Contacts of the strand formed by residues 441 - 466 (chain B) in PDB entry 2W77
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 ALA 441 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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430B ILE* 4.2 8.3 - - + -
434B TRP* 3.6 28.9 - - + -
440B SER* 1.3 80.4 - - - +
442B LYS* 1.3 67.8 + - - +
499B THR* 3.2 6.8 - - - -
500B THR* 2.9 44.0 + - + +
503B PHE* 4.1 18.6 - - + -
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Residues in contact with LYS 442 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
430B ILE* 3.6 8.9 - - - +
431B MET 3.5 25.4 + - - +
434B TRP* 3.7 41.8 + - + +
441B ALA* 1.3 82.7 - - - +
443B ILE* 1.3 65.1 - - - +
444B VAL* 6.5 0.4 - - + -
498B ASN* 3.3 21.6 + - - +
499B THR* 3.6 27.8 - - + +
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Residues in contact with ILE 443 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
386B ALA* 5.6 0.4 - - + +
388B TRP* 5.3 1.3 - - + -
428B GLY* 4.1 8.5 - - - -
429B ALA* 3.3 10.8 - - - +
430B ILE* 3.1 45.1 - - + +
442B LYS* 1.3 73.0 - - - +
444B VAL* 1.3 78.6 + - - +
445B ALA* 4.2 8.6 + - + +
496B TYR* 4.7 11.7 - - + +
498B ASN* 2.7 40.1 + - + +
500B THR* 5.2 2.9 - - + -
506B TRP* 3.8 17.7 - - + -
510B ILE* 3.6 31.0 - - + -
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Residues in contact with VAL 444 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
362B TRP* 4.1 24.0 - - + -
428B GLY* 3.4 1.7 - - - -
429B ALA 3.0 29.0 + - - +
431B MET* 3.4 36.8 - - + +
442B LYS* 4.2 0.6 - - + -
443B ILE* 1.3 75.5 - - - +
445B ALA* 1.3 64.6 + - - +
446B GLN* 5.1 6.3 - - + +
11C FH7 3.9 17.0 - - + +
12C SER* 3.7 22.4 - - - -
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Residues in contact with ALA 445 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
362B TRP* 4.7 0.7 - - - -
388B TRP* 4.3 2.0 - - + -
427B LEU 3.4 10.5 - - - +
428B GLY* 4.1 7.0 - - - -
443B ILE* 4.1 9.5 + - + -
444B VAL* 1.3 77.4 - - - +
446B GLN* 1.3 72.0 + - - +
491B TRP* 5.1 1.0 - - - +
493B LEU* 3.4 28.9 - - + +
496B TYR* 4.6 7.9 - - + -
498B ASN* 6.4 0.2 - - + -
513B PRO* 4.3 9.2 - - + -
515B TRP* 3.8 10.1 - - + -
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Residues in contact with GLN 446 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
362B TRP* 3.9 15.0 - - + -
425B ALA 3.6 0.9 - - - +
427B LEU* 2.9 34.6 + - - +
444B VAL* 5.1 6.6 - - + +
445B ALA* 1.3 84.2 - - - +
447B LYS* 1.3 59.9 + - - +
448B TYR* 2.6 37.9 + - + +
490B TYR 3.7 5.8 - - - +
491B TRP* 2.5 40.7 + - + +
515B TRP* 3.4 9.8 - - - -
7C SER* 2.7 22.5 + - - -
8C DSN 5.2 2.0 + - - -
11C FH7 6.2 0.3 - - - +
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Residues in contact with LYS 447 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
424B HIS* 4.0 14.3 + - - -
425B ALA 3.0 4.3 - - - +
426B PRO* 3.4 21.5 - - + +
446B GLN* 1.3 75.8 - - - +
448B TYR* 1.3 64.1 + - - +
449B THR* 3.7 17.5 - - + +
489B SER* 3.5 3.5 - - - -
490B TYR* 3.0 61.9 + - + +
515B TRP* 3.5 36.2 - - + -
1816B PO4 3.2 37.1 + - - -
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Residues in contact with TYR 448 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231B TYR* 3.9 16.2 - + + -
362B TRP* 3.6 17.5 - + - -
391B TRP* 6.1 3.4 - + + -
423B TYR* 3.1 23.1 - - + -
425B ALA* 2.7 42.3 + - + +
427B LEU* 3.7 32.1 - - + -
446B GLN* 2.6 39.2 + - + +
447B LYS* 1.3 74.1 - - - +
449B THR* 1.3 58.4 + - - +
488B LYS 3.5 4.0 - - - +
489B SER* 3.5 28.7 - - - -
491B TRP* 4.8 0.9 - + - -
6C FHO 3.5 25.2 - - + -
7C SER* 2.7 20.8 + - - -
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Residues in contact with THR 449 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
423B TYR* 3.2 13.9 - - - -
424B HIS* 4.3 22.2 - - + -
425B ALA 4.5 0.2 - - - +
447B LYS* 3.7 28.7 - - + +
448B TYR* 1.3 78.6 - - - +
450B GLY* 1.3 58.6 + - - +
487B GLY* 3.3 1.2 - - - -
488B LYS* 2.7 53.1 + - - +
490B TYR* 4.7 4.9 - - + -
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Residues in contact with GLY 450 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
394B TYR* 4.2 3.2 + - - -
422B GLY* 3.4 1.4 - - - -
423B TYR* 3.0 49.6 + - - +
449B THR* 1.3 76.1 - - - +
451B GLU* 1.3 63.8 + - - +
486B GLU 3.3 12.8 - - - -
487B GLY* 3.9 0.9 - - - -
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Residues in contact with GLU 451 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
394B TYR* 2.9 34.3 + - + +
396B ARG* 5.5 0.2 + - - -
420B ILE* 3.1 40.5 - - + +
421B ASN 3.6 4.9 - - - -
422B GLY* 4.1 1.8 - - - -
423B TYR* 4.5 1.3 - - - -
450B GLY* 1.3 72.3 - - - -
452B THR* 1.3 65.5 + - - +
453B LYS* 3.9 24.3 + - + +
484B HIS 4.0 0.9 - - - +
485B TRP* 3.5 1.2 - - - -
486B GLU* 3.0 33.0 + - + +
1819B PO4 4.4 0.7 + - - -
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Residues in contact with THR 452 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
225B THR* 4.7 12.1 - - - +
226B ALA* 4.9 10.6 - - + +
419B LYS 3.3 1.7 - - - +
420B ILE* 3.3 5.5 - - - -
421B ASN* 2.9 44.2 + - + +
423B TYR* 5.7 1.2 - - - -
451B GLU* 1.3 73.8 - - - +
453B LYS* 1.3 69.0 + - - +
454B SER* 4.2 9.0 + - - +
483B SER* 4.5 8.7 - - - +
484B HIS 3.4 13.2 - - - +
485B TRP* 3.4 30.3 - - + +
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Residues in contact with LYS 453 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
418B HIS* 4.5 11.7 - - + +
419B LYS 3.2 7.2 - - - +
420B ILE* 4.4 8.5 - - + -
451B GLU* 3.9 23.3 + - - +
452B THR* 1.3 77.1 - - - +
454B SER* 1.3 59.2 + - - +
455B ASN* 5.7 2.5 - - - +
482B PHE 4.2 0.3 - - - +
483B SER* 3.3 2.8 - - - -
484B HIS* 3.0 41.0 + - + +
486B GLU* 5.5 6.7 - - - -
1819B PO4 3.0 38.1 + - - +
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Residues in contact with SER 454 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
225B THR* 3.3 24.7 + - - -
417B ASP* 3.2 5.2 - - - +
418B HIS* 3.4 2.5 - - - -
419B LYS* 2.8 49.0 + - - +
421B ASN* 5.6 0.5 + - - -
452B THR* 4.5 5.4 + - - +
453B LYS* 1.3 73.3 - - - +
455B ASN* 1.3 64.1 + - - +
456B SER* 4.0 9.5 + - - -
481B SER* 5.3 1.6 - - - -
482B PHE 3.3 7.4 - - - -
483B SER* 3.5 12.8 - - - -
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Residues in contact with ASN 455 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
417B ASP 3.2 2.5 + - - +
418B HIS* 3.0 42.7 - - - +
453B LYS* 5.7 1.9 - - - +
454B SER* 1.3 74.2 + - - +
456B SER* 1.3 62.3 + - - +
457B LEU 4.2 0.3 + - - -
480B ALA 4.0 0.5 - - - +
481B SER* 3.7 2.1 - - - -
482B PHE* 2.8 45.6 + - + +
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Residues in contact with SER 456 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222B ILE* 3.5 36.2 - - - +
223B PRO* 5.0 2.8 + - - +
225B THR* 5.9 0.3 - - - +
415B GLN 3.7 1.0 - - - +
416B LEU* 3.5 9.4 - - - +
417B ASP* 2.9 37.6 + - - +
454B SER* 4.7 7.1 - - - -
455B ASN* 1.3 77.2 + - - +
457B LEU* 1.3 63.1 + - - +
480B ALA 3.4 9.0 - - - -
481B SER* 3.9 12.7 + - - -
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Residues in contact with LEU 457 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222B ILE* 5.8 0.2 - - - -
414B VAL* 4.4 13.7 - - + -
415B GLN 3.6 13.5 - - - +
416B LEU* 4.4 16.4 - - + -
455B ASN 5.5 0.2 - - - +
456B SER* 1.3 76.8 - - - +
458B ASP* 1.3 65.7 + - - +
459B ILE* 4.6 13.5 - - + +
478B THR* 6.0 3.1 - - + +
479B SER* 3.2 6.4 - - - -
480B ALA* 2.9 48.8 + - + +
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Residues in contact with ASP 458 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157B ARG* 2.9 28.3 + - - +
222B ILE* 4.4 18.6 - - + +
413B LYS 3.6 4.2 - - - +
415B GLN* 3.0 40.1 + - + +
457B LEU* 1.3 76.6 - - - +
459B ILE* 1.3 60.3 + - - +
460B TYR* 3.6 9.4 - - - -
478B THR 3.6 6.7 - - - -
479B SER* 3.0 22.2 - - - -
532B TYR* 2.8 24.8 + - - -
550B ARG* 5.4 0.3 + - - -
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Residues in contact with ILE 459 (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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413B LYS 3.4 7.2 - - - +
414B VAL* 4.3 24.9 - - + +
457B LEU* 4.6 15.7 - - + +
458B ASP* 1.3 77.0 - - - +
460B TYR* 1.3 70.4 + - - +
461B LEU* 5.3 11.9 - - + +
476B VAL* 5.5 1.6 - - + +
477B GLY* 3.3 2.4 - - - -
478B THR* 3.1 48.8 + - + +
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Residues in contact with TYR 460 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B GLN* 3.4 28.6 + - - -
137B LEU* 4.7 2.8 - - - +
157B ARG* 3.9 42.5 - - + +
411B VAL* 5.3 1.3 - - + -
412B GLY* 3.3 4.9 - - - -
413B LYS* 3.0 81.9 + - + -
415B GLN* 4.6 3.8 - - - -
458B ASP* 3.6 17.7 - - - -
459B ILE* 1.3 80.0 - - - +
461B LEU* 1.3 65.1 + - - +
462B THR* 4.3 20.0 - - + -
475B VAL* 4.7 2.9 - - + -
476B VAL 3.4 11.7 - - - +
477B GLY* 3.9 1.6 - - - -
532B TYR* 3.9 13.5 - - + +
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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
----------------------------------------------------------
406B PHE* 3.5 35.0 - - + -
410B TRP* 3.9 23.2 - - + -
411B VAL 3.5 5.2 - - - +
412B GLY* 3.7 12.1 - - - -
459B ILE* 5.3 11.4 - - + -
460B TYR* 1.3 76.7 - - - +
462B THR* 1.3 61.5 + - - +
475B VAL* 3.2 3.7 - - - +
476B VAL* 2.7 56.1 + - + +
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Residues in contact with THR 462 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B GLN* 4.8 12.6 - - - +
157B ARG 4.6 8.5 - - - +
158B LEU* 3.5 17.2 - - - +
409B GLY 4.6 0.3 - - - +
410B TRP* 3.5 6.0 - - - -
411B VAL* 2.9 46.4 + - + +
460B TYR* 4.3 21.8 - - + -
461B LEU* 1.3 76.2 - - - +
463B GLY* 1.3 62.3 + - - +
473B GLU* 5.4 0.3 - - - +
474B LEU 3.1 14.4 + - - -
475B VAL* 4.1 12.1 - - - -
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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
----------------------------------------------------------
409B GLY 4.5 1.3 - - - -
410B TRP* 3.2 24.6 - - - -
462B THR* 1.3 78.7 + - - +
464B PRO* 1.4 72.7 - - - +
473B GLU* 3.3 7.3 - - - +
474B LEU* 2.9 29.4 + - - +
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Residues in contact with PRO 464 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
408B ASN 4.6 3.8 - - - +
409B GLY* 4.0 21.8 - - - +
410B TRP* 2.8 39.1 + - + -
463B GLY* 1.4 85.5 - - - +
465B PHE* 1.3 64.6 + - - +
471B GLU* 3.8 22.9 - - + +
472B HIS 3.1 13.7 - - - +
473B GLU* 4.3 6.1 - - + +
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Residues in contact with PHE 465 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
410B TRP* 5.3 4.3 - + + -
463B GLY 4.6 0.2 - - - -
464B PRO* 1.3 78.2 - - - +
466B GLN* 1.3 67.9 + - - +
467B PHE* 4.4 14.4 - + + -
471B GLU* 3.8 8.0 + - - -
472B HIS* 2.7 63.6 + - + -
473B GLU 3.9 20.4 - - - -
474B LEU* 3.9 32.3 - - + -
535B ALA* 5.0 4.5 - - + -
537B PHE* 4.5 19.3 - + - -
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Residues in contact with GLN 466 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
465B PHE* 1.3 80.6 - - - +
467B PHE* 1.3 62.3 + - - +
469B GLY* 3.6 25.9 + - - -
470B ARG 3.3 12.3 - - - +
471B GLU* 3.1 23.1 + - - +
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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