Contacts of the helix formed by residues 431 - 453 (chain A) in PDB entry 1A8H
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 PRO 431 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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427A PHE* 3.6 45.4 - - + +
428A LYS 5.1 0.4 - - - +
429A LYS 3.8 5.2 - - - +
430A GLU* 1.3 83.8 - - - +
432A GLU* 1.3 77.6 + - - +
434A ALA* 3.2 3.6 + - - +
435A ARG* 3.1 47.4 + - - +
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Residues in contact with GLU 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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430A GLU* 3.1 26.2 - - - +
431A PRO* 1.3 90.2 - - - +
433A GLU* 1.3 59.0 + - - +
435A ARG* 3.7 15.5 + - - +
436A ALA* 3.1 25.5 + - - +
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Residues in contact with GLU 433 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
426A LEU* 4.4 16.8 - - + -
430A GLU* 3.1 39.4 + - + +
432A GLU* 1.3 81.9 + - - +
434A ALA* 1.3 66.2 + - - +
436A ALA* 3.3 11.1 + - + +
437A VAL* 3.0 32.2 + - + +
440A ARG* 5.8 2.1 + - - +
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Residues in contact with ALA 434 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
367A PHE* 5.1 3.6 - - + -
423A PRO* 3.4 33.0 - - + +
426A LEU* 4.2 6.4 - - - +
427A PHE* 3.9 28.9 - - + +
430A GLU 3.4 2.0 + - - -
431A PRO 3.2 9.5 + - - +
433A GLU* 1.3 78.6 - - - +
435A ARG* 1.3 62.9 + - - +
437A VAL* 3.3 5.3 + - - +
438A LEU* 3.1 28.0 + - - +
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Residues in contact with ARG 435 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
367A PHE 3.7 25.6 + - - +
368A ALA* 4.7 11.5 - - + +
373A PRO* 3.2 33.0 - - + +
374A GLU 5.8 0.9 - - - +
427A PHE* 4.5 7.2 - - + -
431A PRO* 3.1 51.3 + - - +
432A GLU* 3.5 15.1 - - - +
434A ALA* 1.3 75.1 - - + +
436A ALA* 1.3 66.4 + - - +
438A LEU* 3.1 8.9 + - + -
439A TYR* 2.9 19.2 + - - +
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Residues in contact with ALA 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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374A GLU 5.6 0.4 - - - -
376A VAL* 3.6 34.9 - - + +
432A GLU 3.1 12.9 + - - +
433A GLU* 3.4 18.4 - - + +
434A ALA 3.3 0.2 - - - -
435A ARG* 1.3 79.3 - - - +
437A VAL* 1.3 63.5 + - - +
439A TYR* 3.2 2.5 + - - -
440A ARG* 3.2 40.6 + - - +
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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
----------------------------------------------------------
417A TYR* 3.4 31.3 - - + +
418A ILE* 4.5 6.3 - - + -
421A LYS* 3.8 26.0 - - + -
423A PRO* 3.6 26.2 - - + -
426A LEU* 4.2 11.9 - - + -
433A GLU* 3.0 18.7 + - + +
434A ALA* 3.5 8.3 - - - +
436A ALA* 1.3 75.2 - - - +
438A LEU* 1.3 62.2 + - - +
440A ARG* 3.3 16.0 + - - +
441A VAL* 3.2 19.4 + - - +
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Residues in contact with LEU 438 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
360A THR* 4.9 7.2 - - + +
363A MET* 3.8 41.5 - - + +
364A LEU* 3.9 24.6 - - + +
367A PHE* 4.2 17.9 - - + -
368A ALA* 4.7 6.3 - - + -
373A PRO* 4.2 3.4 - - + -
418A ILE* 4.4 9.0 - - + -
423A PRO* 3.9 25.4 - - + -
434A ALA 3.1 15.7 + - - +
435A ARG* 3.1 12.5 + - - +
437A VAL* 1.3 74.4 - - - +
439A TYR* 1.3 65.4 + - - +
441A VAL* 3.0 16.4 + - - +
442A VAL* 3.0 15.3 + - - +
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Residues in contact with TYR 439 (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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372A ILE* 3.8 10.8 - - + -
373A PRO* 3.3 36.9 - - + +
374A GLU 3.9 9.4 - - - +
375A PRO* 3.4 24.3 - - + +
376A VAL* 3.6 28.7 - - + -
435A ARG 2.9 7.7 + - - +
436A ALA 3.2 7.8 + - - +
438A LEU* 1.3 76.6 - - - +
440A ARG* 1.3 62.3 + - - +
442A VAL* 2.8 24.0 - - - +
443A GLU* 2.9 29.1 + - + +
481A TRP* 4.4 3.4 - - - -
482A GLY* 3.3 24.8 + - - -
484A ALA* 2.6 44.5 + - + +
485A GLU 5.3 0.4 - - - -
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Residues in contact with ARG 440 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
376A VAL* 4.1 17.2 - - + +
377A ALA* 2.7 31.6 + - - +
378A GLY* 3.5 15.3 - - - -
379A GLU* 2.9 33.5 + - - +
381A LEU* 3.9 18.7 - - + +
417A TYR* 3.0 27.4 + - + -
433A GLU* 5.8 2.2 + - - +
436A ALA* 3.2 32.1 + - - +
437A VAL* 3.5 14.0 - - - +
438A LEU 3.2 0.2 - - - -
439A TYR* 1.3 79.7 - - - +
441A VAL* 1.3 57.9 + - - +
444A GLY* 2.8 26.0 + - - -
481A TRP* 3.5 23.4 - - + -
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Residues in contact with VAL 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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356A LEU* 4.5 10.5 - - + -
360A THR* 3.2 33.7 - - + +
414A LEU* 4.5 17.4 - - + +
417A TYR* 4.3 12.6 - - + -
418A ILE* 4.1 30.3 - - + -
437A VAL 3.2 12.9 + - - +
438A LEU* 3.0 12.6 + - + +
440A ARG* 1.3 77.1 - - - +
442A VAL* 1.3 59.9 + - - +
444A GLY* 3.3 0.5 + - - -
445A LEU* 2.9 38.9 + - + +
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Residues in contact with VAL 442 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
360A THR* 5.0 7.2 - - + -
364A LEU* 5.3 5.4 - - + -
372A ILE* 3.8 32.5 - - + -
373A PRO* 4.9 1.6 - - + -
438A LEU 3.0 7.2 + - - +
439A TYR* 2.8 41.1 - - + +
441A VAL* 1.3 78.2 - - - +
443A GLU* 1.3 58.5 + - + +
445A LEU* 3.4 2.4 + - - +
446A ARG* 2.9 26.0 + - - +
467A LEU* 4.1 24.7 - - + -
469A LEU* 3.6 28.7 - - + +
484A ALA* 4.6 1.6 - - + -
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Residues in contact with GLU 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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439A TYR* 2.9 30.1 + - + +
442A VAL* 1.3 75.1 - - - +
444A GLY* 1.3 65.0 + - - +
446A ARG* 2.6 46.7 + - - +
447A ILE* 3.3 20.8 + - - +
481A TRP* 3.5 34.3 - - + +
482A GLY* 2.6 27.8 + - - +
483A LEU 2.9 4.6 + - - -
484A ALA* 3.0 17.2 + - + +
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Residues in contact with GLY 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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410A TYR* 3.3 34.0 - - - -
414A LEU* 3.6 13.0 - - - +
440A ARG 2.8 19.3 + - - -
441A VAL 3.7 1.6 - - - -
442A VAL 3.2 0.2 - - - -
443A GLU* 1.3 77.4 - - - +
445A LEU* 1.3 58.7 + - - +
447A ILE* 3.5 1.3 + - - -
448A ALA* 3.1 23.0 + - - +
481A TRP* 4.3 1.8 - - - -
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Residues in contact with LEU 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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353A LEU* 4.0 26.0 - - + -
356A LEU* 3.9 34.8 - - + -
357A VAL* 4.1 19.1 - - + -
360A THR* 4.3 5.2 - - - +
411A VAL* 5.2 1.3 - - + -
414A LEU* 4.1 7.4 - - + -
441A VAL* 2.9 28.3 + - + +
442A VAL 3.7 4.3 - - - +
444A GLY* 1.3 76.0 - - - +
446A ARG* 1.3 59.7 + - - +
448A ALA* 3.6 5.5 - - + +
449A SER* 2.8 33.7 + - - -
463A LEU* 4.2 9.2 - - + +
467A LEU* 3.7 26.9 - - + -
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Residues in contact with ARG 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 VAL 2.9 13.2 + - - +
443A GLU* 2.6 48.3 + - - +
444A GLY 3.3 0.4 - - - -
445A LEU* 1.3 75.9 - - - +
447A ILE* 1.3 73.0 + - - +
449A SER* 2.6 23.0 + - - +
450A ILE* 3.1 33.8 + - + +
464A ARG* 5.3 4.3 - - - -
469A LEU* 3.5 34.7 - - + +
470A LYS 6.1 0.7 - - - +
473A VAL* 5.9 2.0 - - + -
477A GLU* 2.9 23.4 + - - +
480A ARG 3.0 21.6 + - - -
483A LEU* 3.4 22.5 - - - +
484A ALA* 4.1 14.1 - - - +
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Residues in contact with ILE 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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384A GLY 4.0 10.1 - - - +
385A THR* 3.8 32.8 - - + +
410A TYR* 4.4 13.7 - - + +
443A GLU 3.3 9.3 + - - +
444A GLY 3.7 7.4 - - - +
445A LEU 3.2 0.2 - - - -
446A ARG* 1.3 101.2 - - - +
448A ALA* 1.3 63.9 + - - +
450A ILE* 3.2 11.8 + - - +
451A LEU* 3.2 36.6 + - + +
478A ALA* 4.0 23.6 - - + +
480A ARG 4.6 0.4 - - - +
481A TRP* 3.9 21.5 - - + -
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Residues in contact with ALA 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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353A LEU* 5.7 1.1 - - + -
407A ALA* 4.9 3.8 - - - +
410A TYR* 4.4 9.9 - - + -
411A VAL* 3.8 28.7 - - + -
414A LEU* 4.8 0.9 - - + -
444A GLY 3.1 18.3 + - - +
445A LEU* 3.6 11.0 - - + +
447A ILE* 1.3 78.6 - - - +
449A SER* 1.3 63.6 + - - +
451A LEU* 3.1 12.1 + - - +
452A LEU* 3.0 31.2 + - + +
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Residues in contact with SER 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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353A LEU* 6.6 0.2 - - - -
445A LEU 2.8 17.7 + - - -
446A ARG* 2.6 21.8 + - - -
448A ALA* 1.3 73.4 - - - +
450A ILE* 1.3 56.2 + - - +
452A LEU* 3.2 1.1 + - - +
453A THR* 2.9 30.1 + - - -
460A MET* 3.5 23.8 - - - +
463A LEU* 3.8 22.0 - - - +
464A ARG* 2.9 36.0 + - - +
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Residues in contact with ILE 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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38A LEU* 3.8 5.8 - - + +
446A ARG* 3.1 46.5 + - + +
447A ILE* 3.4 7.0 - - - +
449A SER* 1.3 83.9 + - - +
451A LEU* 1.3 63.2 + - - +
453A THR* 3.1 23.9 + - - -
454A PRO* 3.7 4.7 - - - +
464A ARG* 4.0 1.1 - - - +
473A VAL* 4.1 26.2 - - + -
474A ARG 3.9 6.1 - - - +
475A LEU* 3.9 26.0 - - + +
477A GLU* 4.0 8.7 - - + +
478A ALA* 3.7 33.0 - - + +
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Residues in contact with LEU 451 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A PHE* 5.2 1.7 - - - -
35A TRP* 3.8 13.0 - - + -
387A LEU* 3.7 37.9 - - + -
388A ALA* 4.0 26.2 - - - +
391A LEU* 4.5 15.0 - - + +
404A LEU* 4.8 8.0 - - - +
407A ALA* 4.2 17.9 - - + -
410A TYR* 5.7 0.2 - - + -
447A ILE* 3.2 24.2 - - + +
448A ALA* 3.1 10.2 + - - +
450A ILE* 1.3 76.0 - - - +
452A LEU* 1.3 59.4 + - - +
454A PRO* 3.7 9.2 - - - +
475A LEU* 4.0 19.7 - - + -
478A ALA* 4.2 11.2 - - + -
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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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322A TYR* 4.5 11.9 - - + -
353A LEU* 4.3 16.8 - - + -
404A LEU* 3.8 24.7 - - + -
407A ALA* 4.2 15.5 - - + -
408A MET* 4.5 14.6 - - + -
411A VAL* 4.6 4.9 - - + -
448A ALA* 3.0 32.8 + - + +
449A SER 3.6 0.4 - - - -
451A LEU* 1.3 76.6 - - - +
453A THR* 1.3 66.1 + - - +
454A PRO* 3.3 3.4 - - - -
455A ALA* 3.0 17.2 + - + +
456A MET* 3.0 27.3 + - + -
460A MET* 3.7 26.0 - - + +
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Residues in contact with THR 453 (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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34A ARG* 5.7 4.3 - - + +
38A LEU* 4.2 22.2 - - + -
449A SER 2.9 19.9 + - - -
450A ILE* 3.1 12.9 + - - -
452A LEU* 1.3 75.7 - - - +
454A PRO* 1.3 71.2 - - + +
455A ALA 3.0 0.5 + - - -
456A MET 4.3 0.2 - - - -
457A PRO* 3.0 36.2 - - + +
460A MET* 3.8 8.4 - - - +
464A ARG* 3.1 28.8 + - - +
473A VAL* 4.3 3.0 - - + +
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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