Contacts of the helix formed by residues 1151 - 1174 (chain B) in PDB entry 1CJY
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 CYS1151 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1145B ARG* 3.1 21.7 - - - +
1150B LEU* 1.3 76.5 - - - +
1152B ASP* 1.3 66.7 + - - +
1153B GLN* 3.8 14.6 - - - +
1154B GLU* 3.0 38.7 + - - +
1155B LYS* 3.1 8.8 + - - +
1352B TYR* 4.1 9.0 - - - -
1353B GLU* 3.2 42.3 + - + +
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Residues in contact with ASP1152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1145B ARG* 5.2 1.6 + - - +
1150B LEU 4.7 2.8 - - - +
1151B CYS* 1.3 74.2 - - - +
1153B GLN* 1.3 58.2 + - + +
1155B LYS* 3.6 14.9 + - - +
1156B THR* 2.8 35.7 + - - +
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Residues in contact with GLN1153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1151B CYS* 3.2 7.4 - - - -
1152B ASP* 1.3 76.1 - - + +
1154B GLU* 1.3 61.7 + - - +
1156B THR* 3.4 6.7 + - - +
1157B PHE* 2.9 27.9 + - - +
1316B LYS* 3.5 30.5 - - - +
1352B TYR* 3.6 46.6 + - + +
1353B GLU* 5.7 0.5 - - - +
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Residues in contact with GLU1154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1150B LEU* 3.7 24.0 - - + +
1151B CYS* 3.0 21.8 + - - +
1153B GLN* 1.3 76.2 - - - +
1155B LYS* 1.3 61.1 + - - +
1157B PHE* 3.2 7.8 + - + +
1158B ARG* 2.9 29.9 + - + +
1223B TYR* 2.6 32.4 + - + +
1326B LEU* 3.8 21.1 - - + +
1348B GLU* 4.8 0.3 - - - +
1350B SER* 5.3 3.1 + - - -
1352B TYR* 3.9 8.0 - - + -
1563B ARG* 4.9 0.7 + - - -
1566B ARG* 2.8 36.4 + - - -
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Residues in contact with LYS1155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1149B ALA* 4.1 14.3 - - - +
1150B LEU* 3.3 40.3 + - + +
1151B CYS 3.1 11.2 + - - +
1152B ASP* 3.6 16.8 + - - +
1154B GLU* 1.3 74.2 - - - +
1156B THR* 1.3 66.0 + - - +
1158B ARG* 3.0 12.3 + - - +
1159B GLN* 3.0 23.1 + - - +
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Residues in contact with THR1156 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1152B ASP* 2.8 20.5 + - - +
1153B GLN* 3.7 7.7 - - - -
1155B LYS* 1.3 75.8 - - - +
1157B PHE* 1.3 64.8 + - - +
1159B GLN* 3.3 6.9 + - + +
1160B GLN* 3.0 26.8 + - + +
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Residues in contact with PHE1157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1153B GLN 2.9 15.1 + - - +
1154B GLU* 3.3 13.0 - - + +
1155B LYS 3.1 0.2 - - - -
1156B THR* 1.3 78.1 - - - +
1158B ARG* 1.3 64.8 + - + +
1160B GLN* 3.3 6.1 + - - +
1161B ARG* 3.0 42.8 + - + +
1222B THR* 3.7 21.1 - - + -
1223B TYR* 5.3 0.4 - + - -
1319B VAL* 3.0 44.0 - - + -
1322B ALA* 3.6 14.1 - - + +
1324B CYS 3.2 19.5 - - - -
1326B LEU* 3.3 33.7 - - + -
1352B TYR* 4.1 14.6 - + + +
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Residues in contact with ARG1158 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1150B LEU* 3.4 25.9 - - - +
1154B GLU* 2.9 17.6 + - + +
1155B LYS* 3.0 11.9 + - - +
1157B PHE* 1.3 83.1 - - + +
1159B GLN* 1.3 61.0 + - - +
1161B ARG* 3.2 3.2 + - - +
1162B LYS* 2.8 30.9 + - - +
1189B VAL* 4.2 16.7 - - - +
1222B THR* 4.7 9.0 - - + -
1223B TYR* 2.9 30.4 + - - +
1565B GLN 4.3 2.3 + - - -
1566B ARG* 2.4 46.6 + - - +
1567B GLY* 5.7 0.4 - - - -
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Residues in contact with GLN1159 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1155B LYS 3.0 11.6 + - - +
1156B THR* 3.8 9.4 - - + +
1158B ARG* 1.3 76.8 - - - +
1160B GLN* 1.3 62.4 + - - +
1161B ARG 3.3 0.5 + - - -
1162B LYS* 3.4 20.8 + - - +
1163B GLU* 4.3 4.7 + - - +
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Residues in contact with GLN1160 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1156B THR* 3.0 22.1 + - + +
1157B PHE* 3.8 5.8 - - - +
1159B GLN* 1.3 77.1 - - - +
1161B ARG* 1.3 58.8 + - - +
1163B GLU* 5.0 1.9 + - - +
1164B HIS* 4.6 8.1 + - - +
1320B ASN 5.9 1.1 - - - +
1321B THR* 4.6 10.7 - - - +
1322B ALA* 3.9 17.0 - - + +
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Residues in contact with ARG1161 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1157B PHE* 3.0 38.1 + - + +
1158B ARG* 4.0 3.1 - - - +
1160B GLN* 1.3 77.9 - - - +
1162B LYS* 1.3 67.7 + - - +
1163B GLU 3.4 1.1 - - - -
1164B HIS* 3.0 34.7 + - + +
1165B ILE* 2.8 36.9 + - + +
1218B LEU 3.4 16.0 + - - -
1219B ASP* 4.0 4.4 + - - +
1221B ALA 2.7 36.8 + - - -
1222B THR* 4.4 7.4 - - + +
1322B ALA* 3.1 33.7 + - + -
1323B GLN 3.4 19.6 + - - -
1324B CYS* 3.6 9.2 + - - +
1325B PRO* 3.7 11.1 - - - +
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Residues in contact with LYS1162 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1158B ARG 2.8 17.0 + - - +
1159B GLN* 3.4 14.1 + - - +
1161B ARG* 1.3 75.5 - - - +
1163B GLU* 1.3 77.8 + - + +
1165B ILE* 3.0 11.6 + - - +
1166B ARG* 3.0 32.0 + - - +
1185B ARG 2.7 29.3 + - - -
1186B ASP* 3.6 23.8 - - - +
1187B VAL* 4.1 13.4 - - + +
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Residues in contact with GLU1163 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1159B GLN 4.3 4.7 + - - +
1160B GLN 5.0 2.4 + - - +
1161B ARG 3.4 0.4 - - - -
1162B LYS* 1.3 95.9 - - + +
1164B HIS* 1.3 63.6 + - - +
1166B ARG* 2.9 47.0 + - - +
1167B GLU* 3.1 25.1 + - - +
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Residues in contact with HIS1164 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1160B GLN 4.6 5.4 + - - +
1161B ARG* 3.0 47.9 + - - +
1163B GLU* 1.3 79.2 - - - +
1165B ILE* 1.3 57.7 + - - +
1167B GLU* 4.2 4.4 - - - +
1168B SER* 2.7 45.6 + - - -
1219B ASP* 3.3 36.7 + - - -
1322B ALA 4.9 3.4 - - - +
1323B GLN* 5.4 1.5 + - - -
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Residues in contact with ILE1165 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1161B ARG* 2.8 37.2 + - + +
1162B LYS* 3.0 9.4 + - - +
1164B HIS* 1.3 73.7 - - - +
1166B ARG* 1.3 61.2 + - - +
1168B SER* 3.0 3.5 + - - -
1169B MET* 2.8 37.6 + - - +
1187B VAL* 3.8 22.2 - - + -
1188B PRO 4.4 7.0 - - - +
1219B ASP 3.2 20.2 - - - +
1220B CYS* 3.0 34.1 - - - +
1221B ALA 3.3 17.0 - - - +
1222B THR* 4.4 7.2 - - - +
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Residues in contact with ARG1166 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1162B LYS* 3.0 27.4 + - - +
1163B GLU* 2.9 45.4 + - - +
1165B ILE* 1.3 75.3 - - - +
1167B GLU* 1.3 64.8 + - - +
1169B MET* 3.1 6.1 + - - +
1170B LYS* 3.0 43.0 + - - +
1181B LEU* 2.6 48.5 + - + +
1182B HIS 5.1 0.2 - - - -
1183B SER 4.7 0.8 - - - -
1184B ALA* 3.2 33.5 + - - +
1185B ARG 4.4 1.4 + - - -
1187B VAL* 3.9 24.5 - - + +
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Residues in contact with GLU1167 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1163B GLU 3.1 11.7 + - - +
1164B HIS* 4.2 3.6 - - - +
1166B ARG* 1.3 79.4 - - - +
1168B SER* 1.3 62.0 + - - +
1170B LYS* 3.3 14.2 + - - +
1171B LYS* 3.1 24.1 + - - +
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Residues in contact with SER1168 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1164B HIS* 2.7 32.7 + - - -
1165B ILE 3.0 4.8 + - - -
1167B GLU* 1.3 78.2 - - - +
1169B MET* 1.3 57.0 + - - +
1171B LYS* 3.6 7.2 + - - +
1172B LEU* 3.1 26.0 + - - +
1216B GLY 5.0 1.5 - - - +
1219B ASP* 3.5 41.0 + - - +
1220B CYS* 3.7 4.9 - - - -
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Residues in contact with MET1169 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1165B ILE* 2.8 22.3 + - + +
1166B ARG 3.6 1.6 - - - +
1168B SER* 1.3 73.4 - - - +
1170B LYS* 1.3 68.2 + - - +
1172B LEU* 3.0 3.5 + - - +
1173B LEU* 2.8 30.6 + - + +
1181B LEU* 3.6 15.7 - - + -
1187B VAL* 3.6 17.3 - - - -
1188B PRO* 3.4 38.4 - - + +
1190B VAL* 5.4 0.9 - - + -
1220B CYS* 3.6 24.7 - - + +
1712B MET* 3.4 42.2 - - + +
1716B ILE* 4.4 13.5 - - + -
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Residues in contact with LYS1170 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1166B ARG* 3.0 33.8 + - - +
1167B GLU* 3.3 13.2 + - - +
1169B MET* 1.3 76.3 - - - +
1171B LYS* 1.3 56.0 + - - +
1174B GLY* 2.5 36.7 + - - -
1177B ASN* 3.7 17.9 - - - +
1181B LEU* 3.8 30.0 + - + +
1182B HIS* 3.0 49.2 + - + +
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Residues in contact with LYS1171 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1167B GLU 3.1 13.5 + - - +
1168B SER* 3.8 7.2 - - - +
1170B LYS* 1.3 80.7 - - - +
1172B LEU* 1.3 61.4 + - - +
1174B GLY* 4.2 3.6 + - - -
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Residues in contact with LEU1172 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1168B SER 3.1 17.6 + - - +
1169B MET 3.0 5.7 + - - +
1171B LYS* 1.3 79.5 - - - +
1173B LEU* 1.3 58.6 + - + +
1215B SER 3.8 21.8 - - - +
1216B GLY* 4.8 2.2 - - - +
1217B ILE* 3.2 33.0 - - + +
1220B CYS* 3.7 20.6 - - - -
1705B ILE* 4.5 3.1 - - + -
1709B LYS* 3.0 55.3 + - + +
1712B MET* 3.7 18.6 - - - -
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Residues in contact with LEU1173 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1169B MET* 2.8 25.5 + - + +
1172B LEU* 1.3 80.5 - - + +
1174B GLY* 1.3 62.7 + - - +
1175B PRO* 3.8 1.2 - - - +
1176B LYS* 3.7 30.1 + - + +
1177B ASN* 4.3 15.3 - - + +
1181B LEU* 4.9 0.2 - - + -
1709B LYS* 3.4 51.7 + - + +
1712B MET* 4.1 20.4 - - + -
1713B VAL* 3.8 21.8 - - + +
1716B ILE* 4.3 8.5 - - + -
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Residues in contact with GLY1174 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1170B LYS* 2.5 22.4 + - - +
1171B LYS 4.2 3.9 + - - -
1172B LEU 3.7 1.2 - - - -
1173B LEU* 1.3 69.5 - - - +
1175B PRO* 1.3 65.3 - - - +
1176B LYS 3.1 6.9 + - - -
1177B ASN* 2.4 32.6 + - - -
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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) + - + + + + + -
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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