Contacts of the helix formed by residues 452 - 498 (chain A) in PDB entry 1L8D
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 THR 452 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
442A GLY* 4.7 3.8 - - - +
450A GLU* 4.1 23.1 - - + +
451A LEU* 1.3 77.8 - - - +
453A ASP* 1.3 56.4 + - - +
454A GLU* 3.9 13.2 + - - +
455A HIS* 3.1 22.3 + - - +
456A ARG* 2.8 31.6 + - - -
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Residues in contact with ASP 453 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
303A PO4 2.8 49.1 + - - -
442A GLY* 4.0 8.7 + - - -
452A THR* 1.3 72.1 - - - +
454A GLU* 1.3 64.7 + - + +
456A ARG* 3.5 26.5 + - - +
457A GLU* 3.0 31.5 + - + +
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Residues in contact with GLU 454 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
452A THR* 3.1 11.0 + - - +
453A ASP* 1.3 78.9 - - + +
455A HIS* 1.3 63.6 + - - +
457A GLU* 3.2 8.9 + - - +
458A GLU* 3.0 22.2 + - - +
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Residues in contact with HIS 455 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
450A GLU 6.1 0.2 - - - -
451A LEU* 4.1 15.0 - - + -
452A THR* 3.1 20.1 + - - +
454A GLU* 1.3 77.5 - - - +
456A ARG* 1.3 68.9 + - - +
458A GLU* 3.2 23.9 + - - +
459A LEU* 2.8 59.3 + - + +
447B CYS* 4.5 9.1 + - + -
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Residues in contact with ARG 456 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
303A PO4 3.0 21.8 + - - -
304A PO4 3.2 22.5 + - - -
437A LEU* 3.7 29.8 - - + +
438A LYS* 5.1 0.8 + - - +
440A ALA* 3.0 33.4 + - + -
441A LYS* 4.6 1.4 - - - +
451A LEU* 3.4 16.2 - - + +
452A THR 2.8 20.3 + - - +
453A ASP* 3.5 31.7 + - - +
454A GLU 3.3 0.2 - - - -
455A HIS* 1.3 73.3 - - - +
457A GLU* 1.3 83.4 + - - +
459A LEU* 3.5 2.4 - - - +
460A LEU* 2.8 39.6 + - + +
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Residues in contact with GLU 457 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
304A PO4 3.3 22.0 + - - -
453A ASP* 3.0 23.3 + - + +
454A GLU* 3.4 8.3 - - - +
456A ARG* 1.3 114.9 + - - +
458A GLU* 1.3 57.2 + - - +
460A LEU* 3.1 15.2 + - - +
461A SER* 2.9 30.9 + - - -
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Residues in contact with GLU 458 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
454A GLU 3.0 13.1 + - - +
455A HIS* 3.2 26.5 + - - +
457A GLU* 1.3 73.1 - - - +
459A LEU* 1.3 65.6 + - + +
461A SER* 3.2 8.3 + - - +
462A LYS* 2.9 31.4 + - + +
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Residues in contact with LEU 459 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
437A LEU* 3.5 20.4 - - + -
451A LEU* 4.6 2.5 - - + -
455A HIS* 2.8 53.2 + - + +
456A ARG 3.5 4.0 - - - +
458A GLU* 1.3 76.1 - - + +
460A LEU* 1.3 57.0 + - - +
462A LYS* 3.4 10.2 + - + +
463A TYR* 3.0 52.1 + - + +
446B VAL 3.5 6.3 - - - +
447B CYS* 3.4 42.4 - - + +
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Residues in contact with LEU 460 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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304A PO4 3.3 29.4 - - - +
434A ILE* 4.2 19.1 - - + +
437A LEU* 3.9 24.5 - - + -
438A LYS* 4.1 24.0 - - + -
456A ARG* 2.8 24.7 + - + +
457A GLU* 3.2 28.0 - - - +
459A LEU* 1.3 75.4 - - - +
461A SER* 1.3 65.8 + - - +
463A TYR* 3.4 2.4 + - - +
464A HIS* 3.0 36.2 + - + -
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Residues in contact with SER 461 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
457A GLU 2.9 16.6 + - - -
458A GLU* 3.2 9.9 + - - -
460A LEU* 1.3 74.2 - - - +
462A LYS* 1.3 64.0 + - - +
464A HIS* 3.4 5.9 + - - +
465A LEU* 3.0 25.7 + - - +
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Residues in contact with LYS 462 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
458A GLU* 2.9 19.5 + - + +
459A LEU* 3.7 11.2 - - + +
461A SER* 1.3 77.7 - - - +
463A TYR* 1.3 76.9 + - + +
465A LEU* 3.1 9.7 + - - +
466A ASP* 2.9 32.8 + - + +
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Residues in contact with TYR 463 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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430A LEU* 4.0 21.8 - - + +
433A ALA* 4.2 20.2 - - + -
434A ILE* 3.4 28.8 - - + +
437A LEU* 3.7 21.1 - - + -
459A LEU* 3.0 29.7 + - + +
460A LEU 4.0 1.3 - - - +
462A LYS* 1.3 100.5 - - + +
464A HIS* 1.3 58.0 + - - +
466A ASP* 3.7 4.8 - - + +
467A LEU* 2.8 29.5 + - - +
445B PRO 3.6 10.0 + - - -
446B VAL 2.8 29.1 + - - -
447B CYS 4.4 0.5 - - - -
448B GLY* 4.3 8.7 + - - -
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Residues in contact with HIS 464 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
434A ILE* 3.7 36.1 - - + +
438A LYS* 4.2 16.8 + - - -
460A LEU* 3.0 34.7 + - + +
461A SER* 3.9 5.4 - - - +
463A TYR* 1.3 77.2 - - - +
465A LEU* 1.3 58.8 + - - +
467A LEU* 3.6 13.0 - - + +
468A ASN* 2.7 42.3 + - - +
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Residues in contact with LEU 465 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
461A SER 3.0 15.4 + - - +
462A LYS* 3.1 12.1 + - + +
464A HIS* 1.3 75.9 - - - +
466A ASP* 1.3 62.0 + - - +
468A ASN* 3.7 9.3 + - + +
469A ASN* 3.2 31.6 + - - +
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Residues in contact with ASP 466 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
426A LYS* 2.9 34.0 + - - -
430A LEU* 3.6 18.8 - - + +
462A LYS* 2.9 22.5 + - + +
463A TYR* 3.7 10.9 - - + +
465A LEU* 1.3 75.8 - - - +
467A LEU* 1.3 60.3 + - - +
469A ASN* 3.5 5.2 + - - +
470A SER* 2.8 34.1 + - - -
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Residues in contact with LEU 467 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
427A ILE* 3.8 31.4 - - + +
430A LEU* 3.5 21.5 - - + +
431A LYS* 4.3 21.8 - - + -
434A ILE* 3.9 18.8 - - + -
463A TYR 2.8 15.7 + - - +
464A HIS* 3.6 17.7 - - + +
465A LEU 3.3 0.2 - - - -
466A ASP* 1.3 77.5 - - - +
468A ASN* 1.3 63.4 + - - +
470A SER* 3.3 3.0 + - - -
471A LYS* 3.0 49.2 + - + +
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Residues in contact with ASN 468 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
464A HIS* 2.7 29.5 + - - +
465A LEU* 4.2 11.6 - - + +
467A LEU* 1.3 79.8 - - - +
469A ASN* 1.3 68.1 + - - +
471A LYS* 3.0 23.2 + - - +
472A ASN* 2.8 34.4 + - - +
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Residues in contact with ASN 469 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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465A LEU* 3.2 23.2 + - - +
466A ASP* 3.9 7.0 - - - +
468A ASN* 1.3 77.2 - - - +
470A SER* 1.3 57.2 + - - +
472A ASN* 3.2 13.5 + - - +
473A THR* 2.9 39.2 + - - -
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Residues in contact with SER 470 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
423A LEU* 2.8 39.3 - - - +
426A LYS* 3.6 18.9 + - - +
427A ILE* 3.8 16.4 - - - -
430A LEU* 4.3 2.1 - - - +
466A ASP* 2.8 34.7 + - - -
467A LEU* 3.7 5.4 - - - -
469A ASN* 1.3 75.8 - - - +
471A LYS* 1.3 58.2 + - - +
473A THR* 4.4 2.7 - - - -
474A LEU* 2.9 13.9 + - - +
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Residues in contact with LYS 471 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
427A ILE* 3.8 24.2 - - + -
431A LYS* 5.2 8.4 - - - +
467A LEU* 3.0 36.8 + - + +
468A ASN* 3.0 27.1 + - - +
470A SER* 1.3 74.4 - - - +
472A ASN* 1.3 71.4 + - - +
474A LEU* 3.6 3.9 - - + +
475A ALA* 3.1 23.4 + - - +
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Residues in contact with ASN 472 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
468A ASN* 2.8 27.8 + - - +
469A ASN* 3.6 13.1 - - - +
471A LYS* 1.3 83.2 - - - +
473A THR* 1.3 59.5 + - - +
475A ALA* 3.6 5.5 + - - +
476A LYS* 3.0 48.3 + - - +
----------------------------------------------------------
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Residues in contact with THR 473 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
423A LEU* 3.8 22.0 - - + -
469A ASN* 2.9 24.9 + - - -
470A SER* 3.8 6.2 - - - -
472A ASN* 1.3 74.2 - - - +
474A LEU* 1.3 60.3 + - - +
476A LYS* 3.3 11.0 + - + +
477A LEU* 2.8 40.2 + - + +
----------------------------------------------------------
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Residues in contact with LEU 474 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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420A ILE* 4.0 31.0 - - + +
423A LEU* 4.0 24.0 - - + +
424A LYS* 4.2 19.3 - - + -
427A ILE* 3.8 20.0 - - + -
470A SER 2.9 19.2 + - - +
471A LYS* 3.6 7.9 - - - +
472A ASN 3.4 0.2 - - - -
473A THR* 1.3 76.2 - - - +
475A ALA* 1.3 57.8 + - - +
477A LEU* 3.1 6.1 + - - +
478A ILE* 2.9 42.1 + - + +
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Residues in contact with ALA 475 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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471A LYS 3.1 14.1 + - - +
472A ASN* 3.6 8.3 - - - +
474A LEU* 1.3 80.5 - - - +
476A LYS* 1.3 62.2 + - + +
478A ILE* 3.4 10.2 + - - +
479A ASP* 3.2 30.7 + - - +
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Residues in contact with LYS 476 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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472A ASN* 3.0 39.7 + - - +
473A THR* 3.6 11.7 - - + +
474A LEU 3.3 0.2 - - - -
475A ALA* 1.3 74.3 - - + +
477A LEU* 1.3 64.0 + - + +
479A ASP* 3.4 9.6 + - - +
480A ARG* 3.0 29.0 + - - +
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Residues in contact with LEU 477 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
416A ILE* 3.6 27.7 - - + +
419A ARG* 3.8 26.0 - - + -
420A ILE* 3.8 21.3 - - + +
423A LEU* 3.2 34.8 - - + -
473A THR* 2.8 25.0 + - + +
474A LEU* 3.3 6.3 - - - +
476A LYS* 1.3 77.3 - - + +
478A ILE* 1.3 59.5 + - - +
480A ARG* 3.2 6.2 + - + +
481A LYS* 2.8 31.2 + - - +
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Residues in contact with ILE 478 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
420A ILE* 3.8 34.3 - - + -
424A LYS* 5.1 6.7 - - - +
474A LEU* 2.9 34.5 + - + +
475A ALA* 3.5 10.1 - - - +
476A LYS 3.3 0.2 - - - -
477A LEU* 1.3 76.7 - - - +
479A ASP* 1.3 66.0 - - - +
481A LYS* 3.3 4.3 + - - +
482A SER* 3.1 22.0 + - - -
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Residues in contact with ASP 479 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
475A ALA* 3.2 17.1 + - - +
476A LYS* 3.6 9.8 - - - +
477A LEU 3.3 0.2 - - - -
478A ILE* 1.3 78.8 - - - +
480A ARG* 1.3 65.4 + - - +
482A SER* 3.1 9.5 + - - -
483A GLU* 2.9 22.9 + - - +
486A ARG* 5.4 0.9 + - - -
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Residues in contact with ARG 480 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
412A GLU* 3.7 28.1 + - - +
416A ILE* 4.1 21.2 - - + +
476A LYS 3.0 17.1 + - - +
477A LEU* 3.5 8.7 - - + +
479A ASP* 1.3 76.9 - - - +
481A LYS* 1.3 64.0 + - - +
483A GLU* 3.0 36.1 + - - +
484A LEU* 2.9 48.7 + - + +
487A GLU* 3.7 8.3 + - - -
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Residues in contact with LYS 481 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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413A ARG* 4.4 11.8 - - + +
416A ILE* 3.8 14.3 - - + +
417A THR* 3.1 34.3 + - - +
420A ILE* 4.1 18.1 - - + +
477A LEU 2.8 20.5 + - - +
478A ILE* 3.6 5.6 - - + +
480A ARG* 1.3 72.9 - - - +
482A SER* 1.3 63.7 + - - +
484A LEU* 3.4 8.5 + - - +
485A GLU* 2.8 56.0 + - - +
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Residues in contact with SER 482 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
478A ILE* 3.1 14.1 + - - -
479A ASP* 3.1 11.6 + - - -
481A LYS* 1.3 77.5 - - - +
483A GLU* 1.3 61.5 + - - +
485A GLU* 3.5 8.9 + - - +
486A ARG* 3.2 39.2 + - - +
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Residues in contact with GLU 483 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
479A ASP 2.9 12.9 + - - +
480A ARG* 3.0 41.0 + - - +
482A SER* 1.3 74.4 - - - +
484A LEU* 1.3 65.4 + - - +
486A ARG* 3.0 30.0 + - - +
487A GLU* 3.0 32.9 + - + +
490A ARG* 5.0 0.2 + - - -
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Residues in contact with LEU 484 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
409A ILE* 3.5 15.9 - - + +
412A GLU* 3.6 28.9 - - + +
413A ARG* 3.7 36.3 - - + +
416A ILE* 4.2 10.3 - - + -
480A ARG* 2.9 54.6 + - - +
481A LYS* 3.7 6.5 - - - +
483A GLU* 1.3 77.3 - - - +
485A GLU* 1.3 57.5 + - - +
487A GLU* 3.3 20.9 + - - +
488A LEU* 2.9 28.8 + - - +
----------------------------------------------------------
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Residues in contact with GLU 485 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
413A ARG* 3.3 31.7 - - + +
481A LYS* 2.8 49.9 + - - +
482A SER* 3.6 13.0 - - - +
483A GLU 3.2 0.6 - - - -
484A LEU* 1.3 73.4 - - - +
486A ARG* 1.3 66.3 + - + +
488A LEU* 3.5 11.4 + - + +
489A ARG* 3.1 22.7 + - - +
507A CIT 6.1 0.7 - - - +
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Residues in contact with ARG 486 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
479A ASP 5.4 0.4 + - - -
482A SER* 3.2 36.4 + - - +
483A GLU* 3.0 35.0 + - - +
485A GLU* 1.3 74.9 - - + +
487A GLU* 1.3 66.4 + - - +
489A ARG* 3.3 8.0 + - - +
490A ARG* 3.0 41.6 + - - +
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Residues in contact with GLU 487 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
405A LYS* 4.5 6.3 + - - -
409A ILE* 2.9 35.1 - - + +
480A ARG* 3.7 19.6 + - - -
483A GLU* 3.0 25.2 + - + +
484A LEU* 3.4 19.4 - - - +
486A ARG* 1.3 76.5 - - - +
488A LEU* 1.3 51.6 + - - +
490A ARG* 3.0 28.6 + - - +
491A ILE* 2.6 38.9 + - + +
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Residues in contact with LEU 488 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
406A LYS* 3.9 26.5 - - + +
409A ILE* 4.1 17.7 - - + +
410A GLU* 4.1 8.7 - - + -
413A ARG* 3.5 27.8 - - + +
484A LEU 2.9 14.4 + - - +
485A GLU* 3.6 13.5 - - + +
487A GLU* 1.3 76.4 - - - +
489A ARG* 1.3 62.3 - - - +
491A ILE* 3.2 7.8 + - + +
492A ASP* 3.0 37.8 + - - +
507A CIT 3.0 39.3 - - - +
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Residues in contact with ARG 489 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
485A GLU 3.1 14.3 + - - +
486A ARG* 3.6 8.0 + - - +
488A LEU* 1.3 78.6 - - - +
490A ARG* 1.3 66.0 + - - +
492A ASP* 3.4 9.8 + - - +
493A MET* 2.9 61.1 + - - +
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Residues in contact with ARG 490 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
483A GLU 5.0 0.2 + - - -
486A ARG* 3.0 44.9 + - - +
487A GLU* 3.3 30.1 - - - +
489A ARG* 1.3 85.7 - - - +
491A ILE* 1.3 66.0 + - - +
493A MET* 3.1 26.0 - - + +
494A GLU* 3.2 27.7 + - + +
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Residues in contact with ILE 491 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
402A LEU* 3.9 29.3 - - + +
405A LYS* 3.5 33.0 - - + -
406A LYS* 3.5 35.2 - - + +
409A ILE* 5.5 4.5 - - + -
487A GLU* 2.6 18.4 + - + +
488A LEU* 3.2 16.8 + - - +
490A ARG* 1.3 74.5 - - - +
492A ASP* 1.3 68.3 + - - +
494A GLU* 3.4 21.1 + - - +
495A ILE* 3.1 26.1 + - + +
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Residues in contact with ASP 492 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
302A PO4 5.0 15.4 + - - +
406A LYS* 3.3 35.1 + - - +
488A LEU* 3.0 27.8 + - - +
489A ARG* 3.5 10.7 - - - +
491A ILE* 1.3 76.9 - - - +
493A MET* 1.3 65.9 - - - +
495A ILE* 2.9 9.0 + - - +
496A LYS* 2.9 28.4 + - - +
507A CIT 5.0 10.2 + - - +
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Residues in contact with MET 493 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
489A ARG* 2.9 45.8 + - - +
490A ARG* 3.1 17.5 - - + +
492A ASP* 1.3 76.5 - - - +
494A GLU* 1.3 63.7 + - + +
496A LYS* 3.7 5.7 + - - +
497A ARG* 3.4 18.5 + - - +
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Residues in contact with GLU 494 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
402A LEU* 4.0 27.3 - - + +
490A ARG* 3.2 31.3 + - + +
491A ILE* 3.7 27.2 - - - +
493A MET* 1.3 77.2 - - + +
495A ILE* 1.3 64.8 + - - +
497A ARG* 3.4 8.7 - - - +
498A LEU* 3.3 24.1 + - + +
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Residues in contact with ILE 495 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
399A LEU* 4.1 16.8 - - + +
402A LEU* 4.0 24.9 - - + +
403A GLU* 4.2 28.3 - - + +
406A LYS* 3.8 31.2 - - + -
491A ILE 3.1 15.3 + - - +
492A ASP* 2.9 11.4 + - - +
494A GLU* 1.3 72.5 - - - +
496A LYS* 1.3 71.3 + - - +
498A LEU* 2.8 24.8 + - - +
----------------------------------------------------------
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Residues in contact with LYS 496 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
302A PO4 5.6 8.6 + - - +
492A ASP 2.9 18.6 + - - +
493A MET* 4.0 5.8 - - - +
495A ILE* 1.3 75.7 - - - +
497A ARG* 1.3 66.6 + - - +
498A LEU 4.1 2.4 - - - -
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Residues in contact with ARG 497 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
493A MET 3.4 10.2 + - - +
494A GLU* 3.4 12.6 - - - +
495A ILE 2.9 0.6 + - - -
496A LYS* 1.3 82.3 - - - +
498A LEU* 1.3 81.0 + - + +
----------------------------------------------------------
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Residues in contact with LEU 498 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
398A LEU* 3.6 33.2 - - + -
399A LEU* 4.2 33.9 - - + +
402A LEU* 3.4 29.2 - - + -
494A GLU 3.4 10.3 - - - +
495A ILE 2.8 17.8 + - - +
496A LYS 4.1 2.5 - - - -
497A ARG* 1.3 100.4 - - + +
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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
------------------------------------------------------------
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