Contacts of the helix formed by residues 422 - 445 (chain A) in PDB entry 1QWN
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 ARG 422 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
421A SER* 1.3 74.4 - - - +
423A PRO* 1.3 73.8 - - - +
424A TYR* 3.2 3.6 - - - +
425A HIS* 3.2 33.5 + - + +
426A LYS* 3.3 10.0 + - - +
474A ILE 5.2 0.3 - - - +
476A GLY* 2.8 47.8 + - - -
477A THR* 4.1 1.4 - - - +
478A ALA 2.8 30.3 + - - +
480A THR 3.9 2.6 - - - +
483A VAL* 3.8 19.8 - - + +
867A ASP* 4.8 0.8 + - - -
868A ARG* 5.6 0.2 - - - +
878A LEU* 4.8 3.0 - - - +
880A GLN* 3.5 19.2 - - - +
881A GLY 4.7 0.2 + - - -
882A VAL* 3.8 28.1 - - - +
884A ASP* 2.8 40.9 + - - +
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Residues in contact with PRO 423 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
420A THR 3.2 17.2 - - - +
421A SER* 4.5 0.2 - - - -
422A ARG* 1.3 86.9 - - - +
424A TYR* 1.3 66.8 + - - +
425A HIS 3.2 0.2 - - - -
426A LYS* 3.3 9.5 + - + +
427A ARG* 3.0 23.7 + - - +
852A LEU* 4.0 6.5 - - + -
866A GLN 3.6 9.4 - - - +
867A ASP* 3.1 38.4 - - - +
885A ASN* 5.4 1.6 - - - +
886A LYS 5.9 0.2 - - - +
888A VAL* 4.0 11.4 - - + +
890A HIS* 3.6 23.6 - - + +
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Residues in contact with TYR 424 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
422A ARG* 3.2 1.2 - - - -
423A PRO* 1.3 81.9 - - - +
425A HIS* 1.3 81.1 + + + +
427A ARG* 3.3 4.2 + - - +
428A MET* 3.0 27.7 + - - +
487A GLU* 3.7 23.5 + - - -
491A GLN* 6.0 0.2 + - - -
531A TRP* 3.3 39.3 - + - -
532A PRO* 4.0 13.6 - - - +
536A VAL* 3.8 14.9 - - + +
537A GLU* 4.9 3.8 + - - -
886A LYS* 3.8 35.9 + - + +
887A PRO 3.3 25.8 - - - -
888A VAL* 3.7 19.6 - - + +
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Residues in contact with HIS 425 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
422A ARG* 3.2 21.5 + - + +
424A TYR* 1.3 96.4 - + + +
426A LYS* 1.3 60.5 + - - +
428A MET* 3.6 9.9 - - - +
429A ASP 2.9 24.4 + - - -
468A PHE* 3.4 34.2 - + + -
474A ILE 6.1 0.2 - - - +
483A VAL* 3.3 34.0 - - + +
486A TYR* 5.9 0.2 - - + -
487A GLU* 2.9 48.6 + - + +
490A MET* 4.4 2.9 - - + -
884A ASP* 6.0 0.9 - - - -
886A LYS* 4.3 9.4 - - + -
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Residues in contact with LYS 426 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172A ASN* 3.6 11.7 - - - -
418A TYR 2.8 22.5 + - - -
419A TYR 3.2 25.4 - - - +
420A THR 3.7 9.6 - - - +
421A SER 2.7 27.7 + - - +
422A ARG 3.3 8.1 + - - +
423A PRO* 3.6 11.0 - - + +
425A HIS* 1.3 77.4 - - - +
427A ARG* 1.3 61.9 + - - +
429A ASP* 3.3 19.3 - - - +
430A ARG* 3.6 2.8 + - - +
468A PHE* 4.9 0.2 - - - -
474A ILE* 2.8 35.6 + - + +
475A THR* 3.1 6.3 + - - +
850A GLN* 4.9 1.6 - - + -
851A PRO* 3.4 46.5 - - + +
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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
----------------------------------------------------------
423A PRO 3.0 12.5 + - - +
424A TYR 3.6 7.4 - - - +
426A LYS* 1.3 73.2 - - - +
428A MET* 1.3 64.9 + - - +
430A ARG* 3.0 19.2 + - - +
431A VAL* 3.2 35.6 + - - +
528A ASP* 5.5 0.6 + - - -
530A ARG* 3.4 30.7 + - - +
531A TRP* 3.6 18.7 - - + +
849A GLY* 3.0 26.2 + - - -
850A GLN* 3.5 27.4 + - + +
888A VAL* 4.2 9.2 - - + -
889A LEU 3.9 20.2 + - - +
891A ILE* 3.5 30.2 - - - +
925A LEU 4.4 7.5 + - - -
926A LEU* 5.6 0.4 - - - +
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Residues in contact with MET 428 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
424A TYR* 3.0 15.5 + - - +
425A HIS* 3.3 11.4 + - - +
427A ARG* 1.3 76.8 - - - +
429A ASP* 1.3 62.1 + - - +
431A VAL* 3.2 4.4 + - + +
432A LEU* 2.9 23.8 + - + +
487A GLU* 3.7 27.4 - - + +
490A MET* 3.7 29.6 - - + -
491A GLN* 3.7 37.0 - - + +
494A LEU* 3.9 21.8 - - + -
531A TRP* 3.5 37.2 - - + -
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Residues in contact with ASP 429 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177A ASN* 3.6 10.0 + - - -
425A HIS 2.9 12.9 + - - +
426A LYS 3.3 12.3 - - - +
427A ARG 3.2 0.2 - - - -
428A MET* 1.3 75.6 - - - +
430A ARG* 1.3 85.7 + - - +
432A LEU 3.5 0.7 + - - -
433A MET* 2.8 27.4 + - - +
465A LEU* 3.6 9.5 - - - +
468A PHE* 3.8 9.0 - - + -
469A GLN* 2.8 30.9 + - - +
474A ILE* 3.5 20.4 - - + +
490A MET* 4.5 10.6 - - - -
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Residues in contact with ARG 430 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172A ASN 2.9 30.1 + - - -
174A HIS* 3.6 31.8 - - - +
426A LYS 4.0 8.7 - - - +
427A ARG* 3.0 8.8 + - - +
429A ASP* 1.3 102.1 + - - +
431A VAL* 1.3 66.8 + - - +
433A MET* 3.4 27.8 - - - +
434A HIS* 3.3 21.3 + - - +
474A ILE* 3.9 4.4 - - - +
832A PRO* 3.0 37.6 + - - +
849A GLY 3.4 28.9 - - - +
850A GLN* 4.0 5.1 - - - +
851A PRO* 3.7 10.1 - - - +
926A LEU* 4.2 16.2 - - + +
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Residues in contact with VAL 431 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
427A ARG* 3.2 44.3 + - - +
428A MET* 3.2 8.8 + - + +
430A ARG* 1.3 76.4 - - - +
432A LEU* 1.3 62.6 + - - +
434A HIS* 3.2 6.1 + - - +
435A TYR* 3.0 52.0 + - + -
494A LEU* 4.2 6.3 - - + -
528A ASP* 4.3 1.8 - - - +
531A TRP* 3.8 42.2 - - + -
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Residues in contact with LEU 432 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
428A MET* 2.9 17.2 + - + +
429A ASP* 4.0 2.7 - - - +
431A VAL* 1.3 73.5 - - - +
433A MET* 1.3 67.0 + - - +
435A TYR* 3.2 0.8 + - + -
436A VAL* 2.9 36.8 + - + +
465A LEU* 3.8 31.6 - - + -
490A MET* 3.7 33.4 - - + +
493A ALA* 3.8 33.0 - - + -
494A LEU* 3.7 30.7 - - + +
497A CYS* 4.2 4.9 - - - -
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Residues in contact with MET 433 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A HIS* 3.5 43.5 - - + -
176A ARG* 3.7 37.2 - - + +
177A ASN* 3.5 23.1 - - - +
429A ASP 2.8 19.0 + - - +
430A ARG* 3.4 26.9 - - - +
431A VAL 3.3 0.2 - - - -
432A LEU* 1.3 77.3 - - - +
434A HIS* 1.3 62.0 + - - +
436A VAL* 3.6 3.1 + - - +
437A ARG* 3.2 19.9 + - - +
465A LEU* 3.7 13.3 - - - +
926A LEU* 4.2 21.5 - - + +
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Residues in contact with HIS 434 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176A ARG* 4.5 3.1 - - - +
430A ARG 3.3 4.9 + - - +
431A VAL* 3.2 9.3 + - - +
432A LEU 3.2 0.6 - - - -
433A MET* 1.3 78.2 - - - +
435A TYR* 1.3 75.1 + + - +
437A ARG* 3.2 2.0 + - - +
438A ALA* 2.8 29.0 + - + +
560A THR* 3.8 17.7 - - + +
926A LEU 3.4 19.7 - - - +
927A ASP* 2.7 34.8 + - - +
928A PRO* 3.5 29.9 + - + +
930A ASP* 2.6 36.0 + - - -
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Residues in contact with TYR 435 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
431A VAL* 3.0 40.6 + - + +
432A LEU 3.8 3.6 - - - +
434A HIS* 1.3 87.7 - + - +
436A VAL* 1.3 60.3 + - - +
438A ALA* 4.0 4.2 - - - +
439A ALA* 2.9 32.7 + - - +
494A LEU* 3.6 38.1 - - + -
497A CYS* 3.6 16.9 - - + +
498A GLN* 5.4 0.7 - - + -
501A MET* 4.0 6.0 - - + +
526A LEU* 3.5 34.3 - - + +
528A ASP* 2.7 40.6 + - - +
531A TRP* 5.1 4.0 + + - -
930A ASP* 5.3 4.5 - - - -
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Residues in contact with VAL 436 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180A LEU* 4.3 15.0 - - + -
432A LEU* 2.9 29.9 + - + +
433A MET 3.8 4.0 - - - +
435A TYR* 1.3 72.9 - - - +
437A ARG* 1.3 68.7 + - - +
439A ALA* 3.9 0.8 - - - +
440A GLU* 2.9 47.7 + - + +
458A LEU* 6.0 0.9 - - + -
461A ALA* 4.1 19.1 - - + +
462A ARG* 4.2 17.0 - - + +
465A LEU* 3.9 13.9 - - + -
497A CYS* 3.8 19.3 - - - -
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Residues in contact with ARG 437 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176A ARG* 3.3 32.7 - - - +
433A MET 3.2 12.1 + - - +
434A HIS 3.6 6.7 - - - +
436A VAL* 1.3 81.8 - - - +
438A ALA* 1.4 58.3 + - - +
440A GLU* 3.5 6.0 + - - +
441A MET* 2.9 33.3 + - + +
560A THR* 2.9 51.1 + - - +
561A LEU* 3.6 5.2 - - - +
562A PRO* 4.4 0.2 - - - +
927A ASP* 3.8 11.2 + - - -
958A ASP* 2.8 42.0 + - - -
959A VAL 3.0 19.3 + - - -
960A SER* 3.5 21.4 - - - +
961A VAL* 5.4 2.5 - - - +
962A MET 5.0 1.7 + - - +
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Residues in contact with ALA 438 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
434A HIS* 2.8 28.6 + - + +
435A TYR* 4.0 1.6 - - - +
437A ARG* 1.4 74.1 - - - +
439A ALA* 1.3 58.4 + - - +
441A MET* 3.9 0.4 - - - +
442A LEU* 2.8 35.5 + - - +
501A MET* 3.7 24.7 - - + -
558A HIS* 4.1 13.0 - - + -
560A THR* 4.4 4.0 - - - +
930A ASP* 3.7 17.3 - - - +
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Residues in contact with ALA 439 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
435A TYR 2.9 18.8 + - - +
436A VAL 3.9 1.8 - - - +
438A ALA* 1.3 73.8 - - - +
440A GLU* 1.3 64.1 + - - +
442A LEU* 4.3 0.6 - - - +
443A SER* 2.8 30.7 + - - -
458A LEU* 3.7 19.5 - - + -
497A CYS* 3.9 19.3 - - + +
500A VAL* 3.7 7.4 - - + +
501A MET* 3.6 21.7 - - + +
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Residues in contact with GLU 440 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180A LEU* 4.3 0.5 - - - +
436A VAL* 2.9 32.8 + - + +
437A ARG* 4.0 4.6 - - - +
439A ALA* 1.3 76.5 - - - +
441A MET* 1.3 62.1 + - - +
443A SER* 3.6 5.1 + - - -
444A ALA* 3.1 25.1 + - - +
458A LEU* 4.1 19.8 - - + +
462A ARG* 2.8 37.0 + - + +
961A VAL* 4.8 3.7 - - + +
962A MET 3.4 13.6 - - - +
963A ARG* 2.8 48.1 + - + +
964A ARG 5.0 0.5 + - - -
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Residues in contact with MET 441 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
437A ARG* 2.9 23.6 + - + +
438A ALA* 3.9 2.7 - - - +
440A GLU* 1.3 75.2 - - - +
442A LEU* 1.3 65.5 + - - +
444A ALA* 3.1 13.9 + - - +
445A TRP* 3.3 22.7 + - - +
558A HIS* 4.3 8.1 - - + +
560A THR* 3.3 47.1 - - - +
627A MET* 3.9 32.1 - - + -
959A VAL* 3.9 20.9 - - + +
962A MET* 3.6 38.4 + - + +
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Residues in contact with LEU 442 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
438A ALA 2.8 25.0 + - - +
439A ALA 4.3 1.8 - - - +
441A MET* 1.3 73.3 - - - +
443A SER* 1.3 58.9 + - - +
445A TRP* 3.3 24.4 + - + +
446A HIS* 5.2 1.9 + - - -
501A MET* 4.0 28.0 - - + -
504A SER* 3.6 19.8 - - - +
505A VAL* 4.3 8.5 - - + -
508A LEU* 3.8 28.9 - - + +
558A HIS* 3.5 46.0 - - + +
629A LEU* 4.1 12.3 - - + -
932A PHE* 4.1 13.0 - - + -
946A PHE* 5.8 0.9 - - + -
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Residues in contact with SER 443 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
439A ALA 2.8 23.4 + - - -
440A GLU 3.6 2.6 + - - -
442A LEU* 1.3 76.0 - - - +
444A ALA* 1.3 63.9 + - - +
445A TRP 3.2 1.5 + - - -
446A HIS 3.1 8.1 + - - +
448A TRP* 3.0 33.5 + - - +
454A ILE* 3.9 8.3 - - - +
458A LEU* 3.5 20.1 - - - +
500A VAL* 3.6 11.9 - - - -
504A SER* 3.2 18.2 - - - -
964A ARG* 5.4 0.5 - - - +
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Residues in contact with ALA 444 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
440A GLU 3.1 19.4 + - - +
441A MET 3.1 8.6 + - - +
443A SER* 1.3 75.7 - - - +
445A TRP* 1.3 59.2 + - - +
446A HIS 3.1 0.4 - - - -
962A MET* 3.9 28.0 - - + +
963A ARG 4.5 0.2 - - - -
964A ARG* 2.9 56.3 + - + +
975A VAL* 4.6 2.1 - - + +
1003A LEU* 4.4 4.7 - - - +
----------------------------------------------------------
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Residues in contact with TRP 445 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
441A MET* 3.3 29.6 + - + +
442A LEU* 3.3 20.9 - - - +
443A SER 3.2 1.0 - - - -
444A ALA* 1.3 77.8 - - - +
446A HIS* 1.3 63.5 + - + +
508A LEU* 4.0 27.8 - - + +
558A HIS* 5.7 0.6 + - - -
627A MET* 3.8 24.1 + - + -
946A PHE* 3.6 22.8 - + + -
950A HIS* 3.4 38.6 - + - -
962A MET* 3.8 33.9 - - + -
964A ARG* 3.5 8.1 + - - -
1002A LEU* 3.9 29.2 - - + -
1003A LEU* 3.6 25.7 - - + +
----------------------------------------------------------
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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