Contacts of the helix formed by residues 432 - 454 (chain A) 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 A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78A ASN* 4.1 19.4 + - + +
79A GLY 2.8 19.1 + - - +
214A GLN* 5.3 2.4 + - - -
431A SER* 1.3 70.6 - - - +
433A PRO* 1.3 65.1 - - - +
434A GLN* 2.9 25.6 + - - +
435A LYS* 2.8 52.6 + - + +
436A MET* 2.9 11.8 + - - +
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Residues in contact with PRO 433 (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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421A ILE* 6.0 0.2 - - - +
422A PRO 4.8 1.2 - - - +
423A THR* 3.2 42.5 - - - +
425A VAL 3.6 22.4 - - - +
426A GLN* 5.5 0.9 - - - -
427A TRP* 3.9 21.0 + - + +
431A SER 3.3 10.5 - - - +
432A ASP* 1.3 89.3 - - - +
434A GLN* 1.3 62.4 + - + +
436A MET* 3.7 1.4 - - - +
437A HIS* 3.3 18.7 + - - +
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Residues in contact with GLN 434 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A TRP* 3.7 30.5 - - - -
213A PRO 4.3 0.5 - - - +
214A GLN* 3.2 30.7 - - + +
215A CYS* 5.7 0.9 + - - +
423A THR* 3.3 32.5 + - - +
432A ASP* 2.9 20.0 + - - +
433A PRO* 1.3 79.1 - - + +
435A LYS* 1.3 58.8 + - - +
437A HIS* 4.2 2.1 - - - +
3012A SO4 3.6 30.9 + - - +
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Residues in contact with LYS 435 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77A ASN* 5.0 5.2 - - - +
78A ASN 3.0 27.5 + - - +
79A GLY 4.1 2.5 - - - +
80A PRO* 3.4 30.7 - - + +
81A HIS* 3.6 21.6 + - - -
212A HIS* 5.8 1.0 - - - -
213A PRO* 4.0 14.9 - - + +
214A GLN* 3.4 42.6 - - + +
236A TYR* 4.2 13.9 + - - -
432A ASP* 2.8 25.3 + - - +
434A GLN* 1.3 77.0 - - - +
436A MET* 1.3 65.6 + - - +
437A HIS 3.2 2.4 + - - -
438A ASN 3.8 2.2 + - - -
439A HIS* 3.3 24.1 + - - +
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Residues in contact with MET 436 (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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80A PRO* 3.5 26.2 - - + -
389A PHE* 6.4 0.7 - - + -
390A THR* 4.0 20.9 - - + -
421A ILE* 4.4 2.3 - - - +
427A TRP* 3.3 47.1 - - + +
431A SER* 3.5 30.5 - - - -
432A ASP 2.9 8.9 + - - +
433A PRO 3.3 2.6 + - - +
435A LYS* 1.3 77.0 - - - +
437A HIS* 1.3 65.8 + - - +
439A HIS* 4.4 4.5 - - - -
440A TYR* 2.9 45.6 + - + +
443A ILE* 4.8 10.5 - - + -
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Residues in contact with HIS 437 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A TRP* 3.3 60.8 - + + -
183A ASN* 2.7 25.9 + - + -
418A GLY 4.7 2.1 - - - +
419A GLU 3.0 25.3 + - - +
420A ARG* 4.5 2.2 - - - -
421A ILE* 2.6 55.2 + - - +
422A PRO 5.7 0.2 - - - -
423A THR* 4.7 1.6 - - + -
433A PRO 3.3 12.7 + - - +
434A GLN 4.2 1.6 - - - +
435A LYS 3.2 1.0 - - - -
436A MET* 1.3 78.6 - - - +
438A ASN* 1.3 73.9 + - - +
440A TYR* 3.8 2.9 - - - +
441A ALA 4.7 0.9 + - - -
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Residues in contact with ASN 438 (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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82A TYR* 5.1 3.9 + - - +
181A THR* 2.9 31.3 + - - -
182A TRP* 4.0 6.4 - - - +
183A ASN* 2.9 42.9 + - - +
196A ASN* 5.0 5.4 + - - +
198A PRO* 6.3 0.2 - - - +
213A PRO* 3.1 29.1 + - + +
214A GLN 4.2 1.6 + - - -
435A LYS 3.8 2.0 + - - -
436A MET 3.4 0.2 - - - -
437A HIS* 1.3 81.2 - - - +
439A HIS* 1.3 65.3 + - - +
440A TYR 3.2 3.1 + - - -
441A ALA* 3.3 14.0 + - - +
469A SER* 3.2 25.9 - - - +
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Residues in contact with HIS 439 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80A PRO* 3.5 33.7 - - + +
81A HIS 4.1 17.7 + - - -
82A TYR* 4.7 12.5 - - - -
83A PRO* 4.5 10.3 - - + +
213A PRO* 4.9 6.0 - - + +
435A LYS 3.3 18.8 + - - +
436A MET* 4.4 4.7 - - - +
438A ASN* 1.3 76.7 - - - +
440A TYR* 1.3 64.9 + - - +
441A ALA 3.2 0.4 - - - -
442A TYR* 3.0 40.9 + + - +
443A ILE* 3.1 39.1 + - + +
469A SER* 4.1 7.9 + - - -
470A VAL 5.3 0.2 + - - -
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Residues in contact with TYR 440 (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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348A PRO* 3.4 27.8 + - + +
386A ILE* 3.4 16.0 - - + +
387A TYR 2.8 28.2 + - - -
389A PHE* 3.3 31.4 - + + -
418A GLY* 4.0 6.7 - - - -
421A ILE* 3.5 26.7 - - + -
427A TRP* 3.6 33.4 - + - -
436A MET* 2.9 31.3 + - + +
437A HIS 3.8 7.6 - - - +
438A ASN 3.2 0.2 - - - -
439A HIS* 1.3 73.7 - - - +
441A ALA* 1.3 68.5 + - - +
443A ILE* 3.1 5.0 + - + +
444A TYR* 2.9 33.3 + - + +
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Residues in contact with ALA 441 (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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183A ASN* 3.9 8.3 - - - +
418A GLY 4.2 9.2 + - - +
438A ASN 3.3 12.8 + - - +
439A HIS 3.2 0.2 - - - -
440A TYR* 1.3 78.7 - - - +
442A TYR* 1.3 62.1 + - - +
444A TYR* 3.6 5.2 - - - +
445A ASN* 2.8 34.1 + - - +
467A SER* 3.5 24.2 - - - +
468A ALA* 3.7 25.6 - - - +
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Residues in contact with TYR 442 (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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83A PRO* 3.8 21.7 - - + +
438A ASN 4.3 0.4 + - - -
439A HIS* 3.0 40.8 + + - +
441A ALA* 1.3 78.7 - - - +
443A ILE* 1.3 67.3 + - + +
445A ASN* 3.9 1.5 - - - +
446A GLU* 2.8 61.8 + - - +
469A SER* 4.3 11.6 - - - +
470A VAL 3.6 14.8 - - - +
471A GLY* 3.4 23.1 - - - -
472A ALA* 3.6 20.9 - - - -
474A LYS* 2.8 24.4 + - - -
475A PHE* 3.7 12.6 - + - -
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Residues in contact with ILE 443 (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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389A PHE* 3.7 36.3 - - + +
390A THR* 5.9 2.0 - - + -
395A CYS* 5.6 1.6 - - - -
436A MET* 4.8 9.4 - - + -
439A HIS* 3.1 44.1 + - + +
440A TYR* 3.1 9.7 + - + +
442A TYR* 1.3 83.6 - - + +
444A TYR* 1.3 63.2 + - - +
446A GLU* 3.8 15.9 - - - +
447A LEU* 3.0 23.9 + - + +
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Residues in contact with TYR 444 (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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346A ILE* 3.5 1.9 + - + +
347A ASN* 3.0 15.6 + - - -
348A PRO* 3.5 20.6 - - + -
389A PHE* 3.9 31.3 - + + -
398A TYR* 3.7 20.4 - + - -
415A THR* 3.3 36.9 - - + -
416A ASP 2.8 28.8 + - - -
417A PHE 3.6 13.2 - - - -
418A GLY* 4.5 4.7 - - - -
440A TYR* 2.9 20.4 + - + +
441A ALA* 3.6 4.5 - - - +
443A ILE* 1.3 76.2 - - - +
445A ASN* 1.3 74.3 + - - +
447A LEU* 3.1 13.9 + - - +
448A VAL* 3.2 24.9 + - + +
467A SER* 5.0 0.7 - - - -
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Residues in contact with ASN 445 (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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415A THR* 2.8 33.4 + - - +
441A ALA* 2.8 25.8 + - - +
442A TYR* 4.0 2.2 - - - +
444A TYR* 1.3 88.8 - - - +
446A GLU* 1.3 57.2 + - - +
448A VAL* 3.5 3.8 + - - +
449A TRP* 3.0 30.5 + - - +
463A LEU* 3.9 13.0 - - + +
465A ALA* 3.4 10.7 - - - +
467A SER* 3.3 25.7 + - - -
468A ALA* 4.9 1.0 - - - +
472A ALA* 5.3 4.6 - - + +
475A PHE* 4.1 17.3 - - + -
478A HIS* 5.4 2.9 + - - +
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Residues in contact with GLU 446 (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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442A TYR* 2.8 46.1 + - + +
443A ILE* 3.8 20.1 - - - +
445A ASN* 1.3 76.7 - - - +
447A LEU* 1.3 61.7 + - - +
449A TRP* 3.8 1.0 - - - +
450A ASN* 3.0 46.9 + - - +
474A LYS* 5.3 0.7 + - - -
475A PHE* 3.6 28.3 - - + -
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Residues in contact with LEU 447 (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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389A PHE* 3.7 37.2 - - + -
395A CYS* 3.9 32.1 - - + +
398A TYR* 3.8 23.1 - - + -
399A ALA* 4.2 17.9 - - + -
402A LEU* 4.3 1.1 - - + -
443A ILE* 3.0 15.0 + - + +
444A TYR* 3.1 9.6 + - - +
446A GLU* 1.3 75.8 - - - +
448A VAL* 1.3 74.4 + - + +
450A ASN* 3.3 7.6 + - - +
451A VAL* 3.2 19.5 + - + +
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Residues in contact with VAL 448 (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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346A ILE* 4.0 8.1 - - + -
398A TYR* 4.4 4.9 - - + -
402A LEU* 3.9 21.8 - - + -
413A PHE* 3.7 25.1 - - + -
415A THR* 3.8 23.1 - - + -
444A TYR* 3.2 22.7 + - + +
445A ASN 3.9 4.9 - - - +
447A LEU* 1.3 77.7 - - + +
449A TRP* 1.3 65.9 + - - +
451A VAL* 2.9 15.2 + - - +
452A LEU* 3.2 10.6 + - + +
463A LEU* 3.5 25.1 - - + -
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Residues in contact with TRP 449 (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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262A ALA* 3.8 18.6 - - + -
263A LEU 5.9 0.7 - - - -
445A ASN 3.0 19.2 + - - +
446A GLU 3.8 2.7 - - - +
447A LEU 3.3 0.2 - - - -
448A VAL* 1.3 75.8 - - - +
450A ASN* 1.3 71.1 + - - +
452A LEU* 3.0 11.7 + - + +
453A LYS* 2.8 30.7 + - + +
458A GLU* 4.2 28.1 + - + +
461A ALA* 3.4 46.4 - - + -
462A VAL* 3.9 7.0 - - - -
463A LEU* 4.1 14.7 - - + +
474A LYS 3.9 5.8 + - - -
475A PHE* 3.4 40.9 - + + -
476A PRO* 3.5 34.1 - - + -
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Residues in contact with ASN 450 (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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446A GLU* 3.0 39.4 + - - +
447A LEU* 3.9 6.3 - - - +
448A VAL 3.2 0.4 - - - -
449A TRP* 1.3 80.6 - - - +
451A VAL* 1.3 65.0 + - - +
453A LYS* 3.4 31.8 + - - -
454A ASP* 2.6 40.5 + - - +
475A PHE* 5.5 1.0 - - - -
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Residues in contact with VAL 451 (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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399A ALA* 3.6 36.1 - - + +
402A LEU* 4.0 26.9 - - + -
403A LYS* 3.6 33.0 - - + +
406A VAL* 4.7 2.2 - - + -
413A PHE* 5.0 0.2 - - + -
447A LEU* 3.2 13.8 + - + +
448A VAL 2.9 9.4 + - - +
450A ASN* 1.3 75.8 - - + +
452A LEU* 1.3 70.8 + - + +
454A ASP* 3.2 5.6 + - - +
455A THR* 2.8 31.6 + - + +
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Residues in contact with LEU 452 (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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406A VAL* 4.2 13.5 - - + -
411A ASP 4.5 9.9 - - - +
412A CYS* 4.4 8.7 - - - -
413A PHE* 3.4 31.6 - - + -
448A VAL 3.2 6.3 + - - +
449A TRP* 3.0 10.9 + - + +
451A VAL* 1.3 79.9 - - + +
453A LYS* 1.3 57.7 + - - +
455A THR* 2.9 20.4 + - - +
456A VAL* 3.0 28.8 + - + +
457A GLY 3.1 5.8 + - - -
461A ALA* 3.8 12.6 - - + -
462A VAL 3.4 33.4 - - - +
463A LEU* 3.8 19.1 - - + -
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Residues in contact with LYS 453 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
449A TRP* 2.8 25.2 + - + +
450A ASN* 3.4 28.4 + - - +
451A VAL 3.3 0.2 - - - -
452A LEU* 1.3 75.8 - - - +
454A ASP* 1.3 71.4 + - - +
455A THR 3.7 0.2 + - - -
457A GLY* 3.8 13.1 - - - -
458A GLU* 3.1 58.5 + - + +
461A ALA* 4.6 1.4 - - + +
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Residues in contact with ASP 454 (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 LYS* 5.1 11.4 + - - +
450A ASN* 2.6 31.7 + - - +
451A VAL* 3.2 4.5 + - - +
452A LEU 3.1 0.4 - - - -
453A LYS* 1.3 90.2 - - - +
455A THR* 1.3 65.7 + - + +
457A GLY* 5.6 0.2 - - - -
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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