Contacts of the helix formed by residues 36 - 64 (chain 3) 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 3).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
313 PHE* 3.1 28.9 + - + +
323 GLU* 5.1 0.2 - - - -
343 LEU* 4.3 18.2 - - + +
353 GLY* 1.3 74.4 - - - +
373 GLU* 1.3 58.6 + - - +
383 GLY 3.4 0.2 + - - -
393 PHE* 3.4 22.0 + - + +
403 ALA* 3.1 27.0 + - - +
833 PRO* 4.1 20.0 - - + -
1513 LEU* 4.2 27.4 - - + +
1523 PHE* 5.4 2.5 - - + -
1553 ASP* 3.2 32.5 - - + +
143Q PHE* 5.4 8.5 - - + -
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Residues in contact with GLU 37 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
323 GLU* 3.4 20.6 - - - +
353 GLY* 3.0 18.0 + - - +
363 LEU* 1.3 70.2 - - - +
383 GLY* 1.3 57.9 - - - +
403 ALA* 3.5 7.9 - - - +
413 ASN* 2.9 40.9 + - - +
1553 ASP* 3.5 4.3 + - - +
1593 SER* 5.3 0.7 - - - -
136Q LYS* 3.4 44.5 + - + +
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Residues in contact with GLY 38 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
373 GLU* 1.3 76.3 - - - +
393 PHE* 1.3 59.4 + - - +
413 ASN* 3.4 1.3 + - - -
423 TRP* 2.9 29.8 + - - +
1553 ASP* 2.8 29.2 + - - -
1583 LEU* 3.5 13.7 - - - +
1593 SER* 3.8 20.4 - - - -
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Residues in contact with PHE 39 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
313 PHE* 3.5 38.4 - + + -
363 LEU* 3.6 15.9 - - + +
383 GLY* 1.3 74.6 - - - +
403 ALA* 1.3 62.3 + - - +
423 TRP* 3.3 8.2 + - - +
433 MET* 3.1 27.7 + - - +
833 PRO* 5.2 0.2 - - + -
873 PHE* 3.8 22.3 - + - -
1373 ILE* 4.6 2.2 - - + -
1413 LEU* 4.1 17.7 - - + -
1513 LEU* 4.0 31.0 - - + -
1543 LEU* 4.1 13.0 - - + -
1553 ASP* 3.2 44.5 + - + -
1583 LEU* 3.6 24.7 - - + -
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Residues in contact with ALA 40 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
283 ALA* 3.5 27.3 - - - +
313 PHE* 3.9 3.3 - - - +
323 GLU* 3.4 34.1 - - - +
363 LEU 3.1 15.0 + - - +
373 GLU 3.5 8.1 - - - +
383 GLY 3.2 0.2 - - - -
393 PHE* 1.3 75.8 - - - +
413 ASN* 1.3 61.6 + - - +
433 MET 3.3 1.6 + - - -
443 LYS* 3.2 30.0 + - - +
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Residues in contact with ASN 41 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
323 GLU* 5.3 0.2 - - - +
373 GLU* 2.9 28.4 + - - +
383 GLY* 3.9 5.5 - - - +
403 ALA* 1.3 71.2 - - - +
423 TRP* 1.3 64.4 + - - +
443 LYS* 3.7 23.8 + - - +
453 ALA* 3.1 24.3 + - - +
1593 SER* 5.2 9.1 + - - +
1613 ARG 3.6 15.4 - - - +
1623 ALA* 5.1 6.0 - - - +
1633 PRO* 3.5 21.2 - - + +
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Residues in contact with TRP 42 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243 TYR* 5.9 0.7 - + - -
383 GLY 2.9 18.1 + - - +
393 PHE* 3.5 7.9 - - - +
403 ALA 3.3 0.2 - - - -
413 ASN* 1.3 76.3 - - - +
433 MET* 1.3 89.8 + - + +
453 ALA* 3.4 4.2 + - - +
463 GLN* 3.0 39.9 + - + +
873 PHE* 4.4 10.8 - + - -
1333 SER* 3.7 18.8 - - - -
1343 VAL* 4.3 19.3 - - + -
1373 ILE* 3.6 25.3 - - + +
1583 LEU* 3.6 33.5 - - + +
1613 ARG* 3.4 52.9 + - + +
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Residues in contact with MET 43 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243 TYR* 3.3 50.6 - - + +
273 MET* 3.8 30.3 - - + -
283 ALA* 3.6 13.7 - - + +
313 PHE* 4.0 10.1 - - + -
393 PHE 3.1 18.7 + - - +
413 ASN 3.3 0.2 - - - -
423 TRP* 1.3 90.5 - - + +
443 LYS* 1.3 55.4 + - - +
463 GLN* 3.1 3.0 + - - +
473 ALA* 2.8 35.0 + - - +
873 PHE* 3.7 39.0 - - + -
903 ALA* 4.7 4.7 - - + -
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Residues in contact with LYS 44 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243 TYR 5.5 0.2 - - - -
253 PHE* 4.7 13.0 - - + -
283 ALA* 3.9 10.1 - - + +
323 GLU* 3.1 20.5 + - - -
403 ALA 3.2 19.2 + - - +
413 ASN* 3.7 25.4 + - - +
423 TRP 3.4 0.2 - - - -
433 MET* 1.3 75.7 - - - +
453 ALA* 1.3 62.2 + - - +
473 ALA* 3.5 7.8 + - - +
483 GLU* 3.2 28.1 + - - +
1633 PRO* 3.9 20.4 - - + -
55L LEU* 4.8 14.5 - - + +
58L TYR* 3.4 37.4 - - - -
59L ASN* 4.4 7.3 + - - -
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Residues in contact with ALA 45 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
413 ASN 3.1 18.2 + - - +
423 TRP 3.6 5.2 - - - +
433 MET 3.2 0.2 - - - -
443 LYS* 1.3 76.1 - - - +
463 GLN* 1.3 59.4 + - - +
483 GLU* 3.6 8.6 + - - +
493 GLU* 3.5 24.1 + - - +
1613 ARG* 3.6 26.0 + - + +
1623 ALA 3.6 23.3 - - - +
1633 PRO* 4.1 8.2 - - - +
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Residues in contact with GLN 46 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243 TYR* 3.7 24.9 - - + -
423 TRP* 3.0 37.0 + - + +
433 MET* 3.1 9.6 + - - +
453 ALA* 1.3 76.7 - - - +
473 ALA* 1.3 63.3 + - - +
493 GLU* 3.2 18.0 + - - +
503 GLU* 3.2 21.7 + - - +
1303 GLU* 2.8 37.9 + - - +
1333 SER* 5.2 2.8 + - - -
1343 VAL* 6.0 2.7 - - + -
1613 ARG* 2.7 33.2 + - - +
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Residues in contact with ALA 47 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
213 ALA* 3.3 37.2 - - + +
243 TYR* 4.2 7.1 - - + +
253 PHE* 4.3 9.9 - - + +
433 MET 2.8 19.5 + - - +
443 LYS* 3.7 9.4 - - - +
463 GLN* 1.3 73.6 - - - +
483 GLU* 1.3 57.0 + - + +
503 GLU* 3.2 2.9 + - - -
513 ILE* 3.1 35.3 + - + +
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Residues in contact with GLU 48 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
443 LYS 3.2 10.0 + - - +
453 ALA* 3.7 10.1 - - - +
463 GLN 3.2 0.2 - - - -
473 ALA* 1.3 77.9 - - + +
493 GLU* 1.3 55.5 - - - +
513 ILE* 3.4 15.8 + - + +
523 GLY 3.1 20.6 + - - -
1623 ALA 4.8 0.2 - - - +
1633 PRO* 3.3 23.2 - - - +
1643 LYS* 2.8 28.7 + - - +
1653 LEU* 3.1 33.2 + - + +
1663 PRO* 3.6 1.4 - - - +
55L LEU* 5.7 1.7 - - - +
165L LEU* 4.0 17.7 - - + +
169L LEU* 3.6 21.5 - - + +
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Residues in contact with GLU 49 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
453 ALA 3.5 6.7 + - - +
463 GLN* 3.2 20.7 + - - +
483 GLU* 1.3 75.8 - - - +
503 GLU* 1.3 58.0 + - - +
523 GLY* 3.2 2.6 + - - -
533 HIS* 3.0 39.9 + - + -
1303 GLU* 4.6 0.2 - - - +
1613 ARG* 3.5 25.9 + - - +
1643 LYS* 4.8 7.6 + - - -
11733 AG 3.2 15.9 - - - -
169L LEU* 3.5 29.8 - - + +
170L MET* 3.1 27.0 + - - +
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Residues in contact with GLU 50 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173 GLU* 3.0 44.9 - - - +
203 SER* 3.5 21.4 + - - -
213 ALA* 3.6 9.9 - - - +
243 TYR* 3.5 16.4 - - + -
463 GLN* 3.2 18.9 + - - +
473 ALA 3.2 8.0 + - - +
493 GLU* 1.3 74.1 - - - +
513 ILE* 1.3 59.2 + - - +
533 HIS* 3.1 16.0 + - - +
543 ALA* 3.0 26.5 + - - +
943 GLU* 3.9 2.2 - - - +
973 ILE* 5.7 1.4 - - - +
1273 GLN* 5.3 2.6 + - - -
1303 GLU* 3.0 30.5 - - - +
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Residues in contact with ILE 51 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183 LEU* 4.9 15.5 - - + -
213 ALA* 3.7 15.7 - - + -
473 ALA* 3.1 19.3 + - + +
483 GLU* 3.6 19.1 - - + +
493 GLU 3.4 0.2 - - - -
503 GLU* 1.3 74.8 - - - +
523 GLY* 1.3 56.2 + - - +
543 ALA* 3.3 8.8 + - - +
553 LEU* 3.1 36.2 + - + +
1653 LEU* 6.2 1.8 - - + -
51L ILE* 4.8 27.8 - - + -
165L LEU* 4.2 17.5 - - + -
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Residues in contact with GLY 52 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
483 GLU 3.1 13.4 + - - -
493 GLU 3.5 5.6 - - - -
503 GLU 3.2 0.4 - - - -
513 ILE* 1.3 75.4 - - - +
533 HIS* 1.3 63.9 + - - +
553 LEU* 3.4 12.4 + - - +
563 ARG* 3.2 27.9 + - - +
165L LEU* 5.0 0.4 - - - +
169L LEU* 4.1 21.7 - - - +
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Residues in contact with HIS 53 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173 GLU* 3.5 18.9 + - - +
493 GLU* 3.0 27.1 + - + -
503 GLU* 3.1 24.4 + - - +
523 GLY* 1.3 75.0 - - - +
543 ALA* 1.3 64.8 + - - +
563 ARG* 3.2 14.2 + - - +
573 PHE* 3.3 20.7 + - - -
1223 TRP* 3.7 25.1 - + - -
1233 PHE* 3.6 13.6 - + + -
1263 GLU* 3.2 14.5 + - - -
1273 GLN* 5.3 0.6 + - - -
1303 GLU* 3.1 25.1 - - - -
11733 AG 2.2 31.8 - - - -
170L MET* 5.7 0.2 - - + -
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Residues in contact with ALA 54 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143 LEU* 3.5 23.0 - - + +
173 GLU* 3.9 15.4 - - + +
183 LEU* 3.8 32.8 - - + +
503 GLU 3.0 12.1 + - - +
513 ILE* 3.5 9.4 - - + +
523 GLY 3.3 0.2 - - - -
533 HIS* 1.3 77.0 - - - +
553 LEU* 1.3 57.1 + - + +
573 PHE* 3.5 2.2 + - - -
583 TYR* 3.1 24.0 + - - +
25L PHE* 5.4 3.4 - - + -
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Residues in contact with LEU 55 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
513 ILE* 3.1 29.8 + - + +
523 GLY* 3.6 15.0 - - - +
533 HIS 3.3 0.2 - - - -
543 ALA* 1.3 74.3 - - + +
563 ARG* 1.3 60.1 + - + +
583 TYR* 3.4 11.5 - - + +
593 ASN* 2.9 42.8 + - - +
25L PHE* 3.8 29.6 - - + -
44L LYS* 5.0 15.5 - - + +
48L GLU* 5.6 1.6 - - - +
163L PRO* 6.3 0.4 - - + -
165L LEU* 5.3 4.9 - - + -
166L PRO* 4.3 29.6 - - + -
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Residues in contact with ARG 56 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
523 GLY 3.2 15.3 + - - +
533 HIS* 3.2 11.5 + - - +
553 LEU* 1.3 76.0 - - - +
573 PHE* 1.3 58.9 + - - +
593 ASN* 3.5 9.7 + - - +
603 TYR* 3.1 27.9 + - - +
1193 PHE* 3.5 10.0 - - + -
1223 TRP* 3.4 52.8 - - - +
1233 PHE* 3.7 15.3 - - + -
170L MET* 5.7 0.4 - - - +
171L GLN* 3.2 27.7 - - - +
172L GLY 3.1 36.8 + - - +
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Residues in contact with PHE 57 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103 LEU* 3.9 34.1 - - + +
133 GLN* 3.4 34.3 - - + -
143 LEU* 3.9 20.2 - - + -
173 GLU* 3.9 14.6 - - + -
533 HIS 3.3 20.9 + - - -
543 ALA* 3.7 6.3 - - - +
553 LEU 3.4 0.2 - - - -
563 ARG* 1.3 74.7 - - - +
583 TYR* 1.3 66.5 + - - +
603 TYR* 3.3 1.7 + - - +
613 ILE* 3.0 30.3 + - + +
1013 ILE* 4.1 13.2 - - + -
1043 LEU* 4.4 1.3 - - + -
1193 PHE* 3.5 28.9 - + - -
1203 LEU* 4.2 9.6 - - + -
1233 PHE* 3.5 27.6 - + - -
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Residues in contact with TYR 58 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143 LEU* 3.5 11.3 - - + +
543 ALA 3.1 15.6 + - - +
553 LEU* 3.4 15.9 - - + +
573 PHE* 1.3 77.0 - - - +
593 ASN* 1.3 73.9 + - - +
613 ILE* 3.6 1.4 + - - +
623 TYR* 3.3 44.8 + + - -
683 VAL* 4.0 18.8 - - + -
25L PHE* 3.6 31.6 - + + -
28L ALA 3.0 27.5 + - - -
29L ALA* 3.9 22.9 - - + -
32L GLU* 3.0 28.8 + - + +
44L LYS* 3.4 22.8 - - - -
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Residues in contact with ASN 59 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
553 LEU* 2.9 30.1 + - - +
563 ARG* 3.9 8.3 - - - +
573 PHE 3.3 0.2 - - - -
583 TYR* 1.3 92.0 - - - +
603 TYR* 1.3 60.1 + - - +
623 TYR* 3.7 4.3 + - - +
633 ASP* 3.1 34.4 + - - +
32L GLU* 6.0 0.2 - - - -
44L LYS* 4.1 9.4 + - - -
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Residues in contact with TYR 60 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23 LEU* 4.3 1.7 - - + +
103 LEU* 4.0 24.5 - - + -
563 ARG 3.1 17.9 + - - +
573 PHE 3.3 4.2 + - - +
593 ASN* 1.3 76.1 - - - +
613 ILE* 1.3 66.0 + - - +
633 ASP* 3.1 18.0 + - + +
643 ARG* 3.1 43.7 + - + +
1153 SER* 3.1 13.0 - - - -
1163 THR* 2.8 49.7 + - + -
1193 PHE* 3.5 46.4 - + + -
128Y VAL* 4.2 15.9 - - + -
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Residues in contact with ILE 61 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23 LEU* 4.3 4.3 - - - +
73 LEU* 3.9 9.9 - - + -
103 LEU* 4.0 38.6 - - + -
113 ASN* 4.0 20.4 - - - +
143 LEU* 4.0 10.1 - - + -
573 PHE* 3.0 22.1 + - - +
583 TYR 3.9 4.5 - - - +
603 TYR* 1.3 78.4 - - + +
623 TYR* 1.3 60.2 + - + +
643 ARG* 3.2 9.4 + - - +
653 ASN 3.5 0.2 + - - -
663 GLY* 2.9 23.5 + - - -
673 ARG* 3.5 36.6 - - - +
683 VAL* 3.8 20.2 - - + -
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Residues in contact with TYR 62 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
583 TYR* 3.3 41.8 + + - +
593 ASN* 4.3 4.0 - - - +
603 TYR 3.3 0.4 - - - -
613 ILE* 1.3 72.1 - - - +
633 ASP* 1.3 65.7 - - - +
643 ARG 3.2 2.0 - - - -
653 ASN* 3.3 12.1 + - - +
663 GLY 3.5 22.9 - - - +
673 ARG* 3.5 7.6 + - - -
683 VAL* 3.5 35.0 + - + -
29L ALA* 2.5 34.6 + - - +
32L GLU* 3.8 30.1 - - + -
33L ASP* 3.7 25.6 - - + -
132Y ALA* 5.2 1.2 - - - +
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Residues in contact with ASP 63 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
593 ASN* 3.1 25.2 + - - +
603 TYR* 3.1 15.1 + - - +
623 TYR* 1.3 77.5 - - - +
643 ARG* 1.3 63.5 + - - +
653 ASN 3.3 2.1 + - - -
128Y VAL* 4.1 24.6 - - + +
129Y GLU* 6.0 3.9 - - - +
131Y GLU* 5.1 2.4 - - - +
132Y ALA* 3.5 38.5 + - + +
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Residues in contact with ARG 64 (chain 3).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13 MET* 3.8 37.0 - - - +
23 LEU* 3.8 29.1 + - + +
603 TYR* 3.1 49.3 + - + +
613 ILE 3.2 0.4 + - - +
623 TYR 3.2 0.4 - - - -
633 ASP* 1.3 77.2 + - - +
653 ASN* 1.3 68.7 + - - +
663 GLY* 3.3 2.8 + - - -
1133 ASP* 4.3 8.1 + - - -
1153 SER* 3.3 33.5 + - - -
102Y TYR* 3.3 14.5 + - - -
127Y GLN 5.4 0.4 - - - -
128Y VAL* 3.8 25.6 - - - +
131Y GLU* 3.9 26.6 + - - +
----------------------------------------------------------
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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