Contacts of the helix formed by residues 414 - 438 (chain A) in PDB entry 1EJI
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 LEU 414 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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330A GLN* 3.2 33.2 - - + +
334A ASN* 3.3 10.5 - - - -
412A GLY 3.4 19.3 - - - +
413A LEU* 1.3 74.9 - - - +
415A GLU* 1.3 75.3 + - - +
416A GLU* 3.4 14.1 - - - +
417A ASP* 2.9 17.7 + - - +
418A PHE* 2.9 20.6 + - - -
15B TRP* 4.4 13.5 - - + +
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Residues in contact with GLU 415 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
330A GLN* 3.1 25.7 + - - +
333A ALA* 3.9 18.9 - - - +
334A ASN* 3.3 5.5 + - - +
337A ALA* 3.9 25.9 - - + +
414A LEU* 1.3 74.4 - - - +
416A GLU* 1.3 65.7 + - + +
418A PHE* 3.0 4.8 + - - +
419A GLN* 3.0 33.7 + - - +
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Residues in contact with GLU 416 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
414A LEU* 3.4 14.1 - - - +
415A GLU* 1.3 77.5 - - + +
417A ASP* 1.3 69.3 + - - +
419A GLN* 3.3 19.7 + - - +
420A LYS* 3.2 34.5 + - - +
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Residues in contact with ASP 417 (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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412A GLY 4.9 0.2 - - - +
413A LEU* 3.4 25.5 - - + -
414A LEU* 2.9 31.4 + - - +
416A GLU* 1.3 81.4 - - - +
418A PHE* 1.3 56.0 + - - +
420A LYS* 3.1 29.3 + - - +
421A VAL* 2.9 31.5 + - - +
472A PHE* 3.8 6.5 - - + -
476A PHE* 4.0 19.9 - - - -
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Residues in contact with PHE 418 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50A LEU* 4.2 11.2 - - + -
334A ASN* 3.2 56.3 - - + +
337A ALA* 4.5 3.8 - - + -
338A LEU* 3.9 29.5 - - + +
405A THR* 3.7 30.3 - - + -
408A LEU* 3.7 37.0 - - + -
409A THR* 3.8 2.2 - - - -
413A LEU* 3.8 16.4 - - + -
414A LEU 2.9 13.4 + - - +
415A GLU* 3.6 9.6 - - - +
417A ASP* 1.3 73.3 - - - +
419A GLN* 1.3 61.3 + - - +
421A VAL* 3.3 14.6 - - + +
422A ALA* 3.0 23.6 + - - +
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Residues in contact with GLN 419 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
337A ALA* 4.8 10.5 - - + +
341A ALA* 4.4 19.2 - - + +
344A GLU* 5.7 0.5 - - - +
415A GLU* 3.0 20.8 + - - +
416A GLU* 3.4 27.4 - - - +
418A PHE* 1.3 74.4 - - - +
420A LYS* 1.3 68.2 + - + +
421A VAL 3.0 1.3 - - - -
422A ALA* 2.9 19.3 + - - +
423A HIS* 3.0 12.8 + - - +
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Residues in contact with LYS 420 (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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416A GLU* 3.3 24.3 - - - +
417A ASP* 3.1 21.6 + - - +
419A GLN* 1.3 77.1 - - + +
421A VAL* 1.3 61.4 + - - +
423A HIS* 3.4 8.6 + - - +
424A PHE* 3.1 31.9 + - + -
472A PHE* 4.0 28.0 - - + -
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Residues in contact with VAL 421 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A LEU* 4.3 14.4 - - + -
50A LEU* 4.0 34.5 - - + -
338A LEU* 4.8 2.7 - - + -
408A LEU* 4.6 5.2 - - + -
413A LEU* 4.2 9.0 - - + -
417A ASP 2.9 21.0 + - - +
418A PHE* 3.3 23.3 - - + +
419A GLN 3.0 0.2 - - - -
420A LYS* 1.3 74.5 - - - +
422A ALA* 1.3 66.5 + - - +
424A PHE* 2.9 21.6 + - - +
425A ILE* 3.0 18.1 + - + +
472A PHE* 3.9 19.3 - - + -
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Residues in contact with ALA 422 (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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338A LEU* 3.8 9.6 - - + -
341A ALA* 3.7 24.7 - - + +
342A LEU* 3.5 28.5 - - + +
345A LEU* 4.4 4.5 - - + -
418A PHE 3.0 14.4 + - - +
419A GLN 2.9 10.4 + - - +
421A VAL* 1.3 74.9 - - - +
423A HIS* 1.3 56.5 + - - +
425A ILE* 3.2 8.2 + - - +
426A HIS* 2.9 26.7 + - - +
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Residues in contact with HIS 423 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
345A LEU* 4.5 10.2 - - + +
419A GLN 3.0 9.9 + - - +
420A LYS* 3.6 11.9 - - - +
422A ALA* 1.3 74.9 - - - +
424A PHE* 1.3 66.5 + - + +
426A HIS* 3.0 26.1 + + - +
427A ARG* 2.8 66.1 + - + +
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Residues in contact with PHE 424 (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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48A LEU* 4.1 13.5 - - + -
382A ILE* 4.3 18.4 - - + +
420A LYS* 3.1 26.4 + - + -
421A VAL* 2.9 15.7 + - - +
423A HIS* 1.3 75.3 - - + +
425A ILE* 1.3 58.1 + - + +
427A ARG* 3.3 17.1 - - - +
428A GLY* 3.0 22.7 + - - -
465A LEU* 3.7 14.9 - - + +
468A GLU* 3.4 49.6 - - + -
469A VAL* 3.6 21.3 - - + -
472A PHE* 3.5 33.9 - + + -
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Residues in contact with ILE 425 (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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50A LEU* 3.6 32.1 - - + -
338A LEU* 4.4 6.3 - - + -
342A LEU* 4.9 6.5 - - + -
347A TYR* 6.4 0.4 - - + -
361A MSE 4.4 16.6 - - + -
377A LEU* 4.1 18.0 - - + +
382A ILE* 4.7 10.1 - - + -
403A LEU* 4.1 19.7 - - + -
421A VAL* 3.0 20.6 + - + +
422A ALA* 3.3 11.9 - - - +
424A PHE* 1.3 75.0 - - + +
426A HIS* 1.3 65.9 + - - +
428A GLY* 2.9 12.0 + - - -
429A ILE* 3.0 32.3 + - + +
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Residues in contact with HIS 426 (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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342A LEU* 5.4 0.9 - - + +
345A LEU* 3.3 53.8 + - + +
347A TYR* 2.8 39.2 + + + +
422A ALA 2.9 6.6 + - - +
423A HIS* 3.0 24.0 + + - +
425A ILE* 1.3 76.0 - - - +
427A ARG* 1.3 58.8 + - + +
429A ILE 3.4 0.5 + - - -
430A GLU* 2.9 51.9 + - + +
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Residues in contact with ARG 427 (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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423A HIS* 2.8 60.7 + - + +
424A PHE* 3.3 21.8 - - - +
426A HIS* 1.3 76.6 - - + +
428A GLY* 1.3 57.5 + - - +
430A GLU* 3.0 10.4 - - - +
431A LEU* 3.0 27.0 + - - +
464A THR* 6.2 1.4 - - - +
465A LEU* 3.6 36.6 - - + +
468A GLU* 2.5 34.6 + - - +
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Residues in contact with GLY 428 (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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376A VAL* 3.7 8.9 - - - +
377A LEU* 3.9 16.8 - - - -
380A CYS* 5.7 0.7 - - - -
424A PHE 3.0 10.3 + - - -
425A ILE 2.9 8.8 + - - -
427A ARG* 1.3 74.2 - - - +
429A ILE* 1.3 63.6 + - - -
431A LEU* 3.0 8.9 + - - +
432A THR* 3.0 22.8 + - - -
465A LEU* 4.1 11.7 - - - -
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Residues in contact with ILE 429 (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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347A TYR* 3.3 45.3 - - + +
361A MSE 4.3 13.5 - - + -
363A LEU* 4.3 19.7 - - + -
366A LYS* 5.6 2.2 - - + -
368A THR* 4.2 14.4 - - + -
373A ALA* 4.8 8.5 - - + -
377A LEU* 4.6 11.2 - - + +
401A LEU* 5.0 1.1 - - + -
425A ILE* 3.0 22.8 + - + +
426A HIS 4.0 0.2 - - - +
428A GLY* 1.3 73.2 - - - +
430A GLU* 1.3 64.0 + - - +
432A THR* 2.9 11.5 + - - -
433A LEU* 2.9 40.9 + - + +
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Residues in contact with GLU 430 (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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347A TYR* 4.6 1.0 + - - -
426A HIS* 2.9 36.4 + - + +
427A ARG* 3.0 17.7 - - - +
429A ILE* 1.3 78.2 - - - +
431A LEU* 1.3 61.0 + - - +
433A LEU* 3.4 8.1 + - - +
434A GLN* 3.2 40.6 + - - +
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Residues in contact with LEU 431 (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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376A VAL* 4.3 18.2 - - + -
380A CYS* 4.9 5.2 - - - -
427A ARG 3.0 13.1 + - - +
428A GLY 3.0 10.5 + - - +
430A GLU* 1.3 73.6 - - - +
432A THR* 1.3 66.3 + - - +
434A GLN* 3.1 17.6 + - + +
435A ILE* 3.0 35.4 + - + +
458A ILE* 4.9 13.0 - - + +
461A ALA* 4.2 14.1 - - + -
462A VAL* 4.1 32.8 - - + +
465A LEU* 5.0 7.9 - - + -
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Residues in contact with THR 432 (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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368A THR* 3.6 22.2 - - - +
372A ARG* 4.1 2.9 - - + -
373A ALA* 3.8 22.1 - - + +
376A VAL* 3.0 27.1 - - + +
428A GLY 3.0 11.8 + - - -
429A ILE* 2.9 14.0 + - - -
431A LEU* 1.3 76.3 - - - +
433A LEU* 1.3 58.6 + - - +
435A ILE* 2.9 11.1 - - - +
436A GLN* 2.6 51.3 + - - +
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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
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366A LYS* 3.1 32.5 - - + +
367A GLY* 5.1 1.1 - - - -
368A THR* 3.7 33.0 - - + +
429A ILE* 2.9 30.8 + - + +
430A GLU* 3.6 10.3 - - - +
432A THR* 1.3 71.9 - - - +
434A GLN* 1.3 66.9 + - + +
436A GLN* 3.0 23.3 - - + +
437A SER* 3.5 7.6 + - - -
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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
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430A GLU* 3.3 33.8 + - + +
431A LEU* 3.1 19.1 + - + +
433A LEU* 1.3 76.1 - - + +
435A ILE* 1.3 65.3 + - - +
436A GLN 2.9 1.4 + - - -
437A SER* 2.9 16.5 + - - -
438A HIS* 3.1 33.3 + - + +
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Residues in contact with ILE 435 (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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376A VAL* 4.9 1.1 - - + -
431A LEU* 3.0 25.6 - - + +
432A THR* 2.9 26.9 - - - +
434A GLN* 1.3 76.2 - - - +
436A GLN* 1.3 66.3 + - - +
438A HIS* 3.5 18.1 + - - +
439A MSE 3.7 21.0 + - - +
448A PHE* 3.0 42.2 - - + +
451A LYS* 4.5 8.3 - - + +
452A LEU* 5.8 1.1 - - + +
458A ILE* 3.7 33.2 - - + -
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Residues in contact with GLN 436 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
367A GLY 5.1 2.0 - - - +
368A THR* 4.2 9.6 + - - +
372A ARG* 2.7 42.9 + - - +
432A THR* 2.6 49.3 + - + +
433A LEU* 3.0 21.8 - - + +
434A GLN 2.9 0.2 + - - -
435A ILE* 1.3 81.5 - - - +
437A SER* 1.3 59.5 + - - +
439A MSE 3.4 8.2 - - - +
440A ALA* 3.0 21.1 + - - -
448A PHE* 3.5 19.6 - - - -
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Residues in contact with SER 437 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
433A LEU 3.5 5.7 + - - -
434A GLN* 2.9 8.5 + - - -
436A GLN* 1.3 77.1 - - - +
438A HIS* 1.3 54.1 + - - +
439A MSE 2.6 18.1 + - - -
440A ALA* 2.8 24.9 + - - +
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Residues in contact with HIS 438 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
434A GLN* 3.1 46.8 + - + +
435A ILE* 4.0 10.1 - - - +
436A GLN 3.4 0.8 - - - -
437A SER* 1.3 74.4 - - - +
439A MSE 1.3 52.7 + - - +
451A LYS* 2.4 38.7 + - - +
458A ILE* 5.1 5.4 - - + -
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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
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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) + - + + + + + -
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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