Contacts of the helix formed by residues 433 - 469 (chain A) in PDB entry 1Z59
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 VAL 433 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
345A TYR* 4.2 20.0 - - + -
346A GLN* 4.8 7.9 - - - +
421A PRO* 3.9 30.5 - - + -
431A ALA* 3.1 12.3 + - + +
432A GLU* 1.3 74.6 - - - +
434A GLU* 1.3 60.4 + - - +
435A ASP* 4.2 10.3 - - + +
436A ILE* 3.1 26.7 + - + +
437A GLU* 2.9 27.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 434 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
432A GLU 3.4 5.7 + - - -
433A VAL* 1.3 71.9 - - - +
435A ASP* 1.3 71.7 + - - +
437A GLU* 3.8 7.4 - - - +
438A LYS* 3.0 29.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 435 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
344A ALA 4.5 5.7 - - - +
345A TYR* 4.3 23.1 - - + +
350A PHE* 3.7 18.0 - - + -
433A VAL* 3.4 10.1 - - + +
434A GLU* 1.3 86.7 - - - +
436A ILE* 1.3 60.6 + - + +
438A LYS* 4.0 11.2 - - - +
439A GLU* 3.4 16.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 436 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
345A TYR* 3.9 24.2 - - + -
350A PHE* 4.0 26.9 - - + -
352A VAL* 5.3 0.2 - - + -
387A VAL* 5.2 2.0 - - + -
415A LEU* 4.0 26.7 - - + -
421A PRO* 3.6 33.9 - - + -
430A ILE* 5.2 5.6 - - + -
431A ALA 5.4 1.1 - - - +
433A VAL* 3.1 19.5 + - + +
435A ASP* 1.3 76.7 - - + +
437A GLU* 1.3 68.3 + - - +
439A GLU* 3.2 3.6 + - - +
440A ILE* 2.9 41.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 437 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
387A VAL* 3.7 27.7 - - + +
390A LYS* 2.8 36.2 + - - +
391A VAL* 3.8 18.7 - - + +
394A GLU* 4.9 1.4 - - - +
432A GLU* 3.8 17.8 - - - +
433A VAL 2.9 16.7 + - - +
434A GLU* 3.8 6.3 - - - +
436A ILE* 1.3 77.1 - - - +
438A LYS* 1.3 62.6 - - - +
440A ILE* 3.3 5.8 + - - +
441A LYS* 3.0 23.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 438 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
434A GLU* 3.0 22.8 + - + +
435A ASP* 4.0 11.0 - - - +
437A GLU* 1.3 74.9 - - - +
439A GLU* 1.3 57.3 + - - +
441A LYS* 3.4 7.0 + - - +
442A ASN* 3.0 54.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 439 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
340A ARG* 2.9 57.1 + - - +
341A LYS 4.0 3.3 - - - +
343A LYS* 3.6 26.6 + - + +
350A PHE* 3.9 18.2 - - + -
352A VAL* 3.7 21.4 + - + +
435A ASP 3.4 14.1 + - - +
436A ILE 3.2 4.5 + - - +
438A LYS* 1.3 78.8 - - - +
440A ILE* 1.3 60.4 + - - +
442A ASN* 3.4 7.6 + - - +
443A ALA* 2.9 27.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 440 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
352A VAL* 4.0 22.9 - - + -
387A VAL* 4.0 24.0 - - + -
388A ILE* 4.0 18.6 - - + -
391A VAL* 4.1 22.0 - - + -
392A VAL* 6.3 0.2 - - + -
413A VAL* 4.0 29.9 - - + +
415A LEU* 5.4 6.7 - - + -
430A ILE* 5.7 0.4 - - + -
436A ILE* 2.9 38.4 + - + +
437A GLU* 3.3 6.0 + - - +
439A GLU* 1.3 74.9 - - - +
441A LYS* 1.3 58.6 + - - +
443A ALA* 3.3 2.6 + - - +
444A LEU* 2.9 28.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 441 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
391A VAL* 3.8 24.7 - - + +
394A GLU* 6.1 3.8 - - - +
395A LEU* 4.8 8.7 - - + -
437A GLU* 3.0 17.6 + - + +
438A LYS* 3.7 6.5 - - - +
440A ILE* 1.3 74.4 - - - +
442A ASN* 1.3 65.3 + - - +
444A LEU* 3.3 1.8 + - - +
445A MSE 2.9 66.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 442 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
340A ARG* 3.7 27.1 + - - +
438A LYS* 3.0 50.9 + - - +
439A GLU* 3.7 15.3 + - - +
441A LYS* 1.3 76.0 - - - +
443A ALA* 1.3 62.2 + - - +
445A MSE 3.5 12.1 + - - +
446A GLU* 3.1 22.2 + - - +
449A ARG* 5.1 2.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 443 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
338A ILE* 3.7 10.3 - - + +
340A ARG* 3.9 25.9 - - + +
352A VAL* 3.6 23.3 - - + -
354A ALA* 4.1 12.8 - - + +
439A GLU 2.9 16.8 + - - +
440A ILE 3.6 4.3 - - - +
441A LYS 3.2 0.2 - - - -
442A ASN* 1.3 74.3 - - - +
444A LEU* 1.3 66.5 + - - +
446A GLU* 3.2 5.0 + - - +
447A VAL* 3.2 18.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 444 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
354A ALA* 4.3 10.5 - - + +
355A GLY 5.7 0.4 - - - +
356A VAL* 5.0 6.3 - - + -
391A VAL* 4.1 16.4 - - + +
392A VAL* 4.1 31.6 - - + -
395A LEU* 3.9 26.9 - - + -
397A TRP* 4.0 15.0 - - + -
411A VAL* 3.6 29.2 - - + -
413A VAL* 5.1 8.5 - - + -
440A ILE 2.9 16.5 + - - +
441A LYS* 3.3 4.7 + - - +
443A ALA* 1.3 76.0 - - - +
445A MSE 1.3 59.1 + - + +
447A VAL* 3.2 3.3 + - + +
448A ALA* 2.8 30.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MSE 445 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
395A LEU* 3.6 17.9 - - + -
399A ARG* 2.9 33.9 - - - +
400A TYR* 3.5 14.3 - - - +
441A LYS* 2.9 59.1 + - + +
442A ASN* 3.8 11.0 - - - +
444A LEU* 1.3 75.5 - - - +
446A GLU* 1.3 62.2 + - - +
448A ALA* 3.8 7.4 - - - +
449A ARG* 3.0 43.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 446 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
338A ILE* 3.4 32.4 - - + +
340A ARG* 2.8 38.1 + - - +
442A ASN 3.1 13.9 + - - +
443A ALA* 3.2 9.1 + - - +
445A MSE 1.3 75.8 - - - +
447A VAL* 1.3 62.5 + - - +
449A ARG* 3.6 27.1 + - - +
450A LYS* 3.6 26.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 447 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
336A ALA* 3.9 9.4 - - + +
337A SER 3.8 4.7 - - - +
338A ILE* 3.4 34.3 - - + +
354A ALA* 3.5 23.8 - - + +
355A GLY 4.2 0.2 - - - -
356A VAL* 3.3 47.2 - - + +
443A ALA 3.2 6.8 + - - +
444A LEU* 3.8 7.0 - - + +
446A GLU* 1.3 73.8 - - - +
448A ALA* 1.3 65.4 + - - +
450A LYS* 3.0 20.0 + - + +
451A LEU* 3.2 10.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 448 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
356A VAL* 5.2 1.5 - - - +
395A LEU* 4.2 5.8 - - + -
397A TRP* 3.8 24.5 - - + -
400A TYR* 3.6 37.6 - - + +
444A LEU 2.8 17.7 + - - +
445A MSE 3.8 3.6 - - - +
447A VAL* 1.3 76.6 - - - +
449A ARG* 1.3 56.4 + - - +
451A LEU* 3.2 9.7 + - - +
452A LYS 2.9 23.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 449 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
340A ARG* 5.8 1.0 - - - +
400A TYR* 3.9 21.0 + - + -
442A ASN 5.1 1.6 + - - -
445A MSE 3.0 40.4 + - - +
446A GLU* 3.7 34.6 + - - +
447A VAL 3.3 0.2 - - - -
448A ALA* 1.3 72.8 - - - +
450A LYS* 1.3 64.4 + - + +
452A LYS* 3.4 9.3 + - + +
453A GLN* 3.2 21.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 450 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
319A GLU* 4.6 7.3 + - - -
323A GLU* 5.2 3.0 + - - -
334A PHE* 3.6 13.0 - - + -
336A ALA* 3.8 26.4 - - + +
337A SER 2.9 27.2 + - - +
338A ILE* 4.8 12.3 - - - +
446A GLU* 3.6 18.8 + - - +
447A VAL* 3.0 11.8 + - - +
449A ARG* 1.3 76.0 - - + +
451A LEU* 1.3 61.8 + - - +
453A GLN* 3.5 11.5 + - - +
454A TYR 3.2 16.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 451 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
334A PHE* 3.7 23.4 - - + -
356A VAL* 4.6 10.8 - - + -
358A PHE* 3.7 35.9 - - + -
397A TRP* 4.3 12.8 - - + -
400A TYR* 4.4 4.9 - - + +
402A ILE* 3.8 28.5 - - + -
409A MSE 4.1 15.7 - - - -
447A VAL 3.2 10.7 + - - +
448A ALA* 3.2 8.0 + - - +
450A LYS* 1.3 74.8 - - - +
452A LYS* 1.3 66.1 + - - +
454A TYR* 3.2 3.9 + - + +
455A LEU* 3.0 39.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 452 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
399A ARG 3.8 19.2 + - - +
400A TYR* 3.4 36.5 + - + +
401A GLY* 4.5 4.1 - - - +
448A ALA 2.9 12.9 + - - +
449A ARG* 3.6 15.9 - - + +
450A LYS 3.4 0.4 - - - -
451A LEU* 1.3 75.6 - - - +
453A GLN* 1.3 56.9 + - - +
455A LEU* 3.4 3.0 + - - +
456A SER* 3.0 34.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 453 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
449A ARG 3.2 10.0 + - - +
450A LYS* 3.7 12.9 - - - +
451A LEU 3.2 0.2 - - - -
452A LYS* 1.3 77.3 - - - +
454A TYR* 1.3 66.3 + - - +
456A SER* 3.3 5.1 + - - -
457A GLU* 3.0 47.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 454 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
333A ASP* 3.5 25.9 + - - +
334A PHE* 3.7 61.0 - + + -
358A PHE* 4.2 12.1 - + - -
450A LYS 3.2 4.6 + - - +
451A LEU* 3.2 9.1 + - + +
453A GLN* 1.3 78.4 - - - +
455A LEU* 1.3 83.6 + - + +
457A GLU* 3.4 11.3 + - + +
458A LYS* 2.9 55.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 455 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
358A PHE* 3.8 28.0 - - + -
400A TYR 3.9 4.9 - - - +
401A GLY* 3.7 28.7 - - - +
402A ILE* 4.0 12.6 - - + -
451A LEU* 3.0 37.5 + - + +
452A LYS* 3.8 3.8 - - - +
454A TYR* 1.3 93.9 - - + +
456A SER* 1.3 57.9 + - - +
458A LYS* 3.6 14.9 + - - +
459A ARG* 3.0 55.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 456 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
452A LYS* 3.0 20.7 + - - -
453A GLN* 3.8 6.3 - - - -
455A LEU* 1.3 74.9 - - - +
457A GLU* 1.3 59.6 + - - +
459A ARG* 3.5 6.6 + - - +
460A LYS* 3.0 28.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 457 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
453A GLN* 3.0 45.9 + - + +
454A TYR* 3.7 9.0 - - + +
456A SER* 1.3 74.8 - - - +
458A LYS* 1.3 64.7 + - - +
460A LYS* 3.3 7.8 + - - +
461A GLU* 3.0 24.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 458 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
333A ASP* 5.1 7.3 + - - -
358A PHE* 4.4 20.6 - - - -
454A TYR* 2.9 46.7 + - + +
455A LEU* 3.7 16.5 - - - +
457A GLU* 1.3 75.3 - - - +
459A ARG* 1.3 69.0 + - - +
461A GLU* 3.3 6.6 + - - +
462A GLN* 3.1 52.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 459 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
358A PHE* 6.0 1.8 - - - -
401A GLY* 2.6 34.7 + - - -
402A ILE* 4.6 1.6 - - - +
403A GLU* 3.5 45.6 + - - +
455A LEU* 3.0 45.0 + - - +
456A SER* 4.1 5.7 - - - +
458A LYS* 1.3 81.4 - - + +
460A LYS* 1.3 62.9 + - - +
462A GLN* 3.4 19.1 + - - +
463A GLU* 3.0 26.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 460 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
456A SER 3.0 19.6 + - - +
457A GLU* 3.6 8.1 - - - +
459A ARG* 1.3 77.3 - - - +
461A GLU* 1.3 57.2 + - - +
463A GLU* 3.4 10.2 + - - +
464A ALA* 3.0 29.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 461 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
457A GLU 3.0 17.0 + - - +
458A LYS* 3.8 6.3 - - - +
460A LYS* 1.3 77.6 - - - +
462A GLN* 1.3 57.9 + - + +
464A ALA* 3.4 11.2 + - - +
465A LYS* 3.1 60.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 462 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
458A LYS* 3.1 40.7 + - + +
459A ARG* 3.5 29.8 + - - +
460A LYS 3.3 0.2 - - - -
461A GLU* 1.3 73.1 - - + +
463A GLU* 1.3 65.1 + - - +
465A LYS* 3.4 8.7 + - - +
466A LYS* 3.1 24.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 463 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
459A ARG 3.0 17.6 + - - +
460A LYS* 3.7 8.8 - - - +
462A GLN* 1.3 75.1 - - - +
464A ALA* 1.3 56.7 + - - +
466A LYS* 3.3 6.3 + - - +
467A LYS* 3.0 61.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 464 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
460A LYS* 3.0 18.8 + - + +
461A GLU* 3.7 16.6 - - - +
462A GLN 3.2 0.6 - - - -
463A GLU* 1.3 76.5 - - - +
465A LYS* 1.3 57.8 + - - +
467A LYS* 5.2 0.4 - - - -
468A LEU* 2.9 53.1 + - + +
469A LEU* 5.0 0.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 465 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
461A GLU* 3.1 52.2 + - - +
462A GLN* 3.9 7.1 - - - +
464A ALA* 1.3 75.2 - - - +
466A LYS* 1.3 63.2 + - - +
469A LEU* 3.2 52.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 466 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
462A GLN 3.1 17.3 + - - +
463A GLU* 3.7 6.7 - - - +
464A ALA 3.2 0.4 - - - -
465A LYS* 1.3 78.8 - - - +
467A LYS* 1.3 69.0 + - + +
469A LEU 4.3 6.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 467 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
463A GLU* 3.0 50.3 + - + +
464A ALA* 4.5 0.9 - - - +
466A LYS* 1.3 87.8 - - + +
468A LEU* 1.3 70.4 + - + +
469A LEU 3.8 1.1 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 468 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
464A ALA* 2.9 31.2 + - + +
467A LYS* 1.3 90.0 - - + +
469A LEU* 1.3 69.3 + - + +
470A ALA 4.2 0.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 469 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
464A ALA 5.0 0.7 - - - +
465A LYS* 3.2 51.1 + - + +
466A LYS 4.3 7.4 - - - +
467A LYS 5.0 0.9 - - - -
468A LEU* 1.3 87.0 - - + +
470A ALA* 1.3 67.0 + - - +
----------------------------------------------------------
Back to top of page
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