Contacts of the helix formed by residues 432 - 455 (chain E) in PDB entry 1XSK
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 ASP 432 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78E ASN* 4.1 23.3 + - + +
79E GLY 2.8 20.2 + - - +
214E GLN* 5.1 1.0 - - - +
430E GLY 3.9 1.0 + - - -
431E SER* 1.3 69.2 - - - +
433E PRO* 1.3 71.9 - - - +
434E GLN* 2.8 26.7 + - - +
435E LYS* 3.0 41.2 + - + +
436E MET* 3.2 12.2 + - - +
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Residues in contact with PRO 433 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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422E PRO 4.9 1.6 - - - +
423E THR* 3.2 39.9 - - - +
425E VAL* 3.6 21.5 - - + +
426E GLN* 5.4 1.1 - - - -
427E TRP* 3.9 20.7 + - + +
431E SER 3.1 9.4 - - - +
432E ASP* 1.3 88.1 - - - +
434E GLN* 1.3 61.5 + - + +
435E LYS 3.3 1.0 + - - -
436E MET* 3.3 9.2 + - - +
437E HIS* 3.4 9.9 + - - +
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Residues in contact with GLN 434 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147E ARG* 6.0 2.2 - - - +
182E TRP* 3.6 34.0 - - - -
213E PRO 4.4 0.3 - - - +
214E GLN* 3.4 32.7 - - + +
215E CYS* 5.6 1.2 + - - +
233E GLU* 6.6 0.2 - - - -
423E THR* 3.6 27.6 + - - +
432E ASP* 2.8 19.9 + - - +
433E PRO* 1.3 74.8 - - + +
435E LYS* 1.3 58.1 + - - +
437E HIS* 4.1 2.5 - - - +
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Residues in contact with LYS 435 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77E ASN* 4.5 8.7 - - - +
78E ASN 2.9 30.3 + - - +
79E GLY 4.1 0.4 - - - +
80E PRO* 3.5 32.3 - - + +
81E HIS* 3.5 16.6 + - - -
213E PRO* 4.0 14.1 - - + +
214E GLN* 3.2 42.4 - - + +
236E TYR* 4.5 10.3 + - - -
432E ASP* 3.0 29.9 + - + +
434E GLN* 1.3 76.9 - - - +
436E MET* 1.3 63.3 + - - +
437E HIS 3.2 2.8 + - - -
438E ASN 3.8 2.1 + - - -
439E HIS* 3.4 22.5 + - - +
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Residues in contact with MET 436 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80E PRO* 3.7 23.1 - - + -
389E PHE* 6.3 0.4 - - + -
390E THR* 3.6 26.7 - - + -
421E ILE* 4.4 2.0 - - - +
427E TRP* 3.4 51.4 - - + +
431E SER* 3.6 26.2 - - - -
432E ASP 3.2 8.1 + - - +
433E PRO 3.3 4.2 + - - +
435E LYS* 1.3 75.3 - - - +
437E HIS* 1.3 68.1 + - - +
439E HIS* 4.5 7.4 - - - -
440E TYR* 3.0 45.4 + - + +
443E ILE* 5.2 7.9 - - + -
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Residues in contact with HIS 437 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182E TRP* 3.3 62.2 - + + -
183E ASN* 2.7 26.1 + - + -
418E GLY 4.7 2.6 - - - +
419E GLU 3.0 22.9 + - - +
420E ARG* 4.5 2.5 - - - -
421E ILE* 2.7 56.4 + - - +
422E PRO 5.8 0.2 - - - -
423E THR* 5.0 0.9 - - + -
433E PRO 3.4 8.2 + - - +
434E GLN 4.1 3.4 - - - +
435E LYS 3.2 0.8 - - - -
436E MET* 1.3 79.9 - - - +
438E ASN* 1.3 75.6 + - - +
440E TYR* 3.8 2.9 - - - +
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Residues in contact with ASN 438 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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82E TYR* 5.3 4.8 + - - +
181E THR* 2.9 28.8 + - - -
182E TRP* 4.0 8.0 - - - +
183E ASN* 2.8 42.7 + - - +
196E ASN* 5.0 4.8 - - - +
213E PRO* 3.2 25.9 + - + +
214E GLN 4.4 1.2 + - - -
435E LYS 3.8 2.2 + - - -
436E MET 3.3 0.2 - - - -
437E HIS* 1.3 82.8 - - - +
439E HIS* 1.3 64.2 + - - +
440E TYR 3.0 5.9 + - - -
441E ALA* 3.1 15.2 + - - +
469E SER* 3.3 25.5 - - - +
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Residues in contact with HIS 439 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80E PRO* 3.4 35.9 - - + +
81E HIS 3.6 21.1 + - - -
82E TYR* 4.6 9.3 - - - -
83E PRO* 4.1 13.2 - - + +
213E PRO* 5.0 6.4 + - + +
435E LYS 3.4 18.0 + - - +
436E MET* 4.4 4.5 - - - +
438E ASN* 1.3 76.8 - - - +
440E TYR* 1.3 62.5 + - - +
441E ALA 3.2 0.2 - - - -
442E TYR* 3.1 30.3 + + - +
443E ILE* 3.1 46.3 + - + +
469E SER* 3.9 12.1 + - - +
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Residues in contact with TYR 440 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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348E PRO* 3.2 30.2 + - + +
386E ILE* 3.4 10.0 - - + +
387E TYR 2.8 26.3 + - - -
389E PHE* 3.1 40.4 - + + -
418E GLY* 3.9 8.7 - - - -
421E ILE* 3.3 28.7 - - + -
427E TRP* 3.9 28.3 - + - -
436E MET* 3.0 29.6 + - + +
437E HIS 3.8 8.7 - - - +
438E ASN 3.0 0.6 + - - -
439E HIS* 1.3 75.4 - - - +
441E ALA* 1.3 64.4 + - - +
443E ILE* 3.1 6.1 + - + +
444E TYR* 2.8 31.8 + - + +
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Residues in contact with ALA 441 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183E ASN* 4.0 6.1 - - - +
418E GLY 4.3 7.4 + - - +
437E HIS 4.8 0.2 + - - -
438E ASN 3.1 13.5 + - - +
440E TYR* 1.3 78.5 - - - +
442E TYR* 1.3 56.0 + - - +
444E TYR* 3.6 5.7 - - - +
445E ASN* 3.0 37.6 + - - +
467E SER* 3.6 20.6 - - - +
468E ALA* 3.6 32.8 - - - +
472E ALA* 5.4 0.2 - - - -
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Residues in contact with TYR 442 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83E PRO* 3.6 24.7 - - + +
438E ASN 4.2 0.4 + - - -
439E HIS* 3.1 37.2 + + - +
441E ALA* 1.3 77.9 - - - +
443E ILE* 1.3 68.4 + - + +
445E ASN* 4.9 1.1 - - - -
446E GLU* 2.8 62.9 + - - +
469E SER* 4.4 12.7 - - - +
470E VAL 3.9 5.6 - - - +
471E GLY 3.2 37.9 - - - -
472E ALA* 3.7 9.9 - - - -
474E LYS* 2.9 24.1 + - - -
475E PHE* 3.5 19.4 - + - -
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Residues in contact with ILE 443 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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389E PHE* 3.6 36.1 - - + +
390E THR* 6.1 1.8 - - + -
395E CYS* 5.5 2.0 - - - -
436E MET* 5.2 9.4 - - + -
439E HIS* 3.1 42.0 + - + +
440E TYR* 3.7 10.3 - - + +
442E TYR* 1.3 79.9 - - + +
444E TYR* 1.3 63.3 + - - +
446E GLU* 3.6 20.1 - - - +
447E LEU* 3.0 23.8 + - + +
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Residues in contact with TYR 444 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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346E ILE* 3.6 1.0 + - + -
347E ASN* 3.2 13.7 + - - -
348E PRO* 3.5 22.0 - - + -
389E PHE* 4.0 33.8 - + + -
398E TYR* 3.7 20.0 - + - -
415E THR* 3.2 31.2 - - + -
416E ASP 3.0 27.6 + - - -
417E PHE 3.8 7.6 - - - -
418E GLY* 4.4 8.7 - - - -
440E TYR* 2.8 21.5 + + + +
441E ALA* 3.6 5.2 - - - +
443E ILE* 1.3 77.2 - - - +
445E ASN* 1.3 74.2 + - - +
447E LEU* 3.0 15.7 + - - +
448E VAL* 3.3 25.6 + - + +
467E SER* 4.9 0.4 - - - -
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Residues in contact with ASN 445 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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415E THR* 2.6 36.1 + - - +
441E ALA 3.0 28.6 + - - +
442E TYR* 4.3 1.3 - - - +
444E TYR* 1.3 85.0 - - - +
446E GLU* 1.3 63.2 + - - +
448E VAL* 3.3 6.0 + - - +
449E TRP* 2.9 25.5 + - - +
463E LEU* 3.6 11.3 - - + +
465E ALA* 3.5 12.5 - - - +
467E SER* 3.3 24.7 + - - +
468E ALA* 5.2 0.6 - - - +
472E ALA* 5.6 4.4 - - + +
475E PHE* 4.2 17.3 - - + -
478E HIS* 5.6 2.2 + - - +
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Residues in contact with GLU 446 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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442E TYR* 2.8 54.9 + - + +
443E ILE* 3.6 20.1 - - - +
445E ASN* 1.3 71.8 - - - +
447E LEU* 1.3 61.5 + - - +
449E TRP* 3.7 0.9 - - - +
450E ASN* 2.7 49.2 + - - +
475E PHE* 3.6 27.5 - - + -
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Residues in contact with LEU 447 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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389E PHE* 3.6 39.0 - - + -
395E CYS* 3.9 30.7 - - + +
398E TYR* 3.7 23.1 - - + -
399E ALA* 4.3 7.9 - - + -
402E LEU* 3.8 12.1 - - + -
443E ILE* 3.0 13.1 + - + +
444E TYR 3.0 10.4 + - - +
446E GLU* 1.3 76.2 - - - +
448E VAL* 1.3 68.8 + - + +
450E ASN* 3.2 7.3 + - - +
451E VAL* 3.2 30.4 + - + +
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Residues in contact with VAL 448 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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346E ILE* 4.2 5.2 - - + -
398E TYR* 4.4 1.6 - - + -
402E LEU* 4.0 21.5 - - + -
413E PHE* 3.6 35.2 - - + -
415E THR* 3.8 21.1 - - + -
444E TYR* 3.3 27.2 + - + +
445E ASN 3.8 3.8 - - - +
447E LEU* 1.3 80.9 - - + +
449E TRP* 1.3 58.5 + - - +
451E VAL* 2.9 19.8 + - - +
452E LEU* 3.1 12.6 + - - +
463E LEU* 3.7 16.4 - - + -
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Residues in contact with TRP 449 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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262E ALA* 3.8 19.3 - - + -
263E LEU 6.0 0.4 - - - -
445E ASN 2.9 17.5 + - - +
446E GLU 3.7 3.1 - - - +
448E VAL* 1.3 77.8 - - - +
450E ASN* 1.3 65.9 + - - +
452E LEU* 3.5 7.7 + - + +
453E LYS* 2.9 41.4 + - + +
458E GLU* 4.6 11.9 - - + +
461E ALA* 3.3 47.5 - - + +
462E VAL* 3.9 7.2 - - - -
463E LEU* 4.1 14.3 - - + +
474E LYS 3.9 2.9 + - - -
475E PHE* 3.2 47.5 - + + -
476E PRO* 3.5 33.7 - - + -
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Residues in contact with ASN 450 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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446E GLU* 2.7 47.8 + - - +
447E LEU* 3.7 6.7 - - - +
448E VAL 3.2 0.2 - - - -
449E TRP* 1.3 79.2 - - - +
451E VAL* 1.3 60.1 + - - +
453E LYS* 3.3 31.7 + - - -
454E ASP* 2.4 43.2 + - - +
475E PHE* 5.2 1.4 - - - -
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Residues in contact with VAL 451 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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399E ALA* 3.9 22.9 - - + -
402E LEU* 3.7 39.9 - - + +
403E LYS* 3.6 34.8 - - + +
406E VAL* 5.0 4.7 - - + -
413E PHE* 5.1 0.7 - - + -
447E LEU* 3.2 16.8 + - + +
448E VAL* 2.9 7.7 + - + +
450E ASN* 1.3 75.7 - - - +
452E LEU* 1.3 69.2 + - + +
454E ASP* 3.0 14.3 + - - +
455E THR* 2.8 21.2 + - - +
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Residues in contact with LEU 452 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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406E VAL* 3.8 14.4 - - + -
411E ASP 3.7 21.8 - - - +
412E CYS* 4.4 2.5 - - - -
413E PHE* 3.4 34.5 - - + -
448E VAL 3.1 8.8 + - - +
449E TRP* 3.7 8.5 - - + +
451E VAL* 1.3 80.0 - - - +
453E LYS* 1.3 59.0 + - - +
455E THR* 2.9 4.7 + - - +
456E VAL* 2.9 44.7 + - + +
457E GLY 3.2 0.8 + - - -
461E ALA* 4.2 11.7 - - + -
462E VAL 3.7 18.4 - - - +
463E LEU* 3.6 30.7 - - + -
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Residues in contact with LYS 453 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
449E TRP* 2.9 32.1 + - + +
450E ASN* 3.3 27.6 + - - +
452E LEU* 1.3 76.7 - - - +
454E ASP* 1.3 69.4 + - - +
455E THR 3.4 0.5 + - - -
457E GLY* 3.4 26.2 - - - -
458E GLU* 3.7 42.3 + - + +
461E ALA* 4.6 2.2 - - + +
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Residues in contact with ASP 454 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
403E LYS* 4.7 19.2 + - - +
450E ASN* 2.4 29.3 - - - +
451E VAL* 3.0 7.0 + - - +
453E LYS* 1.3 90.7 - - - +
455E THR* 1.3 62.6 + - - +
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Residues in contact with THR 455 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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403E LYS* 3.9 33.0 - - + +
406E VAL* 3.7 30.0 - - + +
451E VAL* 2.8 22.3 + - + +
452E LEU* 2.9 16.2 + - - -
454E ASP* 1.3 84.0 - - - +
456E VAL* 1.3 62.6 + - - +
457E GLY* 3.1 4.8 + - - -
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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