Contacts of the helix formed by residues 595 - 626 (chain B) in PDB entry 3KG2
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 SER 595 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
543B VAL* 4.9 12.8 - - - +
593B PRO* 3.1 13.8 + - - -
594B ARG* 1.3 70.1 - - - +
596B LEU* 1.3 66.6 + - - +
597B SER* 2.8 7.0 + - - -
598B GLY* 3.1 8.5 + - - -
599B ARG* 2.8 21.2 + - - +
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Residues in contact with LEU 596 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
594B ARG 3.1 10.6 + - - +
595B SER* 1.3 69.2 - - - +
597B SER* 1.3 67.2 + - - +
599B ARG* 3.2 14.9 + - + +
600B ILE* 3.2 31.7 + - + +
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Residues in contact with SER 597 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
543B VAL* 4.5 16.3 - - - +
595B SER* 2.8 7.5 + - - -
596B LEU* 1.3 79.1 - - - +
598B GLY* 1.3 59.9 + - - -
599B ARG 3.1 2.4 + - - -
600B ILE* 3.3 20.5 - - - +
601B VAL* 3.8 6.2 + - - +
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Residues in contact with GLY 598 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
540B LEU* 3.9 18.7 - - - +
543B VAL* 4.4 15.1 - - - +
595B SER* 3.1 11.5 + - - -
597B SER* 1.3 79.0 + - - +
599B ARG* 1.3 63.0 + - - +
600B ILE 3.5 0.2 - - - -
601B VAL* 3.4 14.3 - - - +
602B GLY* 3.2 17.5 + - - -
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Residues in contact with ARG 599 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
593B PRO 5.4 2.5 - - - +
594B ARG* 5.0 3.4 - - - -
595B SER* 2.8 24.5 + - - +
596B LEU* 3.3 19.1 - - + +
597B SER 3.0 0.4 - - - -
598B GLY* 1.3 75.9 - - - +
600B ILE* 1.3 66.1 + - + +
602B GLY* 3.2 5.0 + - - -
603B GLY* 3.2 16.5 + - - -
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Residues in contact with ILE 600 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
596B LEU* 3.2 27.1 + - + +
597B SER* 3.3 15.9 - - - +
599B ARG* 1.3 73.4 - - + +
601B VAL* 1.3 65.6 + - + +
603B GLY* 3.7 3.1 - - - +
604B VAL* 2.8 41.8 + - + +
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Residues in contact with VAL 601 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
536B VAL* 3.6 30.5 - - + -
539B VAL* 4.2 22.7 - - + -
540B LEU* 3.7 16.6 - - + -
597B SER 3.9 13.7 - - - +
598B GLY* 3.4 14.6 - - - +
599B ARG 3.1 0.4 - - - -
600B ILE* 1.3 82.9 - - + +
602B GLY* 1.3 59.1 + - - +
604B VAL* 4.1 3.3 - - - +
605B TRP* 2.9 29.3 + - - +
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Residues in contact with GLY 602 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
536B VAL* 6.1 0.4 - - - -
540B LEU* 5.8 3.1 - - - -
598B GLY 3.2 6.4 + - - -
599B ARG* 3.2 7.3 + - - -
601B VAL* 1.3 81.2 - - - +
603B GLY* 1.3 57.2 + - - +
605B TRP* 4.0 7.0 - - - +
606B TRP* 3.1 28.1 + - - +
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Residues in contact with GLY 603 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
599B ARG 3.2 12.6 + - - -
600B ILE* 3.4 4.2 + - - -
601B VAL 3.2 0.2 - - - -
602B GLY* 1.3 75.6 - - - +
604B VAL* 1.3 58.7 + - - +
606B TRP* 3.2 9.8 + - - +
607B PHE* 3.0 27.0 + - - +
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Residues in contact with VAL 604 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
600B ILE* 2.8 31.1 + - + +
601B VAL* 4.1 3.6 - - - +
603B GLY* 1.3 68.6 - - - +
605B TRP* 1.3 61.5 + - - +
607B PHE* 3.3 11.3 + - + +
608B PHE* 2.8 29.8 + - + +
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Residues in contact with TRP 605 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
529B ILE* 3.9 12.3 - - + -
532B ALA* 3.4 23.6 - - + -
533B TYR* 3.4 42.2 - + - -
536B VAL* 3.4 34.1 - - + -
582B GLY 5.5 5.2 + - - -
583B ALA* 4.6 12.4 + - + +
585B MET* 5.1 8.6 - - + +
601B VAL 2.9 20.6 + - - +
602B GLY* 4.1 6.3 - - - +
604B VAL* 1.3 77.3 - - - +
606B TRP* 1.3 61.1 + - - +
608B PHE* 3.3 36.1 + + + +
609B THR* 3.0 38.5 + - + +
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Residues in contact with TRP 606 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
586B GLN 4.6 16.2 + - - -
602B GLY 3.1 20.5 + - - +
603B GLY* 3.4 9.0 - - - +
604B VAL 3.2 0.2 - - - -
605B TRP* 1.3 77.2 - - + +
607B PHE* 1.3 81.9 + + + +
609B THR* 3.0 14.2 - - + +
610B LEU* 2.9 67.9 + - + +
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Residues in contact with PHE 607 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
603B GLY 3.0 13.8 + - - +
604B VAL* 3.3 13.9 + - + +
606B TRP* 1.3 89.6 - + + +
608B PHE* 1.3 64.0 + - - +
610B LEU* 3.5 15.6 - - + +
611B ILE* 3.2 50.1 + - + +
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Residues in contact with PHE 608 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
528B CYS 5.7 0.7 - - - -
529B ILE* 3.9 24.5 - - + -
532B ALA* 4.7 9.6 - - + -
604B VAL* 2.8 20.3 + - + +
605B TRP* 3.4 37.2 - + + +
606B TRP 3.1 0.2 - - - -
607B PHE* 1.3 78.4 - - - +
609B THR* 1.3 69.3 + - - +
611B ILE* 3.3 8.3 + - - +
612B ILE* 3.2 52.4 + - + +
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Residues in contact with THR 609 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
606A TRP* 5.0 10.9 - - + -
529B ILE* 5.9 2.0 - - - -
585B MET* 5.7 5.2 - - + +
605B TRP* 3.0 29.3 + - + +
606B TRP* 3.0 31.2 - - + +
608B PHE* 1.3 82.3 - - - +
610B LEU* 1.3 65.7 + - - +
612B ILE* 4.4 5.9 - - - +
613B ILE* 3.0 41.3 + - + +
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Residues in contact with LEU 610 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
606B TRP* 2.9 58.7 + - + +
607B PHE* 3.5 19.5 - - + +
609B THR* 1.3 78.2 - - - +
611B ILE* 1.3 62.3 + - + +
613B ILE* 3.1 17.4 - - + +
614B SER* 2.7 42.1 + - - +
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Residues in contact with ILE 611 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
607B PHE* 3.2 47.0 + - + +
608B PHE* 3.3 7.6 + - - +
610B LEU* 1.3 83.1 - - + +
612B ILE* 1.3 61.0 + - + +
614B SER* 3.3 7.6 + - - +
615B SER* 2.8 40.5 + - - +
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Residues in contact with ILE 612 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
521B LEU* 4.0 21.3 - - + +
525B ILE* 4.8 14.1 - - + -
529B ILE* 3.5 36.6 - - + -
608B PHE* 3.2 45.5 + - + +
609B THR* 3.8 8.3 - - - +
610B LEU 3.3 0.2 - - - -
611B ILE* 1.3 82.2 - - + +
613B ILE* 1.3 63.1 + - + +
615B SER* 3.0 8.3 + - - -
616B TYR* 2.8 27.7 + - - +
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Residues in contact with ILE 613 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
606A TRP* 5.4 3.8 - - + -
610A LEU* 3.7 44.6 - - + -
614A SER* 4.6 3.2 + - - +
609B THR* 3.0 37.3 + - + +
610B LEU* 3.1 27.6 - - + +
612B ILE* 1.3 80.7 - - + +
614B SER* 1.3 59.0 + - - +
616B TYR* 3.8 8.6 - - - +
617B THR* 2.8 32.6 + - - -
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Residues in contact with SER 614 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
610B LEU* 2.7 34.0 + - - +
611B ILE* 3.4 9.3 - - - +
613B ILE* 1.3 77.2 - - - +
615B SER* 1.3 59.4 + - - +
617B THR* 3.4 5.6 + - - -
618B ALA* 2.9 30.7 + - - +
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Residues in contact with SER 615 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
611B ILE* 2.8 26.0 + - - +
612B ILE* 3.4 10.9 - - - -
614B SER* 1.3 74.5 - - - +
616B TYR* 1.3 60.3 + - - +
618B ALA* 3.3 4.9 + - - +
619B ASN* 2.8 34.6 + - - +
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Residues in contact with TYR 616 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
611A ILE* 3.9 21.1 - - + +
614A SER* 4.0 21.5 - - - -
615A SER* 4.4 1.0 + - - -
517B PHE* 3.2 38.9 - + - -
520B PRO* 3.9 22.1 - - + +
521B LEU* 4.0 34.5 - - + -
526B TRP* 4.4 10.3 - + - -
612B ILE* 2.8 18.3 + - + +
613B ILE* 3.8 8.1 - - - +
615B SER* 1.3 72.2 - - - +
617B THR* 1.3 64.0 + - - +
619B ASN* 3.9 4.2 - - - +
620B LEU* 2.9 62.8 + - + +
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Residues in contact with THR 617 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
614A SER* 3.3 40.0 + - - +
617A THR* 4.1 23.6 - - + -
618A ALA* 3.5 10.8 - - + +
613B ILE 2.8 22.8 + - - -
614B SER* 3.7 6.1 - - - -
616B TYR* 1.3 81.0 - - - +
618B ALA* 1.3 63.1 + - - +
620B LEU* 3.4 3.6 + - - -
621B ALA* 3.1 18.0 + - - +
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Residues in contact with ALA 618 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
614B SER 2.9 18.6 + - - +
615B SER* 3.8 5.8 - - - +
617B THR* 1.3 76.8 - - - +
619B ASN* 1.3 63.6 + - - +
621B ALA* 3.1 20.9 + - - +
622B ALA* 3.5 6.2 + - - +
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Residues in contact with ASN 619 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
519B ASP 4.8 0.2 - - - +
520B PRO* 2.9 37.3 - - + +
615B SER 2.8 22.4 + - - +
616B TYR* 4.0 4.5 - - - +
618B ALA* 1.3 72.2 - - - +
620B LEU* 1.3 58.0 + - - +
622B ALA* 3.0 29.5 + - - +
623B PHE* 3.8 20.7 + - - -
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Residues in contact with LEU 620 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
614A SER 4.5 0.7 - - - +
615A SER* 3.7 37.0 - - - +
618A ALA* 3.9 9.0 - - + -
516B SER 5.0 4.5 - - - +
520B PRO* 4.2 24.2 - - + +
616B TYR* 2.9 46.1 + - + +
617B THR 3.7 4.5 - - - +
619B ASN* 1.3 76.7 - - - +
621B ALA* 1.3 62.4 + - - +
622B ALA 3.4 0.5 + - - -
623B PHE* 4.0 8.8 + - + +
624B LEU* 3.6 32.4 + - + +
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Residues in contact with ALA 621 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
618A ALA* 3.6 28.9 - - + +
621A ALA* 4.5 11.7 - - + -
622A ALA* 4.4 1.0 - - - +
617B THR* 3.1 11.4 + - + +
618B ALA* 3.1 16.0 + - - +
620B LEU* 1.3 78.9 - - - +
622B ALA* 1.3 55.4 + - - +
624B LEU* 3.6 3.9 + - - +
625B THR* 2.6 34.8 + - - +
----------------------------------------------------------
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Residues in contact with ALA 622 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
618B ALA 3.5 5.2 + - - +
619B ASN* 3.0 23.8 + - - +
621B ALA* 1.3 76.3 - - - +
623B PHE* 1.3 70.2 + - + +
625B THR* 3.0 15.0 + - - -
626B VAL* 3.1 21.5 + - + +
----------------------------------------------------------
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Residues in contact with PHE 623 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
516B SER 5.9 1.1 - - - -
519B ASP* 5.0 11.0 - - + -
520B PRO* 4.6 23.8 - - + -
619B ASN* 3.8 32.1 + - - -
620B LEU* 4.0 9.2 + - + +
621B ALA 3.6 0.2 - - - -
622B ALA* 1.3 81.1 - - + +
624B LEU* 1.3 63.3 + - + +
625B THR 3.2 0.2 - - - -
626B VAL* 5.8 0.2 - - - -
627B GLU* 3.1 34.0 + - - +
----------------------------------------------------------
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Residues in contact with LEU 624 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
615A SER 5.5 0.4 - - - +
619A ASN* 4.4 34.5 - - + +
622A ALA* 3.3 19.2 - - + +
626A VAL* 5.7 0.7 - - - +
620B LEU* 3.6 36.5 + - + +
621B ALA* 3.6 4.4 + - - +
622B ALA 3.2 0.6 - - - -
623B PHE* 1.3 80.3 - - + +
625B THR* 1.3 60.9 + - - +
627B GLU* 4.8 5.6 - - - +
----------------------------------------------------------
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Residues in contact with THR 625 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
621A ALA* 4.8 0.5 - - - +
622A ALA* 3.3 21.2 + - - +
625A THR* 3.8 32.2 + - + -
626A VAL* 4.2 16.0 - - + +
629A MET* 4.2 15.5 - - + +
621B ALA* 2.6 23.9 + - - +
622B ALA* 3.0 7.4 + - - -
624B LEU* 1.3 80.4 - - - +
626B VAL* 1.3 72.2 + - + +
627B GLU* 4.6 1.0 - - - +
----------------------------------------------------------
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Residues in contact with VAL 626 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
629A MET* 5.7 5.6 - - + -
622B ALA* 3.1 12.7 + - + +
623B PHE* 5.8 0.2 - - - -
625B THR* 1.3 83.8 - - + +
627B GLU* 1.3 72.2 + - - +
628B ARG* 4.0 37.4 - - + +
----------------------------------------------------------
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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