Contacts of the helix formed by residues 441 - 466 (chain A) in PDB entry 1UN0
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 441 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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401A LYS* 3.3 38.0 + - - +
439A ILE* 3.2 11.2 + - + +
440A ALA* 1.3 78.2 - - - +
442A ASN* 1.3 65.1 + - - +
443A ARG* 2.7 29.1 + - - +
444A ILE* 3.5 15.7 + - + +
445A ILE* 3.2 25.8 + - - +
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Residues in contact with ASN 442 (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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440A ALA 5.7 0.3 - - - -
441A ASP* 1.3 72.7 + - - +
443A ARG* 1.3 66.5 + - - +
445A ILE* 3.9 13.5 - - - +
446A GLU* 3.2 25.6 + - - +
492A ASN* 3.1 34.4 + - - +
493A GLU* 4.4 13.9 + - - +
494A ASN* 4.7 16.4 - - + +
497A ILE* 3.7 10.4 - - + +
525A ALA* 5.1 3.5 - - - +
526A GLY* 5.5 5.8 + - - +
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Residues in contact with ARG 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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405A TRP* 3.6 39.6 - - + +
441A ASP* 2.7 23.1 + - - +
442A ASN* 1.3 75.2 - - - +
444A ILE* 1.3 60.2 + - + +
446A GLU* 3.5 17.7 + - - +
447A VAL* 3.3 27.0 + - - +
38C ARG* 5.4 3.2 - - - +
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Residues in contact with ILE 444 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
401A LYS* 3.6 35.9 - - + +
404A CYS* 3.9 4.7 - - + -
405A TRP* 3.3 39.3 - - + +
436A LEU* 3.5 31.9 - - + +
439A ILE* 4.1 14.8 - - + -
441A ASP* 3.4 21.4 + - - +
443A ARG* 1.3 76.3 - - + +
445A ILE* 1.3 55.8 + - - +
446A GLU 3.1 2.2 - - - -
447A VAL* 3.2 5.3 + - + +
448A THR* 2.8 40.4 + - - +
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Residues in contact with ILE 445 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
436A LEU 5.4 0.2 - - - -
437A LEU* 3.2 41.8 - - + +
439A ILE* 3.5 20.4 - - + +
440A ALA* 5.5 0.2 - - - -
441A ASP 3.2 16.6 + - - +
442A ASN* 3.9 21.1 - - - +
443A ARG 3.5 0.2 - - - -
444A ILE* 1.3 75.3 - - - +
446A GLU* 1.3 58.0 + - - +
448A THR* 3.2 7.4 + - - -
449A LEU* 2.9 31.4 + - + +
489A CYS* 4.1 10.1 - - - -
492A ASN* 4.4 5.6 - - - +
497A ILE* 3.8 27.8 - - + -
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Residues in contact with GLU 446 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
442A ASN 3.2 15.9 + - - +
443A ARG* 3.5 18.3 + - - +
444A ILE 3.1 0.2 - - - -
445A ILE* 1.3 79.3 - - - +
447A VAL* 1.3 64.8 + - + +
449A LEU* 3.1 8.1 + - - +
450A ASP* 3.0 31.1 + - - +
494A ASN* 4.8 7.4 + - - +
496A LYS* 3.2 33.2 + - + +
497A ILE* 3.5 22.4 - - + +
500A LYS* 4.0 15.9 - - - +
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Residues in contact with VAL 447 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
404A CYS* 4.2 13.5 - - - +
405A TRP* 3.2 57.7 - - + +
408A SER* 2.8 46.7 + - - +
409A ASN* 5.3 0.4 - - - +
443A ARG* 3.3 15.0 + - - +
444A ILE* 3.2 8.9 + - + +
446A GLU* 1.3 78.9 - - + +
448A THR* 1.3 58.5 + - - +
450A ASP* 3.3 8.8 + - - +
451A ALA 3.0 14.7 + - - -
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Residues in contact with THR 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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404A CYS* 3.1 21.3 - - - -
433A LEU* 3.0 42.1 - - + +
436A LEU* 3.5 9.7 - - - +
437A LEU* 3.7 19.3 - - + +
444A ILE* 2.8 23.8 + - - +
445A ILE* 3.4 6.5 - - - -
447A VAL* 1.3 72.6 - - - +
449A LEU* 1.3 59.3 + - - +
451A ALA* 3.4 6.9 + - - +
452A LEU* 3.0 28.9 + - + +
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Residues in contact with LEU 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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437A LEU* 3.4 21.5 - - + -
445A ILE* 2.9 23.2 + - + +
446A GLU* 3.1 5.8 + - - +
448A THR* 1.3 73.2 - - - +
450A ASP* 1.3 56.1 + - - +
452A LEU* 3.7 4.9 - - + +
453A GLU* 2.8 35.5 + - - +
486A ILE* 3.8 33.7 - - + -
489A CYS* 4.5 4.7 - - - -
497A ILE* 3.9 38.1 - - + +
500A LYS* 3.8 17.0 - - + -
501A ALA* 4.4 12.6 - - + +
504A ILE* 3.8 11.5 - - + +
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Residues in contact with ASP 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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408A SER* 4.4 3.8 - - - +
446A GLU* 3.0 24.5 + - - +
447A VAL* 3.3 12.3 + - - +
449A LEU* 1.3 72.7 - - - +
451A ALA* 1.3 64.6 + - - +
453A GLU* 3.5 8.5 + - - +
454A ASN* 3.1 35.9 + - - +
496A LYS* 4.4 4.7 + - - -
500A LYS* 3.2 30.5 + - - +
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Residues in contact with ALA 451 (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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407A ILE* 5.2 0.7 - - + +
408A SER* 3.3 32.0 + - - +
411A SER* 3.7 14.8 + - - +
433A LEU* 4.0 20.6 - - + -
447A VAL 3.0 7.3 + - - +
448A THR* 3.5 10.3 - - - +
449A LEU 3.3 0.2 - - - -
450A ASP* 1.3 77.4 - - - +
452A LEU* 1.3 63.4 + - - +
454A ASN* 3.4 3.5 + - - +
455A ILE* 3.1 29.1 + - + +
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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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430A ILE* 4.6 4.0 - - + +
433A LEU* 4.1 24.5 - - + -
434A CYS* 4.2 16.4 - - - -
437A LEU* 3.8 29.2 - - + -
448A THR* 3.0 30.6 + - + +
449A LEU* 3.3 8.0 + - - +
451A ALA* 1.3 73.7 - - - +
453A GLU* 1.3 60.1 + - - +
455A ILE* 3.4 10.9 + - + +
456A LEU* 3.0 35.6 + - + +
477A ILE* 3.9 24.5 - - + +
486A ILE* 4.1 17.9 - - + -
504A ILE* 5.1 2.0 - - + -
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Residues in contact with GLU 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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449A LEU 2.8 21.4 + - - +
450A ASP* 3.8 8.9 - - - +
452A LEU* 1.3 71.6 - - - +
454A ASN* 1.3 57.1 + - - +
456A LEU* 2.8 11.3 + - - +
457A LYS* 2.7 61.4 + - + +
500A LYS* 3.8 21.8 - - - +
503A LYS* 3.0 36.7 + - - +
504A ILE* 4.0 18.9 - - + +
508A TYR* 4.2 16.0 + - - +
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Residues in contact with ASN 454 (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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408A SER* 4.7 0.8 + - - -
411A SER* 3.2 45.8 + - - +
412A SER* 3.9 8.3 + - - +
415A LEU* 3.7 27.3 - - + +
421A ILE* 4.2 3.8 - - + +
450A ASP* 3.1 24.8 + - - +
451A ALA 3.6 4.5 - - - +
453A GLU* 1.3 77.1 - - - +
455A ILE* 1.3 60.4 + - - +
457A LYS* 3.9 16.8 + - - +
458A MET* 3.1 24.9 + - - +
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Residues in contact with ILE 455 (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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411A SER* 5.2 2.7 - - - -
421A ILE* 4.0 24.9 - - + -
424A LEU* 5.6 2.9 - - + -
425A VAL* 4.0 9.2 - - + -
429A CYS* 4.2 11.2 - - - -
430A ILE* 4.1 26.9 - - + -
433A LEU* 4.1 20.6 - - + -
451A ALA* 3.1 17.2 + - + +
452A LEU* 3.6 13.2 - - + +
454A ASN* 1.3 77.6 - - - +
456A LEU* 1.3 58.5 + - - +
458A MET* 3.9 0.5 - - - +
459A GLY 3.0 10.4 + - - -
473A ASN* 2.7 52.5 + - + +
477A ILE* 4.7 5.8 - - + -
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Residues in contact with LEU 456 (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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452A LEU* 3.0 22.8 + - + +
453A GLU* 2.8 9.2 + - - +
455A ILE* 1.3 76.2 - - - +
457A LYS* 1.3 53.0 + - - +
459A GLY 3.0 1.2 + - - -
460A GLU* 2.7 32.6 + - - +
471A ASN* 3.2 9.4 + - - +
473A ASN* 4.2 1.6 - - - -
474A ALA* 3.4 42.8 - - + +
477A ILE* 3.8 19.5 - - + -
486A ILE* 5.4 0.7 - - + -
504A ILE* 3.8 29.8 - - + -
508A TYR* 3.8 34.5 - - + -
509A PHE* 4.5 5.6 - - + -
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Residues in contact with LYS 457 (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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415A LEU* 4.3 22.7 - - + +
453A GLU* 2.7 53.1 + - + +
454A ASN* 3.9 17.6 + - - +
456A LEU* 1.3 71.9 - - - +
458A MET* 1.3 58.0 + - - +
460A GLU* 3.8 2.7 - - - +
461A ALA* 3.1 28.4 + - - +
503A LYS* 4.3 9.4 - - - +
508A TYR* 3.1 23.5 + - - +
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Residues in contact with MET 458 (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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414A GLY 4.0 15.3 - - - +
415A LEU* 5.2 2.7 - - + -
418A PRO* 3.7 20.2 - - + +
421A ILE* 3.8 39.9 - - + -
422A ARG* 3.6 27.6 - - - +
454A ASN 3.1 15.7 + - - +
455A ILE 4.0 0.4 - - - +
457A LYS* 1.3 77.3 - - - +
459A GLY* 1.3 61.5 + - - +
460A GLU 3.2 0.2 - - - -
461A ALA* 3.9 4.6 - - + +
462A ASP* 3.0 49.8 + - + +
473A ASN* 4.6 4.9 - - - -
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Residues in contact with GLY 459 (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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455A ILE 3.0 11.5 + - - -
456A LEU 3.0 1.8 + - - -
458A MET* 1.3 78.7 - - - +
460A GLU* 1.3 59.0 + - - +
462A ASP* 3.4 7.3 - - - +
463A LYS* 3.3 21.7 + - - +
471A ASN* 3.2 24.5 - - - +
472A GLU* 4.7 2.8 + - - +
473A ASN* 3.5 18.6 - - - +
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Residues in contact with GLU 460 (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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456A LEU 2.7 14.9 + - - +
457A LYS* 4.0 4.7 - - - +
459A GLY* 1.3 70.7 - - - +
461A ALA* 1.3 60.7 + - - +
462A ASP 3.1 1.8 - - - -
463A LYS* 3.0 50.6 + - - +
464A GLU* 3.0 36.0 + - + +
471A ASN* 3.1 23.9 + - - +
507A THR* 4.4 8.5 - - + +
508A TYR* 3.4 28.2 - - + +
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Residues in contact with ALA 461 (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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457A LYS 3.1 20.5 + - - +
458A MET* 4.2 5.2 - - + +
460A GLU* 1.3 74.8 - - - +
462A ASP* 1.3 57.1 + - - +
464A GLU* 4.0 7.4 - - - +
465A ALA* 3.0 29.6 + - - +
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Residues in contact with ASP 462 (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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422A ARG* 3.1 33.5 + - - +
458A MET* 3.0 29.5 + - + +
459A GLY* 3.4 10.5 - - - +
460A GLU 3.1 0.4 - - - -
461A ALA* 1.3 79.2 - - - +
463A LYS* 1.3 59.8 + - - +
465A ALA* 3.7 4.4 + - - +
466A ARG* 3.3 55.0 + - - +
472A GLU* 5.0 1.6 - - - +
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Residues in contact with LYS 463 (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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459A GLY 3.3 8.6 + - - +
460A GLU* 3.0 49.1 + - - +
462A ASP* 1.3 78.5 - - - +
464A GLU* 1.3 71.4 + - - +
465A ALA 3.3 0.9 - - - -
466A ARG* 3.6 2.0 - - - +
467A GLY* 3.2 7.4 + - - -
468A LEU* 2.8 59.3 + - + +
469A ASN* 4.2 9.7 + - - +
470A ILE* 3.1 44.5 - - - +
471A ASN* 3.6 11.0 - - + +
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Residues in contact with GLU 464 (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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460A GLU* 3.0 45.1 + - + +
461A ALA* 4.5 5.6 - - - +
463A LYS* 1.3 88.5 + - + +
465A ALA* 1.3 62.8 + - - +
466A ARG 3.6 0.3 + - - -
467A GLY* 3.9 8.6 + - - +
468A LEU 4.7 3.1 - - - +
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Residues in contact with ALA 465 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
461A ALA 3.0 22.9 + - - +
462A ASP* 3.9 6.5 - - - +
463A LYS 3.3 0.4 - - - -
464A GLU* 1.3 79.3 - - - +
466A ARG* 1.3 58.5 + - + +
467A GLY 3.7 0.6 + - - -
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Residues in contact with ARG 466 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
462A ASP* 3.3 36.7 + - - +
463A LYS* 3.6 2.4 - - - +
464A GLU 3.3 0.2 - - - -
465A ALA* 1.3 78.8 - - + +
467A GLY* 1.3 57.5 + - - +
468A LEU* 2.9 36.8 + - + +
472A GLU* 3.4 24.2 + - - -
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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