Contacts of the helix formed by residues 82 - 112 (chain 6) 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 SER 82 (chain 6).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
306 TYR* 3.3 10.8 + - - -
806 TRP* 3.3 1.9 - - - +
816 GLU* 1.3 79.2 - - - +
836 PRO* 1.4 73.5 - - - +
846 LEU* 3.6 12.8 + - - +
856 LYS* 3.2 28.2 + - - +
866 ALA* 3.1 20.4 + - - +
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Residues in contact with PRO 83 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
306 TYR* 3.9 6.5 - - + +
316 PHE* 3.6 23.3 - - + -
346 LEU* 4.1 20.6 - - + -
366 LEU* 4.1 13.2 - - + -
396 PHE* 5.2 0.7 - - + -
826 SER* 1.4 88.0 - - - +
846 LEU* 1.3 59.7 + - - +
866 ALA* 3.4 4.5 + - + +
876 PHE* 3.3 20.6 + - - -
1416 LEU* 3.5 26.3 - - + +
1516 LEU* 4.4 17.3 - - + -
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Residues in contact with LEU 84 (chain 6).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
826 SER* 3.1 11.1 + - - +
836 PRO* 1.3 79.7 - - - +
856 LYS* 1.3 61.6 + - + +
876 PHE* 3.4 3.3 + - - +
886 GLU* 3.1 45.2 + - - +
1386 LEU* 3.9 9.8 - - + +
1416 LEU* 3.7 29.7 - - + +
1426 LYS* 3.7 44.0 - - + +
1456 LYS* 5.1 13.5 - - + -
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Residues in contact with LYS 85 (chain 6).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
806 TRP* 3.9 7.3 - - + -
816 GLU* 4.2 31.9 - - + +
826 SER* 3.2 27.0 + - - +
846 LEU* 1.3 80.5 - - + +
866 ALA* 1.3 58.2 + - - +
876 PHE 3.4 0.2 - - - -
886 GLU* 3.4 28.6 + - + +
896 ALA* 3.1 26.5 + - - +
----------------------------------------------------------
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Residues in contact with ALA 86 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
276 MET* 3.4 19.3 - - - +
306 TYR* 4.2 7.0 - - + -
316 PHE* 4.0 22.2 - - + -
806 TRP* 3.8 27.3 - - + +
826 SER 3.1 11.3 + - - +
836 PRO 3.5 9.6 - - - +
846 LEU 3.2 0.2 - - - -
856 LYS* 1.3 78.5 - - - +
876 PHE* 1.3 58.1 + - - +
896 ALA* 3.3 1.9 + - - +
906 ALA* 3.0 21.7 + - - +
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Residues in contact with PHE 87 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
316 PHE* 3.7 13.9 - + - -
396 PHE* 3.6 29.6 - + - -
426 TRP* 4.3 14.1 - + + -
436 MET* 3.7 25.8 - - + -
836 PRO 3.3 9.0 + - - -
846 LEU 3.4 2.9 + - - +
866 ALA* 1.3 75.6 - - - +
886 GLU* 1.3 61.2 + - - +
906 ALA* 3.6 4.9 - - + +
916 TYR* 2.9 30.3 + - - +
1346 VAL* 3.9 32.8 - - + +
1376 ILE* 3.7 38.4 - - + -
1386 LEU* 3.4 12.4 - - + +
1416 LEU* 3.6 28.0 - - + -
1586 LEU* 5.0 1.3 - - + -
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Residues in contact with GLU 88 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
846 LEU* 3.1 33.0 + - + +
856 LYS* 3.4 38.0 + - + +
876 PHE* 1.3 76.3 - - - +
896 ALA* 1.3 57.0 + - - +
916 TYR* 4.0 2.3 - - - +
926 GLU* 3.1 30.2 + - - +
1386 LEU* 3.8 22.7 - - + -
1426 LYS* 4.1 18.4 + - - -
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Residues in contact with ALA 89 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236 LEU* 5.1 1.0 - - - +
276 MET* 4.2 6.5 - - + +
806 TRP* 3.4 29.8 - - + +
856 LYS 3.1 11.7 + - - +
866 ALA 3.5 6.3 - - - +
876 PHE 3.2 0.2 - - - -
886 GLU* 1.3 75.3 - - - +
906 ALA* 1.3 58.9 + - - +
926 GLU* 3.7 9.9 + - - +
936 HIS* 3.2 26.7 + - - +
----------------------------------------------------------
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Residues in contact with ALA 90 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246 TYR* 3.8 19.0 + - + +
276 MET* 3.8 19.9 - - + +
436 MET* 4.7 5.8 - - + -
866 ALA 3.0 15.7 + - - +
876 PHE* 3.6 10.5 - - - +
886 GLU 3.3 0.2 - - - -
896 ALA* 1.3 74.8 - - - +
916 TYR* 1.3 59.7 + - - +
936 HIS* 3.2 6.8 + - - +
946 GLU* 2.8 31.9 + - - +
1346 VAL* 4.1 13.2 - - + -
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Residues in contact with TYR 91 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15 MET* 4.8 11.5 - - - +
655 ASN* 4.7 10.4 + - - +
876 PHE 2.9 17.1 + - - +
886 GLU* 4.0 3.1 - - - +
906 ALA* 1.3 73.8 - - - +
926 GLU* 1.3 65.4 + - - +
946 GLU* 3.4 4.2 + - + +
956 LYS* 3.1 51.2 + - - +
1316 GLU* 3.7 39.6 + - + -
1346 VAL* 3.7 9.4 - - + +
1356 LYS* 3.5 50.8 - - + +
1386 LEU* 3.6 20.6 - - + -
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Residues in contact with GLU 92 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
886 GLU 3.1 19.4 + - - +
896 ALA* 3.9 9.7 - - - +
916 TYR* 1.3 76.5 - - - +
936 HIS* 1.3 58.9 + - - +
956 LYS* 3.5 17.5 + - - +
966 PHE* 3.2 23.7 + - - +
----------------------------------------------------------
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Residues in contact with HIS 93 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196 TYR* 3.7 30.1 - + - -
206 SER* 3.1 31.3 + - - -
236 LEU* 3.6 24.9 - - + +
246 TYR* 4.3 11.7 - + - -
896 ALA 3.2 18.5 + - - +
906 ALA 3.5 5.4 - - - +
916 TYR 3.2 0.2 - - - -
926 GLU* 1.3 77.5 - - - +
946 GLU* 1.3 59.0 + - - +
956 LYS 3.2 0.2 - - - -
966 PHE* 3.2 31.5 + + - +
976 ILE* 2.9 35.3 + - + +
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Residues in contact with GLU 94 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206 SER* 5.4 0.5 + - - -
246 TYR* 2.7 31.6 + - - +
466 GLN* 5.8 0.2 - - - -
506 GLU* 4.1 3.1 - - - +
906 ALA 2.8 13.5 + - - +
916 TYR* 3.7 9.0 - - + +
926 GLU 3.4 0.2 - - - -
936 HIS* 1.3 78.9 - - - +
956 LYS* 1.3 58.3 + - - +
976 ILE* 3.6 6.2 + - - +
986 SER* 2.9 31.7 + - - -
1276 GLN* 3.0 26.7 + - - +
1306 GLU* 3.0 39.6 - - - +
1316 GLU* 3.9 15.7 + - + +
1346 VAL* 4.1 18.6 - - + -
----------------------------------------------------------
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Residues in contact with LYS 95 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15 MET* 5.7 19.1 - - + +
916 TYR* 3.1 45.2 + - + +
926 GLU* 3.7 18.2 - - + +
936 HIS 3.2 0.2 - - - -
946 GLU* 1.3 73.6 - - - +
966 PHE* 1.3 60.0 + - - +
986 SER* 3.6 2.2 + - - -
996 LYS* 3.0 28.8 + - - +
1316 GLU* 3.8 24.9 - - - +
----------------------------------------------------------
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Residues in contact with PHE 96 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166 ARG* 4.2 33.9 - - + -
196 TYR* 6.1 0.9 - + - -
926 GLU 3.2 14.4 + - - +
936 HIS* 3.2 37.2 + + - +
956 LYS* 1.3 74.9 - - - +
976 ILE* 1.3 70.0 + - + +
996 LYS* 3.5 10.4 + - + +
1006 SER* 3.2 24.5 + - - -
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Residues in contact with ILE 97 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136 GLN* 4.1 7.0 - - - +
166 ARG* 4.0 25.4 - - + +
176 GLU* 3.9 18.4 - - - +
206 SER* 3.4 26.7 - - - +
506 GLU* 5.7 1.1 - - - +
936 HIS* 2.9 34.0 + - + +
946 GLU* 4.0 10.5 - - - +
966 PHE* 1.3 84.0 - - + +
986 SER* 1.3 58.2 + - - +
1006 SER* 2.7 18.6 + - - +
1016 ILE* 3.0 19.4 + - + +
1276 GLN* 3.7 27.1 - - - +
----------------------------------------------------------
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Residues in contact with SER 98 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
946 GLU 2.9 16.8 + - - -
956 LYS* 3.8 4.9 - - - -
976 ILE* 1.3 77.6 - - - +
996 LYS* 1.3 56.5 + - - +
1016 ILE* 3.2 8.9 + - - +
1026 TYR* 2.9 50.6 + - - -
1276 GLN* 3.1 26.3 + - - +
1316 GLU* 2.7 28.3 + - - -
----------------------------------------------------------
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Residues in contact with LYS 99 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
956 LYS 3.0 19.1 + - - +
966 PHE* 3.7 10.5 - - + +
976 ILE 3.3 0.2 - - - -
986 SER* 1.3 77.2 - - - +
1006 SER* 1.3 56.1 + - - +
1026 TYR* 3.2 17.1 + - + +
1036 GLU* 3.0 49.4 + - + +
----------------------------------------------------------
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Residues in contact with SER 100 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136 GLN* 3.1 22.5 + - - -
166 ARG* 3.9 26.4 + - - -
966 PHE* 3.2 17.5 + - - -
976 ILE* 2.7 23.6 + - - -
996 LYS* 1.3 74.7 - - - +
1016 ILE* 1.3 59.5 + - - +
1036 GLU* 3.7 15.1 + - - +
1046 LEU* 3.3 28.1 + - - +
----------------------------------------------------------
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Residues in contact with ILE 101 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136 GLN* 3.7 31.9 - - + +
176 GLU* 4.7 1.1 - - - +
576 PHE* 4.1 15.3 - - + -
976 ILE* 3.0 25.3 + - + +
986 SER* 3.4 11.4 - - - +
996 LYS 3.2 0.2 - - - -
1006 SER* 1.3 74.8 - - - +
1026 TYR* 1.3 61.1 + - + +
1046 LEU* 3.3 5.4 + - + +
1056 ALA* 3.0 25.5 + - - +
1206 LEU* 4.3 12.4 - - + +
1236 PHE* 4.1 26.9 - - + +
1246 ILE* 3.9 30.5 - - + +
1276 GLN* 4.6 7.0 - - + -
----------------------------------------------------------
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Residues in contact with TYR 102 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
645 ARG* 3.1 18.9 + - - -
1125 LYS 5.4 2.7 - - - -
1135 ASP* 5.1 1.9 + - - -
1145 TYR* 3.6 46.0 - + + -
1155 SER* 2.5 31.5 + - - -
986 SER* 2.9 37.8 + - - -
996 LYS* 3.2 18.4 + - + +
1016 ILE* 1.3 81.0 - - + +
1036 GLU* 1.3 58.0 + - + +
1056 ALA* 3.2 7.5 + - - +
1066 ALA* 2.9 29.3 + - - +
1246 ILE* 4.5 9.2 - - + -
1316 GLU* 4.9 0.5 + - - -
----------------------------------------------------------
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Residues in contact with GLU 103 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166 ARG* 5.8 1.6 + - - -
996 LYS* 3.0 47.3 + - + +
1006 SER* 4.0 12.3 - - - +
1016 ILE 3.3 0.2 - - - -
1026 TYR* 1.3 75.8 - - + +
1046 LEU* 1.3 56.7 + - - +
1066 ALA* 3.9 7.6 - - - +
1076 LEU* 3.1 28.1 + - - +
----------------------------------------------------------
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Residues in contact with LEU 104 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66 MET* 4.1 11.7 - - - +
96 ALA* 3.6 33.4 - - + +
106 LEU* 3.9 22.0 - - + -
136 GLN* 3.7 36.8 - - + +
166 ARG* 5.3 2.0 - - - +
576 PHE* 4.5 2.5 - - + -
1006 SER 3.3 17.8 + - - +
1016 ILE* 3.6 9.0 - - + +
1026 TYR 3.2 0.4 - - - -
1036 GLU* 1.3 76.9 - - - +
1056 ALA* 1.3 58.6 + - - +
1076 LEU* 3.6 5.9 - - + +
1086 ALA* 3.0 28.6 + - - +
1206 LEU* 3.5 25.4 - - + +
----------------------------------------------------------
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Residues in contact with ALA 105 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1145 TYR* 3.8 25.8 - - + -
1016 ILE 3.0 14.1 + - - +
1026 TYR* 3.2 11.0 + - - +
1046 LEU* 1.3 75.0 - - - +
1066 ALA* 1.3 58.7 + - - +
1086 ALA* 3.5 0.4 + - - -
1096 GLU* 3.1 33.1 + - - +
1176 ARG* 3.7 19.0 - - - +
1206 LEU* 3.8 10.7 - - + +
1246 ILE* 4.5 9.4 - - + -
----------------------------------------------------------
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Residues in contact with ALA 106 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1125 LYS* 6.4 1.8 - - + -
1145 TYR* 3.4 22.1 + - + +
1026 TYR 2.9 14.2 + - - +
1036 GLU* 3.9 9.2 - - + +
1046 LEU 3.3 0.2 - - - -
1056 ALA* 1.3 75.2 - - - +
1076 LEU* 1.3 62.3 + - - +
1096 GLU* 3.9 4.4 - - - +
1106 GLU* 3.2 26.6 + - - +
----------------------------------------------------------
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Residues in contact with LEU 107 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56 ARG* 4.5 29.8 - - + +
66 MET* 3.7 27.3 - - + +
96 ALA* 3.7 29.8 - - + -
1036 GLU 3.1 18.5 + - - +
1046 LEU* 3.6 7.4 - - + +
1056 ALA 3.3 0.2 - - - -
1066 ALA* 1.3 78.9 - - - +
1086 ALA* 1.3 57.0 + - - +
1106 GLU* 3.7 6.2 + - - +
1116 GLU* 3.2 38.0 + - + +
----------------------------------------------------------
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Residues in contact with ALA 108 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66 MET* 3.7 17.7 - - + +
1046 LEU 3.0 17.5 + - - +
1056 ALA* 3.8 5.2 - - - +
1066 ALA 3.3 0.2 - - - -
1076 LEU* 1.3 75.7 - - - +
1096 GLU* 1.3 58.9 + - - +
1126 LYS* 3.1 8.0 + - - -
1136 ASP* 2.9 46.7 + - - +
1166 THR* 4.3 5.2 - - + -
1176 ARG* 3.9 21.8 - - + +
1206 LEU* 4.6 0.2 - - + -
----------------------------------------------------------
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Residues in contact with GLU 109 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1095 GLU* 5.9 2.8 - - - +
1145 TYR* 3.0 35.0 + - - -
1056 ALA 3.1 18.4 + - - +
1066 ALA* 3.9 4.5 - - - +
1086 ALA* 1.3 74.8 - - - +
1106 GLU* 1.3 61.3 + - - +
1126 LYS* 3.7 8.8 + - - +
1176 ARG* 3.2 32.4 + - + -
----------------------------------------------------------
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Residues in contact with GLU 110 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1066 ALA 3.2 17.8 + - - +
1076 LEU* 4.0 6.7 - - - +
1096 GLU* 1.3 77.1 - - - +
1116 GLU* 1.3 63.5 - - + +
1126 LYS* 3.4 0.9 + - - +
----------------------------------------------------------
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Residues in contact with GLU 111 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36 SER* 2.6 37.2 + - - -
46 GLU* 4.7 1.2 - - - +
56 ARG* 3.3 34.6 + - - +
66 MET* 3.5 17.4 - - - +
1076 LEU* 3.2 22.3 + - + +
1086 ALA 4.1 2.9 - - - +
1096 GLU 3.3 0.2 - - - -
1106 GLU* 1.3 81.1 - - + +
1126 LYS* 1.3 67.7 + - - +
1136 ASP* 3.1 11.8 + - + +
----------------------------------------------------------
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Residues in contact with LYS 112 (chain 6).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1021 TYR* 5.4 4.9 - - + -
1031 GLU* 6.4 2.0 - - - +
1061 ALA* 4.5 13.4 - - - +
1086 ALA 3.1 5.2 + - - -
1096 GLU* 3.7 7.6 + - - +
1106 GLU 3.4 4.4 - - - +
1116 GLU* 1.3 79.9 - - - +
1136 ASP* 1.3 59.4 + - - +
1146 TYR* 3.0 51.5 + - + +
----------------------------------------------------------
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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