Contacts of the helix formed by residues 567 - 599 (chain A) in PDB entry 6OD3
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 HIS 567 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
568A MET* 1.3 65.9 + - - +
569A ARG* 3.3 37.7 + - + -
570A ARG* 3.1 73.7 + - + +
571A MET* 3.1 29.6 + - - +
701A EDO 3.2 23.0 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 568 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
567A HIS* 1.3 75.2 - - - +
569A ARG* 1.3 64.3 + - - +
571A MET* 3.3 10.9 + - - +
572A ALA* 3.1 20.9 + - + +
701A EDO 3.6 33.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 569 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
567A HIS* 3.3 23.9 + - + -
568A MET* 1.3 79.3 - - - +
570A ARG* 1.3 58.0 + - + +
572A ALA* 3.2 8.8 + - + +
573A ASN* 3.0 31.1 + - - +
704A EDO 3.4 36.3 - - - +
1X C 4.2 23.1 + - - -
2X A 3.7 12.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 570 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
567A HIS* 3.1 55.8 + - + +
568A MET 3.3 0.4 - - - -
569A ARG* 1.3 76.5 - - + +
571A MET* 1.3 58.9 + - + +
573A ASN* 3.4 10.7 + - - +
574A ASN* 3.0 27.0 + - - +
585G ASN* 5.7 4.9 - - - +
9W T 3.9 47.5 + - + +
10W G 4.5 18.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 571 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
567A HIS 3.1 22.1 + - - +
568A MET* 3.3 8.7 + - - +
570A ARG* 1.3 76.3 - - + +
572A ALA* 1.3 58.0 + - - +
574A ASN* 3.3 8.2 + - - +
575A ALA* 3.0 26.5 + - - +
701A EDO 3.8 30.1 - - - -
9W T 5.3 2.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 572 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
568A MET* 3.1 14.0 + - + +
569A ARG* 3.2 13.0 + - + +
571A MET* 1.3 74.1 - - - +
573A ASN* 1.3 64.4 + - - +
575A ALA* 3.2 8.9 + - - +
576A ARG* 3.0 45.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 573 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
569A ARG* 3.0 23.7 + - - +
570A ARG* 3.7 11.1 - - - +
571A MET 3.3 0.2 - - - -
572A ALA* 1.3 76.8 - - - +
574A ASN* 1.3 57.5 + - - +
576A ARG* 3.2 18.2 + - - +
577A GLU* 3.0 28.4 + - - +
704A EDO 2.7 42.6 + - - -
9W T 3.8 12.7 - - + +
3X T 3.8 11.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 574 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
570A ARG 3.0 14.0 + - - +
571A MET* 3.5 12.3 - - - +
572A ALA 3.2 0.2 - - - -
573A ASN* 1.3 74.7 - - - +
575A ALA* 1.3 58.7 + - - +
577A GLU* 3.2 0.9 + - - -
578A ARG* 2.8 69.9 + - - +
8W G 2.9 51.7 + - + +
9W T 3.7 10.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 575 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
571A MET 3.0 12.7 + - - +
572A ALA* 3.2 11.4 + - - +
574A ASN* 1.3 77.3 - - - +
576A ARG* 1.3 62.4 + - + +
578A ARG* 3.5 5.8 + - - +
579A LEU* 3.2 23.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 576 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
572A ALA* 3.0 43.5 + - - +
573A ASN* 3.2 33.2 + - - +
575A ALA* 1.3 75.7 - - + +
577A GLU* 1.3 57.8 + - - +
579A LEU* 3.4 6.8 + - - +
580A ARG* 3.0 27.3 + - - +
704A EDO 3.9 4.9 + - - -
2X A 3.6 36.0 + - - -
3X T 2.8 39.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 577 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
573A ASN 3.0 16.8 + - - +
574A ASN 3.2 3.8 + - - +
576A ARG* 1.3 76.3 - - - +
578A ARG* 1.3 83.5 + - - +
580A ARG* 2.6 48.0 + - - +
581A VAL* 3.0 35.7 + - - +
7W C 5.9 0.5 - - - -
8W G 4.4 0.6 - - - +
9W T 3.3 27.4 - - + +
4X A 5.0 0.9 - - - +
5X C 3.2 16.4 + - - +
6X A 3.0 13.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 578 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
574A ASN* 2.8 58.6 + - - +
575A ALA* 4.1 5.4 - - - +
577A GLU* 1.3 99.4 + - - +
579A LEU* 1.3 57.8 + - - +
581A VAL* 3.6 15.6 + - - +
582A ARG* 3.1 30.4 + - - +
6W A 4.4 0.2 - - - +
7W C 2.5 74.5 + - - +
8W G 3.2 31.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 579 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
575A ALA 3.2 17.0 + - - +
576A ARG* 3.8 5.4 - - - +
577A GLU 3.2 0.6 - - - -
578A ARG* 1.3 76.1 - - - +
580A ARG* 1.3 59.7 + - - +
582A ARG* 3.3 14.3 + - + +
583A ASP* 2.9 57.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 580 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
576A ARG 3.0 17.9 + - - +
577A GLU* 2.6 44.7 + - - +
579A LEU* 1.3 76.8 - - - +
581A VAL* 1.3 64.1 + - - +
583A ASP* 3.3 7.1 + - - +
584A ILE* 3.0 56.9 + - + +
607B LYS* 4.6 5.9 - - - +
608B LEU* 6.3 1.1 - - + -
701B EDO 4.3 16.6 - - - +
4X A 4.1 19.7 - - - +
5X C 3.0 56.2 + - - +
6X A 4.4 7.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 581 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
577A GLU* 3.0 36.1 + - - +
578A ARG* 3.8 17.0 - - - +
580A ARG* 1.3 83.8 - - - +
582A ARG* 1.3 58.0 + - - +
584A ILE* 3.4 8.9 + - + +
585A ASN* 2.9 27.4 + - - +
607A LYS* 5.3 2.9 + - - +
6W A 3.8 40.3 + - + +
7W C 4.4 12.8 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 582 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
578A ARG* 3.1 21.3 + - - +
579A LEU* 3.7 16.4 - - - +
580A ARG 3.3 0.2 - - - -
581A VAL* 1.3 78.1 - - - +
583A ASP* 1.3 59.0 + - - +
585A ASN* 3.2 7.5 + - + +
586A GLU* 2.9 53.3 + - + +
7W C 5.3 6.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 583 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
579A LEU* 2.9 43.3 + - - +
580A ARG* 3.8 6.1 - - - +
582A ARG* 1.3 76.6 - - - +
584A ILE* 1.3 63.5 + - - +
586A GLU* 3.4 18.0 + - - +
587A ALA* 3.1 18.0 + - - +
608B LEU* 3.4 34.7 - - + +
612B HIS* 4.9 0.9 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 584 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
580A ARG* 3.0 55.5 + - + +
581A VAL* 3.8 7.2 - - + +
583A ASP* 1.3 75.7 - - - +
585A ASN* 1.3 58.9 + - - +
587A ALA 3.3 0.9 + - - -
588A PHE* 2.9 54.3 + - + -
607A LYS* 4.6 6.1 - - - +
607B LYS* 3.9 23.3 - - + -
608B LEU* 4.1 25.8 - - + +
611B LEU* 3.6 9.1 - - + +
701B EDO 5.6 0.2 - - - +
703B CL 4.2 9.9 - - + -
5X C 4.4 1.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 585 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
581A VAL* 2.9 17.6 + - + +
582A ARG* 3.6 8.2 - - + +
584A ILE* 1.3 78.2 - - - +
586A GLU* 1.3 65.2 + - - +
588A PHE* 3.3 9.0 + - - +
589A LYS* 2.9 58.4 + - - +
607A LYS* 5.2 6.3 - - - +
5W C 5.0 1.0 + - - -
6W A 3.5 22.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 586 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
582A ARG* 2.9 42.2 + - + +
583A ASP* 3.8 14.3 - - - +
584A ILE 3.3 0.2 - - - -
585A ASN* 1.3 80.7 - - - +
587A ALA* 1.3 62.5 + - - +
589A LYS* 3.3 7.6 + - - +
590A GLU* 3.2 22.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 587 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
583A ASP 3.1 17.8 + - - +
586A GLU* 1.3 77.2 - - - +
588A PHE* 1.3 57.4 + - - +
590A GLU* 3.5 6.2 + - - +
591A LEU* 3.0 30.0 + - - +
608B LEU* 4.1 2.5 - - + -
611B LEU* 3.7 26.0 - - + +
612B HIS* 3.7 32.7 + - + +
615B VAL* 4.7 3.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 588 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
584A ILE* 2.9 39.6 + - + +
585A ASN* 3.6 9.2 - - - +
586A GLU 3.3 0.2 - - - -
587A ALA* 1.3 77.3 - - - +
589A LYS* 1.3 53.3 + - + +
591A LEU* 3.7 2.9 - - - +
592A GLY* 2.7 33.1 + - - -
607A LYS* 3.5 62.6 - - + -
610A ILE* 3.7 34.3 - - + +
611A LEU* 3.8 16.6 - - + -
588B PHE* 3.6 37.2 - + - -
611B LEU* 3.6 10.3 - - + -
703B CL 4.0 2.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 589 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
585A ASN* 2.9 52.1 + - - +
586A GLU* 3.9 6.3 - - - +
587A ALA 3.3 0.2 - - - -
588A PHE* 1.3 77.0 - - + +
590A GLU* 1.3 58.6 + - - +
592A GLY* 3.9 0.8 - - - -
593A ARG* 3.1 28.1 + - - +
610A ILE* 5.5 1.6 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 590 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
586A GLU 3.2 15.5 + - - +
587A ALA* 4.1 5.6 - - - +
589A LYS* 1.3 76.5 - - - +
591A LEU* 1.3 65.0 + - - +
593A ARG* 3.3 6.2 + - + +
594A MET* 3.1 42.0 + - + +
615B VAL* 4.5 18.2 - - + +
619B LEU* 5.5 2.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 591 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
587A ALA 3.0 18.3 + - - +
588A PHE 3.9 3.1 - - - +
590A GLU* 1.3 76.9 - - - +
592A GLY* 1.3 62.8 + - - +
594A MET* 3.2 4.2 + - + +
595A VAL* 3.0 24.6 + - + +
610A ILE* 3.8 18.8 - - + +
611A LEU* 4.9 0.9 - - + -
614A ALA* 4.0 22.0 - - + -
591B LEU* 4.2 3.8 - - + -
611B LEU* 3.7 27.6 - - + +
614B ALA* 4.2 16.6 - - + -
615B VAL* 3.9 22.4 - - + +
618B ILE* 3.9 27.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 592 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
588A PHE 2.7 22.2 + - - -
589A LYS* 3.9 1.6 - - - -
591A LEU* 1.3 73.2 - - - +
593A ARG* 1.3 59.9 + - - +
595A VAL* 3.3 4.2 - - - +
596A GLN* 3.2 10.7 + - - +
605A GLN* 2.7 42.9 + - - +
610A ILE* 3.7 13.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 593 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
589A LYS 3.1 18.3 + - - +
590A GLU* 3.8 6.7 - - + +
591A LEU 3.3 0.2 - - - -
592A GLY* 1.3 77.2 - - - +
594A MET* 1.3 63.8 + - + +
596A GLN* 3.3 33.5 + - - +
597A LEU* 3.4 41.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 594 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
590A GLU* 3.1 28.3 + - + +
591A LEU* 3.2 5.8 + - + +
593A ARG* 1.3 76.8 - - + +
595A VAL* 1.3 65.8 + - + +
597A LEU* 3.1 19.9 + - + +
598A HIS* 3.3 22.1 + - + -
615B VAL* 3.6 52.0 - - + +
618B ILE* 3.7 28.5 - - + -
619B LEU* 3.7 24.2 - - + -
622B GLU* 4.8 3.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 595 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
591A LEU* 3.0 18.5 + - + +
592A GLY* 3.3 19.1 - - - +
594A MET* 1.3 74.4 - - - +
596A GLN* 1.3 62.6 + - - +
598A HIS* 3.9 0.4 - - - -
599A LEU* 3.1 29.6 + - - +
605A GLN* 3.3 15.0 - - - +
610A ILE* 4.7 4.9 - - + -
613A GLN* 3.4 22.4 - - + +
614A ALA* 3.8 30.5 - - + +
617A VAL* 4.0 17.5 - - + -
618B ILE* 4.2 13.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 596 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
592A GLY 3.2 13.4 + - - +
593A ARG* 3.3 44.5 + - - +
594A MET 3.2 0.6 - - - -
595A VAL* 1.3 78.5 - - - +
597A LEU* 1.3 58.9 + - + +
599A LEU* 2.8 25.5 - - - +
601A SER* 3.7 35.1 + - - +
605A GLN* 3.2 36.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 597 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
593A ARG* 3.4 47.6 - - + +
594A MET* 3.1 14.2 + - + +
596A GLN* 1.3 82.4 - - - +
598A HIS* 1.3 64.1 + - + +
599A LEU 3.6 3.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 598 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
594A MET* 3.3 22.6 + - - +
595A VAL 3.6 0.4 + - - +
596A GLN 3.4 0.2 - - - -
597A LEU* 1.3 81.6 - - + +
599A LEU* 1.3 65.8 + - - +
617A VAL* 3.9 27.8 - - + -
621A LEU* 3.8 25.2 - - + +
703A EDO 3.8 16.1 - - - -
618B ILE* 3.8 15.6 - - + +
622B GLU* 2.3 47.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 599 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
595A VAL 3.1 19.8 + - - +
596A GLN* 2.8 17.2 - - - +
597A LEU 3.9 4.3 - - - +
598A HIS* 1.3 84.8 - - - +
600A LYS* 1.3 66.2 + - - +
601A SER 3.8 0.3 + - - -
613A GLN* 3.7 43.1 - - + +
616A ALA* 5.4 8.7 - - + -
617A VAL* 3.9 19.3 - - + -
620A SER* 6.4 2.0 - - - -
703A EDO 3.7 22.9 - - - -
----------------------------------------------------------
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