Contacts of the helix formed by residues 36 - 64 (chain 1) 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 1).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
311 PHE* 2.9 34.5 + - + +
321 GLU* 4.9 0.7 - - - -
341 LEU* 4.1 21.8 - - + +
351 GLY* 1.3 76.7 - - - +
371 GLU* 1.3 59.3 - - - +
381 GLY 3.2 2.9 + - - -
391 PHE* 3.5 14.1 + - + -
401 ALA* 3.1 26.9 + - - +
831 PRO* 4.1 18.8 - - + -
1511 LEU* 4.3 27.4 - - + +
1521 PHE* 5.7 1.8 - - - +
1551 ASP* 3.4 27.6 - - + +
143I PHE* 5.4 7.9 - - + -
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Residues in contact with GLU 37 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
321 GLU* 3.4 21.4 - - - +
351 GLY* 3.3 13.3 + - - +
361 LEU* 1.3 68.9 - - - +
381 GLY* 1.3 58.2 + - - +
401 ALA* 3.8 7.6 - - - +
411 ASN* 3.1 38.2 + - - +
1551 ASP* 3.6 4.3 + - - +
1591 SER* 5.3 1.3 - - - -
136I LYS* 2.8 47.6 + - + +
140I LYS* 6.2 0.7 - - - +
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Residues in contact with GLY 38 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
371 GLU* 1.3 75.7 - - - +
391 PHE* 1.3 58.7 + - - +
411 ASN* 3.4 1.7 + - - +
421 TRP* 3.0 30.0 + - - +
1551 ASP* 2.9 31.9 + - - -
1581 LEU* 3.8 12.3 - - - +
1591 SER* 4.0 16.3 - - - -
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Residues in contact with PHE 39 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
311 PHE* 3.4 31.6 - + + -
361 LEU* 3.5 13.7 + - + +
381 GLY* 1.3 74.0 - - - +
401 ALA* 1.3 62.5 + - - +
421 TRP* 3.5 7.1 + - - +
431 MET* 3.1 28.9 + - - +
831 PRO* 5.2 1.1 - - + -
871 PHE* 3.5 33.6 - + - -
1371 ILE* 4.3 3.8 - - + -
1411 LEU* 3.8 29.2 - - + -
1511 LEU* 4.0 29.2 - - + -
1541 LEU* 4.1 10.8 - - + -
1551 ASP* 3.2 31.1 + - + -
1581 LEU* 3.6 23.3 - - + -
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Residues in contact with ALA 40 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
281 ALA* 3.5 27.1 - - - +
311 PHE* 3.7 4.0 - - - +
321 GLU* 3.4 33.0 - - - +
361 LEU 3.1 18.9 + - - +
371 GLU 3.8 4.7 - - - +
391 PHE* 1.3 76.8 - - - +
411 ASN* 1.3 59.1 + - - +
431 MET 3.2 2.4 + - - -
441 LYS* 3.1 32.2 + - - +
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Residues in contact with ASN 41 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
321 GLU* 4.7 0.9 - - - +
371 GLU* 3.1 24.8 + - - +
381 GLY* 4.0 3.8 - - - +
401 ALA* 1.3 74.1 - - - +
421 TRP* 1.3 64.6 + - - +
441 LYS* 3.2 26.7 + - - +
451 ALA* 3.2 20.6 + - - +
1591 SER* 5.4 7.0 + - - +
1611 ARG 3.6 14.2 - - - +
1621 ALA* 4.8 7.1 - - - +
1631 PRO* 3.4 25.6 - - + +
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Residues in contact with TRP 42 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241 TYR* 6.0 0.9 - + - -
381 GLY 3.0 17.1 + - - +
391 PHE* 3.6 7.2 - - - +
401 ALA 3.3 0.2 - - - -
411 ASN* 1.3 76.2 - - - +
431 MET* 1.3 92.3 + - + +
451 ALA* 3.4 3.6 + - - +
461 GLN* 3.0 41.3 + - + +
871 PHE* 4.4 9.2 - + - -
1331 SER* 3.7 19.1 - - - -
1341 VAL* 4.4 20.4 - - + -
1371 ILE* 3.6 24.7 - - + +
1581 LEU* 3.6 36.8 - - + +
1611 ARG* 3.3 52.8 + - + +
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Residues in contact with MET 43 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241 TYR* 3.3 52.3 - - + +
271 MET* 3.7 31.4 - - + -
281 ALA* 3.7 7.9 - - + +
311 PHE* 4.2 7.6 - - + -
391 PHE 3.1 20.7 + - - +
401 ALA 3.2 5.1 + - - +
421 TRP* 1.3 92.0 - - + +
441 LYS* 1.3 58.5 - - - +
461 GLN* 3.4 2.5 + - - +
471 ALA* 2.9 28.1 + - - +
871 PHE* 3.6 39.0 - - + -
901 ALA* 4.5 5.6 - - + -
1341 VAL* 6.5 0.2 - - + -
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Residues in contact with LYS 44 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241 TYR 5.3 0.2 - - - -
251 PHE* 4.7 13.2 - - + -
281 ALA* 3.8 10.1 - - + -
321 GLU* 3.0 27.3 + - - -
401 ALA 3.1 19.9 + - - +
411 ASN* 3.2 27.9 + - - +
421 TRP 3.4 0.2 - - - -
431 MET* 1.3 73.4 - - - +
451 ALA* 1.3 63.9 + - - +
471 ALA* 3.3 8.3 + - - +
481 GLU* 3.2 26.5 + - - +
1631 PRO* 3.9 22.2 - - + -
55J LEU* 4.8 13.8 - - + +
58J TYR* 3.5 29.5 - - - -
59J ASN* 4.5 6.9 + - - -
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Residues in contact with ALA 45 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
411 ASN 3.2 15.3 + - - +
421 TRP 3.6 2.9 - - - +
441 LYS* 1.3 78.7 - - - +
461 GLN* 1.3 62.3 + - - +
481 GLU* 3.4 9.8 + - - +
491 GLU* 3.4 23.0 + - - +
1611 ARG* 3.6 28.6 + - + +
1621 ALA 3.8 22.0 - - - +
1631 PRO* 4.1 8.4 - - - +
169J LEU* 5.7 0.2 - - - +
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Residues in contact with GLN 46 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241 TYR* 3.8 23.6 - - + -
421 TRP* 3.0 39.9 + - + +
431 MET* 3.7 6.1 - - - +
441 LYS 3.3 0.2 - - - -
451 ALA* 1.3 75.0 - - - +
471 ALA* 1.3 63.5 + - - +
491 GLU* 3.2 15.8 + - - +
501 GLU* 2.8 29.1 + - - +
1301 GLU* 2.7 33.6 + - - +
1331 SER* 5.3 3.5 + - - -
1341 VAL* 5.8 3.8 - - + +
1611 ARG* 3.2 28.0 + - - +
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Residues in contact with ALA 47 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211 ALA* 3.4 42.7 - - + +
241 TYR* 4.4 2.4 - - - +
251 PHE* 4.3 13.0 - - + +
431 MET 2.9 17.9 + - - +
441 LYS* 3.4 10.8 - - - +
451 ALA 3.3 0.2 - - - -
461 GLN* 1.3 78.5 - - - +
481 GLU* 1.3 60.4 + - + +
501 GLU* 3.4 2.6 + - - -
511 ILE* 3.3 22.2 + - + +
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Residues in contact with GLU 48 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
441 LYS 3.2 10.8 + - - +
451 ALA* 3.5 9.1 - - - +
461 GLN 3.2 0.2 - - - -
471 ALA* 1.3 75.4 - - + +
491 GLU* 1.3 62.8 + - - +
511 ILE* 3.4 15.7 + - + +
521 GLY 3.1 16.8 + - - -
1631 PRO* 3.3 18.1 - - - +
1641 LYS* 2.8 30.9 + - - +
1651 LEU* 3.1 32.4 + - + +
1661 PRO* 3.5 1.9 - - - +
55J LEU* 5.8 1.6 - - - +
165J LEU* 3.7 25.6 - - + +
169J LEU* 3.8 16.4 - - + +
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Residues in contact with GLU 49 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
451 ALA 3.4 6.4 + - - +
461 GLN* 3.2 20.1 + - - +
481 GLU* 1.3 77.0 - - - +
501 GLU* 1.3 56.9 + - - +
521 GLY* 3.3 2.8 + - - -
531 HIS* 3.1 33.2 + - + -
1301 GLU* 4.7 1.1 - - - +
1611 ARG* 3.5 27.8 + - - +
1641 LYS* 5.0 6.8 + - - +
11731 AG 3.1 23.8 - - - -
169J LEU* 3.4 35.4 - - + +
170J MET* 3.3 21.5 + - - +
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Residues in contact with GLU 50 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171 GLU* 2.9 43.9 - - - +
201 SER* 3.4 23.6 + - - -
211 ALA* 3.6 12.6 - - - +
241 TYR* 4.0 12.3 - - + -
461 GLN* 2.8 35.8 + - - +
471 ALA 3.6 4.3 - - - +
481 GLU 3.2 0.4 - - - -
491 GLU* 1.3 75.2 - - - +
511 ILE* 1.3 60.4 + - - +
521 GLY 3.2 0.2 - - - -
531 HIS* 3.1 13.3 + - - +
541 ALA* 3.0 26.7 + - - +
941 GLU* 4.0 2.7 - - - +
971 ILE* 5.5 1.7 - - - +
1271 GLN* 5.1 2.8 + - - -
1301 GLU* 3.1 17.0 - - - +
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Residues in contact with ILE 51 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181 LEU* 5.0 13.2 - - + -
211 ALA* 3.8 14.4 - - + -
471 ALA* 3.3 18.0 + - + +
481 GLU* 3.4 17.5 + - + +
501 GLU* 1.3 75.8 - - - +
521 GLY* 1.3 57.7 + - - +
541 ALA* 3.3 8.4 + - + +
551 LEU* 3.1 38.8 + - + +
1651 LEU* 6.1 1.6 - - + -
51J ILE* 4.5 28.7 - - + -
165J LEU* 4.1 19.3 - - + -
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Residues in contact with GLY 52 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
481 GLU 3.1 12.8 + - - -
491 GLU 3.3 6.0 + - - -
501 GLU 3.2 0.4 - - - -
511 ILE* 1.3 74.7 - - - +
531 HIS* 1.3 64.6 + - - +
551 LEU* 3.3 12.3 + - - +
561 ARG* 3.1 29.5 + - - +
165J LEU* 5.1 0.2 - - - +
166J PRO* 6.1 0.2 - - - -
169J LEU* 4.0 21.5 - - - +
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Residues in contact with HIS 53 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171 GLU* 3.3 24.2 + - - +
491 GLU* 3.1 19.0 + - + -
501 GLU* 3.1 37.1 + - - +
521 GLY* 1.3 72.6 - - - +
541 ALA* 1.3 65.6 + - - +
561 ARG* 3.2 13.2 + - - +
571 PHE* 3.2 21.1 + - - -
1221 TRP* 3.7 24.7 - + - -
1231 PHE* 3.7 13.8 - + + -
1261 GLU* 3.0 25.7 + - - -
1271 GLN* 4.9 1.3 + - - -
1301 GLU* 4.2 3.8 - - - -
11731 AG 2.2 30.4 - - - -
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Residues in contact with ALA 54 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141 LEU* 3.6 23.5 - - + +
171 GLU* 3.9 9.8 - - + +
181 LEU* 3.8 34.1 - - + -
501 GLU 3.0 13.4 + - - +
511 ILE* 3.5 9.4 - - + +
521 GLY 3.3 0.2 - - - -
531 HIS* 1.3 77.0 - - - +
551 LEU* 1.3 58.3 + - + +
571 PHE* 3.4 2.5 + - - +
581 TYR* 3.0 26.2 + - - +
25J PHE* 5.3 4.5 - - + -
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Residues in contact with LEU 55 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
511 ILE* 3.1 34.1 + - + +
521 GLY* 3.6 11.4 - - - +
531 HIS 3.3 0.2 - - - -
541 ALA* 1.3 76.5 - - + +
561 ARG* 1.3 54.8 + - + +
581 TYR* 3.4 11.0 - - + +
591 ASN* 2.8 47.3 + - - +
25J PHE* 3.9 29.4 - - + -
44J LYS* 4.9 17.0 - - + +
163J PRO* 6.3 0.4 - - + -
165J LEU* 5.5 3.8 - - + -
166J PRO* 4.1 31.0 - - + -
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Residues in contact with ARG 56 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
521 GLY 3.1 19.2 + - - +
531 HIS* 3.2 10.5 + - - +
551 LEU* 1.3 76.3 - - + +
571 PHE* 1.3 60.3 + - - +
591 ASN* 4.0 8.1 - - - +
601 TYR* 3.1 27.7 + - - +
1191 PHE* 3.6 9.0 - - + -
1221 TRP* 3.4 51.2 - - - +
1231 PHE* 3.6 14.8 - - + -
170J MET 3.4 19.4 + - - -
171J GLN* 3.6 8.1 + - - +
172J GLY 3.3 39.4 + - - +
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Residues in contact with PHE 57 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101 LEU* 4.0 32.3 - - + +
131 GLN* 3.3 31.6 - - + -
141 LEU* 4.1 19.5 - - + -
171 GLU* 4.0 15.9 - - + -
531 HIS 3.2 19.9 + - - -
541 ALA 3.7 6.5 - - - +
561 ARG* 1.3 73.5 - - - +
581 TYR* 1.3 61.4 + - - +
601 TYR* 3.8 0.9 - + - +
611 ILE* 2.9 36.3 + - + +
1011 ILE* 3.8 15.3 - - + -
1041 LEU* 4.2 0.7 - - + -
1191 PHE* 3.6 26.9 - + - -
1201 LEU* 4.2 7.0 - - + -
1231 PHE* 3.5 31.6 - + - -
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Residues in contact with TYR 58 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141 LEU* 3.6 12.3 - - + +
541 ALA 3.0 15.2 + - - +
551 LEU* 3.4 16.4 - - + +
571 PHE* 1.3 78.4 - - - +
591 ASN* 1.3 76.1 + - - +
611 ILE* 3.6 1.4 + - - +
621 TYR* 3.3 49.7 + + + -
681 VAL* 4.0 19.1 - - + -
25J PHE* 3.7 29.8 - + + -
28J ALA 3.0 23.3 + - - -
29J ALA* 3.9 16.6 - - + -
32J GLU* 2.9 33.0 + - - +
44J LYS* 3.5 22.3 - - - -
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Residues in contact with ASN 59 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
551 LEU* 2.8 31.7 + - - +
561 ARG* 4.0 8.5 - - - +
571 PHE 3.3 0.2 - - - -
581 TYR* 1.3 89.1 - - - +
601 TYR* 1.3 63.9 + - - +
621 TYR* 3.6 4.4 + - - +
631 ASP* 3.1 34.4 + - - +
32J GLU* 5.9 0.3 - - - -
44J LYS* 4.5 6.9 + - - -
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Residues in contact with TYR 60 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21 LEU* 4.3 1.3 - - + -
101 LEU* 4.0 23.3 - - + -
561 ARG 3.1 19.2 + - - +
571 PHE 3.3 3.1 + - - +
591 ASN* 1.3 75.9 - - - +
611 ILE* 1.3 66.7 + - - +
631 ASP* 3.2 7.9 + - + +
641 ARG* 3.1 52.1 + - + +
1151 SER* 3.1 12.5 - - - -
1161 THR* 2.8 45.5 + - + -
1191 PHE* 3.5 51.6 - + + -
1285 VAL* 4.1 17.9 - - + -
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Residues in contact with ILE 61 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21 LEU* 4.4 4.6 - - + +
71 LEU* 3.8 13.2 - - + -
101 LEU* 3.9 44.2 - - + +
111 ASN* 4.1 9.6 - - - +
141 LEU* 3.8 24.0 - - + -
571 PHE* 2.9 23.0 + - + +
581 TYR 3.9 4.0 - - - +
591 ASN 3.4 0.4 - - - -
601 TYR* 1.3 78.4 - - + +
621 TYR* 1.3 60.6 + - + +
641 ARG* 3.2 9.4 + - - +
661 GLY* 2.8 24.1 + - - -
671 ARG 3.6 26.2 - - - +
681 VAL* 3.8 16.2 - - + -
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Residues in contact with TYR 62 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
581 TYR* 3.3 43.0 + + + +
591 ASN* 4.2 4.3 - - - +
601 TYR 3.3 0.2 - - - -
611 ILE* 1.3 74.7 - - - +
631 ASP* 1.3 65.7 + - - +
641 ARG 3.2 0.7 - - - -
651 ASN* 3.3 12.7 + - - +
661 GLY 3.5 21.3 - - - +
671 ARG* 3.4 16.3 + - - -
681 VAL* 3.5 29.7 + - + -
1325 ALA* 5.3 0.5 - - - +
29J ALA* 2.5 31.7 + - - +
32J GLU* 3.7 29.2 - - + -
33J ASP* 3.7 25.1 - - + -
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Residues in contact with ASP 63 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
591 ASN* 3.1 27.9 + - - +
601 TYR* 3.2 10.9 + - - +
621 TYR* 1.3 77.4 - - - +
641 ARG* 1.3 63.4 + - - +
651 ASN 3.3 2.2 + - - -
1285 VAL* 4.2 20.1 - - + +
1295 GLU* 5.5 7.2 - - - +
1315 GLU* 5.0 2.1 - - - +
1325 ALA* 3.4 40.1 + - + +
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Residues in contact with ARG 64 (chain 1).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11 MET* 3.5 38.3 + - - +
21 LEU* 4.0 25.5 + - + +
601 TYR* 3.1 43.0 + - + +
611 ILE 3.2 4.0 + - - +
621 TYR 3.2 0.4 - - - -
631 ASP* 1.3 78.0 + - - +
651 ASN* 1.3 68.3 + - - +
661 GLY* 3.3 2.3 + - - -
1131 ASP* 4.6 5.7 + - - -
1151 SER* 3.3 33.7 + - - -
1025 TYR* 3.5 10.3 + - - -
1275 GLN 4.9 0.4 + - - -
1285 VAL* 3.9 33.2 - - - +
1315 GLU* 3.7 30.8 + - - +
----------------------------------------------------------
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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