Contacts of the helix formed by residues 1117 - 1145 (chain D) in PDB entry 5UHE
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 ASP1117 (chain D).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1038D ARG 4.6 0.5 - - - +
1039D VAL* 4.2 14.2 - - - +
1040D PRO* 3.7 19.6 - - + +
1043D LYS* 4.0 25.4 + - + +
1044D ALA 4.2 4.8 + - - +
1046D ILE* 4.8 1.9 - - - +
1115D SER 3.6 2.0 + - - -
1116D ALA* 1.3 69.6 - - - +
1118D PRO* 1.3 68.6 - - - +
1119D HIS* 3.1 28.0 + - - +
1120D GLU* 3.0 39.2 + - + +
1121D VAL* 3.0 13.6 + - - +
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Residues in contact with PRO1118 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1030D ARG* 6.1 0.2 - - - +
1034D LEU* 5.1 7.6 - - + +
1037D ALA* 5.5 7.9 - - - -
1038D ARG 4.5 6.3 - - - +
1040D PRO* 4.0 11.0 - - + -
1116D ALA 3.2 10.8 - - - +
1117D ASP* 1.3 91.7 - - - +
1119D HIS* 1.3 55.6 + - + +
1120D GLU 3.2 0.2 - - - -
1121D VAL* 3.5 12.3 - - + -
1122D LEU* 2.8 25.5 + - - +
1130D VAL* 3.4 17.9 - - + +
1133D HIS* 4.0 12.8 - - + +
1134D LEU* 4.1 16.4 - - + -
1207D LEU* 3.6 22.3 - - + +
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Residues in contact with HIS1119 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1037D ALA* 3.5 25.7 + - + +
1039D VAL* 4.4 14.9 + - + +
1117D ASP* 3.1 20.5 + - - +
1118D PRO* 1.3 77.8 - - - +
1120D GLU* 1.3 60.7 + - + +
1122D LEU* 3.6 9.4 - - + +
1123D ARG* 3.5 21.5 + - - +
1207D LEU* 3.5 46.3 + - + +
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Residues in contact with GLU1120 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1043D LYS* 3.4 21.9 + - - -
1045D PRO* 6.1 0.7 - - - +
1046D ILE* 4.2 23.6 + - + +
1048D ASP* 4.5 5.0 - - - +
1117D ASP* 3.0 25.1 + - + +
1119D HIS* 1.3 74.1 - - - +
1121D VAL* 1.3 58.2 + - - +
1122D LEU 3.0 2.0 - - - -
1123D ARG* 3.0 32.6 + - - +
1124D VAL* 2.8 40.6 + - + +
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Residues in contact with VAL1121 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1046D ILE* 3.9 20.6 - - + -
1116D ALA* 4.4 11.9 - - + -
1117D ASP 3.0 17.0 + - - +
1118D PRO* 3.2 16.8 + - + +
1120D GLU* 1.3 75.8 - - - +
1122D LEU* 1.3 57.2 + - - +
1124D VAL* 4.8 0.2 - - - -
1125D GLN* 3.1 43.0 + - + +
1126D GLY 3.5 4.9 + - - +
1129D GLU* 4.5 2.2 - - + +
1130D VAL* 3.9 26.6 - - + +
1133D HIS* 4.4 20.9 - - + +
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Residues in contact with LEU1122 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1118D PRO 2.8 16.4 + - - +
1119D HIS* 3.6 11.9 - - + +
1120D GLU 3.0 0.4 - - - -
1121D VAL* 1.3 77.2 - - - +
1123D ARG* 1.3 60.3 + - + +
1126D GLY* 3.0 27.8 + - - +
1127D PRO* 3.8 36.9 - - + +
1130D VAL* 4.1 16.4 - - + -
1162D LEU* 4.8 6.5 - - + -
1204D ARG* 6.3 0.4 - - - +
1205D PRO* 3.5 28.5 - - + +
1206D VAL* 3.7 2.2 - - + -
1207D LEU* 3.4 34.1 - - + +
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Residues in contact with ARG1123 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1048D ASP* 3.4 28.7 + - - +
1119D HIS 3.5 6.0 + - - +
1120D GLU* 3.0 55.7 + - - +
1122D LEU* 1.3 81.9 - - - +
1124D VAL* 1.3 73.0 + - - +
1126D GLY 4.6 0.6 + - - -
1204D ARG* 6.1 6.3 - - - +
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Residues in contact with VAL1124 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1046D ILE* 4.6 9.4 - - + -
1047D ALA 3.9 20.6 - - - +
1048D ASP* 3.8 21.9 - - + +
1107D VAL* 4.1 17.3 - - + +
1108D GLY* 4.2 3.8 - - - -
1120D GLU* 2.8 22.1 + - + +
1123D ARG* 1.3 109.6 - - - +
1125D GLN* 1.3 72.9 + - + +
1126D GLY 3.6 0.4 - - - -
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Residues in contact with GLN1125 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1046D ILE* 4.9 2.6 - - + +
1107D VAL* 3.7 16.8 + - + +
1108D GLY* 3.4 27.7 + - - +
1121D VAL* 3.1 27.0 + - + +
1124D VAL* 1.3 92.0 - - + +
1126D GLY* 1.3 66.1 + - - +
1129D GLU* 3.2 44.3 + - + +
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Residues in contact with GLY1126 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1121D VAL 3.5 2.5 + - - +
1122D LEU* 3.0 17.4 + - - -
1123D ARG 4.6 0.8 - - - -
1124D VAL 3.6 1.4 - - - -
1125D GLN* 1.3 78.9 - - - +
1127D PRO* 1.3 66.2 - - - -
1128D ARG 3.3 2.7 - - - -
1129D GLU 2.9 26.3 + - - -
1130D VAL 3.4 6.8 + - - -
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Residues in contact with PRO1127 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1122D LEU* 3.8 21.9 - - + +
1126D GLY* 1.3 82.4 - - - +
1128D ARG* 1.3 63.0 + - - +
1130D VAL* 3.1 18.9 - - + +
1131D GLN* 3.4 6.5 + - - +
1162D LEU* 3.7 15.9 - - + +
1183D ARG* 5.9 5.4 - - - +
1205D PRO* 3.7 34.3 - - + -
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Residues in contact with ARG1128 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
895D ARG* 3.9 36.8 - - - +
896D GLY 2.6 30.3 + - - -
897D ILE* 3.7 22.4 - - + +
966D LEU* 6.5 1.1 - - + -
967D THR* 3.8 12.3 - - - +
1126D GLY 3.0 1.8 + - - -
1127D PRO* 1.3 79.1 - - - +
1129D GLU* 1.3 61.0 + - - +
1131D GLN* 3.4 17.2 + - - +
1132D ILE* 3.1 28.3 - - + +
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Residues in contact with GLU1129 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1121D VAL* 4.6 2.9 - - + -
1125D GLN* 3.2 63.4 + - + +
1126D GLY 2.9 2.7 + - - +
1128D ARG* 1.3 78.3 - - - +
1130D VAL* 1.3 58.8 + - - +
1131D GLN 3.2 0.2 - - - -
1132D ILE* 3.5 16.8 + - - +
1133D HIS* 3.1 27.0 + - - +
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Residues in contact with VAL1130 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1118D PRO* 3.4 39.0 - - + +
1121D VAL* 3.9 27.1 - - + +
1122D LEU* 4.1 11.2 - - + +
1126D GLY 3.4 2.4 + - - +
1127D PRO* 3.1 26.7 - - + +
1129D GLU* 1.3 78.3 - - - +
1131D GLN* 1.3 62.3 + - - +
1133D HIS* 3.7 3.1 - - - +
1134D LEU* 3.2 28.8 + - + +
1162D LEU* 3.7 20.9 - - + -
1207D LEU* 4.5 10.3 - - + -
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Residues in contact with GLN1131 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
966D LEU* 3.4 43.8 + - + +
1127D PRO 3.4 4.7 + - - +
1128D ARG* 3.6 17.0 - - - +
1129D GLU 3.2 0.4 - - - -
1130D VAL* 1.3 82.8 - - - +
1132D ILE* 1.3 58.9 + - - +
1135D VAL* 3.3 30.0 + - - +
1158D VAL* 3.6 21.9 - - + +
1159D ARG* 4.2 18.0 + - - +
1162D LEU* 3.4 41.8 - - + +
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Residues in contact with ILE1132 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
897D ILE* 3.6 38.1 - - + -
898D VAL 6.0 1.6 - - - +
966D LEU* 5.2 9.0 - - + -
1128D ARG* 3.1 27.4 - - + +
1129D GLU* 3.5 19.9 + - - +
1131D GLN* 1.3 78.3 - - + +
1133D HIS* 1.3 65.7 + - - +
1135D VAL* 4.0 9.6 - - + +
1136D ARG* 3.4 23.7 + - + +
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Residues in contact with HIS1133 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1030D ARG* 5.2 5.6 + - - -
1034D LEU* 5.4 0.7 - - + -
1116D ALA* 3.8 33.5 + - + +
1118D PRO* 4.0 18.8 - - + +
1121D VAL* 4.4 20.2 - - + +
1129D GLU* 3.1 20.8 + - - +
1130D VAL* 3.5 9.5 + - - +
1131D GLN 3.3 0.2 - - - -
1132D ILE* 1.3 75.2 - - - +
1134D LEU* 1.3 78.5 + - + +
1136D ARG* 3.1 5.6 + - - +
1137D GLU* 3.0 44.1 + - + +
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Residues in contact with LEU1134 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1034D LEU* 4.3 25.6 - - + +
1037D ALA* 6.0 0.4 - - + -
1118D PRO* 4.1 21.5 - - + -
1130D VAL* 3.2 17.9 - - + +
1131D GLN* 4.3 1.1 - - - +
1133D HIS* 1.3 92.6 - - - +
1135D VAL* 1.3 56.6 + - - +
1137D GLU* 3.1 4.6 + - - +
1138D VAL* 2.7 44.4 + - + +
1158D VAL* 3.9 30.3 - - + -
1161D MET* 4.4 15.7 - - + -
1162D LEU* 6.3 0.2 - - + -
1207D LEU* 4.3 24.0 - - + -
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Residues in contact with VAL1135 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
966D LEU* 5.3 3.4 - - + -
1131D GLN 3.3 20.7 + - - +
1132D ILE* 4.1 11.0 - - + +
1133D HIS 3.2 1.0 - - - -
1134D LEU* 1.3 78.5 - - - +
1136D ARG* 1.3 61.2 + - + +
1138D VAL* 3.9 2.4 - - - +
1139D GLN* 3.2 26.9 + - - +
1151D ASP* 3.7 34.1 - - + +
1154D ILE* 3.9 18.7 - - + +
1155D GLU* 3.9 23.1 - - + +
1158D VAL* 3.8 20.4 - - + -
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Residues in contact with ARG1136 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
900D GLU* 5.7 3.4 - - - +
913D ASP* 4.1 14.1 + - - -
915D TYR* 3.3 63.4 - - + +
919D SER* 5.7 1.1 + - - +
1132D ILE* 3.4 16.2 + - + +
1133D HIS* 3.1 4.8 + - - +
1135D VAL* 1.3 79.8 - - + +
1137D GLU* 1.3 60.0 + - - +
1138D VAL 3.3 0.2 - - - -
1139D GLN* 3.7 4.1 - - + +
1140D GLU* 2.9 44.8 + - - +
1151D ASP* 5.7 3.1 - - - +
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Residues in contact with GLU1137 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1030D ARG* 3.2 37.2 + - + +
1034D LEU* 3.6 14.8 - - + -
1110D GLN* 5.6 2.3 - - - +
1114D GLY 5.0 4.3 - - - +
1115D SER* 4.6 6.2 + - - -
1133D HIS* 3.0 36.4 + - - +
1134D LEU 3.8 1.3 - - - +
1136D ARG* 1.3 73.6 - - - +
1138D VAL* 1.3 65.1 + - - +
1140D GLU* 3.5 28.9 + - - +
1141D VAL* 3.3 23.4 + - - +
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Residues in contact with VAL1138 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1031D VAL* 5.3 3.4 - - + +
1034D LEU* 3.4 25.5 - - + +
1035D PHE* 4.0 27.6 - - + -
1134D LEU* 2.7 24.6 + - + +
1135D VAL 3.9 2.7 - - - +
1137D GLU* 1.3 77.0 - - - +
1139D GLN* 1.3 66.2 + - - +
1141D VAL* 3.2 15.5 + - - +
1142D TYR* 3.4 27.9 - - + -
1154D ILE* 3.6 38.4 - - + -
1158D VAL* 6.0 0.4 - - + -
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Residues in contact with GLN1139 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
915D TYR* 4.6 6.1 - - + -
918D THR* 4.0 10.9 - - - +
1135D VAL 3.2 14.6 + - - +
1136D ARG* 3.7 8.7 - - + +
1137D GLU 3.3 0.2 - - - -
1138D VAL* 1.3 80.3 - - - +
1140D GLU* 1.3 53.8 + - - +
1141D VAL 2.9 0.9 + - - -
1142D TYR* 2.9 9.4 + - - +
1143D ARG* 2.7 68.5 + - + +
1147D VAL 4.9 1.6 + - - -
1148D SER* 4.7 0.6 - - - +
1149D ILE* 2.6 41.9 + - - +
1151D ASP* 3.4 21.8 - - - +
1154D ILE* 3.8 21.1 - - - +
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Residues in contact with GLU1140 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
915D TYR* 3.4 23.7 + - + +
1136D ARG* 2.9 36.9 + - - +
1137D GLU* 3.7 28.0 - - - +
1138D VAL 3.3 0.2 - - - -
1139D GLN* 1.3 76.7 - - - +
1141D VAL* 1.3 57.4 + - + +
1143D ARG* 3.9 9.5 - - - +
1144D ALA* 3.3 23.6 + - - +
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Residues in contact with VAL1141 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1010D LEU* 4.5 6.8 - - + +
1026D GLY* 5.0 3.4 - - - -
1027D GLY* 3.4 39.9 - - - +
1030D ARG* 3.7 26.5 - - + +
1031D VAL* 3.7 16.6 - - + +
1034D LEU* 5.1 0.7 - - + -
1137D GLU* 3.3 18.8 - - + +
1138D VAL* 3.5 9.0 - - - +
1139D GLN 3.0 0.8 - - - -
1140D GLU* 1.3 77.5 - - + +
1142D TYR* 1.3 64.1 + - - +
1144D ALA* 3.4 17.8 + - - +
1145D GLN* 3.7 11.5 + - + +
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Residues in contact with TYR1142 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
873D LEU* 5.2 2.3 - - - +
1003D ILE* 2.8 49.8 + - + +
1006D PRO* 4.7 12.8 - - + -
1007D GLY* 5.1 3.1 - - - -
1010D LEU* 4.6 20.4 - - + +
1028D LEU* 5.4 1.0 - - - +
1031D VAL* 3.7 33.5 - - + +
1138D VAL* 3.4 32.5 - - + -
1139D GLN* 2.9 13.0 + - - +
1141D VAL* 1.3 74.7 - - - +
1143D ARG* 1.3 65.6 + - - +
1144D ALA 3.2 0.2 - - - -
1145D GLN* 3.1 7.8 + - - +
1147D VAL* 3.1 59.1 + - + +
1149D ILE* 4.0 16.6 - - + -
1154D ILE* 5.4 0.7 - - + -
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Residues in contact with ARG1143 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
914D PRO* 3.0 34.1 + - - +
915D TYR* 3.1 49.9 - - + +
918D THR* 3.2 28.2 + - - +
1139D GLN* 2.7 51.5 + - + +
1140D GLU* 3.9 9.9 - - - +
1142D TYR* 1.3 74.2 - - - +
1144D ALA* 1.3 61.8 + - - +
1146D GLY* 3.3 12.1 + - - -
1147D VAL 4.0 8.7 - - - +
1148D SER* 5.3 2.9 - - - +
----------------------------------------------------------
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Residues in contact with ALA1144 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1140D GLU 3.3 13.7 + - - +
1141D VAL* 3.5 13.5 - - - +
1142D TYR 3.2 0.4 - - - -
1143D ARG* 1.3 81.3 - - - +
1145D GLN* 1.3 70.6 + - + +
1146D GLY 3.4 0.9 + - - -
----------------------------------------------------------
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Residues in contact with GLN1145 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1009D GLN* 3.1 35.7 - - - +
1010D LEU* 3.7 22.8 - - + -
1011D THR* 3.4 36.5 + - - +
1027D GLY* 6.3 0.2 - - - -
1141D VAL* 3.7 6.7 + - + +
1142D TYR 3.1 6.4 + - - +
1144D ALA* 1.3 86.1 + - + +
1146D GLY* 1.3 59.2 + - - +
1147D VAL* 3.3 12.6 + - + +
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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).
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