Contacts of the helix formed by residues 431 - 455 (chain B) in PDB entry 4KZI
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 431 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
430B LEU* 1.3 78.0 - - - +
432B PRO* 1.3 74.4 - - - +
434B ASP* 3.2 21.5 + - - +
435B GLN* 2.9 19.9 + - - +
519B GLN* 2.6 33.5 + - - -
520B GLU* 4.1 19.8 + - - -
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Residues in contact with PRO 432 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
430B LEU 3.4 2.4 - - - +
431B SER* 1.3 86.7 - - - +
433B ALA* 1.3 61.0 + - - +
435B GLN* 3.3 17.1 + - + +
436B ASP* 3.1 29.9 + - - +
519B GLN* 5.6 0.2 - - - +
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Residues in contact with ALA 433 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
431B SER* 3.3 1.0 + - - -
432B PRO* 1.3 79.8 - - - +
434B ASP* 1.3 59.9 + - - +
436B ASP* 3.5 7.9 + - - +
437B LEU* 3.0 28.6 + - - +
519B GLN* 3.7 28.3 - - + +
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Residues in contact with ASP 434 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
430B LEU* 4.5 7.2 - - + +
431B SER* 3.2 26.4 + - - +
433B ALA* 1.3 76.0 - - - +
435B GLN* 1.3 67.5 + - - +
437B LEU* 3.9 2.6 - - - +
438B LEU* 2.9 34.9 + - + +
517B GLY 4.2 1.9 - - - +
518B LEU* 3.6 23.8 - - + +
519B GLN* 2.8 28.5 + - - +
520B GLU* 3.0 33.8 + - - +
524B VAL* 4.6 4.0 - - + +
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Residues in contact with GLN 435 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
422B GLU* 2.6 29.3 - - - +
427B PHE* 3.5 38.8 - - + +
428B ALA* 3.2 19.2 + - - +
430B LEU* 2.9 26.9 + - + +
431B SER 2.9 14.0 + - - +
432B PRO* 3.4 17.4 - - - +
434B ASP* 1.3 78.3 - - - +
436B ASP* 1.3 61.0 + - - +
438B LEU* 3.2 1.8 + - - +
439B LEU* 2.9 35.9 + - + +
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Residues in contact with ASP 436 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
418B ARG* 4.7 12.0 + - - +
432B PRO* 3.1 19.5 + - - +
433B ALA* 3.9 5.9 - - - +
434B ASP 3.3 0.2 - - - -
435B GLN* 1.3 79.3 - - - +
437B LEU* 1.3 57.3 + - - +
439B LEU* 3.8 8.7 - - - +
440B GLU* 2.9 36.9 + - - +
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Residues in contact with LEU 437 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
433B ALA 3.0 19.0 + - - +
434B ASP* 3.9 4.5 - - - +
435B GLN 3.3 0.2 - - - -
436B ASP* 1.3 76.4 - - - +
438B LEU* 1.3 58.1 + - - +
440B GLU* 3.9 7.4 - - + +
441B SER* 2.8 46.9 + - - +
515B ARG* 4.3 7.6 - - + -
516B HIS 3.5 15.7 - - - +
517B GLY* 3.5 35.7 - - - +
518B LEU* 3.6 18.8 - - + +
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Residues in contact with LEU 438 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
427B PHE* 4.1 9.2 - - + -
430B LEU* 3.9 27.8 - - + -
434B ASP 2.9 25.7 + - - +
435B GLN 3.7 3.6 - - - +
437B LEU* 1.3 71.9 - - - +
439B LEU* 1.3 65.7 + - - +
441B SER* 3.3 3.8 + - - -
442B ALA* 3.0 28.2 + - - +
511B LEU* 3.5 28.2 - - + +
512B ILE* 4.4 5.4 - - + -
513B THR 3.3 26.2 - - - +
515B ARG* 3.9 15.8 + - + -
518B LEU* 4.1 13.0 - - + -
524B VAL* 4.1 15.9 - - + -
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Residues in contact with LEU 439 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
417B ILE* 4.2 22.5 - - + +
418B ARG* 4.3 38.6 - - + +
421B ALA* 3.8 19.1 - - + -
422B GLU* 5.6 0.9 - - - +
427B PHE* 3.8 17.5 - - + -
435B GLN* 2.9 29.2 + - + +
436B ASP* 3.8 9.0 - - - +
438B LEU* 1.3 76.2 - - - +
440B GLU* 1.3 63.1 + - - +
442B ALA* 3.7 0.5 - - - +
443B PHE* 3.0 26.9 + - - +
446B LEU* 5.3 0.7 - - - +
511B LEU* 3.6 21.8 - - + -
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Residues in contact with GLU 440 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
436B ASP* 2.9 22.0 + - - +
437B LEU* 3.9 8.0 - - + +
439B LEU* 1.3 79.4 - - - +
441B SER* 1.3 62.1 + - - +
442B ALA 3.4 0.3 + - - -
443B PHE* 3.7 6.2 + - - +
444B LEU 5.2 0.2 + - - -
590B LYS* 3.8 18.2 + - - +
591B ILE* 3.6 52.5 - - + +
594B ASP* 2.4 42.6 - - + +
595B THR* 3.8 6.6 - - + +
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Residues in contact with SER 441 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
437B LEU* 2.8 39.2 + - - +
438B LEU 4.0 1.6 - - - -
439B LEU 3.2 0.2 - - - -
440B GLU* 1.3 79.2 - - - +
442B ALA* 1.3 58.0 + - - +
443B PHE 3.5 0.2 - - - -
444B LEU* 5.2 1.1 + - - +
445B GLU* 3.6 6.2 - - - +
515B ARG* 3.4 44.4 + - - +
566B CYS* 5.1 8.0 - - - -
595B THR* 3.9 19.8 - - - +
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Residues in contact with ALA 442 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
438B LEU 3.0 16.3 + - - +
439B LEU 4.1 0.9 - - - +
441B SER* 1.3 75.7 - - - +
443B PHE* 1.3 66.8 + - - +
444B LEU 3.4 2.0 - - - -
445B GLU* 3.1 9.0 + - - +
446B LEU* 2.8 41.4 + - + +
510B VAL* 3.7 16.4 - - + +
511B LEU* 3.9 7.0 - - + +
515B ARG* 3.6 17.0 - - - +
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Residues in contact with PHE 443 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
410B LEU* 3.2 32.1 - - + -
413B SER* 3.9 21.8 - - - -
414B LEU* 3.3 29.4 - - + -
417B ILE* 4.1 16.6 - - + -
439B LEU 3.0 17.1 + - - +
440B GLU 4.0 8.7 - - - +
441B SER 3.5 1.8 - - - -
442B ALA* 1.3 75.5 - - - +
444B LEU* 1.3 80.5 + - + +
446B LEU* 3.1 7.1 + - - +
447B PHE* 2.8 36.4 + - + +
588B ILE* 4.0 17.5 - - + -
591B ILE* 4.1 24.2 - - + -
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Residues in contact with LEU 444 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
410B LEU* 4.7 10.3 - - + -
440B GLU 5.2 0.4 + - - -
441B SER 5.2 1.2 + - - +
442B ALA 3.4 0.4 - - - -
443B PHE* 1.3 100.7 - - + +
445B GLU* 1.3 64.2 + - - +
447B PHE* 3.3 4.7 + - + +
448B ILE* 3.0 29.9 + - + +
482B TRP* 4.5 23.1 - - + -
566B CYS* 3.8 26.7 - - + +
569B GLY* 5.1 0.4 - - - -
570B LEU* 3.7 38.4 - - + +
573B ILE* 4.6 18.2 - - + -
588B ILE* 6.3 0.4 - - + -
591B ILE* 5.2 12.5 - - + +
592B PHE* 6.3 0.2 - - - -
595B THR* 5.6 0.7 - - - +
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Residues in contact with GLU 445 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
441B SER 3.6 9.7 - - - +
442B ALA* 3.1 5.7 + - - +
444B LEU* 1.3 80.9 - - - +
446B LEU* 1.3 58.1 + - - +
448B ILE* 3.5 8.2 + - - -
449B LEU* 2.9 30.1 + - - +
510B VAL* 3.8 22.5 - - + +
515B ARG* 3.0 28.5 + - - -
559B LEU* 4.9 1.7 - - - +
562B LEU* 3.6 25.2 - - + +
563B ARG* 3.2 37.8 + - - +
566B CYS* 3.6 24.6 - - + -
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Residues in contact with LEU 446 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
417B ILE* 3.8 34.1 - - + -
420B TRP* 3.9 20.2 - - + -
439B LEU 5.3 0.9 - - - +
442B ALA* 2.8 40.4 + - + +
443B PHE 3.7 4.0 - - - +
445B GLU* 1.3 71.3 - - - +
447B PHE* 1.3 67.4 + - - +
449B LEU* 3.9 3.3 - - + +
450B ARG* 2.9 37.2 + - - -
507B SER* 3.4 35.4 - - - +
510B VAL* 3.9 15.0 - - + -
511B LEU* 4.2 10.3 - - + -
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Residues in contact with PHE 447 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
409B LEU 4.0 16.4 - - - -
410B LEU* 3.5 33.0 - - + -
413B SER* 3.5 26.9 - - - -
417B ILE* 4.0 6.8 - - - +
443B PHE* 2.8 28.2 + + + +
444B LEU* 3.4 9.4 - - + +
446B LEU* 1.3 77.3 - - - +
448B ILE* 1.3 70.7 + - + +
450B ARG* 4.3 1.9 - - - +
451B LEU* 3.0 52.3 + - + +
464B PHE* 4.3 20.9 - + - -
479B PHE* 4.3 15.7 - + - -
482B TRP* 4.4 9.6 - + - -
486B ILE* 5.2 1.6 - - + -
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Residues in contact with ILE 448 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
444B LEU* 3.0 27.8 + - + +
445B GLU* 3.8 7.0 - - - +
447B PHE* 1.3 81.8 - - + +
449B LEU* 1.3 64.7 + - - +
451B LEU* 3.7 4.0 - - - +
452B ALA* 2.9 23.2 + - - +
482B TRP* 3.8 30.5 - - + -
486B ILE* 4.3 19.1 - - + +
489B PHE* 4.5 5.8 - - + -
562B LEU* 3.5 18.6 - - + +
565B LEU* 3.8 22.4 - - + -
566B CYS* 3.8 28.7 - - - +
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Residues in contact with LEU 449 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
445B GLU 2.9 19.0 + - - +
446B LEU* 3.9 5.2 - - + +
448B ILE* 1.3 78.8 - - - +
450B ARG* 1.3 58.5 + - - +
452B ALA* 3.7 4.6 - - - +
453B TYR* 3.0 27.9 + - - +
489B PHE* 4.0 24.0 - - + -
493B LEU* 4.3 8.7 - - + -
503B PHE* 3.6 24.7 - - + -
506B LEU* 4.6 16.6 - - + -
507B SER* 3.8 34.1 - - - +
510B VAL* 4.0 17.9 - - + -
558B LYS* 5.8 1.8 - - + -
559B LEU* 6.1 0.2 - - + -
562B LEU* 3.9 12.3 - - + -
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Residues in contact with ARG 450 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
372B HIS* 4.4 5.5 + - - -
375B SER* 3.0 47.2 + - - -
413B SER* 5.7 2.0 + - - -
416B VAL* 3.4 16.6 - - - +
417B ILE* 3.9 19.1 - - - +
420B TRP* 4.3 20.0 - - - +
446B LEU* 2.9 38.0 + - - +
447B PHE* 4.3 2.0 - - - +
449B LEU* 1.3 76.4 - - + +
451B LEU* 1.3 64.9 + - - +
453B TYR* 4.0 1.1 - - - +
454B ARG* 3.1 47.6 + - - +
465B CYS* 4.5 2.0 - - - +
503B PHE* 4.1 21.1 - - + -
507B SER* 5.1 7.2 + - - -
701B GOL 3.2 21.8 + - - +
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Residues in contact with LEU 451 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
447B PHE* 3.0 39.7 + - + +
448B ILE* 3.7 3.6 - - - +
450B ARG* 1.3 77.4 - - - +
452B ALA* 1.3 56.9 + - - +
454B ARG* 3.2 10.8 + - - +
455B SER* 2.9 48.4 + - - +
462B LEU* 4.2 17.0 - - + -
463B ILE 3.3 26.2 - - - +
464B PHE* 3.7 35.4 - - + -
479B PHE* 5.3 0.2 - - + -
483B ILE* 4.6 7.6 - - + -
486B ILE* 4.4 17.7 - - + -
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Residues in contact with ALA 452 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
448B ILE 2.9 18.6 + - - +
449B LEU 3.7 3.8 - - - +
451B LEU* 1.3 78.2 - - - +
453B TYR* 1.3 62.0 + - - +
455B SER* 3.7 3.6 + - - -
486B ILE* 4.4 9.6 - - + +
489B PHE* 3.7 28.0 - - + -
490B SER* 2.5 42.2 + - - +
493B LEU* 4.3 4.2 - - + +
494B HIS* 3.2 7.4 - - - -
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Residues in contact with TYR 453 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
372B HIS* 4.1 15.7 - + - -
449B LEU 3.0 17.8 + - - +
450B ARG 4.0 2.2 - - - +
452B ALA* 1.3 77.7 - - - +
454B ARG* 1.3 63.1 + - + +
456B LYS* 5.3 1.9 + - - -
493B LEU* 3.8 18.1 - - + +
494B HIS* 3.3 26.1 + + - -
498B VAL* 2.7 35.9 + - + -
499B ASP* 3.4 15.2 - - - -
500B VAL* 3.5 13.8 + - + +
503B PHE* 3.5 53.8 - + + -
701B GOL 5.9 1.6 - - - -
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Residues in contact with ARG 454 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
377B PRO* 4.2 7.6 - - - +
413B SER* 5.7 0.6 + - - -
450B ARG* 3.1 42.1 + - - +
451B LEU* 3.7 14.4 - - - +
453B TYR* 1.3 78.7 - - + +
455B SER* 1.3 64.3 + - - +
456B LYS* 3.7 10.4 + - - -
463B ILE* 2.9 66.2 + - + +
464B PHE* 3.6 6.0 - - - +
465B CYS* 3.4 38.7 - - - +
701B GOL 2.8 47.5 + - - +
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Residues in contact with SER 455 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
451B LEU* 2.9 27.3 + - - +
452B ALA* 3.7 5.4 + - - -
453B TYR 3.4 1.2 - - - -
454B ARG* 1.3 82.2 - - - +
456B LYS* 1.3 68.0 + - - +
457B PRO* 3.7 2.5 - - - -
461B LYS 3.3 10.3 - - - -
462B LEU* 3.2 14.1 - - - +
463B ILE* 3.0 26.7 + - - +
487B LEU* 5.1 4.0 - - - -
490B SER* 4.5 4.7 - - - -
494B HIS* 3.0 23.9 + - - -
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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