Contacts of the helix formed by residues 1109 - 1134 (chain I) in PDB entry 6PSS
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 ILE1109 (chain I).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
673I HIS* 3.4 9.2 + - + +
1103I VAL* 4.0 22.4 - - + +
1107I MET 4.1 3.1 - - - +
1108I ASN* 1.3 72.9 - - - +
1110I GLY* 1.3 60.0 + - - +
1111I GLN 3.1 2.2 - - - -
1112I ILE* 2.8 23.7 + - + +
1113I LEU* 3.0 12.9 + - + +
641J ILE* 3.7 19.5 - - + -
644J MET* 3.7 34.3 - - + -
740J LEU* 3.7 25.1 - - + -
763J PHE* 3.3 43.3 - - + +
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Residues in contact with GLY1110 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
670I PHE* 3.7 27.4 - - - -
673I HIS* 3.8 6.3 - - - +
674I ASP* 3.0 15.9 + - - -
1070I HIS* 3.3 20.1 - - - -
1109I ILE* 1.3 79.9 - - - +
1111I GLN* 1.3 56.1 + - - +
1112I ILE 3.3 0.2 - - - -
1113I LEU* 3.8 3.8 - - - -
1114I GLU* 3.1 19.2 + - - +
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Residues in contact with GLN1111 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
804I PHE* 3.4 16.7 - - + -
1070I HIS* 3.9 25.3 + - + -
1072I ASN* 3.6 33.3 + - - +
1098I LEU* 5.0 2.3 - - - +
1099I ASN 5.6 0.2 - - - +
1102I GLY 5.7 0.4 - - - -
1103I VAL* 3.4 20.6 - - - +
1108I ASN* 2.8 41.7 + - - +
1109I ILE 3.1 1.4 - - - -
1110I GLY* 1.3 75.5 - - - +
1112I ILE* 1.3 67.9 + - + +
1114I GLU* 4.0 2.3 - - - +
1115I THR* 2.4 34.1 + - - -
1230I MET* 3.7 6.6 - - + +
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Residues in contact with ILE1112 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
804I PHE* 3.7 32.8 - - + -
1103I VAL* 3.7 31.0 - - + -
1109I ILE* 2.8 19.6 + - + +
1111I GLN* 1.3 77.9 - - + +
1113I LEU* 1.3 62.0 + - - +
1114I GLU 3.3 0.2 - - - -
1115I THR* 3.5 3.2 + - - -
1116I HIS* 3.0 49.0 + - + +
1226I THR* 4.8 2.0 - - + -
639J VAL* 3.8 17.0 - - + +
640J GLY* 3.8 32.8 - - - +
641J ILE* 4.0 3.1 - - + +
644J MET* 5.3 0.7 - - + -
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Residues in contact with LEU1113 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
670I PHE* 3.3 28.3 - - + -
673I HIS* 3.5 50.3 - - + +
1109I ILE* 3.0 11.4 + - + +
1110I GLY* 4.2 0.9 - - - +
1111I GLN 3.4 0.2 - - - -
1112I ILE* 1.3 75.3 - - - +
1114I GLU* 1.3 59.1 + - - +
1116I HIS* 3.5 4.6 + - - +
1117I LEU* 2.9 22.5 + - - +
1190I ALA 5.6 0.9 - - - +
1192I GLU* 4.5 16.2 - - + -
1195I ILE* 3.5 26.2 - - + +
641J ILE* 3.8 35.7 - - + -
764J ARG 4.8 3.4 - - - +
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Residues in contact with GLU1114 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
669I PRO* 3.7 2.2 - - - +
670I PHE* 3.5 13.1 - - + -
700I VAL* 3.6 17.8 - - + +
1069I ARG* 2.4 36.6 + - - -
1070I HIS* 2.3 38.0 + - + +
1110I GLY 3.1 18.5 + - - +
1111I GLN 4.3 2.0 - - - +
1112I ILE 3.3 0.2 - - - -
1113I LEU* 1.3 72.8 - - - +
1115I THR* 1.3 55.5 + - - +
1117I LEU* 3.0 3.4 + - - +
1118I GLY* 2.5 34.8 + - - -
1229I TYR 3.9 6.5 - - - +
1230I MET* 3.5 14.7 - - + +
1231I TYR* 3.8 15.0 + - - +
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Residues in contact with THR1115 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
802I VAL* 3.8 15.3 - - + +
804I PHE* 4.1 5.9 - - + -
1111I GLN 2.4 24.3 + - - -
1112I ILE* 3.7 8.1 - - - -
1113I LEU 3.3 0.2 - - - -
1114I GLU* 1.3 77.9 - - - +
1116I HIS* 1.3 57.2 + - - +
1118I GLY 3.2 0.7 + - - +
1119I MET* 2.9 21.5 + - - +
1226I THR* 4.0 14.1 - - + -
1227I VAL* 3.6 22.3 - - - +
1228I GLY* 3.3 16.5 - - - -
1229I TYR 3.6 9.4 + - - +
1230I MET* 3.3 20.1 - - - +
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Residues in contact with HIS1116 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1112I ILE* 3.0 23.1 + - + +
1113I LEU* 3.9 6.9 - - - +
1114I GLU 3.2 0.2 - - - -
1115I THR* 1.3 77.5 - - - +
1117I LEU* 1.3 58.7 + - - +
1119I MET* 3.4 6.8 + - - +
1120I ALA* 3.2 24.3 + - - +
1195I ILE* 3.7 23.3 - - + +
1199I LEU* 4.2 7.7 - - + +
1207I SER 3.9 11.3 + - - -
1208I GLY* 4.0 20.0 - - - -
1226I THR* 3.4 33.7 + - + +
1227I VAL 4.6 0.9 - - - -
640J GLY* 4.3 0.6 - - - -
641J ILE* 3.4 52.5 - - + +
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Residues in contact with LEU1117 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15I PHE* 4.6 1.8 - - + -
670I PHE* 3.6 13.5 - - + -
700I VAL* 3.7 19.3 - - + +
1113I LEU 2.9 16.6 + - - +
1114I GLU 3.2 3.6 - - - +
1116I HIS* 1.3 76.7 - - - +
1118I GLY* 1.3 59.4 + - - +
1119I MET 3.3 0.2 - - - -
1120I ALA* 3.8 6.1 - - + -
1121I ALA* 3.1 26.2 + - - +
1182I ILE* 3.7 35.7 - - + -
1184I THR* 3.3 26.0 - - - +
1190I ALA* 4.1 7.2 - - + -
1195I ILE* 3.7 20.6 - - + +
1198I LEU* 4.0 17.7 - - + -
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Residues in contact with GLY1118 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
699I LEU* 4.2 1.5 - - - +
700I VAL* 4.0 6.1 - - - -
1114I GLU 2.5 20.0 + - - -
1115I THR 3.2 2.2 + - - -
1116I HIS 3.2 0.4 - - - -
1117I LEU* 1.3 73.6 - - - +
1119I MET* 1.3 58.1 + - - +
1121I ALA* 4.1 3.1 - - - +
1122I LYS* 3.1 24.6 + - - +
1229I TYR* 3.5 39.2 - - - +
----------------------------------------------------------
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Residues in contact with MET1119 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
801I ARG* 5.3 4.0 - - - +
1115I THR 2.9 15.4 + - - +
1116I HIS* 3.7 6.5 - - - +
1117I LEU 3.3 0.2 - - - -
1118I GLY* 1.3 76.1 - - - +
1120I ALA* 1.3 58.4 + - - +
1122I LYS* 3.8 1.5 - - - +
1123I GLY* 3.0 23.0 + - - -
1199I LEU* 3.8 23.7 - - - +
1204I LEU* 3.8 28.3 - - + +
1205I PRO* 4.6 3.6 - - + +
1208I GLY* 3.5 35.7 - - - +
1210I ILE* 3.6 29.6 - - + -
1227I VAL* 3.8 22.7 - - + +
1228I GLY* 3.9 10.1 - - - -
1229I TYR* 3.9 2.9 - - + +
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Residues in contact with ALA1120 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1116I HIS 3.2 15.9 + - - +
1117I LEU* 4.0 11.2 - - + +
1118I GLY 3.3 0.2 - - - -
1119I MET* 1.3 76.1 - - - +
1121I ALA* 1.3 59.2 + - - +
1123I GLY* 3.4 1.8 - - - -
1124I ILE* 3.0 35.4 + - - +
1195I ILE* 4.3 2.2 - - + +
1198I LEU* 3.7 29.9 - - + +
1199I LEU* 3.7 24.9 - - + +
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Residues in contact with ALA1121 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
699I LEU* 3.7 24.0 - - + -
1117I LEU 3.1 19.5 + - - +
1118I GLY 4.1 0.2 - - - +
1120I ALA* 1.3 78.4 - - - +
1122I LYS* 1.3 60.5 + - - +
1124I ILE* 3.6 4.0 + - - +
1125I GLY 3.3 9.4 + - - -
1179I GLY* 3.4 1.0 - - - -
1180I MET 3.2 44.9 + - - +
1182I ILE* 3.7 16.1 - - + +
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Residues in contact with LYS1122 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
699I LEU* 3.9 12.5 - - + +
799I ASN* 5.0 8.3 + - - +
827I ARG* 5.5 7.9 - - - +
1118I GLY 3.1 19.2 + - - +
1119I MET* 3.8 2.5 - - - +
1121I ALA* 1.3 75.4 - - - +
1123I GLY* 1.3 60.8 + - - +
1125I GLY 3.8 2.7 - - - +
1126I ASP* 3.1 42.1 + - - +
1178I LYS* 3.2 40.7 + - - +
1229I TYR* 3.5 54.7 + - + +
----------------------------------------------------------
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Residues in contact with GLY1123 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1119I MET 3.0 17.2 + - - -
1120I ALA 3.0 6.1 + - - -
1122I LYS* 1.3 76.6 - - - +
1124I ILE* 1.3 66.8 + - - +
1125I GLY 3.2 0.6 + - - -
1126I ASP* 3.4 11.7 + - - +
1127I LYS* 3.7 20.1 + - - +
1202I GLY* 4.8 2.5 - - - -
1204I LEU* 3.7 23.6 - - - +
----------------------------------------------------------
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Residues in contact with ILE1124 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1120I ALA 3.0 15.1 + - - +
1121I ALA* 3.6 6.3 + - - +
1123I GLY* 1.3 76.8 - - - +
1125I GLY* 1.3 62.4 + - - +
1127I LYS* 3.2 4.7 + - - +
1128I ILE* 3.2 41.1 + - + +
1144I PHE* 3.8 17.3 - - + -
1148I ALA* 4.0 13.0 - - + -
1180I MET* 4.0 22.7 - - + -
1182I ILE* 5.9 0.2 - - + -
1198I LEU* 3.7 31.4 - - + +
1201I LEU* 3.8 30.5 - - + -
1202I GLY 4.4 3.8 - - - +
----------------------------------------------------------
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Residues in contact with GLY1125 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1121I ALA 3.3 7.5 + - - -
1122I LYS 3.8 0.6 + - - -
1123I GLY 3.2 0.8 - - - -
1124I ILE* 1.3 80.3 - - - +
1126I ASP* 1.3 63.2 + - - +
1127I LYS 3.2 0.9 - - - -
1128I ILE* 4.6 0.7 - - - -
1129I ASN* 3.0 16.5 + - - +
1176I LEU 3.3 21.5 - - - -
1177I ARG 2.9 20.6 - - - +
1178I LYS 3.8 1.8 - - - -
1179I GLY* 3.6 15.0 - - - -
1180I MET 4.5 0.2 - - - -
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Residues in contact with ASP1126 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1122I LYS* 3.1 37.9 + - - +
1123I GLY* 3.4 4.9 + - - +
1124I ILE 3.2 1.0 - - - -
1125I GLY* 1.3 79.8 - - - +
1127I LYS* 1.3 64.4 + - - +
1129I ASN* 4.3 9.1 + - - +
1130I ALA* 3.5 18.3 + - - +
1177I ARG 4.5 2.3 - - - +
1178I LYS 4.0 3.8 - - - +
----------------------------------------------------------
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Residues in contact with LYS1127 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1123I GLY 3.7 13.2 + - - +
1124I ILE* 3.2 5.3 + - - +
1126I ASP* 1.3 81.9 - - - +
1128I ILE* 1.3 57.5 + - - +
1129I ASN 3.2 0.7 - - - -
1130I ALA* 3.5 6.4 - - + +
1131I MET* 2.8 49.4 + - - +
1144I PHE* 3.5 31.4 - - + -
1201I LEU 3.1 28.5 + - - -
1202I GLY* 3.3 17.2 - - - +
1203I ASP* 4.6 14.1 - - - +
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Residues in contact with ILE1128 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1124I ILE* 3.2 30.6 + - + +
1125I GLY* 4.3 0.4 - - - +
1127I LYS* 1.3 76.8 - - - +
1129I ASN* 1.3 60.5 + - - +
1131I MET* 4.1 7.8 - - + +
1132I LEU* 3.2 25.8 + - + +
1141I LEU* 5.4 2.5 - - + -
1144I PHE* 3.6 15.9 - - + -
1145I ILE* 3.8 21.5 - - + -
1173I ALA* 3.6 40.8 - - + +
1176I LEU* 3.7 42.2 - - + +
1177I ARG* 4.7 0.2 - - - -
----------------------------------------------------------
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Residues in contact with ASN1129 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1125I GLY 3.0 21.1 + - - +
1126I ASP* 4.3 9.2 + - - +
1128I ILE* 1.3 77.7 - - - +
1130I ALA* 1.3 58.3 + - - +
1132I LEU 3.4 1.7 + - - -
1133I LYS* 2.8 44.6 + - - +
1177I ARG* 2.8 53.2 + - + +
1178I LYS* 5.5 4.4 + - - +
----------------------------------------------------------
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Residues in contact with ALA1130 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1126I ASP 3.5 18.9 + - - +
1127I LYS* 3.2 9.1 + - + +
1129I ASN* 1.3 81.3 - - - +
1131I MET* 1.3 62.2 + - + +
1133I LYS* 3.3 13.4 - - - +
1134I GLN* 3.2 31.5 - - - +
----------------------------------------------------------
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Residues in contact with MET1131 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1127I LYS* 2.8 33.9 + - - +
1128I ILE* 4.1 5.6 - - - +
1130I ALA* 1.3 77.6 - - - +
1132I LEU* 1.3 62.4 + - - +
1134I GLN* 3.4 4.0 + - - +
1135I GLN 3.3 3.1 + - - -
1136I GLN* 2.8 49.9 + - + +
1140I LYS* 3.3 37.7 - - + +
1141I LEU* 3.7 24.9 - - + -
1144I PHE* 3.8 26.9 - - + -
1145I ILE* 5.6 0.2 - - + -
----------------------------------------------------------
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Residues in contact with LEU1132 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1128I ILE* 3.2 23.4 + - + +
1131I MET* 1.3 74.8 - - - +
1133I LYS* 1.3 64.2 + - - +
1134I GLN 3.2 0.2 - - - -
1135I GLN* 3.3 20.1 + - - +
1136I GLN 4.8 0.4 - - - +
1141I LEU* 4.7 7.6 - - + -
1170I MET* 3.8 38.6 - - + +
1173I ALA* 3.3 41.1 - - + +
1174I GLU* 4.4 3.8 - - - +
1177I ARG* 3.4 37.0 + - + +
----------------------------------------------------------
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Residues in contact with LYS1133 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1129I ASN* 2.8 38.2 + - - +
1130I ALA* 3.3 13.5 - - - +
1131I MET 3.2 0.2 - - - -
1132I LEU* 1.3 78.2 - - - +
1134I GLN* 1.3 61.7 + - + +
1135I GLN* 4.8 6.6 + - - -
1177I ARG* 3.0 26.7 - - - +
----------------------------------------------------------
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Residues in contact with GLN1134 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1130I ALA* 3.2 23.6 + - - +
1131I MET* 3.4 5.2 + - - +
1132I LEU 3.2 0.4 - - - -
1133I LYS* 1.3 80.4 - - + +
1135I GLN* 1.3 72.8 + - - +
1136I GLN* 3.3 37.9 + - - +
----------------------------------------------------------
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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