Contacts of the helix formed by residues 36 - 64 (chain 4) in PDB entry 2X17
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 LEU 36 (chain 4).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
314 PHE* 2.8 33.4 + - + +
324 GLU* 4.6 0.9 + - - -
344 LEU* 4.0 28.0 - - + +
354 GLY* 1.3 78.0 - - - +
374 GLU* 1.3 60.1 + - - +
384 GLY 3.2 3.0 + - - -
394 PHE* 3.4 16.6 + - + +
404 ALA* 3.0 27.2 + - - +
834 PRO* 4.2 13.0 - - + -
1514 LEU* 4.5 23.8 - - + +
1524 PHE* 5.8 1.1 - - - -
1554 ASP* 3.4 28.0 - - + +
143P PHE* 5.0 12.1 - - + -
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Residues in contact with GLU 37 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
324 GLU* 3.6 20.7 - - - +
354 GLY* 3.4 11.4 + - - +
364 LEU* 1.3 72.0 - - - +
384 GLY* 1.3 59.6 + - - +
404 ALA* 3.8 6.9 - - - +
414 ASN* 2.9 41.3 + - - +
1554 ASP* 3.6 4.9 + - - +
1594 SER* 5.3 0.7 - - - -
136P LYS* 2.9 45.4 + - + +
140P LYS* 5.7 1.9 + - - +
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Residues in contact with GLY 38 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
374 GLU* 1.3 76.3 - - - +
394 PHE* 1.3 58.4 + - - +
414 ASN* 3.9 0.9 - - - +
424 TRP* 3.0 24.6 + - - +
1554 ASP* 2.9 34.1 + - - -
1584 LEU* 3.3 16.1 - - - +
1594 SER* 3.8 17.2 - - - -
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Residues in contact with PHE 39 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
314 PHE* 3.5 33.0 - + + -
364 LEU* 3.8 14.6 - - + +
384 GLY* 1.3 74.8 - - - +
404 ALA* 1.3 57.5 + - - +
424 TRP* 3.3 7.4 + - - +
434 MET* 3.0 33.6 + - - +
834 PRO* 5.1 0.7 - - + -
874 PHE* 3.6 32.5 - + - -
1374 ILE* 4.3 5.6 - - + -
1414 LEU* 4.1 21.5 - - + -
1514 LEU* 4.1 18.8 - - + -
1544 LEU* 4.1 15.5 - - + -
1554 ASP* 3.2 45.7 + - + -
1584 LEU* 3.6 23.1 - - + -
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Residues in contact with ALA 40 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
284 ALA* 3.4 27.8 - - - +
314 PHE* 3.8 4.2 - - - +
324 GLU* 3.4 34.1 - - - +
364 LEU 3.0 18.1 + - - +
374 GLU* 3.8 4.5 - - - +
394 PHE* 1.3 76.1 - - - +
414 ASN* 1.3 57.7 + - - +
434 MET 3.2 1.6 + - - -
444 LYS* 3.0 34.1 + - - +
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Residues in contact with ASN 41 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
374 GLU* 2.9 25.9 + - - +
384 GLY* 4.0 2.9 - - - +
404 ALA* 1.3 73.9 - - - +
424 TRP* 1.3 64.3 - - - +
444 LYS* 3.3 29.6 + - - +
454 ALA* 3.0 22.2 + - - +
1584 LEU 5.2 0.2 - - - +
1594 SER* 5.3 8.6 + - - +
1614 ARG 3.7 13.9 - - - +
1624 ALA* 4.5 7.4 - - - +
1634 PRO* 3.5 22.2 - - + +
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Residues in contact with TRP 42 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
244 TYR* 5.8 0.9 - + - -
384 GLY 3.0 19.5 + - - +
394 PHE* 3.4 6.5 - - - +
414 ASN* 1.3 76.4 - - - +
434 MET* 1.3 88.8 + - + +
454 ALA* 3.5 1.4 + - - +
464 GLN* 3.1 38.1 + - + +
874 PHE* 4.5 9.9 - + - -
1334 SER* 3.6 20.2 - - - -
1344 VAL* 4.4 17.9 - - + -
1374 ILE* 3.5 25.7 - - + +
1584 LEU* 3.6 36.9 - - + +
1614 ARG* 3.3 58.8 + - + +
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Residues in contact with MET 43 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
244 TYR* 3.4 49.0 - - + +
274 MET* 3.8 26.7 - - + -
284 ALA* 3.7 6.3 - - + -
314 PHE* 4.0 19.5 - - + -
394 PHE 3.0 16.0 + - - +
404 ALA 3.5 8.1 - - - +
414 ASN 3.2 0.2 - - - -
424 TRP* 1.3 89.7 - - + +
444 LYS* 1.3 59.2 + - - +
464 GLN* 3.3 4.1 + - - +
474 ALA* 2.9 28.1 + - - +
874 PHE* 3.7 41.3 - - + -
904 ALA* 4.7 4.7 - - + -
1344 VAL* 6.3 0.4 - - + -
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Residues in contact with LYS 44 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
244 TYR 5.2 0.2 - - - -
254 PHE* 4.8 11.7 - - + -
284 ALA* 3.8 10.1 - - + -
324 GLU* 2.8 22.0 + - - -
404 ALA 3.0 18.8 + - - +
414 ASN* 3.3 29.8 + - - +
434 MET* 1.3 76.1 - - - +
454 ALA* 1.3 61.9 + - - +
474 ALA* 3.3 9.2 + - - +
484 GLU* 3.2 25.6 + - - +
1634 PRO* 3.9 19.5 - - + +
55M LEU* 4.9 13.6 - - + +
58M TYR* 3.4 36.4 - - - -
59M ASN* 4.6 6.5 + - - -
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Residues in contact with ALA 45 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
414 ASN 3.0 16.4 + - - +
424 TRP 3.7 2.0 - - - +
444 LYS* 1.3 75.3 - - - +
464 GLN* 1.3 62.5 + - - +
484 GLU* 3.4 16.9 + - - +
494 GLU* 3.5 17.5 + - - +
1614 ARG* 3.6 27.0 + - + +
1624 ALA 3.7 25.4 - - - +
1634 PRO* 4.0 8.9 - - + +
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Residues in contact with GLN 46 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
244 TYR* 4.1 25.4 - - + -
424 TRP* 3.1 35.3 + - + +
434 MET* 3.5 9.6 - - - +
454 ALA* 1.3 76.4 - - - +
474 ALA* 1.3 62.1 + - - +
494 GLU* 3.2 15.6 + - - +
504 GLU* 3.0 29.9 + - - +
1304 GLU* 2.8 36.5 + - - +
1334 SER* 5.1 4.2 + - - -
1344 VAL* 5.5 3.2 - - + +
1614 ARG* 2.8 33.4 + - - +
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Residues in contact with ALA 47 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214 ALA* 3.3 50.8 - - + +
244 TYR* 4.2 6.7 - - + +
254 PHE* 4.3 10.1 - - + +
434 MET 2.9 13.2 + - - +
444 LYS* 3.4 14.1 - - - +
464 GLN* 1.3 77.4 - - - +
484 GLU* 1.3 61.2 + - - +
504 GLU* 3.4 1.0 + - - -
514 ILE* 3.3 14.5 + - + +
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Residues in contact with GLU 48 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
444 LYS 3.2 11.1 + - - +
454 ALA* 3.5 10.5 - - - +
464 GLN 3.2 0.6 - - - -
474 ALA* 1.3 75.4 - - + +
494 GLU* 1.3 64.5 + - + +
514 ILE* 3.3 15.3 + - + +
524 GLY* 3.1 17.5 + - - -
1634 PRO* 3.3 19.0 - - - +
1644 LYS* 2.8 32.7 + - - +
1654 LEU* 3.0 34.2 + - + +
1664 PRO* 3.6 1.7 - - - +
55M LEU* 5.9 0.5 - - - +
165M LEU* 4.0 27.5 - - + +
169M LEU* 4.4 11.1 - - + +
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Residues in contact with GLU 49 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
454 ALA 3.5 6.7 + - - +
464 GLN* 3.2 17.2 + - - +
484 GLU* 1.3 77.1 - - - +
504 GLU* 1.3 55.9 + - - +
524 GLY* 3.2 3.2 + - - +
534 HIS* 2.9 35.4 + - + -
1304 GLU* 4.5 0.7 - - - +
1614 ARG* 3.5 28.0 + - - +
1644 LYS* 5.0 6.9 + - - +
11734 AG 3.2 22.8 - - - -
169M LEU* 3.3 35.2 - - - +
170M MET* 3.6 18.1 + - - +
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Residues in contact with GLU 50 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174 GLU* 2.9 43.3 - - - +
204 SER* 3.5 14.8 + - - -
214 ALA* 3.6 19.7 - - - +
244 TYR* 3.8 15.4 - - + -
464 GLN* 3.0 36.0 + - - +
474 ALA 3.7 3.8 - - - +
484 GLU 3.2 0.6 - - - -
494 GLU* 1.3 74.1 - - - +
514 ILE* 1.3 60.2 + - - +
524 GLY 3.1 0.2 - - - -
534 HIS* 3.1 12.8 + - - +
544 ALA* 2.9 28.2 + - - +
944 GLU* 4.1 3.1 - - - +
974 ILE* 5.7 1.0 - - - +
1274 GLN* 5.1 3.3 + - - -
1304 GLU* 3.4 13.7 - - - +
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Residues in contact with ILE 51 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184 LEU* 4.9 15.3 - - + -
214 ALA* 3.7 15.0 - - + -
474 ALA* 3.3 18.4 + - + +
484 GLU* 3.3 16.3 + - + +
504 GLU* 1.3 75.5 - - - +
524 GLY* 1.3 57.7 + - - +
544 ALA* 3.3 8.7 + - + +
554 LEU* 3.0 40.6 + - + +
1654 LEU* 6.2 0.7 - - + -
25M PHE* 6.5 0.7 - - + -
51M ILE* 4.4 30.7 - - + -
165M LEU* 4.6 15.0 - - + -
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Residues in contact with GLY 52 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
484 GLU 3.1 12.6 + - - -
494 GLU 3.2 6.5 + - - -
504 GLU 3.1 0.4 - - - -
514 ILE* 1.3 76.0 - - - +
534 HIS* 1.3 62.7 + - - +
554 LEU* 3.2 13.9 + - - +
564 ARG* 3.1 28.3 + - - +
165M LEU* 5.4 1.9 - - - +
166M PRO* 6.1 0.4 - - - -
169M LEU* 4.4 19.7 - - - -
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Residues in contact with HIS 53 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174 GLU* 3.6 16.0 + - - +
494 GLU* 2.9 27.8 + - + -
504 GLU* 3.1 24.8 + - - +
524 GLY* 1.3 73.7 - - - +
544 ALA* 1.3 65.3 + - - +
564 ARG* 3.3 13.4 + - - +
574 PHE* 3.2 22.5 + - - -
1224 TRP* 3.5 27.8 - + - -
1234 PHE* 3.7 15.3 - + + -
1264 GLU* 3.2 23.9 + - - -
1304 GLU* 3.7 12.3 - - - -
11734 AG 2.2 31.4 - - - -
170M MET* 5.9 0.4 - - + -
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Residues in contact with ALA 54 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144 LEU* 3.6 25.7 - - + +
174 GLU* 4.0 8.7 - - + +
184 LEU* 3.8 33.9 - - + +
504 GLU 2.9 12.7 + - - +
514 ILE 3.5 9.0 - - - +
524 GLY 3.2 0.2 - - - -
534 HIS* 1.3 77.4 - - - +
554 LEU* 1.3 57.6 + - + +
574 PHE* 3.3 3.4 + - - -
584 TYR* 3.0 25.2 + - - +
25M PHE* 5.4 4.0 - - + -
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Residues in contact with LEU 55 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
514 ILE* 3.0 30.2 + - + +
524 GLY* 3.2 14.5 + - - +
544 ALA* 1.3 72.8 - - - +
564 ARG* 1.3 56.1 + - + +
584 TYR* 3.3 14.0 - - + +
594 ASN* 2.7 48.3 + - - +
25M PHE* 3.7 30.5 - - + -
44M LYS* 4.8 15.7 - - + -
48M GLU* 5.8 1.1 - - - +
163M PRO* 6.1 0.7 - - + -
165M LEU* 5.7 3.8 - - + -
166M PRO* 4.0 31.6 - - + -
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Residues in contact with ARG 56 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
524 GLY 3.1 16.8 + - - +
534 HIS* 3.5 11.1 - - - +
544 ALA 3.2 0.4 - - - -
554 LEU* 1.3 76.7 - - + +
574 PHE* 1.3 57.3 + - - +
594 ASN* 3.8 10.4 - - - +
604 TYR* 3.0 28.8 + - - +
1194 PHE* 3.6 9.8 - - + -
1224 TRP* 3.4 65.7 - - - +
1234 PHE* 3.7 12.8 - - + -
169M LEU 5.2 4.0 + - - -
170M MET* 5.0 9.3 - - - +
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Residues in contact with PHE 57 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104 LEU* 3.7 35.7 - - + +
134 GLN* 3.4 31.9 - - + -
144 LEU* 4.0 22.2 - - + -
174 GLU* 4.2 12.1 - - + -
534 HIS 3.2 21.0 + - - -
544 ALA 3.3 7.3 + - - +
554 LEU 3.3 0.4 - - - -
564 ARG* 1.3 73.9 - - - +
584 TYR* 1.3 66.7 + - - +
604 TYR* 3.9 0.6 - - + +
614 ILE* 3.0 31.5 + - + +
1014 ILE* 4.1 11.2 - - + -
1044 LEU* 4.5 0.7 - - + -
1194 PHE* 3.5 24.7 - + - -
1204 LEU* 4.1 9.0 - - + -
1234 PHE* 3.4 33.4 - + - -
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Residues in contact with TYR 58 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144 LEU* 3.7 10.7 - - + +
544 ALA 3.0 14.3 + - - +
554 LEU* 3.3 17.7 - - + +
574 PHE* 1.3 78.1 - - - +
594 ASN* 1.3 72.9 + - - +
614 ILE* 3.8 0.9 + - - +
624 TYR* 3.2 50.4 + + - -
684 VAL* 4.0 19.5 - - + -
25M PHE* 3.8 28.3 - + + -
28M ALA* 2.8 30.9 + - + -
29M ALA* 3.7 18.2 - - + -
32M GLU* 3.2 28.1 + - - +
44M LYS* 3.5 21.3 - - - -
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Residues in contact with ASN 59 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
554 LEU* 2.7 33.1 + - - +
564 ARG* 3.8 10.4 - - - +
574 PHE 3.3 0.2 - - - -
584 TYR* 1.3 88.3 - - - +
604 TYR* 1.3 62.7 + - - +
624 TYR* 3.6 4.2 + - - +
634 ASP* 3.1 33.1 + - - +
32M GLU* 6.1 0.2 - - - -
44M LYS* 4.5 7.1 + - - -
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Residues in contact with TYR 60 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24 LEU* 4.4 1.1 - - + +
104 LEU* 4.0 23.1 - - + -
564 ARG 3.0 18.9 + - - +
574 PHE 3.4 2.2 + - - +
594 ASN* 1.3 73.9 - - - +
614 ILE* 1.3 68.0 + - + +
634 ASP* 3.0 18.4 + - + +
644 ARG* 3.1 42.7 + - + +
1154 SER* 3.1 14.0 - - - -
1164 THR* 3.0 45.9 + - + -
1194 PHE* 3.5 51.8 - + + -
1288 VAL* 4.2 17.3 - - + -
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Residues in contact with ILE 61 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24 LEU* 4.6 4.6 - - + +
74 LEU* 3.8 13.9 - - + -
104 LEU* 4.0 39.9 - - + +
114 ASN* 3.9 16.6 - - - +
144 LEU* 3.9 10.1 - - + -
574 PHE* 3.0 23.3 + - + +
584 TYR 4.1 0.2 - - - +
604 TYR* 1.3 77.8 - - + +
624 TYR* 1.3 61.3 + - - +
644 ARG* 3.2 8.8 + - - +
654 ASN 3.6 0.2 + - - -
664 GLY* 2.9 25.4 + - - +
674 ARG 3.7 25.4 - - - +
684 VAL* 3.7 30.3 - - + -
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Residues in contact with TYR 62 (chain 4).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
584 TYR* 3.2 43.3 + + + +
594 ASN* 4.2 4.3 - - - +
604 TYR 3.2 0.8 - - - -
614 ILE* 1.3 74.4 - - - +
634 ASP* 1.3 64.0 + - - +
654 ASN* 3.5 11.3 + - - -
664 GLY 3.3 21.8 - - - -
674 ARG* 3.6 6.4 - - - -
684 VAL* 3.4 38.1 + - + -
1328 ALA* 5.3 0.9 - - - +
29M ALA* 2.4 31.8 + - - +
32M GLU* 3.7 31.0 - - + -
33M ASP* 3.6 25.6 - - + -
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Residues in contact with ASP 63 (chain 4).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
594 ASN* 3.1 27.4 + - - +
604 TYR* 3.0 14.1 + - - +
624 TYR* 1.3 78.2 - - - +
644 ARG* 1.3 63.7 + - - +
654 ASN 3.3 2.1 + - - -
1288 VAL* 4.2 21.8 - - + +
1298 GLU* 6.1 1.3 - - - -
1318 GLU* 5.5 1.7 - - - +
1328 ALA* 3.5 36.8 + - + +
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Residues in contact with ARG 64 (chain 4).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14 MET* 3.6 37.8 - - - +
24 LEU* 3.9 27.3 + - + +
604 TYR* 3.1 55.3 + - + +
614 ILE 3.2 3.1 + - - +
624 TYR 3.2 0.4 - - - -
634 ASP* 1.3 78.3 + - - +
654 ASN* 1.3 68.8 + - - +
664 GLY* 3.2 2.6 + - - -
1134 ASP* 4.8 5.3 + - - -
1154 SER* 3.3 27.1 + - - -
1028 TYR* 3.5 10.7 + - - -
1288 VAL* 3.9 30.7 + - - +
1318 GLU* 4.1 25.9 + - - +
----------------------------------------------------------
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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) + - + + + + + -
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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