Contacts of the helix formed by residues 582 - 604 (chain A) in PDB entry 3KAS
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 GLU 582 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
491A THR* 4.0 15.8 + - - +
516A PRO 5.7 0.9 - - - +
517A VAL* 4.4 16.8 - - + +
580A ILE* 3.3 14.9 - - - +
581A PRO* 1.3 93.9 - - + +
583A LEU* 1.3 64.8 + - - +
584A ASN* 3.2 3.4 - - - -
585A LYS* 2.9 28.7 + - + +
586A VAL* 3.0 19.0 + - + -
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Residues in contact with LEU 583 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A THR* 3.8 10.8 - - + -
144A ILE* 4.1 21.5 - - + -
421A VAL* 5.1 0.4 - - + -
488A VAL* 3.8 26.2 - - + -
573A TYR* 4.1 11.7 - - + -
576A LEU* 3.8 38.4 - - + -
577A ILE* 3.7 26.7 - - + -
580A ILE* 3.1 22.3 + - + +
581A PRO 3.1 2.4 + - - -
582A GLU* 1.3 76.1 - - - +
584A ASN* 1.3 55.4 + - - +
586A VAL* 3.2 2.3 + - - +
587A ALA* 2.8 38.6 + - + +
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Residues in contact with ASN 584 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A ASP 5.8 1.2 + - - -
138A THR 3.6 15.5 + - - -
139A ASP* 3.6 5.1 - - - +
140A PHE* 2.7 40.3 + - - +
141A THR* 3.3 26.0 + - + +
581A PRO 5.0 0.6 + - - -
582A GLU 3.0 1.4 + - - -
583A LEU* 1.3 78.7 - - - +
585A LYS* 1.3 58.9 + - - +
587A ALA 3.6 0.2 + - - -
588A ARG* 2.9 30.6 + - - +
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Residues in contact with LYS 585 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
516A PRO* 3.2 40.1 + - + +
517A VAL 5.7 0.4 + - - -
582A GLU* 2.9 18.1 + - + +
584A ASN* 1.3 78.9 - - - +
586A VAL* 1.3 58.1 + - - +
588A ARG* 3.2 16.3 + - - +
589A ALA* 3.0 22.9 + - - +
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Residues in contact with VAL 586 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
488A VAL* 3.8 24.2 - - + -
490A GLY 4.0 4.9 - - - +
491A THR* 4.2 18.8 - - - +
516A PRO* 3.8 22.4 - - + -
517A VAL* 5.1 0.7 - - + -
557A PHE* 3.8 31.5 - - + -
580A ILE* 4.2 6.5 - - + -
582A GLU* 3.0 25.8 + - + +
583A LEU* 3.8 5.2 - - - +
585A LYS* 1.3 74.8 - - - +
587A ALA* 1.3 65.8 + - - +
589A ALA* 3.1 4.3 + - - +
590A ALA* 3.0 20.6 + - - +
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Residues in contact with ALA 587 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140A PHE* 3.8 28.0 - - + -
144A ILE* 4.9 6.7 - - + -
421A VAL* 5.4 2.0 - - + -
425A LEU* 3.5 18.2 - - + +
488A VAL* 3.9 18.7 - - + +
583A LEU* 2.8 25.3 + - + +
584A ASN 3.9 0.2 - - - +
586A VAL* 1.3 73.2 - - - +
588A ARG* 1.3 57.4 + - - +
590A ALA* 3.2 4.0 + - - +
591A ALA* 2.9 24.8 + - - +
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Residues in contact with ARG 588 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A SER* 3.5 24.9 + - - +
135A LEU* 3.8 35.8 - - + +
136A ASP* 3.0 30.3 + - - +
138A THR 5.9 0.2 - - - +
140A PHE* 3.5 16.4 - - + -
584A ASN* 2.9 21.2 + - - +
585A LYS* 3.2 15.9 + - - +
587A ALA* 1.3 78.3 - - - +
589A ALA* 1.3 65.2 + - - +
591A ALA* 3.2 4.0 + - - +
592A GLU* 2.8 52.2 + - - +
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Residues in contact with ALA 589 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
513A VAL* 4.3 3.8 - - + +
514A LYS 4.1 13.5 - - - +
516A PRO* 3.5 32.1 - - + -
557A PHE* 3.6 15.3 - - + -
585A LYS 3.0 7.9 + - - +
586A VAL 3.1 2.4 + - - +
588A ARG* 1.3 80.7 - - - +
590A ALA* 1.3 65.8 + - - +
592A GLU* 3.2 8.4 + - - +
593A VAL* 3.0 27.0 + - - +
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Residues in contact with ALA 590 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
425A LEU* 4.1 19.9 - - + +
484A LEU* 5.3 0.2 - - - +
487A ALA* 4.2 8.3 - - + -
488A VAL* 4.2 8.3 - - + -
555A PHE* 3.4 28.4 - - + -
557A PHE* 3.7 14.0 - - + -
586A VAL 3.0 11.9 + - - +
587A ALA 3.4 9.6 - - - +
589A ALA* 1.3 78.1 - - - +
591A ALA* 1.3 60.4 + - - +
593A VAL 3.6 0.2 + - - -
594A ALA* 3.3 18.5 + - - +
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Residues in contact with ALA 591 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131A LEU* 5.0 0.2 - - - +
135A LEU* 3.6 25.6 - - + +
140A PHE* 3.8 15.9 - - + -
425A LEU* 4.2 8.3 - - + +
429A LEU* 3.5 22.2 - - + +
432A MET* 4.5 0.2 - - + -
587A ALA 2.9 12.9 + - - +
588A ARG 3.6 4.7 - - - +
589A ALA 3.2 0.2 - - - -
590A ALA* 1.3 75.1 - - - +
592A GLU* 1.3 57.0 + - - +
594A ALA* 4.6 2.7 - - - -
595A GLY* 2.7 32.9 + - - -
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Residues in contact with GLU 592 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A LYS* 5.4 1.0 - - - +
131A LEU* 4.1 10.9 - - + +
132A SER* 4.0 17.2 + - - -
135A LEU* 3.6 22.4 - - + +
512A ASN 4.7 5.0 - - - +
513A VAL* 4.0 28.3 - - + +
514A LYS 5.2 1.9 + - - +
588A ARG* 2.8 39.4 + - - +
589A ALA* 3.2 8.8 + - - +
591A ALA* 1.3 75.8 - - - +
593A VAL* 1.3 61.4 + - - +
596A GLN* 2.8 47.2 + - + +
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Residues in contact with VAL 593 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
494A PHE* 4.4 14.1 - - + -
509A THR* 3.9 19.5 - - + -
513A VAL* 4.3 15.0 - - + +
522A LEU* 4.3 14.4 - - + -
555A PHE* 3.4 33.2 - - + -
557A PHE* 4.9 0.4 - - + -
589A ALA 3.0 20.3 + - - +
590A ALA* 4.0 5.4 - - - +
592A GLU* 1.3 76.0 - - - +
594A ALA* 1.3 66.0 + - - +
596A GLN* 3.2 0.7 + - - +
597A PHE* 2.9 43.8 + - + -
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Residues in contact with ALA 594 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
405A VAL* 5.4 1.3 - - + -
429A LEU* 3.8 24.7 - - + -
482A ILE* 4.2 7.8 - - + +
484A LEU* 3.8 17.3 - - + -
555A PHE* 4.0 6.5 - - + -
590A ALA 3.3 14.2 + - - +
591A ALA 3.9 0.2 - - - +
593A VAL* 1.3 82.1 - - - +
595A GLY* 1.3 58.1 + - - +
597A PHE* 3.2 13.9 - - - +
598A VAL* 2.9 32.6 + - + +
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Residues in contact with GLY 595 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131A LEU* 3.9 12.8 - - - -
429A LEU* 4.3 3.7 - - - +
433A PHE* 3.6 24.6 - - - -
591A ALA 2.7 23.3 + - - -
592A GLU 3.8 0.7 - - - -
594A ALA* 1.3 73.8 - - - +
596A GLN* 1.3 56.6 + - - +
598A VAL 3.1 1.2 + - - -
599A ILE* 2.8 33.3 + - - +
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Residues in contact with GLN 596 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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6A PO4 5.5 0.2 + - - -
124A TRP* 4.2 17.0 - - + -
128A LYS* 3.6 24.3 - - + +
131A LEU* 3.7 15.6 - - + +
508A LYS 5.0 0.2 + - - -
509A THR* 3.9 26.3 + - + +
512A ASN* 2.7 34.7 + - - +
513A VAL* 4.1 11.8 - - - +
592A GLU* 2.8 34.0 + - + +
593A VAL 3.8 2.0 - - - +
595A GLY* 1.3 68.2 - - - +
597A PHE* 1.3 68.3 + - - +
599A ILE* 3.2 5.1 + - + +
600A LYS* 2.9 29.1 + - - +
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Residues in contact with PHE 597 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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482A ILE* 3.7 17.7 - - + -
494A PHE* 5.8 3.6 - + - -
496A VAL* 5.8 0.9 - - + -
505A LEU* 3.9 22.0 - - + -
506A ILE* 3.8 34.1 - - + -
509A THR* 3.5 34.1 - - + -
510A MET* 6.5 0.4 - - + -
553A VAL* 3.9 35.0 - - + -
555A PHE* 4.2 7.0 - + - -
593A VAL* 2.9 36.5 + - + -
594A ALA* 3.2 15.7 - - - +
596A GLN* 1.3 75.2 - - - +
598A VAL* 1.3 62.7 + - - +
600A LYS* 3.8 1.0 - - - +
601A LEU* 3.0 31.8 + - + +
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Residues in contact with VAL 598 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
403A VAL* 4.6 5.2 - - + -
405A VAL* 3.7 20.9 - - + -
429A LEU* 6.2 0.9 - - + -
433A PHE* 3.8 21.8 - - + -
442A PHE* 5.7 0.2 - - + -
448A ILE* 3.7 37.9 - - + -
450A PHE* 6.1 0.2 - - + -
482A ILE* 3.5 20.4 - - + -
594A ALA* 2.9 19.8 + - + +
595A GLY 3.1 6.9 + - - +
597A PHE* 1.3 76.9 - - - +
599A ILE* 1.3 60.8 + - - +
601A LEU* 3.7 4.8 + - - +
602A THR* 2.8 30.0 + - + +
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Residues in contact with ILE 599 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124A TRP* 3.4 25.4 - - + -
127A LEU* 3.8 52.3 - - + +
128A LYS* 5.1 0.4 - - - +
131A LEU* 4.1 19.7 - - + -
433A PHE* 3.5 23.1 - - + -
436A MET* 4.9 5.8 - - - -
442A PHE* 4.5 9.4 - - + -
595A GLY 2.8 20.7 + - - +
596A GLN* 3.9 1.6 - - - +
598A VAL* 1.3 75.0 - - - +
600A LYS* 1.3 67.7 + - - +
602A THR* 2.9 7.1 + - - -
603A HIS* 2.8 27.9 + - + +
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Residues in contact with LYS 600 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6A PO4 4.1 21.7 + - - -
124A TRP* 3.5 33.4 - - + -
505A LEU* 3.7 27.2 - - + +
508A LYS* 3.4 38.8 - - - +
509A THR* 5.5 2.0 + - - +
596A GLN* 2.9 15.4 + - - +
597A PHE 3.8 0.2 - - - +
599A ILE* 1.3 77.6 - - - +
601A LEU* 1.3 63.4 + - - +
603A HIS* 4.6 2.7 - - - -
604A ASP* 3.2 47.2 + - - +
608A ASN* 3.0 24.6 - - - +
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Residues in contact with LEU 601 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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403A VAL* 4.0 25.1 - - + -
446A ARG* 2.7 31.7 + - - -
479A PHE* 4.0 20.1 - - + -
480A THR* 3.7 36.6 - - + +
482A ILE* 4.7 0.9 - - + -
502A LEU* 4.8 1.8 - - + -
505A LEU* 3.6 26.9 - - + -
597A PHE* 3.0 27.0 + - + +
598A VAL 4.0 1.6 - - - +
599A ILE 3.1 0.2 - - - -
600A LYS* 1.3 77.0 - - - +
602A THR* 1.3 53.7 + - - +
607A LEU* 4.2 3.6 - - + +
608A ASN* 3.7 28.8 - - + +
609A LEU* 4.9 2.5 - - + -
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Residues in contact with THR 602 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
403A VAL* 3.5 29.4 - - + -
442A PHE* 3.6 18.4 - - - -
443A GLN 4.5 0.5 - - - +
444A PRO* 3.5 8.9 - - - +
445A SER* 2.7 31.6 + - - -
446A ARG* 3.6 40.2 - - + +
448A ILE* 4.1 12.7 - - + +
598A VAL 2.8 18.7 + - - +
599A ILE 2.9 3.7 + - - -
601A LEU* 1.3 76.3 - - - +
603A HIS* 1.3 58.9 + - - +
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Residues in contact with HIS 603 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1A K 3.7 10.5 - - - -
2A PO4 2.8 28.1 + - - -
121A ARG* 3.2 51.5 + - - +
122A LEU 3.1 25.1 - - - -
124A TRP* 4.0 12.6 + + + -
127A LEU* 3.4 23.4 - - + +
442A PHE* 4.9 4.5 - - + -
443A GLN 5.6 1.3 + - - -
445A SER* 4.1 4.6 + - - -
599A ILE* 2.8 25.1 + - + +
600A LYS* 4.1 1.6 - - - +
601A LEU 3.5 0.2 - - - -
602A THR* 1.3 80.6 - - - +
604A ASP* 1.3 83.4 + - - +
605A VAL* 3.6 1.2 + - - +
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Residues in contact with ASP 604 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2A PO4 4.2 8.8 + - - -
121A ARG* 4.8 1.8 - - - +
124A TRP* 5.5 2.1 - - - +
445A SER* 4.9 0.9 + - - -
446A ARG* 2.8 26.3 + - - -
600A LYS* 3.2 31.4 + - - +
603A HIS* 1.3 91.7 - - - +
605A VAL* 1.3 62.1 + - - +
606A GLU* 3.2 17.2 - - + +
608A ASN* 2.9 25.6 + - - +
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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