Contacts of the helix formed by residues 452 - 496 (chain B) 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 B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
442B GLY* 4.5 3.1 - - - -
450B GLU* 4.0 12.9 + - - +
451B LEU* 1.3 77.6 - - - +
453B ASP* 1.3 64.7 + - - +
454B GLU* 3.3 18.4 - - + +
455B HIS* 2.9 38.8 + - + +
456B ARG 3.0 10.0 + - - -
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Residues in contact with ASP 453 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
440B ALA 5.1 0.3 - - - -
441B LYS* 4.1 2.8 - - - -
442B GLY* 3.9 17.9 + - - +
451B LEU* 4.6 0.3 - - - +
452B THR* 1.3 74.2 + - - +
454B GLU* 1.3 60.9 + - - +
456B ARG* 3.5 37.8 + - - +
457B GLU* 3.3 28.4 + - - +
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Residues in contact with GLU 454 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
452B THR* 3.0 13.1 - - + +
453B ASP* 1.3 79.6 - - - +
455B HIS* 1.3 62.7 + - - +
457B GLU* 3.4 6.5 + - - +
458B GLU* 3.2 42.4 + - + +
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Residues in contact with HIS 455 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
447A CYS 5.0 4.7 + - - -
449A ARG* 5.1 15.4 + - - +
450B GLU 5.7 0.7 - - - -
451B LEU* 4.1 20.4 - - + -
452B THR* 2.9 24.5 + - + +
454B GLU* 1.3 76.3 - - - +
456B ARG* 1.3 59.3 + - - +
458B GLU* 3.8 19.6 + - + +
459B LEU* 2.9 54.4 + - + +
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Residues in contact with ARG 456 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
437B LEU* 3.3 41.1 - - + +
438B LYS* 4.9 6.5 + - - +
440B ALA* 2.7 38.2 + - - -
441B LYS* 4.3 7.1 - - - +
451B LEU* 3.3 19.8 - - + +
452B THR 3.0 6.7 + - - +
453B ASP* 3.6 43.3 + - - +
454B GLU 3.3 0.2 - - - -
455B HIS* 1.3 77.1 - - - +
457B GLU* 1.3 81.9 + - - +
459B LEU* 3.7 2.6 - - - +
460B LEU* 2.8 41.7 + - + +
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Residues in contact with GLU 457 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
453B ASP 3.3 14.4 + - - +
454B GLU* 3.4 6.5 + - - +
455B HIS 3.3 0.2 - - - -
456B ARG* 1.3 103.5 + - - +
458B GLU* 1.3 60.3 + - + +
460B LEU* 3.2 18.5 + - - +
461B SER* 2.9 31.7 + - - -
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Residues in contact with GLU 458 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
454B GLU* 3.2 38.6 + - + +
455B HIS* 3.8 24.6 + - + +
457B GLU* 1.3 76.4 - - + +
459B LEU* 1.3 64.5 + - + +
461B SER* 2.9 19.1 + - - -
462B LYS* 3.0 13.6 + - - +
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Residues in contact with LEU 459 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
446A VAL 3.8 3.6 - - - +
447A CYS* 3.7 37.7 - - - +
448A GLY* 6.1 0.4 - - - -
437B LEU* 3.6 18.6 - - + -
451B LEU* 4.2 16.4 - - + -
455B HIS* 2.9 36.6 + - + +
456B ARG 4.3 0.2 - - - -
458B GLU* 1.3 77.7 - - + +
460B LEU* 1.3 61.8 + - - +
462B LYS* 3.4 12.5 + - + +
463B TYR* 3.1 52.7 + - + +
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Residues in contact with LEU 460 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
434B ILE* 4.0 29.4 - - + -
437B LEU* 3.9 26.0 - - + +
438B LYS* 4.1 22.9 - - + +
456B ARG* 2.8 42.4 + - + +
457B GLU* 3.4 27.4 - - - +
458B GLU 3.1 0.2 - - - -
459B LEU* 1.3 76.2 - - - +
461B SER* 1.3 61.6 + - - +
463B TYR* 4.1 2.4 - - - +
464B HIS* 3.0 37.7 + - + +
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Residues in contact with SER 461 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
457B GLU 2.9 16.7 + - - -
458B GLU* 2.9 12.3 + - - -
460B LEU* 1.3 74.5 - - - +
462B LYS* 1.3 66.6 + - - +
464B HIS* 3.4 4.4 + - - +
465B LEU* 3.0 25.6 + - - +
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Residues in contact with LYS 462 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
458B GLU 3.0 12.2 + - - +
459B LEU* 3.8 17.7 - - + +
461B SER* 1.3 76.2 - - - +
463B TYR* 1.3 70.1 + - + +
465B LEU* 3.1 12.7 + - + +
466B ASP* 2.8 39.0 + - + +
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Residues in contact with TYR 463 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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445A PRO 3.6 8.6 + - - -
446A VAL 2.7 33.0 + - - -
447A CYS 4.4 0.3 - - - -
448A GLY* 4.2 9.0 + - - -
430B LEU* 4.0 23.1 - - + +
433B ALA* 3.9 25.4 - - + -
434B ILE* 3.6 26.1 - - + +
437B LEU* 3.9 18.2 - - + -
459B LEU* 3.1 29.1 + - + +
460B LEU 4.1 1.3 - - - +
462B LYS* 1.3 97.7 - - + +
464B HIS* 1.3 60.1 + - - +
466B ASP* 3.8 3.2 - - + +
467B LEU* 2.8 29.5 + - - +
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Residues in contact with HIS 464 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
434B ILE* 3.8 24.3 - - + +
438B LYS* 3.2 30.0 + - - -
460B LEU* 3.0 37.3 + - + +
461B SER* 3.9 5.2 - - - +
463B TYR* 1.3 75.5 - - - +
465B LEU* 1.3 59.2 + - - +
467B LEU* 3.2 12.8 + - + +
468B ASN* 2.9 44.4 + - - +
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Residues in contact with LEU 465 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
461B SER 3.0 18.3 + - - +
462B LYS* 3.3 10.1 - - + +
464B HIS* 1.3 75.8 - - - +
466B ASP* 1.3 61.4 + - - +
468B ASN* 3.6 5.3 + - + +
469B ASN* 2.7 45.4 + - - +
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Residues in contact with ASP 466 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
426B LYS* 3.0 41.0 + - - -
430B LEU* 3.9 16.1 - - + +
462B LYS* 2.8 22.3 + - + +
463B TYR* 4.0 4.9 - - + +
465B LEU* 1.3 75.8 - - - +
467B LEU* 1.3 63.4 + - - +
469B ASN* 4.3 7.6 - - - +
470B SER* 2.8 24.8 + - - -
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Residues in contact with LEU 467 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
427B ILE* 3.9 34.1 - - + +
430B LEU* 3.8 14.6 - - + +
431B LYS* 4.1 22.4 - - + -
434B ILE* 3.8 22.4 - - + -
463B TYR 2.8 19.0 + - - +
464B HIS* 3.5 15.3 - - + +
465B LEU 3.2 0.2 - - - -
466B ASP* 1.3 77.7 - - - +
468B ASN* 1.3 64.5 + - - +
470B SER* 3.3 3.9 + - - -
471B LYS* 2.8 49.5 + - + +
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Residues in contact with ASN 468 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
464B HIS* 2.9 35.0 + - - +
465B LEU* 4.1 5.7 - - + +
467B LEU* 1.3 79.7 - - - +
469B ASN* 1.3 63.6 - - - +
471B LYS* 3.2 21.2 + - - +
472B ASN* 2.9 20.0 + - - +
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Residues in contact with ASN 469 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
465B LEU* 2.7 45.1 + - - +
466B ASP* 3.9 9.2 - - - +
468B ASN* 1.3 77.5 - - - +
470B SER* 1.3 55.1 + - - +
472B ASN* 2.7 39.2 + - - +
473B THR* 2.9 13.7 + - - +
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Residues in contact with SER 470 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
423B LEU* 3.0 30.5 - - - +
426B LYS* 3.6 19.9 + - - +
427B ILE* 3.9 19.3 - - - -
430B LEU* 4.1 2.4 - - - +
466B ASP* 2.8 34.1 + - - -
467B LEU* 3.6 6.5 - - - -
469B ASN* 1.3 75.5 - - - +
471B LYS* 1.3 56.5 + - - +
473B THR* 3.7 5.7 + - - -
474B LEU* 3.1 14.6 + - - +
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Residues in contact with LYS 471 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
427B ILE* 4.1 17.7 - - + -
431B LYS* 4.7 12.5 - - - +
467B LEU* 2.8 46.1 + - + +
468B ASN* 3.4 23.0 + - - +
470B SER* 1.3 75.4 - - - +
472B ASN* 1.3 61.1 + - - +
474B LEU* 3.5 9.2 + - + +
475B ALA* 3.1 27.5 + - - +
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Residues in contact with ASN 472 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
468B ASN 2.9 12.0 + - - +
469B ASN* 2.7 21.3 + - - +
471B LYS* 1.3 75.3 - - - +
473B THR* 1.3 74.4 + - - +
475B ALA* 3.4 6.2 + - - +
476B LYS* 3.2 47.7 + - - +
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Residues in contact with THR 473 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
419B ARG* 3.3 29.4 - - - +
423B LEU* 4.0 13.7 - - + -
469B ASN* 2.9 15.0 + - - +
470B SER* 3.9 7.3 - - - -
472B ASN* 1.3 84.4 + - - +
474B LEU* 1.3 57.1 + - - +
476B LYS* 3.1 9.0 + - + +
477B LEU* 2.8 38.3 + - + +
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Residues in contact with LEU 474 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
420B ILE* 3.9 31.4 - - + +
423B LEU* 3.5 20.2 - - + +
424B LYS* 4.3 19.7 - - + -
427B ILE* 3.4 24.7 - - + -
470B SER 3.1 19.7 + - - +
471B LYS* 3.6 8.1 - - + +
472B ASN 3.2 0.2 - - - -
473B THR* 1.3 74.1 - - - +
475B ALA* 1.3 64.1 + - - +
477B LEU* 4.0 1.7 - - - +
478B ILE* 3.2 38.8 + - + +
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Residues in contact with ALA 475 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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471B LYS 3.1 17.0 + - - +
472B ASN* 3.7 6.7 - - - +
473B THR 3.3 0.2 - - - -
474B LEU* 1.3 77.6 - - - +
476B LYS* 1.3 62.8 + - + +
478B ILE* 3.8 5.8 - - - +
479B ASP* 2.8 33.6 + - - +
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Residues in contact with LYS 476 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
472B ASN* 3.2 36.9 + - - +
473B THR* 3.1 11.4 + - + +
475B ALA* 1.3 79.2 - - + +
477B LEU* 1.3 60.3 + - + +
479B ASP* 3.0 9.1 + - - +
480B ARG* 2.8 29.0 + - - +
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Residues in contact with LEU 477 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
416B ILE* 3.3 24.7 - - + +
419B ARG* 3.0 66.6 - - + +
420B ILE* 4.0 18.8 - - + +
423B LEU* 3.7 28.3 - - + -
473B THR* 2.8 23.0 + - + +
474B LEU* 4.0 3.1 - - - +
476B LYS* 1.3 75.0 - - + +
478B ILE* 1.3 57.4 + - - +
480B ARG* 3.3 7.0 + - + +
481B LYS 2.9 24.8 + - - -
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Residues in contact with ILE 478 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
420B ILE* 3.9 26.0 - - + -
424B LYS* 5.1 8.1 - - - +
474B LEU* 3.2 37.2 + - + +
475B ALA* 3.8 5.6 - - - +
477B LEU* 1.3 77.2 - - - +
479B ASP* 1.3 66.9 + - - +
481B LYS* 3.6 3.8 + - - +
482B SER* 3.0 28.8 + - - -
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Residues in contact with ASP 479 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
475B ALA* 2.8 21.5 + - - +
476B LYS* 3.0 10.2 + - - +
478B ILE* 1.3 84.1 - - - +
480B ARG* 1.3 64.7 + - - +
482B SER* 3.3 7.8 + - - -
483B GLU* 3.0 22.5 + - - +
486B ARG* 5.1 1.9 + - - -
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Residues in contact with ARG 480 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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412B GLU* 3.0 26.3 + - - -
416B ILE* 4.4 11.9 - - + +
476B LYS 2.8 15.5 + - - +
477B LEU* 3.3 10.7 + - + +
479B ASP* 1.3 77.4 - - - +
481B LYS* 1.3 58.1 + - - +
483B GLU* 2.9 38.4 + - - +
484B LEU* 2.8 59.0 + - + +
487B GLU* 5.2 2.6 + - - -
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Residues in contact with LYS 481 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
413B ARG* 4.6 11.9 - - + +
416B ILE* 3.5 15.0 - - + -
417B THR* 3.1 35.0 + - - +
420B ILE* 4.0 17.8 - - + +
477B LEU 2.9 17.2 + - - +
478B ILE* 3.8 5.4 - - - +
480B ARG* 1.3 76.3 - - - +
482B SER* 1.3 64.4 + - - +
484B LEU* 3.3 11.7 + - - +
485B GLU* 3.0 49.5 + - - +
----------------------------------------------------------
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Residues in contact with SER 482 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
478B ILE* 3.0 21.2 + - - -
479B ASP* 3.5 9.4 - - - -
480B ARG 3.2 0.2 - - - -
481B LYS* 1.3 77.2 - - - +
483B GLU* 1.3 60.8 + - - +
485B GLU* 3.6 13.6 + - - +
486B ARG* 3.3 36.3 + - - +
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Residues in contact with GLU 483 (chain B).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
479B ASP 3.0 11.8 + - - +
480B ARG* 2.9 41.0 + - - +
482B SER* 1.3 73.4 - - - +
484B LEU* 1.3 61.1 + - + +
485B GLU 3.2 1.6 - - - -
486B ARG* 2.9 30.9 + - - +
487B GLU* 2.9 29.5 + - + +
490B ARG* 4.8 3.4 + - - +
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Residues in contact with LEU 484 (chain B).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
409B ILE* 3.6 18.1 - - + +
412B GLU* 3.7 19.7 - - + +
413B ARG* 3.6 35.4 - - + +
416B ILE* 4.6 5.4 - - + -
480B ARG* 2.8 62.9 + - + +
481B LYS* 3.3 9.8 + - - +
483B GLU* 1.3 76.9 - - + +
485B GLU* 1.3 57.3 + - - +
487B GLU* 3.3 19.0 + - - +
488B LEU* 2.8 32.7 + - - +
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Residues in contact with GLU 485 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
413B ARG* 4.0 24.3 + - + +
481B LYS* 3.0 48.6 + - - +
482B SER* 3.7 12.5 + - - +
483B GLU 3.2 0.2 - - - -
484B LEU* 1.3 75.1 - - - +
486B ARG* 1.3 63.7 + - - +
488B LEU* 3.7 10.4 - - + +
489B ARG* 3.2 23.0 + - - +
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Residues in contact with ARG 486 (chain B).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
479B ASP 5.1 2.0 + - - -
482B SER* 3.3 35.1 + - - +
483B GLU* 2.9 40.4 + - + +
485B GLU* 1.3 78.7 - - - +
487B GLU* 1.3 60.7 + - - +
489B ARG* 3.5 9.1 + - - +
490B ARG* 3.1 39.0 + - - +
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Residues in contact with GLU 487 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
405B LYS* 3.3 23.2 + - - -
409B ILE* 3.1 32.4 - - + +
480B ARG* 5.2 3.3 + - - -
483B GLU* 2.9 14.8 + - + +
484B LEU* 3.3 23.3 + - - +
486B ARG* 1.3 78.7 - - - +
488B LEU* 1.3 54.9 + - - +
490B ARG* 3.1 30.0 + - + +
491B ILE* 2.8 37.2 + - + +
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Residues in contact with LEU 488 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
406B LYS* 3.6 42.2 - - + +
409B ILE* 3.3 25.4 - - + -
410B GLU* 3.8 25.1 - - + +
413B ARG* 4.1 27.8 - - + +
484B LEU 2.8 12.9 + - - +
485B GLU* 3.8 13.7 - - + +
486B ARG 3.3 0.4 - - - -
487B GLU* 1.3 72.7 - - - +
489B ARG* 1.3 65.9 + - - +
491B ILE* 3.2 7.0 + - + +
492B ASP* 3.1 30.1 + - - +
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Residues in contact with ARG 489 (chain B).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
485B GLU 3.2 15.5 + - - +
486B ARG* 3.7 7.9 - - - +
488B LEU* 1.3 78.0 - - - +
490B ARG* 1.3 59.4 + - - +
492B ASP* 3.5 10.9 + - - +
493B MET* 3.1 40.7 + - + +
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Residues in contact with ARG 490 (chain B).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
483B GLU* 4.8 3.6 + - - +
486B ARG* 3.1 37.2 + - - +
487B GLU* 3.1 41.3 + - - +
489B ARG* 1.3 76.4 - - - +
491B ILE* 1.3 63.2 + - + +
493B MET* 3.6 25.9 + - + +
494B GLU* 3.2 38.0 + - + +
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Residues in contact with ILE 491 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
402B LEU* 3.6 33.0 - - + +
405B LYS* 3.8 34.1 - - + +
406B LYS* 4.1 14.1 - - + -
409B ILE* 3.8 21.1 - - + -
487B GLU* 2.8 26.9 + - + +
488B LEU* 3.2 8.0 + - - +
490B ARG* 1.3 74.2 - - + +
492B ASP* 1.3 67.3 + - - +
494B GLU* 3.3 18.4 + - - +
495B ILE* 3.0 36.9 + - + +
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Residues in contact with ASP 492 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
406B LYS* 2.9 38.6 + - - +
488B LEU* 3.1 17.6 + - - +
489B ARG* 3.7 11.1 - - + +
490B ARG 3.3 0.2 - - - -
491B ILE* 1.3 77.4 - - - +
493B MET* 1.3 64.7 + - - +
495B ILE* 2.9 19.5 + - - +
496B LYS* 3.2 14.9 + - - +
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Residues in contact with MET 493 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
489B ARG* 3.1 26.0 - - + +
490B ARG* 3.6 37.2 - - + +
491B ILE 3.2 0.4 - - - -
492B ASP* 1.3 78.2 - - - +
494B GLU* 1.3 65.0 + - + +
495B ILE 2.7 1.7 + - - -
496B LYS* 3.0 28.9 + - - +
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Residues in contact with GLU 494 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
402B LEU* 3.9 34.8 - - + +
405B LYS* 5.5 2.8 + - - -
490B ARG* 3.2 29.5 + - + +
491B ILE* 3.4 23.3 - - - +
493B MET* 1.3 79.3 - - + +
495B ILE* 1.3 59.1 + - - +
496B LYS 3.8 2.0 + - - -
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Residues in contact with ILE 495 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
399B LEU* 4.3 18.4 - - + +
402B LEU* 3.8 29.2 - - + +
403B GLU* 3.3 38.6 - - - +
406B LYS* 4.4 14.6 - - + -
491B ILE* 3.0 31.5 + - + +
492B ASP* 2.9 13.8 + - - +
493B MET 2.7 4.8 + - - -
494B GLU* 1.3 73.6 - - - +
496B LYS* 1.3 67.6 + - - +
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Residues in contact with LYS 496 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
492B ASP* 3.2 9.2 + - - +
493B MET* 3.0 24.8 + - - +
494B GLU 4.8 1.6 - - - -
495B ILE* 1.3 83.5 - - - +
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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