Contacts of the helix formed by residues 519 - 551 (chain C) in PDB entry 5N7K
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 519 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
515C LYS 3.1 12.4 + - - +
516C LYS* 2.9 28.6 + - + +
518C ASN* 1.4 74.0 - - - +
520C PRO* 1.4 71.3 - - - +
521C THR* 3.5 18.1 + - - +
522C PHE* 3.0 22.5 + - + +
523C LEU* 2.9 29.0 + - - +
520D PRO* 6.1 0.5 - - - +
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Residues in contact with PRO 520 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
518C ASN 3.5 7.6 - - - +
519C ASP* 1.4 89.8 - - - +
521C THR* 1.4 55.4 + - - +
523C LEU* 3.4 9.9 + - + +
524C GLU* 3.0 32.8 + - + +
519D ASP* 5.9 1.6 - - - +
521D THR* 3.5 17.3 - - + +
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Residues in contact with THR 521 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
444B ALA* 6.2 2.0 - - + -
519C ASP* 3.2 16.5 + - - +
520C PRO* 1.4 75.2 - - - +
522C PHE* 1.4 64.9 + - - +
524C GLU* 3.2 7.9 + - - +
525C LYS* 3.1 36.7 + - + +
520D PRO* 3.7 14.7 - - - +
521D THR* 3.5 26.6 + - - +
524D GLU* 3.8 29.8 - - + +
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Residues in contact with PHE 522 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
475C GLU 4.6 0.7 - - - -
476C VAL* 3.7 39.5 - - + -
479C VAL* 3.5 30.7 - - + -
480C LEU* 3.9 22.0 - - + -
516C LYS* 3.5 42.2 - - + +
517C LYS* 4.0 13.9 - - - -
519C ASP* 3.0 20.0 + - - +
521C THR* 1.4 75.2 - - - +
523C LEU* 1.3 73.7 + - + +
525C LYS* 3.2 16.1 + - + +
526C LYS* 3.0 32.4 + - + +
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Residues in contact with LEU 523 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
517C LYS 3.3 22.4 - - - +
518C ASN* 3.9 22.9 - - - +
519C ASP 2.9 15.8 + - - +
520C PRO* 3.8 8.5 - - + +
522C PHE* 1.3 85.7 - - + +
524C GLU* 1.3 57.0 + - - +
526C LYS* 3.5 17.5 + - + +
527C GLU* 2.9 28.1 + - - +
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Residues in contact with GLU 524 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
520C PRO* 3.0 20.0 + - + +
521C THR* 3.4 9.6 - - + +
522C PHE 3.2 0.2 - - - -
523C LEU* 1.3 73.3 - - - +
525C LYS* 1.4 64.0 + - - +
527C GLU* 3.2 27.4 + - - +
528C ARG* 3.0 23.6 + - - +
521D THR* 3.7 29.2 - - + +
524D GLU* 6.3 3.6 - - + -
525D LYS* 4.4 16.7 + - - -
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Residues in contact with LYS 525 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
441B ASP* 3.7 22.5 + - - +
444B ALA* 5.4 2.2 - - - +
472C LEU* 4.4 22.0 - - + +
475C GLU* 3.5 29.9 + - + +
476C VAL* 4.1 14.1 - - + -
521C THR* 3.1 35.4 + - + +
522C PHE* 3.2 15.5 + - + +
524C GLU* 1.4 71.8 - - - +
526C LYS* 1.3 62.7 + - - +
528C ARG* 3.3 10.2 + - - +
529C CYS* 3.2 24.1 + - - -
438D SER 5.2 6.3 - - - +
524D GLU* 4.8 4.6 + - - -
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Residues in contact with LYS 526 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
476C VAL* 3.9 32.7 - - + +
480C LEU* 4.3 17.2 - - + +
522C PHE* 3.0 26.5 + - + +
523C LEU* 3.7 18.4 - - + +
525C LYS* 1.3 75.7 - - - +
527C GLU* 1.3 61.5 + - - +
529C CYS* 3.1 5.5 + - + +
530C ASP* 3.0 50.4 + - - +
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Residues in contact with GLU 527 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
438C SER* 5.3 2.4 + - - -
439C MET* 3.3 35.6 - - - +
523C LEU 2.9 17.9 + - - +
524C GLU* 3.2 31.4 + - - +
526C LYS* 1.3 74.3 - - - +
528C ARG* 1.3 56.1 + - - +
530C ASP* 3.4 8.9 + - - +
531C TYR* 3.0 28.3 + - - +
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Residues in contact with ARG 528 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
438C SER 4.9 7.1 + - - -
465C GLN* 3.5 15.8 + - - -
468C GLU* 2.8 36.3 + - - +
472C LEU* 3.6 22.7 - - + -
524C GLU 3.0 12.1 + - - +
525C LYS* 3.3 12.3 - - - +
527C GLU* 1.3 74.0 - - - +
529C CYS* 1.3 58.0 + - - +
531C TYR* 3.5 27.7 + - - +
532C LEU* 2.9 49.2 + - + +
535C LYS* 5.9 0.6 - - - +
468D GLU* 3.3 35.6 + - - +
528D ARG* 3.7 3.0 - - - +
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Residues in contact with CYS 529 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
469C TYR* 3.4 18.4 - - + -
472C LEU* 3.6 22.4 - - - -
473C SER* 3.5 38.1 - - - +
476C VAL* 4.0 9.9 - - + -
525C LYS 3.2 14.0 + - - -
526C LYS* 3.1 11.1 + - + +
528C ARG* 1.3 72.1 - - - +
530C ASP* 1.3 64.6 + - - +
532C LEU* 4.5 0.9 - - - -
533C LYS* 2.8 32.8 + - - +
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Residues in contact with ASP 530 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
526C LYS* 3.0 50.3 + - - +
527C GLU* 3.9 7.4 - - - +
528C ARG 3.4 0.2 - - - -
529C CYS* 1.3 78.7 - - - +
531C TYR* 1.3 59.2 + - - +
533C LYS* 3.9 7.4 - - - +
534C ASN* 3.0 33.9 + - - +
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Residues in contact with TYR 531 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
438C SER 4.7 1.1 - - - -
439C MET* 3.7 39.3 - - + -
440C PRO* 2.7 54.6 + - + +
442C TYR* 3.7 25.8 - + - +
527C GLU 3.0 18.1 + - - +
528C ARG* 3.7 30.3 - - - +
530C ASP* 1.3 74.5 - - - +
532C LEU* 1.4 64.4 + - + +
534C ASN* 3.1 9.8 + - + +
535C LYS* 2.8 53.8 + - + +
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Residues in contact with LEU 532 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
465C GLN* 3.5 37.5 - - + +
468C GLU* 3.9 14.8 - - + +
469C TYR* 3.8 35.9 - - + +
472C LEU* 5.0 2.5 - - + -
528C ARG* 2.9 63.0 + - + +
529C CYS* 5.0 0.4 - - - -
531C TYR* 1.4 70.8 - - + +
533C LYS* 1.3 59.0 + - - +
535C LYS* 4.2 15.0 - - + -
536C LEU* 2.9 40.1 + - + +
----------------------------------------------------------
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Residues in contact with LYS 533 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
469C TYR* 3.7 31.8 - - + +
529C CYS 2.8 22.5 + - - +
530C ASP* 3.9 9.4 - - - +
532C LEU* 1.3 70.2 - - - +
534C ASN* 1.3 60.2 + - - +
536C LEU* 4.0 3.2 - - - +
537C SER* 2.7 42.2 + - - +
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Residues in contact with ASN 534 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
442C TYR* 3.3 28.8 + - + +
530C ASP* 3.0 20.3 + - - +
531C TYR* 3.1 10.6 + - - +
533C LYS* 1.3 80.5 - - - +
535C LYS* 1.4 63.7 + - - +
537C SER* 3.3 7.5 + - - -
538C HIS* 3.2 22.5 + - - +
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Residues in contact with LYS 535 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
440C PRO* 5.3 3.0 - - - +
442C TYR* 3.8 31.9 - - + -
445C LYS* 4.9 6.7 - - - +
446C TYR* 4.4 13.2 - - - -
461C VAL* 4.4 4.9 - - - -
465C GLN* 3.5 25.8 + - + +
528C ARG* 5.9 0.6 - - - +
531C TYR* 2.8 46.6 + - + +
532C LEU* 3.7 11.7 - - + +
534C ASN* 1.4 70.8 - - - +
536C LEU* 1.3 63.7 + - + +
538C HIS* 3.2 6.8 + - - +
539C ILE* 3.1 38.0 + - + +
464D ASP* 3.1 27.9 + - - -
468D GLU* 5.6 2.2 + - - -
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Residues in contact with LEU 536 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
462C PHE* 3.2 58.8 - - + +
465C GLN* 3.7 21.1 - - + +
466C PHE* 3.8 14.6 - - + +
469C TYR* 3.7 40.8 - - + -
532C LEU* 2.9 28.1 + - + +
533C LYS* 4.1 2.9 - - - +
535C LYS* 1.3 71.9 - - + +
537C SER* 1.4 60.6 + - - +
539C ILE* 3.5 6.6 + - + +
540C LYS* 2.9 24.9 + - - +
----------------------------------------------------------
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Residues in contact with SER 537 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
533C LYS* 2.7 31.3 + - - +
534C ASN* 3.6 7.5 + - - -
535C LYS 3.3 0.2 - - - -
536C LEU* 1.4 76.3 - - - +
538C HIS* 1.3 54.2 + - - +
540C LYS* 3.4 8.0 + - - +
541C GLN* 2.8 38.3 + - - +
----------------------------------------------------------
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Residues in contact with HIS 538 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
442C TYR* 3.2 43.9 + + + -
443C VAL* 3.6 25.6 - - + +
446C TYR* 2.8 35.4 + - + -
534C ASN 3.2 5.2 + - - +
535C LYS 3.2 9.7 + - - +
537C SER* 1.3 77.1 - - - +
539C ILE* 1.4 52.5 + - + +
541C GLN* 3.2 16.9 + - - +
542C ARG* 2.8 67.3 + - + +
----------------------------------------------------------
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Residues in contact with ILE 539 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
446C TYR* 3.9 36.8 - - + -
458C TYR* 3.4 40.6 - - + +
461C VAL* 3.9 27.4 - - + -
462C PHE* 4.0 12.6 - - + +
535C LYS* 3.1 28.4 + - + +
536C LEU* 4.0 7.4 - - + +
538C HIS* 1.4 75.3 - - + +
540C LYS* 1.4 61.7 + - - +
542C ARG* 3.1 8.6 + - - +
543C ILE* 3.1 28.6 + - + +
----------------------------------------------------------
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Residues in contact with LYS 540 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
462C PHE* 3.8 25.6 - - + -
536C LEU 2.9 21.9 + - - +
537C SER* 3.6 7.9 - - - +
539C ILE* 1.4 70.5 - - - +
541C GLN* 1.4 57.3 + - - +
543C ILE* 3.4 10.6 + - - +
544C GLN* 3.0 62.1 + - + +
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Residues in contact with GLN 541 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
537C SER* 2.8 23.1 + - - +
538C HIS* 3.2 16.0 + - - +
540C LYS* 1.4 71.5 - - - +
542C ARG* 1.4 59.4 + - - +
544C GLN* 3.4 11.0 + - - +
545C GLU* 2.9 33.6 + - + +
----------------------------------------------------------
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Residues in contact with ARG 542 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
443C VAL* 4.0 15.2 + - - +
446C TYR 2.9 24.4 + - - +
447C PRO* 3.3 21.5 - - - +
448C VAL* 3.5 30.0 - - - +
449C ILE* 3.5 12.7 + - + +
458C TYR* 3.9 19.1 - - + -
538C HIS* 2.8 43.8 + - + +
539C ILE 3.1 8.3 + - - +
541C GLN* 1.4 74.6 - - + +
543C ILE* 1.4 63.2 + - - +
545C GLU* 3.6 21.8 + - - +
546C TYR* 3.2 18.2 + - - +
----------------------------------------------------------
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Residues in contact with ILE 543 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
449C ILE* 3.6 10.8 - - + -
455C ARG* 3.6 41.7 - - + +
458C TYR* 3.9 18.2 - - + -
459C LYS* 3.8 33.7 - - + +
462C PHE* 4.8 5.4 - - + -
539C ILE* 3.1 25.0 + - + +
540C LYS* 3.8 8.3 - - - +
542C ARG* 1.4 74.6 - - - +
544C GLN* 1.4 61.2 + - + +
546C TYR* 3.3 3.5 + - - +
547C ASP* 2.9 31.5 + - - +
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Residues in contact with GLN 544 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
540C LYS* 3.0 50.8 + - + +
541C GLN* 3.8 10.5 - - - +
543C ILE* 1.4 74.0 - - + +
545C GLU* 1.4 62.9 - - - +
547C ASP* 3.4 8.8 + - - +
548C LYS* 3.1 45.5 + - - +
----------------------------------------------------------
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Residues in contact with GLU 545 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
448C VAL* 3.8 29.3 - - - +
449C ILE 5.8 0.2 - - - -
541C GLN* 2.9 20.4 + - + +
542C ARG* 3.7 34.4 + - - +
543C ILE 3.3 0.2 - - - -
544C GLN* 1.4 74.6 - - - +
546C TYR* 1.4 62.8 + - - +
548C LYS* 3.3 15.0 + - - +
549C VAL* 3.2 29.7 + - + +
----------------------------------------------------------
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Residues in contact with TYR 546 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
449C ILE* 3.5 32.8 - - + +
450C GLN* 3.8 22.0 + - - -
451C THR* 3.3 8.2 - - - -
452C ASP* 2.8 42.1 + - - -
455C ARG* 3.9 31.2 - - + -
542C ARG 3.2 14.8 + - - +
543C ILE 3.6 3.6 - - - +
545C GLU* 1.4 77.0 - - + +
547C ASP* 1.3 70.8 + - - +
549C VAL* 3.1 8.3 + - + +
550C MET* 3.0 62.8 + - + +
----------------------------------------------------------
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Residues in contact with ASP 547 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
455C ARG* 2.9 45.3 + - - -
543C ILE* 2.9 23.5 + - - +
544C GLN* 3.7 9.8 - - - +
545C GLU 3.4 0.2 - - - -
546C TYR* 1.3 78.4 - - - +
548C LYS* 1.3 57.1 + - + +
550C MET* 4.6 1.3 - - - +
551C ASN* 2.8 54.2 + - - +
----------------------------------------------------------
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Residues in contact with LYS 548 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
544C GLN* 3.1 32.9 + - - +
545C GLU* 3.4 12.0 - - - +
546C TYR 3.3 0.4 - - - -
547C ASP* 1.3 77.0 - - + +
549C VAL* 1.3 62.7 + - + +
551C ASN* 3.7 13.1 + - - +
----------------------------------------------------------
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Residues in contact with VAL 549 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
545C GLU* 3.2 20.8 + - + +
546C TYR* 3.1 10.3 + - + +
548C LYS* 1.3 79.8 - - + +
550C MET* 1.3 70.4 + - + +
551C ASN 4.3 3.1 - - - +
----------------------------------------------------------
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Residues in contact with MET 550 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
450C GLN 5.8 1.1 - - - +
452C ASP* 4.7 8.1 - - - +
546C TYR* 3.0 62.7 + - + +
547C ASP* 4.9 0.9 - - - -
549C VAL* 1.3 88.1 - - + +
551C ASN* 1.3 71.9 + - - +
----------------------------------------------------------
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Residues in contact with ASN 551 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
547C ASP* 2.8 40.4 + - - +
548C LYS* 4.2 11.1 - - - +
549C VAL 3.5 3.8 - - - +
550C MET* 1.3 88.0 - - - +
----------------------------------------------------------
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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