Contacts of the helix formed by residues 421 - 451 (chain A) in PDB entry 2ZNN
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 PHE 421 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
419A ASP* 3.0 9.8 + - - +
420A ILE* 1.3 102.3 - - + +
422A LEU* 1.3 65.2 + - - +
423A PHE 3.3 2.7 - - - -
424A PRO* 3.0 31.4 - - + +
425A LYS* 3.0 30.8 + - + +
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Residues in contact with LEU 422 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
368A LEU* 4.4 23.6 - - + +
370A LEU* 3.9 25.4 - - + -
412A LEU* 4.0 17.0 - - + +
416A HIS* 3.2 48.0 - - + +
419A ASP* 3.1 35.7 + - + +
420A ILE 3.5 1.2 - - - -
421A PHE* 1.3 77.3 - - - +
423A PHE* 1.3 62.6 + - - +
425A LYS* 3.3 3.8 + - + +
426A LEU* 2.9 32.3 + - + +
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Residues in contact with PHE 423 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
405A VAL* 4.0 22.2 - - + -
408A LEU* 4.4 13.0 - - + -
409A ARG* 3.6 55.0 - - + +
412A LEU* 3.6 23.1 - - + +
420A ILE 5.2 0.6 + - - +
422A LEU* 1.3 78.3 - - - +
424A PRO* 1.4 74.9 - - + +
426A LEU* 3.0 5.5 + - + +
427A LEU* 3.0 59.7 + - + +
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Residues in contact with PRO 424 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
420A ILE 4.6 4.3 - - - +
421A PHE* 3.0 43.5 - - + +
423A PHE* 1.4 93.6 - - + +
425A LYS* 1.3 62.0 + - + +
427A LEU* 3.1 15.8 + - + +
428A GLN* 3.0 21.1 + - - +
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Residues in contact with LYS 425 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
368A LEU* 3.8 31.2 - - + +
419A ASP* 2.8 37.6 + - - +
421A PHE* 3.0 33.4 + - + +
422A LEU* 3.4 8.5 - - + +
423A PHE 3.2 0.2 - - - -
424A PRO* 1.3 76.4 - - + +
426A LEU* 1.3 57.5 + - - +
428A GLN* 3.2 13.5 + - - +
429A LYS* 2.9 33.7 + - + +
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Residues in contact with LEU 426 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
365A PHE* 3.8 21.5 - - + -
368A LEU* 3.7 26.0 - - + -
370A LEU* 3.8 16.4 - - + -
374A ASP* 5.8 1.1 - - + +
378A PHE* 3.4 23.7 - - + -
408A LEU* 4.7 10.1 - - + -
412A LEU* 3.5 38.6 - - + -
422A LEU* 2.9 25.0 + - + +
423A PHE* 3.0 4.9 + - + +
425A LYS* 1.3 74.1 - - - +
427A LEU* 1.3 67.4 + - + +
429A LYS* 3.0 4.9 + - + +
430A MET* 3.0 26.3 + - - +
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Residues in contact with LEU 427 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
405A VAL* 5.5 8.3 - - + -
408A LEU* 5.8 2.5 - - + -
423A PHE* 3.0 58.0 + - + +
424A PRO* 3.4 12.6 - - + +
426A LEU* 1.3 75.0 - - + +
428A GLN* 1.3 63.9 + - - +
430A MET* 3.1 36.2 + - - +
431A ALA* 3.3 7.1 + - - +
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Residues in contact with GLN 428 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
364A LYS* 5.6 2.9 + - - -
424A PRO 3.0 12.3 + - - +
425A LYS* 3.3 13.4 - - - +
427A LEU* 1.3 79.1 - - - +
429A LYS* 1.3 64.1 + - - +
431A ALA* 3.0 9.9 + - + +
432A ASP* 2.8 43.5 + - - +
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Residues in contact with LYS 429 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
361A PHE* 4.1 18.8 - - + -
364A LYS* 3.7 42.2 - - - +
365A PHE* 3.9 27.4 - - + +
368A LEU* 4.2 22.7 - - + -
378A PHE* 4.1 12.6 - - + -
425A LYS* 2.9 21.3 + - - +
426A LEU* 3.0 13.6 + - - +
428A GLN* 1.3 83.9 + - - +
430A MET* 1.3 57.2 + - - +
432A ASP* 3.2 19.3 + - - +
433A LEU* 2.8 35.0 + - - +
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Residues in contact with MET 430 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315A GLU* 4.5 7.9 - - - +
378A PHE* 3.4 32.1 - - + -
381A ALA* 3.5 38.1 - - + +
382A ILE* 3.6 22.9 - - + +
385A CYS* 6.0 3.8 - - + -
388A ARG* 6.0 0.9 - - - +
401A GLN* 5.7 3.8 - - - +
405A VAL* 6.0 2.9 - - + -
408A LEU* 5.7 2.7 - - - -
426A LEU 3.0 10.6 + - - +
427A LEU* 3.1 27.8 + - - +
429A LYS* 1.3 76.6 - - - +
431A ALA* 1.3 62.7 + - - +
433A LEU* 3.4 7.8 + - - +
434A ARG* 3.1 22.1 + - - +
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Residues in contact with ALA 431 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
427A LEU 3.3 7.0 + - - +
428A GLN* 3.0 14.0 + - + +
430A MET* 1.3 77.1 - - - +
432A ASP* 1.3 68.6 + - - +
434A ARG* 3.1 11.5 + - - +
435A GLN* 3.1 20.1 + - - +
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Residues in contact with ASP 432 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
361A PHE* 4.1 15.4 - - + -
364A LYS* 5.4 3.6 + - - -
428A GLN* 2.8 34.9 + - - +
429A LYS* 3.5 31.8 + - - +
431A ALA* 1.3 77.3 - - - +
433A LEU* 1.3 52.2 + - - +
435A GLN* 3.1 8.1 + - - +
436A LEU* 2.8 35.8 + - - +
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Residues in contact with LEU 433 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315A GLU* 3.6 28.7 - - + +
318A PHE* 4.0 8.1 - - + -
319A ALA* 3.8 5.4 - - + +
361A PHE* 3.5 31.9 - - + -
378A PHE* 3.7 18.8 - - + -
382A ILE* 3.6 30.3 - - + -
429A LYS 2.8 19.2 + - - +
430A MET* 3.6 6.1 - - - +
432A ASP* 1.3 76.6 - - - +
434A ARG* 1.3 58.0 + - - +
436A LEU* 3.2 20.0 + - + +
437A VAL* 2.8 35.5 + - - +
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Residues in contact with ARG 434 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315A GLU* 3.2 20.2 + - - +
385A CYS* 2.9 35.6 - - - -
387A ASP* 2.5 26.6 + - - -
388A ARG* 3.7 18.5 - - - +
430A MET 3.1 13.4 + - - +
431A ALA* 3.1 12.9 + - - +
433A LEU* 1.3 76.2 - - - +
435A GLN* 1.3 62.1 + - - +
437A VAL* 3.3 2.3 + - - +
438A THR* 3.0 30.1 + - + +
468A TYR* 3.6 17.4 - - + +
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Residues in contact with GLN 435 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
431A ALA 3.1 11.7 + - - +
432A ASP* 3.5 9.2 - - - +
434A ARG* 1.3 73.1 - - - +
436A LEU* 1.3 66.8 + - - +
438A THR* 3.1 28.8 + - - +
439A GLU* 3.1 51.0 + - - +
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Residues in contact with LEU 436 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
318A PHE* 3.7 39.5 - - + -
357A PRO* 3.9 36.8 - - + +
358A LYS* 4.5 12.1 + - + +
361A PHE* 4.3 19.3 - - + -
432A ASP 2.8 17.9 + - - +
433A LEU* 3.2 20.8 + - + +
435A GLN* 1.3 74.8 - - - +
437A VAL* 1.3 55.4 + - - +
439A GLU* 3.5 14.6 + - - +
440A HIS* 2.9 26.7 + - - +
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Residues in contact with VAL 437 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
311A TYR 5.5 1.8 - - - +
314A TYR* 3.8 25.4 - - + -
315A GLU* 3.6 37.9 - - + +
318A PHE* 4.0 10.5 - - + -
433A LEU* 2.8 20.2 + - - +
434A ARG 3.6 5.2 - - - +
435A GLN 3.2 0.2 - - - -
436A LEU* 1.3 74.3 - - - +
438A THR* 1.3 61.4 + - - +
440A HIS* 3.1 7.0 + - + +
441A ALA* 2.8 29.4 + - + +
464A TYR* 5.5 2.0 - - + -
467A MET* 4.1 9.9 - - + -
468A TYR* 3.5 22.4 - - + -
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Residues in contact with THR 438 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
434A ARG* 3.0 22.1 + - + +
435A GLN* 3.1 24.2 + - - +
437A VAL* 1.3 74.4 - - - +
439A GLU* 1.3 61.7 + - - +
441A ALA* 3.2 3.3 + - - +
442A GLN* 3.0 39.2 + - - +
468A TYR* 3.4 49.9 - - + +
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Residues in contact with GLU 439 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
357A PRO* 5.8 2.6 - - - +
435A GLN* 3.1 46.0 + - - +
436A LEU* 3.7 17.5 - - + +
438A THR* 1.3 79.7 + - - +
440A HIS* 1.3 63.8 + - - +
442A GLN* 3.2 20.9 + - - +
443A LEU* 3.1 22.5 + - - +
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Residues in contact with HIS 440 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
314A TYR* 4.5 2.0 - + - -
318A PHE* 3.7 22.0 - + + -
354A ILE* 3.9 15.0 - - + +
358A LYS* 2.7 32.7 + - - +
436A LEU 2.9 17.9 + - - +
437A VAL* 3.5 5.8 - - + +
439A GLU* 1.3 75.8 - - - +
441A ALA* 1.3 58.3 + - - +
443A LEU* 3.3 6.1 + - - +
444A VAL* 2.9 43.8 + - + +
464A TYR* 3.0 21.9 + + - -
901A S44 2.8 53.1 + + + +
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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
----------------------------------------------------------
437A VAL 2.8 13.6 + - - +
438A THR 3.4 9.2 - - - +
439A GLU 3.2 0.2 - - - -
440A HIS* 1.3 77.1 - - - +
442A GLN* 1.3 57.5 + - - +
444A VAL* 3.1 3.8 + - - +
445A GLN* 2.9 30.0 + - - +
464A TYR* 4.0 31.5 - - + +
467A MET* 5.3 0.4 - - - -
468A TYR* 4.2 28.7 - - + +
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Residues in contact with GLN 442 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
438A THR* 3.0 25.6 + - - +
439A GLU* 3.2 23.0 + - - +
441A ALA* 1.3 77.2 - - + +
443A LEU* 1.3 56.8 + - - +
445A GLN* 3.3 9.9 + - - +
446A ILE* 3.0 33.8 + - + +
468A TYR* 5.4 7.9 - - + +
----------------------------------------------------------
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Residues in contact with LEU 443 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
350A PRO* 3.9 26.5 - - + +
353A ASP* 3.3 39.0 - - + +
354A ILE* 3.3 28.7 - - + +
358A LYS* 6.0 0.9 - - - +
439A GLU 3.1 12.5 + - - +
440A HIS* 3.7 8.1 - - - +
442A GLN* 1.3 74.0 - - - +
444A VAL* 1.3 66.5 + - - +
446A ILE* 3.3 20.1 + - + -
447A ILE* 3.0 23.2 + - + +
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Residues in contact with VAL 444 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
273A PHE* 4.6 16.8 - - + -
354A ILE* 4.7 4.5 - - + -
440A HIS* 2.9 50.1 + - + +
441A ALA* 3.1 7.8 + - - +
443A LEU* 1.3 75.7 - - - +
445A GLN* 1.3 58.4 + - - +
447A ILE* 3.1 11.0 + - - +
448A LYS* 2.8 28.7 + - + +
456A LEU* 3.7 29.4 - - + -
464A TYR* 3.7 19.5 - - + +
901A S44 4.1 4.0 - - + +
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Residues in contact with GLN 445 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
441A ALA 2.9 12.1 + - - +
442A GLN* 3.3 13.2 - - - +
444A VAL* 1.3 77.9 - - - +
446A ILE* 1.3 63.7 + - + +
448A LYS* 3.1 24.0 + - - +
449A LYS* 2.9 61.0 + - + +
----------------------------------------------------------
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Residues in contact with ILE 446 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
350A PRO* 4.8 9.9 - - + -
442A GLN* 3.0 21.1 + - + +
443A LEU* 3.5 26.0 - - + +
444A VAL 3.3 0.2 - - - -
445A GLN* 1.3 76.1 - - + +
447A ILE* 1.3 59.3 + - - +
449A LYS* 3.3 3.5 + - - -
450A THR* 2.9 51.4 + - + +
----------------------------------------------------------
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Residues in contact with ILE 447 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
273A PHE* 3.9 31.2 - - + -
350A PRO* 3.5 28.5 - - + +
351A PHE* 3.9 22.9 - - + -
354A ILE* 4.0 24.2 - - + -
443A LEU* 3.0 18.8 + - + +
444A VAL* 3.5 7.6 - - - +
446A ILE* 1.3 76.6 - - - +
448A LYS* 1.3 58.1 + - - +
450A THR* 4.0 5.2 - - - -
451A GLU* 2.8 40.7 + - + +
454A ALA* 3.8 24.5 - - + -
----------------------------------------------------------
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Residues in contact with LYS 448 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
273A PHE* 6.4 0.4 - - - -
444A VAL* 2.8 20.3 + - + +
445A GLN* 3.4 28.3 + - - +
447A ILE* 1.3 76.1 - - - +
449A LYS* 1.3 67.2 + - + +
451A GLU 3.8 9.7 - - - +
452A SER* 5.5 0.3 - - - -
454A ALA 4.4 12.8 - - - +
456A LEU* 5.2 19.7 - - + +
461A GLN* 3.7 27.7 + - + +
465A ARG* 4.2 18.0 - - - +
----------------------------------------------------------
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Residues in contact with LYS 449 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
445A GLN* 2.9 44.2 + - + +
446A ILE* 3.9 4.3 - - - +
448A LYS* 1.3 84.1 - - + +
450A THR* 1.3 65.4 + - + +
451A GLU 3.6 1.4 - - - -
452A SER* 5.3 0.7 + - - -
----------------------------------------------------------
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Residues in contact with THR 450 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
350A PRO* 5.0 3.1 - - - +
446A ILE* 2.9 42.1 + - + +
447A ILE* 4.0 1.7 + - - -
449A LYS* 1.3 79.9 - - + +
451A GLU* 1.3 76.3 + - - +
452A SER 3.7 3.3 + - - -
----------------------------------------------------------
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Residues in contact with GLU 451 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
270A VAL* 4.9 4.9 - - + -
348A ARG* 2.5 34.1 + - - +
350A PRO* 3.7 23.7 - - - +
351A PHE* 3.4 21.2 - - + -
447A ILE* 2.8 27.2 + - + +
448A LYS 3.8 9.3 - - - +
449A LYS 3.6 0.4 - - - -
450A THR* 1.3 86.2 + - - +
452A SER* 1.3 63.6 + - - +
453A ASP* 3.2 4.0 - - + +
454A ALA* 3.1 27.4 + - + +
----------------------------------------------------------
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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