Contacts of the helix formed by residues 446 - 475 (chain B) in PDB entry 4IL6
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 446 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B TRP* 4.0 6.3 - - - -
268B PHE 3.4 13.3 + - - -
269B GLY* 4.8 1.2 - - - -
270B PRO 4.8 2.3 + - - -
317B ASN 5.1 0.8 + - - -
319B PRO* 3.6 13.6 - - - +
330B MET* 3.6 28.1 - - - +
445B THR* 1.3 76.8 + - - +
447B PRO* 1.4 71.4 - - - +
448B ARG* 3.4 17.8 + - - +
449B GLY 3.0 15.6 + - - -
450B TRP* 3.0 17.1 + - - -
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Residues in contact with PRO 447 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B TRP* 3.4 34.1 - - + +
59B GLY* 4.7 6.3 - - - -
60B MET 3.2 28.5 - - - +
61B PHE* 4.7 9.2 - - + -
267B LEU 4.8 1.6 - - - +
268B PHE* 4.2 17.3 - - + +
445B THR 4.9 0.2 - - - +
446B SER* 1.4 87.4 - - - +
448B ARG* 1.3 54.2 + - - +
450B TRP* 4.4 2.2 - - + +
451B PHE* 2.7 37.7 + - - +
607B CLA 4.1 21.3 - - + -
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Residues in contact with ARG 448 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256B MET* 2.7 58.8 + - + +
257B TRP* 4.5 8.1 - - + +
259B GLY* 3.9 8.7 - - - -
263B THR* 2.8 43.4 + - - -
264B PRO 3.5 12.1 + - - -
265B ILE* 3.6 9.7 - - - +
268B PHE* 3.4 24.0 + - + +
269B GLY 2.7 30.5 + - - -
270B PRO 3.4 14.3 + - - +
271B THR* 3.9 18.3 - - - +
319B PRO* 4.4 6.3 - - + -
446B SER* 3.1 7.9 + - - +
447B PRO* 1.3 76.3 - - - +
449B GLY* 1.3 59.2 + - - +
452B THR* 2.7 33.6 + - - -
62H TRP* 4.6 0.2 - - - -
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Residues in contact with GLY 449 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257B TRP* 3.8 17.7 - - - -
319B PRO* 4.1 2.1 - - - +
445B THR* 3.3 23.3 - - - -
446B SER* 3.0 7.5 + - - -
448B ARG* 1.3 76.7 - - - +
450B TRP* 1.3 58.0 + - - +
452B THR* 3.3 3.3 + - - -
453B PHE* 3.0 29.9 + - - +
291D LEU* 3.8 6.5 - - - +
293D LEU* 5.5 1.6 - - - -
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Residues in contact with TRP 450 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61B PHE* 5.6 0.2 - - + -
323B GLY 3.9 14.8 - - - -
324B LEU* 3.2 29.6 - - + -
326B ARG 4.0 10.5 + - - -
328B GLY 4.5 4.6 + - - -
444B ARG* 6.0 0.4 - - - +
445B THR* 3.4 33.8 + - + +
446B SER 3.0 15.4 + - - +
447B PRO* 4.1 2.7 - - + +
449B GLY* 1.3 70.7 - - - +
451B PHE* 1.3 66.4 + - - +
453B PHE* 3.4 18.4 + + - +
454B ALA* 3.2 16.5 + - - +
607B CLA 3.1 105.1 + + + +
622B LMG 4.2 9.6 - - + -
293D LEU* 3.7 23.3 - - + -
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Residues in contact with PHE 451 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61B PHE* 3.8 19.0 - + + -
65B PHE* 3.7 21.5 - + - -
252B VAL* 3.5 30.3 - - + -
256B MET* 3.7 28.7 - - + -
268B PHE* 5.6 1.1 - - + -
447B PRO 2.7 22.8 + - - +
450B TRP* 1.3 72.3 - - - +
452B THR* 1.3 66.4 + - - +
455B HIS* 2.8 73.3 + + + +
604B CLA 3.2 39.0 - + - -
607B CLA 3.8 8.6 - - - +
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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
----------------------------------------------------------
253B ALA* 3.6 22.6 - - + +
256B MET* 3.3 18.5 - - - +
257B TRP* 3.7 21.2 + - + -
448B ARG 2.7 24.2 + - - -
449B GLY 3.3 3.8 + - - -
451B PHE* 1.3 79.4 - - - +
453B PHE* 1.3 57.3 + - - +
456B ALA* 2.9 30.5 + - - +
291D LEU* 3.7 26.2 - - + -
102H DGD 4.0 11.7 - - + -
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Residues in contact with PHE 453 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
324B LEU* 3.7 28.5 - - + -
449B GLY 3.0 16.5 + - - +
450B TRP* 3.8 15.7 - + - +
452B THR* 1.3 76.4 - - - +
454B ALA* 1.3 65.3 + - - +
456B ALA* 3.9 2.4 - - - +
457B VAL* 3.0 49.9 + - + +
607B CLA 5.0 1.6 - - + -
622B LMG 3.7 33.0 - - + -
196D PHE* 5.4 4.5 - + - -
284D ILE* 4.2 12.1 - - + -
287D VAL* 4.5 3.4 - - + -
288D GLY* 3.6 35.4 - - - -
291D LEU* 3.5 9.9 - - + +
293D LEU* 3.5 23.3 - - + -
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Residues in contact with ALA 454 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
450B TRP 3.2 13.3 + - - +
451B PHE 4.1 1.8 - - - +
453B PHE* 1.3 84.2 - - - +
455B HIS* 1.3 59.4 + - - +
457B VAL* 3.7 4.3 - - - +
458B PHE* 2.8 44.8 + - + -
607B CLA 3.6 37.7 - - + -
622B LMG 4.2 13.7 - - + -
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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
----------------------------------------------------------
249B ALA* 4.0 16.1 - - + +
252B VAL* 4.3 2.2 - - + -
253B ALA* 4.3 5.8 - - + -
451B PHE* 2.8 67.9 + + + +
452B THR 4.3 1.3 - - - +
454B ALA* 1.3 76.9 - - - +
456B ALA* 1.3 59.0 + - - +
458B PHE* 4.5 2.2 - - - -
459B ALA* 2.9 31.4 + - - +
604B CLA 2.3 68.2 + + + -
607B CLA 4.0 22.7 - - + -
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Residues in contact with ALA 456 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
250B PHE* 3.9 13.3 - - + -
253B ALA* 4.0 11.9 - - + +
452B THR 2.9 18.1 + - - +
455B HIS* 1.3 77.2 - - - +
457B VAL* 1.3 61.2 + - - +
459B ALA* 3.7 6.2 + - - +
460B LEU* 3.2 23.0 + - - +
159D ILE* 5.0 2.9 - - + +
287D VAL* 3.6 24.5 - - + +
102H DGD 3.9 20.0 - - + -
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Residues in contact with VAL 457 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
453B PHE* 3.0 50.9 + - + +
454B ALA* 3.7 4.7 - - - +
456B ALA* 1.3 74.5 - - - +
458B PHE* 1.3 67.4 + - + +
460B LEU* 3.3 6.5 + - - +
461B LEU* 3.0 30.7 + - + +
622B LMG 4.0 36.3 - - + -
284D ILE* 4.0 22.6 - - + +
287D VAL* 3.7 14.6 - - + -
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Residues in contact with PHE 458 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
454B ALA* 2.8 40.5 + - + +
455B HIS* 4.1 4.7 - + - +
457B VAL* 1.3 71.8 - - + +
459B ALA* 1.3 60.0 + - - +
461B LEU* 3.2 13.7 + - + -
462B PHE* 2.8 35.6 + - + -
604B CLA 3.6 72.5 - + + -
607B CLA 4.4 0.7 - - + -
611B CLA 3.9 20.4 - - + -
613B CLA 4.6 14.8 - - + -
618B BCR 4.7 7.0 - - + -
622B LMG 4.0 36.6 - - + -
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Residues in contact with ALA 459 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246B PHE* 3.3 14.6 - - - +
249B ALA* 3.6 23.1 - - + -
250B PHE* 3.6 40.0 - - + +
455B HIS 2.9 19.9 + - - +
456B ALA 3.7 0.4 - - - +
458B PHE* 1.3 76.5 - - - +
460B LEU* 1.3 61.2 + - - +
462B PHE 3.3 1.4 + - - -
463B PHE* 3.1 17.5 + - - +
604B CLA 3.8 3.5 - - - +
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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
----------------------------------------------------------
250B PHE* 3.7 12.3 - - + -
456B ALA 3.2 15.6 + - - +
457B VAL* 3.3 4.9 + - - +
459B ALA* 1.3 79.3 - - - +
461B LEU* 1.3 61.4 + - + +
463B PHE* 3.2 16.0 + - + +
151D ALA* 4.5 16.8 - - + +
154D VAL* 4.4 13.7 - - + -
155D SER* 4.7 0.7 - - - -
159D ILE* 4.3 17.9 - - + -
280D TRP* 3.2 37.1 - - + -
283D ALA* 3.9 29.6 - - + -
284D ILE* 4.8 6.7 - - + +
287D VAL* 4.3 18.6 - - + -
102H DGD 4.9 7.4 - - + -
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Residues in contact with LEU 461 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
457B VAL* 3.0 34.0 + - + +
458B PHE* 3.2 11.6 + - + +
460B LEU* 1.3 75.8 - - + +
462B PHE* 1.3 61.0 + - + +
464B PHE* 3.0 20.3 + - - +
465B GLY 3.2 8.1 + - - -
611B CLA 3.5 16.6 - - + +
613B CLA 4.2 22.2 - - + -
622B LMG 4.1 18.8 - - + -
280D TRP* 4.0 16.4 - - + -
284D ILE* 4.0 19.3 - - + -
409D LHG 3.5 33.7 - - + -
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Residues in contact with PHE 462 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242B ILE* 3.1 29.5 - - + +
245B VAL* 4.1 13.0 - - + -
246B PHE* 3.7 16.4 - - + -
458B PHE* 2.8 26.3 + - + +
459B ALA 3.3 4.9 + - - +
461B LEU* 1.3 73.6 - - - +
463B PHE* 1.3 60.1 + - - +
466B HIS* 2.9 25.1 + - - +
604B CLA 3.4 30.5 - - + -
611B CLA 3.4 38.8 - - + -
613B CLA 3.3 63.5 - + + -
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Residues in contact with PHE 463 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246B PHE* 3.7 26.6 - + + -
459B ALA 3.1 11.9 + - - +
460B LEU* 3.2 13.2 + - + +
462B PHE* 1.3 77.2 - - - +
464B PHE* 1.3 62.8 + - - +
466B HIS* 3.3 2.8 + + - +
467B ILE* 3.1 48.5 + - + +
608B CLA 3.6 43.7 - + + -
126D MET* 4.4 3.4 - - - -
147D SER* 4.4 16.8 - - - -
150D ILE* 3.9 23.3 - - + -
151D ALA* 5.4 1.3 - - - -
280D TRP* 4.0 14.8 - + - -
102H DGD 3.8 31.0 - - + -
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Residues in contact with PHE 464 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
460B LEU 3.6 2.0 + - - -
461B LEU 3.0 11.3 + - - +
463B PHE* 1.3 80.3 - - - +
465B GLY* 1.3 57.8 + - - +
467B ILE* 3.2 8.0 + - + +
468B TRP* 2.9 42.3 + + + +
611B CLA 3.7 38.4 - - + -
144D ILE* 3.9 20.9 - - + -
147D SER* 3.3 29.8 - - - -
276D VAL* 5.1 1.1 - - + -
280D TRP* 3.6 20.4 - + + -
409D LHG 3.6 57.2 - - + -
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Residues in contact with GLY 465 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242B ILE* 4.0 5.8 - - - -
461B LEU 3.2 5.7 + - - -
462B PHE 3.2 7.2 + - - -
464B PHE* 1.3 79.4 - - - +
466B HIS* 1.3 55.1 + - - +
468B TRP* 3.4 0.7 + - - +
469B HIS* 2.9 38.6 + - - +
611B CLA 3.5 37.9 - - - +
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Residues in contact with HIS 466 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
239B SER* 2.9 38.0 + - - +
242B ILE* 3.4 15.8 - - + +
243B ALA* 3.6 7.3 - - + +
246B PHE* 3.9 17.7 - + + -
462B PHE 2.9 12.7 + - - +
463B PHE* 3.6 7.4 - + - +
464B PHE 3.3 0.2 - - - -
465B GLY* 1.3 74.6 - - - +
467B ILE* 1.3 62.5 - - + +
469B HIS* 4.0 0.2 - - - -
470B GLY* 2.8 31.2 + - - -
608B CLA 2.2 83.3 + + + -
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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
----------------------------------------------------------
463B PHE* 3.1 36.6 + - + +
464B PHE* 3.5 11.4 - - + +
466B HIS* 1.3 80.9 - - + +
468B TRP* 1.3 57.8 + - - +
470B GLY 3.8 0.2 - - - -
471B ALA* 2.9 29.5 + - - +
608B CLA 3.5 49.0 - - + +
126D MET* 3.4 28.3 - - + -
130D PHE* 3.9 13.8 - - + -
144D ILE* 4.0 17.5 - - + -
147D SER* 4.9 4.9 - - - -
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Residues in contact with TRP 468 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
464B PHE* 2.9 28.2 + + + +
465B GLY* 3.6 6.1 - - - +
467B ILE* 1.3 79.7 - - - +
469B HIS* 1.3 80.2 + + - +
471B ALA* 3.3 5.7 + - - +
472B ARG* 3.0 35.4 + - + +
479B PHE* 4.9 0.9 - + - -
611B CLA 2.8 65.2 + + + -
141D TYR* 4.3 4.9 - + - -
144D ILE* 3.7 33.2 - - + -
409D LHG 3.3 55.2 - - - -
417D DMS 3.5 26.2 - - + -
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Residues in contact with HIS 469 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
235B GLU* 2.6 32.1 + - + +
238B LEU* 3.7 15.1 - - + +
239B SER* 3.7 22.6 - - - +
242B ILE* 3.8 17.0 - - + -
465B GLY 2.9 25.9 + - - +
468B TRP* 1.3 86.5 - + - +
470B GLY* 1.3 56.7 + - - +
472B ARG* 3.7 2.0 - - - +
473B THR* 2.7 36.2 + - - -
611B CLA 2.2 64.8 + + + -
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Residues in contact with GLY 470 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
239B SER* 3.2 19.8 + - - -
466B HIS 2.8 14.8 + - - -
469B HIS* 1.3 73.4 - - - +
471B ALA* 1.3 63.8 + - - +
473B THR* 3.3 5.6 + - - -
474B LEU* 3.1 27.5 + - - +
608B CLA 3.9 23.3 - - - -
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Residues in contact with ALA 471 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
467B ILE 2.9 19.3 + - - +
468B TRP 3.5 5.6 - - - +
470B GLY* 1.3 75.2 - - - +
472B ARG* 1.3 57.0 + - - +
474B LEU* 5.2 0.2 - - - -
475B PHE* 3.0 43.7 + - - +
608B CLA 4.1 2.0 - - - +
130D PHE* 3.8 13.0 - - + -
140D PRO* 3.6 23.1 - - + -
144D ILE* 3.8 14.8 - - + -
417D DMS 4.0 5.2 - - - -
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Residues in contact with ARG 472 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
229A GLU* 5.3 4.4 + - - +
10B THR* 4.9 1.2 - - - +
13B ILE* 4.0 18.0 - - - +
233B ASN* 4.9 0.7 + - - -
235B GLU* 2.9 45.0 + - - +
468B TRP* 3.0 28.9 + - - +
469B HIS 3.7 1.3 - - - +
470B GLY 3.3 0.2 - - - -
471B ALA* 1.3 75.8 - - - +
473B THR* 1.3 62.7 + - - +
476B ARG* 3.1 49.9 + - - +
479B PHE* 3.2 59.7 - - - +
611B CLA 3.4 26.7 + - - +
417D DMS 3.7 18.6 - - + -
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Residues in contact with THR 473 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230B ARG* 3.9 21.0 - - + +
233B ASN* 4.2 14.2 + - - +
235B GLU* 3.1 23.9 + - - +
236B THR* 3.4 30.8 - - - +
239B SER* 4.4 0.3 - - - -
469B HIS 2.7 22.7 + - - -
470B GLY 3.6 5.2 - - - -
471B ALA 3.3 0.4 - - - -
472B ARG* 1.3 79.1 - - - +
474B LEU* 1.3 61.1 + - - +
476B ARG* 3.8 5.2 + - - +
608B CLA 3.6 15.4 - - - -
634B DMS 3.3 16.1 - - - +
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Residues in contact with LEU 474 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
228B ALA 3.5 25.6 - - - +
230B ARG* 4.4 9.9 - - + -
470B GLY 3.1 15.3 + - - +
473B THR* 1.3 77.0 - - - +
475B PHE* 1.3 72.6 + - + +
476B ARG 3.6 0.9 - - - -
608B CLA 3.7 57.0 - - + +
634B DMS 3.4 11.2 - - + +
134D ARG* 2.8 28.1 + - - -
414D UNL 4.1 14.8 - - + +
415D UNL 4.2 17.9 - - + -
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Residues in contact with PHE 475 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
471B ALA* 3.0 20.9 + - - +
472B ARG* 3.8 2.7 - - - -
474B LEU* 1.3 95.7 - - + +
476B ARG* 1.3 65.9 + - - +
477B ASP* 3.2 4.7 - - - -
478B VAL* 3.0 19.2 + - + +
479B PHE* 3.3 8.1 + - - -
130D PHE* 3.4 38.4 - + + -
133D ALA* 3.7 4.5 - - + -
134D ARG* 3.5 43.5 - - + +
138D VAL 3.4 26.7 - - - -
140D PRO* 3.5 30.5 - - + -
415D UNL 5.4 1.8 - - + -
417D DMS 3.7 16.0 + - - +
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
------------------------------------------------------------
Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il