.5 - - - -
428H LEU* 5.4 6.1 - - + +
431H PHE* 3.7 29.6 - - + -
599H SER 2.8 14.6 + - - +
600H THR* 3.3 14.8 - - - +
601H VAL 3.2 0.2 - - - -
602H LYS* 1.3 74.0 - - - +
604H LEU* 1.3 72.4 + - + +
606H SER* 3.1 7.8 + - - +
607H VAL* 3.0 25.2 + - - +
----------------------------------------------------------
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Residues in contact with LEU 604 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
288H TRP* 4.0 27.4 - - + -
600H THR* 3.0 19.4 + - - +
601H VAL* 3.6 9.6 - - - +
603H ALA* 1.3 81.3 - - + +
605H VAL* 1.3 57.9 + - + +
607H VAL* 3.2 8.0 - - - +
608H GLN* 2.9 43.0 + - + +
----------------------------------------------------------
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Residues in contact with VAL 605 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
424H ASP* 5.0 7.4 - - - +
601H VAL* 3.1 22.8 + - + +
602H LYS* 3.4 11.0 - - - +
603H ALA 3.1 0.4 - - - -
604H LEU* 1.3 78.0 - - + +
606H SER* 1.3 58.9 + - - +
608H GLN* 3.2 14.8 + - - +
609H LYS* 2.9 51.3 + - + +
----------------------------------------------------------
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Residues in contact with SER 606 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
420H LEU* 5.4 0.2 - - - +
424H ASP* 3.0 54.3 + - - +
427H GLN* 3.8 6.6 - - - +
428H LEU* 4.3 18.4 - - - -
602H LYS 2.8 16.7 + - - -
603H ALA* 3.1 6.7 + - - -
605H VAL* 1.3 76.2 - - - +
607H VAL* 1.3 57.1 + - - +
609H LYS* 3.3 1.7 + - - +
610H LEU* 2.9 30.3 + - - +
----------------------------------------------------------
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Residues in contact with VAL 607 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
284H ALA 5.5 4.7 - - - +
287H ILE* 4.8 18.2 - - + -
288H TRP* 3.4 55.0 - - + +
291H LEU* 5.9 0.9 - - + -
428H LEU* 5.5 4.2 - - + +
603H ALA 3.0 14.1 + - - +
604H LEU* 3.2 16.8 - - - +
606H SER* 1.3 77.8 - - - +
608H GLN* 1.3 60.2 + - + +
610H LEU* 3.8 6.7 - - + +
611H SER* 2.8 44.5 + - - +
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Residues in contact with GLN 608 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
604H LEU* 2.9 34.7 + - - +
605H VAL* 3.2 15.5 + - + +
607H VAL* 1.3 80.9 - - + +
609H LYS* 1.3 61.1 + - + +
611H SER* 3.4 6.6 + - - -
612H GLU* 3.0 34.7 + - - +
----------------------------------------------------------
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Residues in contact with LYS 609 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
420H LEU* 3.9 12.2 - - + +
424H ASP* 3.8 21.8 - - - +
605H VAL* 2.9 36.0 + - + +
606H SER 4.0 1.3 - - - +
608H GLN* 1.3 77.1 - - - +
610H LEU* 1.3 60.8 + - - +
612H GLU* 3.2 34.0 + - - +
613H PHE* 2.9 27.4 + - - +
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Residues in contact with LEU 610 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
287H ILE* 4.7 25.8 - - + -
291H LEU* 6.3 0.9 - - + -
391H ILE* 4.6 23.6 - - + -
394H LYS* 6.2 4.7 - - + -
395H ILE* 4.2 27.8 - - + -
420H LEU* 4.6 8.2 - - + +
428H LEU* 5.6 6.1 - - + -
606H SER 2.9 17.7 + - - +
607H VAL* 4.0 7.2 - - + +
609H LYS* 1.3 74.2 - - - +
611H SER* 1.3 60.2 + - - +
613H PHE* 4.3 11.7 - - + +
614H LEU* 2.9 37.7 + - + +
----------------------------------------------------------
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Residues in contact with SER 611 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
287H ILE* 4.4 16.8 - - - +
607H VAL* 2.8 33.5 + - - +
608H GLN* 3.6 7.1 - - - -
610H LEU* 1.3 76.2 - - - +
612H GLU* 1.3 65.6 + - - +
614H LEU* 4.0 1.1 - - - -
615H SER* 3.2 21.7 + - - -
----------------------------------------------------------
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Residues in contact with GLU 612 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
608H GLN* 3.0 21.6 + - - +
609H LYS* 3.3 41.6 + - - +
610H LEU 3.2 0.2 - - - -
611H SER* 1.3 79.3 - - - +
613H PHE* 1.3 62.6 + - - +
615H SER* 3.3 19.5 - - - +
----------------------------------------------------------
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Residues in contact with PHE 613 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
395H ILE* 3.8 26.2 - - + -
398H LYS* 2.6 55.3 + - + -
399H ILE* 3.8 25.6 - - + -
402H MET* 5.4 9.6 - - + -
417H ILE* 4.6 24.5 - - + -
420H LEU* 3.9 26.5 - - + -
609H LYS 2.9 15.6 + - - +
610H LEU* 3.3 12.1 + - + +
612H GLU* 1.3 77.4 - - - +
614H LEU* 1.3 53.1 + - + +
615H SER 2.9 4.0 - - - +
----------------------------------------------------------
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Residues in contact with LEU 614 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
270H PHE* 6.3 2.5 - - + -
287H ILE* 4.8 13.7 - - + -
394H LYS* 6.0 8.7 - - + -
398H LYS* 3.2 24.6 + - + +
610H LEU* 2.9 27.0 + - + +
611H SER 4.0 2.0 - - - +
613H PHE* 1.3 75.0 - - + +
615H SER* 1.3 60.1 + - - +
----------------------------------------------------------
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Residues in contact with SER 615 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
398H LYS* 2.5 25.8 + - - -
402H MET* 5.6 0.5 - - - +
611H SER 3.2 12.5 + - - -
612H GLU* 3.3 17.7 - - - +
613H PHE 2.9 6.9 - - - +
614H LEU* 1.3 79.2 - - - +
----------------------------------------------------------
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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