Contacts of the helix formed by residues 432 - 455 (chain C) 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 C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78C ASN* 4.1 13.6 - - + +
79C GLY 3.0 19.2 + - - +
214C GLN* 5.7 1.0 + - - -
431C SER* 1.3 70.6 - - - +
433C PRO* 1.3 72.6 - - - +
434C GLN* 2.9 26.4 + - - +
435C LYS* 2.8 53.8 + - + +
436C MET* 3.0 11.8 + - - +
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Residues in contact with PRO 433 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
422C PRO 5.0 1.2 - - - +
423C THR* 3.2 41.4 - - - +
425C VAL* 3.5 23.6 - - + +
426C GLN* 5.5 0.4 - - - -
427C TRP* 4.0 21.2 + - + +
431C SER 3.2 10.5 - - - +
432C ASP* 1.3 89.8 - - - +
434C GLN* 1.3 61.5 + - + +
436C MET* 3.4 1.0 + - - +
437C HIS* 3.3 18.5 + - - +
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Residues in contact with GLN 434 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182C TRP* 3.7 31.2 - - - -
213C PRO 4.5 0.2 - - - +
214C GLN* 3.1 34.0 - - + +
215C CYS* 5.6 1.2 + - - +
423C THR* 3.6 30.0 + - - +
432C ASP* 2.9 17.1 + - - +
433C PRO* 1.3 79.1 - - + +
435C LYS* 1.3 58.7 + - - +
437C HIS* 4.2 2.0 - - - +
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Residues in contact with LYS 435 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77C ASN* 4.3 9.7 - - - +
78C ASN 2.6 36.9 + - - +
79C GLY 4.0 1.8 - - - +
80C PRO* 3.5 31.6 - - + +
81C HIS* 4.7 9.2 - - - +
212C HIS* 6.2 0.4 - - - -
213C PRO* 3.8 16.9 - - + +
214C GLN* 3.8 37.0 - - + +
236C TYR* 5.4 7.4 - - - -
432C ASP* 2.8 35.8 + - - +
434C GLN* 1.3 76.5 - - - +
436C MET* 1.3 66.8 + - - +
437C HIS 3.3 2.0 + - - -
438C ASN 3.8 1.9 + - - -
439C HIS* 3.3 22.0 + - - +
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Residues in contact with MET 436 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80C PRO* 3.7 24.5 - - + -
389C PHE* 6.3 0.4 - - + -
390C THR* 4.2 17.5 - - + -
421C ILE* 4.9 1.1 - - - -
427C TRP* 3.5 40.8 - - + +
431C SER* 3.6 27.8 - - - -
432C ASP 3.0 6.3 + - - +
433C PRO 3.4 5.1 + - - +
435C LYS* 1.3 77.3 - - - +
437C HIS* 1.3 67.1 + - - +
439C HIS* 4.4 5.2 - - - -
440C TYR* 2.8 57.9 + - + +
443C ILE* 4.9 10.3 - - + -
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Residues in contact with HIS 437 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182C TRP* 3.3 61.5 + + + -
183C ASN* 2.8 26.0 + - + -
418C GLY 4.7 2.1 - - - +
419C GLU 3.1 24.9 + - - +
420C ARG* 4.5 2.2 - - - -
421C ILE* 2.8 44.7 + - - +
422C PRO 5.9 0.2 - - - -
423C THR* 4.8 1.3 - - + -
433C PRO 3.3 11.3 + - - +
434C GLN 4.2 1.8 - - - +
435C LYS 3.3 0.6 - - - -
436C MET* 1.3 81.6 - - - +
438C ASN* 1.3 81.3 + - - +
440C TYR* 3.6 11.8 - - - +
441C ALA 4.6 0.7 + - - -
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Residues in contact with ASN 438 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82C TYR* 5.1 3.9 + - - +
181C THR* 2.9 31.1 + - - -
182C TRP* 4.0 6.0 - - - +
183C ASN* 2.9 42.4 + - - +
196C ASN* 5.0 5.0 + - - +
213C PRO* 3.0 29.4 + - + +
214C GLN 4.3 0.6 + - - -
435C LYS 3.8 2.2 + - - -
437C HIS* 1.3 83.1 - - - +
439C HIS* 1.3 64.9 + - - +
440C TYR 3.0 6.0 + - - -
441C ALA* 3.2 15.2 + - - +
469C SER* 3.3 24.4 - - - +
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Residues in contact with HIS 439 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80C PRO* 3.5 35.7 - - + +
81C HIS 4.0 17.8 + - - -
82C TYR* 4.6 11.7 - - - -
83C PRO* 4.2 12.1 - - + -
213C PRO* 5.0 6.4 - - + +
435C LYS 3.3 17.0 + - - +
436C MET* 3.3 7.0 + - - +
438C ASN* 1.3 76.3 - - - +
440C TYR* 1.3 63.5 + - - +
441C ALA 3.2 0.2 - - - -
442C TYR* 3.0 41.6 + + - +
443C ILE* 3.1 36.7 + - + +
469C SER* 4.0 8.7 + - - +
470C VAL 5.2 0.4 + - - -
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Residues in contact with TYR 440 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
348C PRO* 3.2 32.2 + - + +
386C ILE* 3.5 11.2 - - + +
387C TYR 2.9 25.1 + - - -
389C PHE* 3.1 38.8 - + + -
418C GLY* 3.8 10.1 - - - +
421C ILE* 3.3 27.8 - - + -
427C TRP* 3.6 31.2 - + - -
436C MET* 2.8 29.2 + - + +
437C HIS 3.6 8.5 - - - +
438C ASN 3.0 0.4 + - - -
439C HIS* 1.3 76.7 - - - +
441C ALA* 1.3 63.9 + - - +
442C TYR 3.0 0.3 + - - -
443C ILE* 3.0 5.3 + - + +
444C TYR* 3.0 30.2 + - + +
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Residues in contact with ALA 441 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183C ASN* 4.0 7.0 - - - +
418C GLY 4.3 8.1 + - - +
437C HIS 4.6 0.2 + - - -
438C ASN 3.2 12.6 + - - +
440C TYR* 1.3 79.3 - - - +
442C TYR* 1.3 60.0 + - - +
444C TYR* 3.7 5.7 - - - +
445C ASN* 3.0 33.5 + - - +
467C SER* 3.4 25.6 - - - +
468C ALA* 3.7 27.4 - - - +
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Residues in contact with TYR 442 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83C PRO* 3.8 22.4 - - + +
438C ASN 4.2 0.6 + - - -
439C HIS* 3.0 42.7 + + - +
441C ALA* 1.3 78.0 - - - +
443C ILE* 1.3 64.4 + - + +
445C ASN* 4.0 0.4 - - - -
446C GLU* 3.0 64.4 + - - +
469C SER* 4.2 12.5 - - - +
470C VAL 3.8 5.8 - - - +
471C GLY 3.4 22.7 - - - -
472C ALA* 3.6 28.0 - - - -
474C LYS* 2.9 24.0 + - - -
475C PHE* 3.6 13.7 - + - -
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Residues in contact with ILE 443 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
389C PHE* 3.7 36.3 - - + +
390C THR* 6.3 1.6 - - + -
395C CYS* 5.5 2.5 - - - -
436C MET* 4.9 8.3 - - + -
439C HIS* 3.1 40.1 + - + +
440C TYR* 3.0 10.3 + - + +
442C TYR* 1.3 79.6 - - + +
444C TYR* 1.3 57.0 + - - +
446C GLU* 3.8 18.2 - - - +
447C LEU* 3.1 28.6 + - + +
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Residues in contact with TYR 444 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
346C ILE* 3.5 1.2 + - + -
347C ASN* 3.1 14.9 + - - -
348C PRO* 3.5 20.2 - - + -
389C PHE* 3.9 33.4 - + + -
398C TYR* 3.7 20.4 - - - -
415C THR* 3.4 29.1 - - + -
416C ASP 2.7 36.4 + - - -
417C PHE 3.6 14.6 - - - -
418C GLY* 4.4 5.6 - - - -
440C TYR* 3.0 18.3 + + + +
441C ALA* 3.7 4.9 - - - +
443C ILE* 1.3 74.5 - - - +
445C ASN* 1.3 77.4 - - - +
447C LEU* 3.1 14.1 + - - +
448C VAL* 3.2 22.1 + - + +
467C SER* 4.8 0.4 - - - -
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Residues in contact with ASN 445 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
415C THR* 2.7 35.1 + - - +
441C ALA 3.0 24.2 + - - +
442C TYR* 4.3 1.1 - - - +
444C TYR* 1.3 90.9 - - - +
446C GLU* 1.3 57.5 + - - +
448C VAL* 3.4 5.8 + - - +
449C TRP* 2.9 30.7 + - - +
463C LEU* 3.7 10.9 - - + +
465C ALA* 3.5 11.8 - - - +
467C SER* 3.5 24.4 + - - +
468C ALA* 5.2 0.6 - - - +
472C ALA* 5.6 3.7 - - + +
475C PHE* 4.1 17.9 - - + -
478C HIS* 5.5 2.6 + - - +
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Residues in contact with GLU 446 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
442C TYR* 3.0 50.2 + - + +
443C ILE* 3.8 18.3 - - - +
445C ASN* 1.3 76.3 - - - +
447C LEU* 1.3 65.6 + - - +
449C TRP* 3.5 0.9 + - - +
450C ASN* 3.0 40.9 + - - +
474C LYS* 5.1 0.7 + - - -
475C PHE* 3.6 25.0 - - + -
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Residues in contact with LEU 447 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
389C PHE* 3.8 24.2 - - + -
395C CYS* 3.8 43.7 - - + +
398C TYR* 3.9 22.9 - - + -
399C ALA* 4.2 20.9 - - + -
402C LEU* 4.3 0.7 - - + -
443C ILE* 3.1 18.7 + - + +
444C TYR* 3.4 6.1 - - - +
446C GLU* 1.3 78.6 - - - +
448C VAL* 1.3 68.3 + - + +
450C ASN* 3.3 7.7 + - - +
451C VAL* 3.3 20.6 + - + +
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Residues in contact with VAL 448 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
346C ILE* 4.0 12.1 - - + -
398C TYR* 4.4 5.4 - - + -
402C LEU* 4.0 19.1 - - + -
413C PHE* 3.6 34.5 - - + -
415C THR* 3.8 20.6 - - + -
444C TYR* 3.2 22.6 + - + +
445C ASN 3.8 4.3 - - - +
446C GLU 3.3 0.2 - - - -
447C LEU* 1.3 77.9 - - + +
449C TRP* 1.3 64.5 + - - +
451C VAL* 2.9 15.2 + - - +
452C LEU* 3.1 11.4 + - - +
463C LEU* 3.7 16.4 - - + -
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Residues in contact with TRP 449 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
262C ALA* 3.6 19.7 - - + -
263C LEU 5.7 1.3 - - - -
445C ASN 2.9 18.6 + - - +
446C GLU 3.7 3.1 - - - +
448C VAL* 1.3 77.1 - - - +
450C ASN* 1.3 71.8 + - - +
452C LEU* 3.3 8.0 + - + +
453C LYS* 2.8 45.3 + - + +
458C GLU* 4.7 13.2 - - + +
461C ALA* 3.8 40.4 - - + -
462C VAL* 4.1 5.2 - - - -
463C LEU* 4.2 15.6 - - + +
474C LYS 3.7 6.3 + - - -
475C PHE* 3.3 39.7 - + + -
476C PRO* 3.3 40.2 - - + -
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Residues in contact with ASN 450 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
446C GLU* 3.0 38.1 + - - +
447C LEU* 3.8 7.4 - - - +
448C VAL 3.2 0.4 - - - -
449C TRP* 1.3 86.2 - - - +
451C VAL* 1.3 59.2 + - - +
453C LYS* 3.7 22.8 + - - +
454C ASP* 2.6 46.5 + - - +
475C PHE* 5.1 1.2 - - - -
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Residues in contact with VAL 451 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
399C ALA* 3.8 35.2 - - + +
402C LEU* 3.9 28.0 - - + +
403C LYS* 3.8 30.1 - - + +
406C VAL* 4.7 5.4 - - + -
413C PHE* 4.8 3.1 - - + -
447C LEU* 3.3 14.4 + - + +
448C VAL* 2.9 9.9 + - - +
450C ASN* 1.3 73.6 - - + +
452C LEU* 1.3 61.8 + - - +
454C ASP* 3.1 6.9 + - - -
455C THR* 2.7 38.6 + - + +
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Residues in contact with LEU 452 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
406C VAL* 4.3 12.1 - - + -
411C ASP 4.1 15.0 - - - +
412C CYS* 4.4 2.5 - - - -
413C PHE* 3.4 34.5 - - + -
448C VAL 3.1 5.3 + - - +
449C TRP* 3.3 10.1 - - - +
451C VAL* 1.3 79.6 - - - +
453C LYS* 1.3 64.1 + - - +
455C THR* 2.9 1.6 + - - -
456C VAL* 2.9 45.6 + - + +
457C GLY 3.2 0.5 + - - -
461C ALA* 3.7 14.1 - - + -
462C VAL 3.3 33.2 - - - +
463C LEU* 3.5 20.6 - - + -
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Residues in contact with LYS 453 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
449C TRP* 2.8 39.0 + - + +
450C ASN* 3.9 25.1 + - - +
452C LEU* 1.3 73.6 - - - +
454C ASP* 1.3 68.7 + - - +
455C THR 3.6 0.3 + - - -
457C GLY* 3.6 15.7 - - - -
458C GLU* 3.1 57.3 + - + +
461C ALA* 4.4 1.5 - - + +
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Residues in contact with ASP 454 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
403C LYS* 5.0 14.2 + - - +
450C ASN* 2.6 36.3 + - - +
451C VAL* 3.1 7.2 + - - +
453C LYS* 1.3 86.7 - - - +
455C THR* 1.3 63.0 + - + +
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Residues in contact with THR 455 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
403C LYS* 4.1 30.5 - - + +
406C VAL* 3.9 30.4 - - + +
451C VAL* 2.7 24.8 + - + +
452C LEU* 2.9 10.4 + - - -
453C LYS 3.3 0.2 - - - -
454C ASP* 1.3 83.2 - - - +
456C VAL* 1.3 69.8 + - - +
457C GLY* 3.3 1.4 + - - -
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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