Contacts of the helix formed by residues 1167 - 1196 (chain H) in PDB entry 5TWV
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 ALA1167 (chain H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1163H VAL 5.2 0.2 + - - -
1164H PHE 4.4 7.1 + - - +
1165H LEU* 4.8 3.6 - - - +
1166H VAL* 1.3 79.3 - - - +
1168H LEU* 1.3 63.0 + - - +
1169H LEU 3.3 3.1 - - - +
1170H PRO* 3.3 21.2 - - + +
1171H LEU* 4.0 8.5 + - - +
1262H ILE* 5.7 9.0 - - + -
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Residues in contact with LEU1168 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1166H VAL* 3.3 11.8 - - + +
1167H ALA* 1.3 74.5 - - - +
1169H LEU* 1.3 59.4 + - - +
1170H PRO 3.5 0.2 - - - -
1171H LEU* 3.2 9.0 + - + +
1172H ALA* 2.9 32.3 + - + +
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Residues in contact with LEU1169 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1167H ALA 3.3 0.2 - - - -
1168H LEU* 1.3 75.7 - - - +
1170H PRO* 1.3 67.4 - - + +
1172H ALA* 3.8 2.9 - - - -
1173H VAL* 2.9 29.0 + - - +
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Residues in contact with PRO1170 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1167H ALA* 3.3 22.9 - - + +
1169H LEU* 1.3 90.0 - - + +
1171H LEU* 1.3 58.5 + - - +
1173H VAL* 3.5 6.7 - - + +
1174H VAL* 2.9 32.4 + - - +
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Residues in contact with LEU1171 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1167H ALA 4.0 6.7 + - - +
1168H LEU* 3.2 15.5 + - + +
1170H PRO* 1.3 79.3 - - - +
1172H ALA* 1.3 51.4 + - - +
1174H VAL* 4.7 1.0 - - - +
1175H CYS* 2.7 39.7 + - - +
1259H VAL* 5.9 7.2 - - + -
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Residues in contact with ALA1172 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1168H LEU* 2.9 16.7 + - + +
1169H LEU* 3.8 2.7 - - - +
1171H LEU* 1.3 74.8 - - - +
1173H VAL* 1.3 52.4 + - - +
1175H CYS* 4.0 6.5 - - - -
1176H TYR* 2.6 37.2 + - - +
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Residues in contact with VAL1173 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1169H LEU 2.9 21.0 + - - +
1170H PRO* 3.2 9.6 + - + +
1172H ALA* 1.3 75.8 - - - +
1174H VAL* 1.3 61.5 + - - +
1176H TYR* 3.2 7.4 + - - +
1177H PHE* 2.9 27.0 + - - +
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Residues in contact with VAL1174 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1170H PRO 2.9 13.7 + - - +
1171H LEU* 4.7 1.3 - - - +
1173H VAL* 1.3 74.0 - - - +
1175H CYS* 1.3 60.7 + - - +
1177H PHE* 3.4 11.4 + - + +
1178H ILE* 2.9 27.9 + - - +
1255H ILE* 5.2 14.6 - - + -
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Residues in contact with CYS1175 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1171H LEU 2.7 25.0 + - - +
1172H ALA* 4.0 3.8 - - - -
1174H VAL* 1.3 78.6 - - - +
1176H TYR* 1.3 56.7 + - - +
1178H ILE* 3.7 7.0 - - - +
1179H GLN* 2.9 33.3 + - - +
1255H ILE* 5.9 3.7 - - + +
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Residues in contact with TYR1176 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1172H ALA* 2.6 25.0 + - - +
1173H VAL* 3.2 7.2 + - - +
1175H CYS* 1.3 75.2 - - - +
1177H PHE* 1.3 61.8 + - - +
1179H GLN* 3.3 29.0 - - + +
1180H LYS* 2.9 41.0 + - + +
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Residues in contact with PHE1177 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
237H ILE* 6.3 2.9 - - + -
1173H VAL 2.9 13.2 + - - +
1174H VAL* 3.4 13.9 - - + +
1176H TYR* 1.3 79.8 - - + +
1178H ILE* 1.3 59.3 + - + +
1180H LYS* 3.8 3.5 - - - +
1181H TYR* 3.0 71.6 + + + +
1247H TRP* 5.7 11.2 - + - -
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Residues in contact with ILE1178 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1174H VAL 2.9 16.6 + - - +
1175H CYS* 3.7 8.1 - - - +
1176H TYR 3.2 0.2 - - - -
1177H PHE* 1.3 82.1 - - + +
1179H GLN* 1.3 56.3 + - - +
1182H PHE* 2.7 37.9 + - + +
1247H TRP* 5.7 5.6 - - - +
1251H CYS* 5.5 12.1 - - + -
1252H MET* 6.4 1.1 - - - -
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Residues in contact with GLN1179 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1175H CYS 2.9 20.1 + - - +
1176H TYR* 3.3 43.5 + - + +
1178H ILE* 1.3 74.5 - - - +
1180H LYS* 1.3 60.3 + - - +
1182H PHE* 4.8 2.5 - - - -
1183H ARG* 2.7 41.6 + - - +
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Residues in contact with LYS1180 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1176H TYR* 2.9 30.7 + - + +
1177H PHE* 3.8 4.0 - - - +
1179H GLN* 1.3 86.6 - - - +
1181H TYR* 1.3 72.0 + - + +
1183H ARG* 3.1 6.4 + - - +
1184H VAL* 3.0 26.7 + - - +
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Residues in contact with TYR1181 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
237H ILE* 5.1 7.4 - - + +
240H ALA* 4.4 12.7 - - + +
241H HIS* 3.5 49.3 + - + +
1177H PHE* 3.0 53.1 + + + +
1178H ILE* 5.6 0.4 - - - -
1180H LYS* 1.3 89.7 - - + +
1182H PHE* 1.3 57.6 + - - +
1184H VAL* 3.8 6.9 - - + +
1185H ALA* 2.9 31.4 + - - +
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Residues in contact with PHE1182 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1178H ILE* 2.7 24.5 + - + +
1179H GLN* 4.8 2.5 - - - +
1181H TYR* 1.3 75.3 - - - +
1183H ARG* 1.3 56.1 + - - +
1185H ALA* 4.8 3.8 - - + -
1186H SER* 2.6 65.3 + - - +
1244H ALA* 3.4 35.4 - - + -
1247H TRP* 4.7 20.6 - + + -
1248H LEU* 3.6 27.6 - - + -
1299H VAL* 5.0 15.0 - - + -
1300H ARG* 5.9 1.1 - - - -
1303H ALA* 4.7 16.2 - - + -
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Residues in contact with ARG1183 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1179H GLN* 2.7 28.3 + - - +
1180H LYS* 3.1 6.0 + - - +
1182H PHE* 1.3 79.1 - - - +
1184H VAL* 1.3 57.0 + - - +
1186H SER* 4.2 2.0 - - - -
1187H ARG* 3.0 31.4 + - - +
1306H GLU* 6.1 0.9 - - - +
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Residues in contact with VAL1184 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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240H ALA* 4.8 16.4 - - + +
246H ASP* 6.0 3.4 - - + -
1180H LYS 3.0 12.2 + - - +
1181H TYR* 3.8 12.6 - - + +
1182H PHE 3.3 0.2 - - - -
1183H ARG* 1.3 76.1 - - - +
1185H ALA* 1.3 58.3 + - - +
1187H ARG* 3.2 6.6 + - - +
1188H ASP* 3.0 27.4 + - - +
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Residues in contact with ALA1185 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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236H PHE* 5.3 9.2 - - + +
237H ILE* 5.9 0.9 - - - -
240H ALA* 3.8 20.4 - - + -
1181H TYR 2.9 15.9 + - - +
1182H PHE* 4.8 4.7 - - + +
1184H VAL* 1.3 77.3 - - - +
1186H SER* 1.3 58.3 + - - +
1188H ASP* 3.8 7.4 - - - +
1189H LEU* 2.9 30.0 + - - +
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Residues in contact with SER1186 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1182H PHE* 2.6 55.2 + - - +
1183H ARG* 4.2 2.2 - - - -
1185H ALA* 1.3 77.0 - - - +
1187H ARG* 1.3 58.2 + - - +
1189H LEU* 4.1 4.7 - - - +
1190H GLN* 2.9 32.6 + - - +
1244H ALA* 5.6 4.3 - - - -
1303H ALA* 5.3 8.7 - - - -
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Residues in contact with ARG1187 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1183H ARG 3.0 20.7 + - - +
1184H VAL* 3.2 5.6 + - - +
1186H SER* 1.3 76.2 - - - +
1188H ASP* 1.3 56.0 + - - +
1190H GLN* 4.2 2.7 - - - +
1191H GLN* 2.9 30.7 + - - +
1306H GLU* 6.0 6.3 - - + -
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Residues in contact with ASP1188 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
250H ILE* 3.5 37.0 - - + +
1184H VAL 3.0 16.1 + - - +
1185H ALA* 3.8 8.3 - - - +
1187H ARG* 1.3 78.5 - - - +
1189H LEU* 1.3 57.5 + - - +
1191H GLN* 3.3 6.2 + - - +
1192H LEU* 2.9 31.2 + - - +
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Residues in contact with LEU1189 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1185H ALA 2.9 19.6 + - - +
1186H SER* 4.1 5.4 - - - +
1188H ASP* 1.3 74.7 - - - +
1190H GLN* 1.3 59.2 + - - +
1192H LEU* 4.4 2.2 - - - +
1193H ASP* 2.9 35.6 + - - +
1240H PHE* 4.9 25.7 - - + +
1241H LEU* 6.0 1.1 - - - -
1244H ALA* 4.9 10.3 - - + -
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Residues in contact with GLN1190 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1186H SER 2.9 18.6 + - - +
1187H ARG* 4.4 2.7 - - - +
1189H LEU* 1.3 76.4 - - - +
1191H GLN* 1.3 51.8 + - - +
1193H ASP* 4.7 2.0 - - - -
1194H ASP* 2.6 41.5 + - - +
1241H LEU* 6.5 1.3 - - - -
1307H ILE* 5.5 11.0 - - + -
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Residues in contact with GLN1191 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
250H ILE 5.6 4.5 - - - +
1187H ARG 2.9 22.1 + - - +
1188H ASP* 3.4 7.9 - - - +
1189H LEU 3.2 0.2 - - - -
1190H GLN* 1.3 78.3 - - - +
1192H LEU* 1.3 58.8 + - - +
1194H ASP* 3.7 3.3 - - - +
1195H THR* 2.9 30.2 + - - -
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Residues in contact with LEU1192 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
250H ILE 5.5 5.6 - - - +
253H LEU* 4.4 23.1 - - + -
254H PRO* 4.9 10.4 - - + +
1188H ASP 2.9 16.5 + - - +
1189H LEU* 4.4 2.0 - - - +
1191H GLN* 1.3 73.7 - - - +
1193H ASP* 1.3 61.1 + - - +
1195H THR* 3.2 6.4 + - - +
1196H THR* 3.0 29.3 + - - -
1237H ALA* 5.5 0.9 - - - -
1240H PHE* 6.0 5.4 - - + -
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Residues in contact with ASP1193 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1189H LEU 2.9 19.4 + - - +
1190H GLN* 4.7 2.7 - - - +
1192H LEU* 1.3 76.8 - - - +
1194H ASP* 1.3 61.2 + - - +
1196H THR* 3.5 11.5 + - - -
1197H GLN* 4.4 5.0 + - - +
1237H ALA* 4.1 36.3 - - + +
1240H PHE* 5.6 3.8 - - + -
1241H LEU* 5.4 9.4 - - + +
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Residues in contact with ASP1194 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1190H GLN 2.6 25.0 + - - +
1191H GLN* 3.7 4.0 - - - +
1193H ASP* 1.3 79.3 - - - +
1195H THR* 1.3 61.3 + - - +
1196H THR 3.5 0.5 + - - -
1197H GLN* 4.0 11.4 + - - +
1198H LEU 5.5 0.2 + - - -
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Residues in contact with THR1195 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1191H GLN 2.9 18.4 + - - -
1192H LEU* 3.2 6.3 + - - -
1194H ASP* 1.3 73.9 - - - +
1196H THR* 1.3 62.2 + - - +
1197H GLN 3.3 2.7 + - - -
1198H LEU* 4.4 3.6 + - - +
1199H PRO* 4.2 10.7 - - - +
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Residues in contact with THR1196 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1192H LEU 3.0 15.3 + - - -
1193H ASP* 3.8 11.2 - - - -
1194H ASP 3.3 1.6 - - - -
1195H THR* 1.3 77.2 - - - +
1197H GLN* 1.3 62.6 + - - +
1198H LEU 3.7 0.4 - - - -
1199H PRO* 3.7 9.7 - - - +
1200H LEU 4.8 1.2 + - - -
1233H SER* 5.4 5.6 - - - -
1234H ASN* 2.9 29.5 + - - +
1237H ALA* 4.5 12.3 - - - -
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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