Contacts of the helix formed by residues 459 - 504 (chain B) in PDB entry 5YWB
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 SER 459 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
456B LEU* 4.0 22.9 + - - +
457B GLY 3.1 1.8 - - - -
458B VAL* 1.3 81.4 - - - +
460B ALA* 1.3 61.2 + - - +
461B LEU* 3.3 3.1 + - - -
462B ILE* 3.9 9.0 + - - +
558B THR* 3.3 40.7 + - - +
561B GLY* 4.9 2.9 - - - -
562B HIS* 4.3 21.9 + - - +
567B LYS* 5.2 0.7 - - - -
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Residues in contact with ALA 460 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
449B VAL* 6.5 0.2 - - + -
452B LEU* 4.6 18.4 - - + +
453B TYR* 4.5 17.9 - - + -
456B LEU* 3.9 13.3 - - + +
457B GLY 3.4 14.4 + - - +
458B VAL 3.2 2.6 - - - -
459B SER* 1.3 77.0 - - - +
461B LEU* 1.3 67.1 + - - +
462B ILE 3.0 0.9 + - - -
463B GLY* 3.1 3.9 + - - +
464B ALA* 2.9 26.6 + - + +
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Residues in contact with LEU 461 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
458B VAL* 4.0 14.2 + - + +
459B SER 3.3 1.0 - - - -
460B ALA* 1.3 76.8 - - - +
462B ILE* 1.3 56.6 + - - +
464B ALA* 3.7 7.4 - - + +
465B ALA* 2.8 33.9 + - + +
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Residues in contact with ILE 462 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
459B SER* 3.9 4.9 + - - +
460B ALA 3.0 1.2 + - - -
461B LEU* 1.3 80.1 - - - +
463B GLY* 1.3 58.4 + - - +
465B ALA* 3.3 5.6 + - - +
466B VAL* 2.9 32.7 + - + +
554B ALA* 5.2 1.1 - - - +
557B ILE* 3.9 25.8 - - + -
558B THR* 3.6 22.9 - - + -
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Residues in contact with GLY 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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452B LEU* 5.7 7.2 - - - -
459B SER 4.5 0.2 + - - -
460B ALA* 3.1 5.8 + - - -
462B ILE* 1.3 79.1 - - - +
464B ALA* 1.3 56.2 + - - +
466B VAL* 3.3 7.6 + - - +
467B ILE* 2.9 39.9 + - - +
554B ALA* 5.0 4.9 - - - -
558B THR* 3.6 17.1 - - - +
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Residues in contact with ALA 464 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
449B VAL* 5.4 9.6 - - + -
452B LEU* 5.6 2.1 - - + +
460B ALA* 2.9 19.8 + - + +
461B LEU* 3.7 9.2 - - + +
463B GLY* 1.3 77.0 - - - +
465B ALA* 1.3 56.5 + - - +
467B ILE* 3.4 13.2 + - + +
468B ILE* 2.9 43.7 + - + +
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Residues in contact with ALA 465 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
461B LEU* 2.8 20.9 + - + +
462B ILE* 3.7 5.6 - - - +
464B ALA* 1.3 76.4 - - - +
466B VAL* 1.3 57.5 + - + +
468B ILE* 3.8 5.2 - - - +
469B LEU* 2.9 34.7 + - + +
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Residues in contact with VAL 466 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
462B ILE 2.9 16.9 + - - +
463B GLY* 3.5 7.9 - - - +
464B ALA 3.2 0.2 - - - -
465B ALA* 1.3 78.2 - - + +
467B ILE* 1.3 67.9 + - + +
469B LEU* 3.3 6.4 + - - +
470B LEU* 2.9 30.6 + - + +
550B ILE* 3.5 28.3 - - + +
551B PRO* 5.1 1.3 - - + -
553B ALA* 5.2 2.5 - - + -
554B ALA* 3.5 42.2 - - + +
557B ILE* 6.2 2.0 - - + -
583B PHE* 6.2 0.7 - - + -
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Residues in contact with ILE 467 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
449B VAL* 4.3 25.8 - - + -
452B LEU* 4.8 7.6 - - + -
463B GLY* 2.9 25.7 + - - +
464B ALA* 3.4 16.2 - - - +
466B VAL* 1.3 84.5 - - + +
468B ILE* 1.3 62.5 + - + +
470B LEU* 4.0 21.7 - - + +
471B ALA* 4.3 8.0 + - - +
583B PHE* 6.6 0.7 - - + -
586B LEU* 3.7 32.5 - - + -
590B LEU* 6.2 0.4 - - + -
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Residues in contact with ILE 468 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
464B ALA* 2.9 29.0 + - + +
465B ALA* 4.0 4.7 - - - +
467B ILE* 1.3 81.1 - - + +
469B LEU* 1.3 58.8 + - - +
470B LEU 3.2 2.0 + - - -
471B ALA* 3.4 5.8 + - - +
472B PRO* 3.1 23.9 - - - +
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Residues in contact with LEU 469 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
465B ALA* 2.9 19.1 + - + +
466B VAL* 3.7 5.6 - - - +
468B ILE* 1.3 74.4 - - - +
470B LEU* 1.3 65.9 + - - +
471B ALA 3.4 0.2 - - - -
472B PRO* 3.6 6.8 - - - +
473B VAL* 3.5 24.7 - - + +
546B MET* 6.3 0.2 - - + -
550B ILE* 4.7 21.0 - - + +
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Residues in contact with LEU 470 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
466B VAL* 2.9 13.7 + - + +
467B ILE* 4.1 21.3 - - + +
468B ILE 3.2 0.6 - - - -
469B LEU* 1.3 79.5 - - - +
471B ALA* 1.3 64.3 + - - +
473B VAL* 3.7 2.5 + - - +
474B GLN* 3.1 61.8 + - + +
546B MET* 5.0 0.2 - - - +
547B ASN* 4.1 9.9 - - - +
550B ILE* 3.8 40.8 - - + -
551B PRO* 5.1 7.4 - - + -
590B LEU* 3.7 35.0 - - + -
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Residues in contact with ALA 471 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
467B ILE 4.3 8.4 + - - +
468B ILE* 3.4 7.2 + - - +
470B LEU* 1.3 78.4 - - - +
472B PRO* 1.3 65.2 - - + +
474B GLN* 3.2 8.8 + - - +
475B TYR* 2.9 26.7 + - - +
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Residues in contact with PRO 472 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
468B ILE 3.1 17.7 - - - +
469B LEU* 3.6 11.0 - - - +
471B ALA* 1.3 92.0 - - + +
473B VAL* 1.3 67.2 + - + +
475B TYR* 3.1 9.9 + - + +
476B PHE* 3.0 22.9 + - - +
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Residues in contact with VAL 473 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
469B LEU* 3.5 26.0 - - + +
470B LEU 3.7 1.5 + - - +
471B ALA 3.4 0.2 - - - -
472B PRO* 1.3 78.8 - - + +
474B GLN* 1.3 58.8 + - - +
476B PHE* 3.3 7.3 + - + +
477B VAL* 2.9 38.5 + - + +
546B MET* 3.6 31.4 - - + -
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Residues in contact with GLN 474 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
470B LEU* 3.1 37.3 + - + +
471B ALA* 3.2 7.5 + - - +
473B VAL* 1.3 74.1 - - - +
475B TYR* 1.3 59.0 + - - +
477B VAL* 3.3 9.7 + - - +
478B ALA* 2.9 31.1 + - - +
543B SER* 4.0 15.0 + - - +
546B MET* 3.6 31.2 - - - +
547B ASN* 2.7 31.0 + - - +
590B LEU* 5.9 3.6 - - + -
593B LEU* 5.2 20.9 - - + +
594B SER* 6.0 0.5 - - - -
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Residues in contact with TYR 475 (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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471B ALA 2.9 13.3 + - - +
472B PRO* 3.1 12.8 + - + +
474B GLN* 1.3 76.4 - - - +
476B PHE* 1.3 61.2 + - - +
478B ALA* 3.3 7.2 + - - +
479B THR* 3.0 26.6 + - - -
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Residues in contact with PHE 476 (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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472B PRO 3.0 12.4 + - - +
473B VAL* 3.8 11.2 - - + +
475B TYR* 1.3 76.9 - - - +
477B VAL* 1.3 63.7 + - + +
479B THR* 3.2 10.6 + - + -
480B LYS* 3.0 56.8 + - + +
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Residues in contact with VAL 477 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
473B VAL* 2.9 27.3 + - + +
474B GLN* 3.7 10.8 - - - +
476B PHE* 1.3 77.4 - - + +
478B ALA* 1.3 59.8 + - - +
480B LYS* 3.3 8.6 + - - +
481B LEU* 2.9 31.5 + - + +
539B TYR* 4.3 30.2 - - + +
542B ILE* 5.1 8.5 - - + -
543B SER* 4.3 16.8 - - - +
546B MET* 4.4 19.5 - - - -
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Residues in contact with ALA 478 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
474B GLN 2.9 18.2 + - - +
475B TYR* 3.3 6.9 + - - +
477B VAL* 1.3 77.6 - - - +
479B THR* 1.3 58.2 + - - +
481B LEU* 3.2 11.1 + - - +
482B SER* 2.9 34.4 + - - +
593B LEU* 5.6 7.2 - - + -
597B VAL* 4.5 21.0 - - + +
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Residues in contact with THR 479 (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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475B TYR 3.0 15.7 + - - -
476B PHE* 3.5 15.9 - - + -
478B ALA* 1.3 76.7 - - - +
480B LYS* 1.3 69.4 + - + +
481B LEU 3.1 0.3 + - - -
482B SER* 3.2 6.4 + - - -
483B GLN* 3.1 38.3 + - + +
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Residues in contact with LYS 480 (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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476B PHE* 3.0 44.9 + - + +
477B VAL* 3.7 7.0 - - - +
479B THR* 1.3 81.1 - - + +
481B LEU* 1.3 60.6 + - - +
483B GLN* 3.9 9.1 + - + +
484B ALA* 3.8 12.6 + - - +
539B TYR* 3.6 50.4 - - + +
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Residues in contact with LEU 481 (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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477B VAL* 2.9 17.6 + - + +
478B ALA* 3.4 12.8 - - - +
479B THR 3.0 0.2 - - - -
480B LYS* 1.3 76.1 - - - +
482B SER* 1.3 68.2 + - - +
484B ALA* 3.1 7.9 + - - +
485B GLN* 3.1 27.7 + - - +
536B PHE* 3.5 31.8 - - + +
539B TYR* 4.4 18.6 - - + -
540B THR* 4.0 26.7 - - + +
543B SER* 5.9 1.3 - - - -
594B SER* 4.5 17.7 - - - +
597B VAL* 3.6 27.1 - - + -
598B ARG 5.0 0.9 - - - +
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Residues in contact with SER 482 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
478B ALA* 2.9 17.2 + - - +
479B THR* 3.2 6.8 + - - -
481B LEU* 1.3 80.5 - - - +
483B GLN* 1.3 64.8 + - - +
485B GLN* 3.1 15.6 + - - +
486B ARG* 3.1 25.4 + - - +
597B VAL* 3.6 18.1 - - - +
601B VAL* 4.6 15.5 - - - +
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Residues in contact with GLN 483 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
479B THR* 3.1 29.7 + - + +
480B LYS* 4.2 10.8 - - + +
481B LEU 3.2 0.4 - - - -
482B SER* 1.3 80.1 - - - +
484B ALA* 1.3 62.2 + - - +
486B ARG* 3.8 19.5 + - - +
487B SER* 3.7 16.3 + - - -
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Residues in contact with ALA 484 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
480B LYS 3.8 8.9 + - - +
481B LEU* 3.1 9.2 + - - +
483B GLN* 1.3 78.7 - - - +
485B GLN* 1.3 57.3 + - - +
486B ARG 3.3 0.2 + - - -
487B SER* 3.4 6.0 + - - -
488B THR* 2.5 32.2 + - - -
532B SER* 4.0 23.2 - - - +
535B ALA* 4.2 17.5 - - + -
536B PHE* 4.4 8.3 - - + +
539B TYR* 5.4 0.9 - - + -
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Residues in contact with GLN 485 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
481B LEU* 3.1 27.4 + - - +
482B SER 3.1 7.3 + - - +
484B ALA* 1.3 77.0 - - - +
486B ARG* 1.3 62.6 + - - +
488B THR* 3.1 11.6 - - + +
489B LEU* 3.0 30.8 + - + +
536B PHE* 3.8 14.2 - - + -
598B ARG* 2.9 52.1 + - - +
601B VAL* 3.2 27.8 - - + +
602B LYS* 4.0 11.5 - - - +
1134B GLN* 4.6 7.2 + - - +
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Residues in contact with ARG 486 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
482B SER* 3.1 19.8 + - - +
483B GLN* 4.3 19.5 + - - +
484B ALA 3.3 0.2 - - - -
485B GLN* 1.3 77.2 - - - +
487B SER* 1.3 62.1 + - - +
489B LEU* 3.1 16.6 + - - +
490B GLU* 3.1 24.6 + - + +
601B VAL* 3.4 24.0 - - + +
604B LEU* 3.3 32.3 - - - +
605B VAL* 3.8 21.5 - - + +
608B GLN* 5.1 9.1 + - - +
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Residues in contact with SER 487 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
483B GLN 3.7 10.3 + - - -
484B ALA* 3.4 8.4 + - - -
485B GLN 3.4 0.4 - - - -
486B ARG* 1.3 74.2 - - - +
488B THR* 1.3 65.4 + - - +
490B GLU* 3.2 12.0 + - - +
491B HIS* 3.0 38.2 + - - -
532B SER* 4.2 10.1 - - - -
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Residues in contact with THR 488 (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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484B ALA 2.5 26.2 + - - -
485B GLN* 3.1 13.7 + - - -
487B SER* 1.3 77.6 - - - +
489B LEU* 1.3 64.4 + - + +
491B HIS* 3.3 4.6 + - - +
492B SER* 3.0 24.2 + - - -
529B GLU* 3.3 28.5 - - - +
532B SER* 3.0 27.9 + - - -
533B LEU* 4.2 15.2 - - + +
536B PHE* 5.6 1.6 - - - +
1134B GLN* 4.7 12.3 - - - +
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Residues in contact with LEU 489 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
423B ILE* 5.9 7.6 - - + -
427B GLN* 6.4 0.4 - - + -
485B GLN* 3.0 23.4 + - + +
486B ARG* 3.1 9.8 + - - +
488B THR* 1.3 77.8 - - - +
490B GLU* 1.3 65.1 + - - +
492B SER* 3.4 5.8 + - - -
493B ASN* 2.9 24.6 + - - +
601B VAL* 6.3 0.4 - - + -
602B LYS* 3.7 47.1 - - + +
605B VAL* 3.7 38.8 - - + -
606B SER* 6.0 1.1 - - - +
609B LYS* 6.4 0.2 - - - +
1134B GLN* 4.3 11.9 - - - +
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Residues in contact with GLU 490 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
486B ARG* 3.1 24.4 + - + +
487B SER* 3.2 13.4 + - - +
489B LEU* 1.3 76.7 - - + +
491B HIS* 1.3 69.8 + - + +
493B ASN* 3.2 8.5 + - - +
494B GLU* 3.1 21.5 + - - +
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Residues in contact with HIS 491 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
487B SER* 3.0 29.5 + - - +
488B THR* 3.8 3.6 - - - +
490B GLU* 1.3 83.8 - - + +
492B SER* 1.3 58.6 + - - +
494B GLU* 3.2 5.6 + - - +
495B ARG* 2.9 27.6 + - - +
525B THR* 3.8 13.5 + - + +
528B LYS* 3.1 54.4 - - + +
529B GLU* 4.4 16.6 - - + -
532B SER* 5.3 3.6 - - - -
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Residues in contact with SER 492 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
488B THR* 3.0 17.2 + - - -
489B LEU* 3.9 6.3 - - - -
491B HIS* 1.3 76.7 - - - +
493B ASN* 1.3 59.2 + - - +
495B ARG* 3.2 29.2 + - - +
496B LEU* 3.0 37.9 + - - +
529B GLU* 4.5 14.4 - - - +
1130B ASN* 4.1 13.9 + - - -
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Residues in contact with ASN 493 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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416B GLN* 3.3 37.9 + - - +
419B ASN* 4.2 12.8 + - - +
489B LEU 2.9 18.3 + - - +
490B GLU* 3.2 7.8 + - - +
492B SER* 1.3 78.3 - - - +
494B GLU* 1.3 62.2 + - - +
496B LEU* 3.6 6.6 + - - +
497B LYS* 3.5 22.8 + - - +
609B LYS* 4.5 16.9 + - - +
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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
----------------------------------------------------------
490B GLU 3.1 12.8 + - - +
491B HIS* 3.2 7.8 + - - +
493B ASN* 1.3 75.9 - - - +
495B ARG* 1.3 65.9 + - - +
497B LYS* 3.3 29.8 + - - +
498B GLN* 3.0 48.0 + - - +
521B ARG* 5.3 1.4 + - - -
525B THR* 5.3 4.7 - - + +
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Residues in contact with ARG 495 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
491B HIS 2.9 15.1 + - - +
492B SER* 3.2 30.8 + - - +
494B GLU* 1.3 76.0 - - - +
496B LEU* 1.3 74.4 + - - +
498B GLN* 3.3 8.8 + - - +
499B THR* 2.9 32.8 + - - +
522B VAL* 4.5 15.3 - - + -
525B THR* 3.7 20.5 - - + +
526B ARG* 3.8 43.0 - - - +
529B GLU* 5.2 3.3 - - - +
1098B HIS* 4.2 8.3 + - - -
1125B PHE* 3.5 34.1 - - - -
1126B SER* 5.5 1.2 - - - +
1129B CYS* 4.4 12.3 - - - +
1130B ASN* 4.1 12.5 + - - -
1133B ASP* 5.1 2.0 + - - -
----------------------------------------------------------
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Residues in contact with LEU 496 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
419B ASN* 3.3 35.0 - - + +
423B ILE* 5.8 4.3 - - + -
492B SER* 3.0 26.5 + - - +
493B ASN* 3.9 7.2 - - - +
494B GLU 3.2 0.4 - - - -
495B ARG* 1.3 102.0 - - - +
497B LYS* 1.3 57.2 + - - +
499B THR* 3.3 7.2 + - - -
500B ASN* 2.9 35.0 + - - +
1122B LEU* 4.7 11.6 - - + +
1125B PHE* 5.4 2.5 - - + -
1126B SER* 3.2 38.1 - - - +
1130B ASN* 5.7 3.1 - - - +
----------------------------------------------------------
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Residues in contact with LYS 497 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
410B GLY* 4.7 13.5 + - - +
413B THR* 4.7 25.7 + - + +
415B GLY 5.7 1.6 - - - -
416B GLN* 3.8 27.8 + - + +
419B ASN* 5.7 2.5 - - - +
493B ASN* 3.5 14.1 + - - +
494B GLU* 3.3 31.8 + - - +
496B LEU* 1.3 76.4 - - + +
498B GLN* 1.3 64.9 + - - +
500B ASN* 3.3 10.4 + - + +
501B GLU* 3.0 37.1 + - - +
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Residues in contact with GLN 498 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
494B GLU* 3.0 40.9 + - - +
495B ARG* 3.6 10.0 - - - +
497B LYS* 1.3 76.5 - - - +
499B THR* 1.3 55.5 + - - +
501B GLU* 3.5 6.4 + - - +
502B MET* 2.9 33.3 + - + +
518B PHE* 5.7 0.2 - - - -
521B ARG* 3.1 41.9 - - - +
522B VAL* 3.9 25.6 + - + +
525B THR* 3.7 23.6 + - - -
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Residues in contact with THR 499 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
495B ARG* 2.9 26.0 + - - +
496B LEU* 3.6 9.0 - - + -
498B GLN* 1.3 75.0 - - - +
500B ASN* 1.3 65.0 + - - +
502B MET* 3.1 8.3 + - - +
503B LEU* 2.9 41.2 + - + +
522B VAL* 4.8 10.2 - - - +
1102B LEU* 5.5 2.9 - - + +
1122B LEU* 3.9 22.0 - - + -
1125B PHE* 4.8 27.3 - - + -
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Residues in contact with ASN 500 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
413B THR* 5.9 0.6 - - - +
415B GLY* 3.6 29.7 - - - -
419B ASN* 5.6 3.2 + - - +
496B LEU* 2.9 17.3 + - - +
497B LYS* 3.3 12.7 + - - +
499B THR* 1.3 77.8 - - - +
501B GLU* 1.3 63.9 + - + +
502B MET 3.3 0.3 + - - -
503B LEU* 4.2 2.7 - - - +
504B ARG* 3.4 45.2 + - - +
1122B LEU* 3.1 41.2 - - - +
1477B GLU* 5.5 6.2 + - - +
----------------------------------------------------------
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Residues in contact with GLU 501 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
413B THR* 5.9 0.2 - - - +
497B LYS* 3.0 26.0 + - + +
498B GLN* 3.7 5.7 - - - +
500B ASN* 1.3 75.6 - - + +
502B MET* 1.3 59.9 + - - +
504B ARG* 4.6 3.9 - - - +
505B GLY* 4.5 7.8 + - - -
518B PHE* 5.2 3.1 - - + -
1430B VAL* 6.0 1.4 - - - +
1432B PHE* 4.1 27.6 - - + +
1433B SER* 3.1 47.2 + - - +
1477B GLU* 3.4 41.7 - - + +
----------------------------------------------------------
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Residues in contact with MET 502 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
498B GLN* 2.9 18.5 + - + +
499B THR* 3.1 8.5 + - - +
501B GLU* 1.3 79.8 - - - +
503B LEU* 1.3 67.2 + - + +
504B ARG 3.6 0.2 - - - -
505B GLY 3.8 3.0 + - - -
506B MET* 3.4 34.4 + - - +
509B LEU* 3.7 29.5 - - + +
518B PHE* 3.5 45.1 - - + +
519B CYS* 4.6 4.9 - - - -
522B VAL* 4.0 21.1 - - + -
1102B LEU* 6.1 6.5 - - + -
1106B ILE* 3.9 22.2 - - + -
----------------------------------------------------------
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Residues in contact with LEU 503 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
499B THR* 2.9 34.4 + - + +
500B ASN* 4.3 2.9 - - - +
502B MET* 1.3 79.8 - - + +
504B ARG* 1.3 61.5 + - + +
505B GLY 3.0 9.5 + - - -
506B MET* 3.5 32.9 + - + +
1105B ILE* 4.3 13.0 - - + -
1113B PHE* 4.0 17.2 - - + -
1118B LEU* 4.2 26.9 - - + +
1121B ILE* 3.7 30.1 - - + -
1122B LEU* 4.8 11.4 - - + +
1125B PHE* 5.7 2.9 - - + -
----------------------------------------------------------
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Residues in contact with ARG 504 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
414B ALA* 5.5 4.2 - - - +
415B GLY* 5.7 3.8 - - - +
500B ASN* 3.4 32.1 + - - +
501B GLU* 5.2 2.5 - - - -
503B LEU* 1.3 77.2 - - + +
505B GLY* 1.3 54.9 + - - +
506B MET 3.8 0.7 - - - -
826B ARG* 3.7 43.4 + - - +
1118B LEU* 4.6 10.5 - - + +
1205B ALA* 5.9 4.4 - - - +
1209B GLU* 2.9 30.2 + - - -
1430B VAL* 4.5 11.6 - - + +
1477B GLU* 4.8 15.5 + - - -
----------------------------------------------------------
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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