Contacts of the helix formed by residues 1156 - 1182 (chain D) in PDB entry 1KF9
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 LEU1156 (chain D).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1031D PHE* 3.1 30.1 - - + -
1035D TYR* 4.5 30.3 - - + +
1036D ILE* 4.8 8.3 - - + -
1157D LEU* 1.3 61.8 + - - +
1158D LYS* 2.9 17.8 - - - +
1159D ASN* 3.0 17.0 + - + +
1160D TYR* 2.9 24.1 + - - +
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Residues in contact with LEU1157 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1036D ILE* 5.1 4.9 - - + -
1040D GLN* 5.5 1.8 - - + -
1043D SER* 2.7 40.6 - - - +
1044D PHE* 3.8 25.8 - - + +
1156D LEU* 1.3 79.5 - - - +
1158D LYS* 1.3 55.2 + - - +
1160D TYR* 3.7 19.1 - - + -
1161D GLY* 2.7 27.0 + - - -
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Residues in contact with LYS1158 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1092D PHE* 4.5 17.7 - - - -
1156D LEU 4.3 9.9 - - - +
1157D LEU* 1.3 78.9 - - - +
1159D ASN* 1.3 64.6 + - - +
1161D GLY* 3.3 2.0 + - - -
1162D LEU* 3.0 54.2 + - + +
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Residues in contact with ASN1159 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1031D PHE* 3.3 21.1 - - + -
1092D PHE* 4.3 10.7 - - - +
1093D LEU* 3.9 9.1 - - - +
1095D SER* 5.5 1.6 + - - -
1096D VAL* 3.5 29.3 - - + +
1156D LEU* 3.0 20.6 + - - +
1158D LYS* 1.3 83.2 - - - +
1160D TYR* 1.3 64.7 + - - +
1162D LEU* 3.4 4.9 + - - +
1163D LEU* 3.0 28.1 + - - +
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Residues in contact with TYR1160 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1028D TYR* 3.5 20.8 + + - -
1031D PHE* 3.4 24.6 - + + -
1032D GLU* 2.7 41.2 + - + +
1036D ILE* 3.3 37.7 - - + -
1040D GLN 3.7 10.1 - - - -
1041D ILE* 3.5 3.5 - - - +
1042D HIS 3.0 18.3 + - - -
1043D SER* 3.9 0.9 - - - -
1044D PHE* 3.3 30.7 - + - -
1156D LEU 2.9 10.9 + - - +
1157D LEU* 3.6 18.8 - - + +
1159D ASN* 1.3 76.7 - - - +
1161D GLY* 1.3 62.7 + - - +
1163D LEU* 3.3 3.2 + - - +
1164D TYR* 3.1 19.2 + - - +
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Residues in contact with GLY1161 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1044D PHE* 3.9 22.4 - - - -
1157D LEU 2.7 21.2 + - - -
1158D LYS* 3.3 2.4 + - - -
1159D ASN 3.2 0.4 - - - -
1160D TYR* 1.3 74.2 - - - +
1162D LEU* 1.3 60.3 + - - +
1164D TYR* 3.2 6.8 + - - +
1165D CYS* 3.0 29.2 + - - -
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Residues in contact with LEU1162 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1054D PRO* 4.0 18.8 - - + -
1086D TRP* 3.4 37.5 - - + -
1089D PRO* 4.6 5.8 - - + +
1092D PHE* 3.9 35.9 - - + -
1093D LEU* 3.3 22.9 - - + -
1158D LYS* 3.0 38.8 + - + +
1159D ASN* 3.7 1.6 - - - +
1161D GLY* 1.3 75.8 - - - +
1163D LEU* 1.3 57.2 + - - +
1165D CYS* 3.3 3.1 + - + -
1166D PHE* 2.8 27.4 + - - +
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Residues in contact with LEU1163 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1024D ALA 4.3 3.9 - - - +
1027D THR* 3.9 25.8 - - - +
1028D TYR* 3.6 23.5 - - + +
1031D PHE* 3.5 45.3 - - + -
1093D LEU* 4.3 14.4 - - + -
1096D VAL* 3.7 13.9 - - + -
1097D PHE* 4.3 15.9 - - + -
1159D ASN 3.0 17.7 + - - +
1160D TYR* 3.7 5.6 - - - +
1161D GLY 3.2 0.2 - - - -
1162D LEU* 1.3 74.0 - - - +
1164D TYR* 1.3 64.9 + - - +
1166D PHE* 4.1 6.8 - - + +
1167D ASN* 3.2 22.5 + - - +
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Residues in contact with TYR1164 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1028D TYR* 3.5 21.3 - + + -
1042D HIS* 5.2 1.1 - + - -
1044D PHE* 3.4 40.2 - + + -
1045D TRP* 3.3 41.2 + + - -
1051D SER 5.7 2.9 - - - -
1053D CYS* 4.5 4.0 - - - -
1160D TYR 3.1 8.4 + - - +
1161D GLY* 3.2 10.1 + - - +
1163D LEU* 1.3 75.2 - - - +
1165D CYS* 1.3 73.2 + - - +
1167D ASN* 3.2 5.6 + - + +
1168D LYS* 3.0 59.3 + - + +
1304E TRP* 4.1 10.6 + - - -
1306E PRO* 4.4 6.8 - - - +
1324E SER* 5.2 8.7 - - - -
1327E GLU* 5.3 2.9 - - - -
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Residues in contact with CYS1165 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1051D SER 4.4 7.4 - - - -
1052D LEU 4.5 1.6 - - - -
1053D CYS* 2.0 57.7 - - + -
1054D PRO* 4.0 3.1 - - + -
1086D TRP* 3.3 16.4 - - + -
1161D GLY 3.0 15.5 + - - +
1162D LEU* 3.4 11.4 - - - +
1164D TYR* 1.3 86.7 - - - +
1166D PHE* 1.3 62.7 + - - +
1168D LYS* 3.4 3.4 + - - +
1169D ASP* 3.0 28.8 + - - -
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Residues in contact with PHE1166 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1020D LEU* 4.1 7.2 - - + -
1024D ALA* 3.7 26.2 - - + -
1086D TRP* 3.1 31.4 - + + -
1090D VAL* 4.0 8.7 - - + -
1093D LEU* 4.3 7.4 - - + -
1097D PHE* 4.0 21.5 - + - -
1110D VAL* 3.4 34.8 - - + -
1114D LEU* 4.2 10.5 - - + -
1162D LEU 2.8 19.8 + - - +
1163D LEU* 4.1 7.0 - - + +
1164D TYR 3.4 0.2 - - - -
1165D CYS* 1.3 72.5 - - - +
1167D ASN* 1.3 57.4 + - - +
1169D ASP 3.8 0.5 - - - -
1170D MET* 2.8 71.7 + - + +
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Residues in contact with ASN1167 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1021D ASN* 3.4 22.0 - - - +
1024D ALA* 3.7 16.5 - - - +
1025D PHE* 3.4 43.0 - - - +
1028D TYR* 4.7 8.7 - - + -
1163D LEU 3.2 16.7 + - - +
1164D TYR* 3.2 5.9 + - + +
1166D PHE* 1.3 74.9 - - - +
1168D LYS* 1.3 58.1 + - - +
1170D MET 3.0 0.5 + - - -
1171D SER* 2.6 37.6 + - - -
1418E ASN 4.9 2.1 + - - +
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Residues in contact with LYS1168 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1053D CYS* 3.5 37.0 - - - +
1055D SER* 5.2 1.4 + - - -
1056D GLU* 5.8 2.0 + - - -
1164D TYR* 3.0 46.4 + - + +
1165D CYS 3.6 2.2 - - - +
1167D ASN* 1.3 78.8 + - - +
1169D ASP* 1.3 79.6 + - - +
1171D SER* 3.0 4.4 + - - -
1172D LYS* 2.9 41.6 + - - +
1304E TRP* 3.7 42.4 - - + +
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Residues in contact with ASP1169 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1053D CYS* 4.4 3.3 - - - +
1055D SER* 2.7 23.6 + - - -
1082D LEU* 4.2 15.2 - - + +
1086D TRP* 2.6 43.3 + - + +
1165D CYS 3.0 11.9 + - - +
1166D PHE 4.0 1.6 - - - +
1168D LYS* 1.3 105.0 + - - +
1170D MET* 1.3 59.3 + - + +
1172D LYS* 3.2 13.4 + - - +
1173D VAL* 3.0 31.7 + - - +
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Residues in contact with MET1170 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1017D ALA* 4.2 3.2 - - - +
1020D LEU* 3.3 51.1 - - - +
1021D ASN* 4.0 10.2 + - - +
1024D ALA* 3.7 7.2 - - + -
1082D LEU 5.9 0.4 - - - -
1083D ILE* 4.3 19.5 - - + +
1086D TRP* 4.3 9.6 - - + -
1114D LEU* 4.4 3.1 - - + -
1166D PHE* 2.8 59.7 + - + +
1167D ASN 3.6 2.9 - - - +
1169D ASP* 1.3 82.3 - - + +
1171D SER* 1.3 61.7 + - - +
1173D VAL* 3.5 6.9 + - + +
1174D SER* 3.0 29.6 + - - -
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Residues in contact with SER1171 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1021D ASN* 3.7 21.5 + - - +
1167D ASN* 2.6 20.3 + - - -
1168D LYS* 3.3 9.4 - - - -
1170D MET* 1.3 69.4 - - - +
1172D LYS* 1.3 61.1 + - - +
1174D SER* 3.6 1.1 - - - -
1175D THR* 2.7 37.1 + - - -
1243E ARG* 3.4 20.1 + - - -
1304E TRP* 3.4 14.2 + - - -
1326E ASP* 3.7 5.8 + - - -
1419E SER* 5.7 3.1 - - - -
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Residues in contact with LYS1172 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1060D THR* 3.0 32.8 + - + +
1061D PRO 5.1 0.2 + - - -
1082D LEU* 3.9 7.4 - - + +
1168D LYS* 2.9 36.5 + - - +
1169D ASP* 3.4 14.3 + - - +
1171D SER* 1.3 78.5 - - - +
1173D VAL* 1.3 65.5 + - - +
1175D THR* 3.6 0.2 - - - -
1176D TYR* 2.8 58.5 + - + +
1304E TRP* 3.5 52.1 + - + +
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Residues in contact with VAL1173 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1017D ALA* 3.6 11.9 - - + -
1079D SER* 3.7 39.0 - - - +
1082D LEU* 4.1 10.8 - - + -
1083D ILE* 3.8 15.7 - - + -
1117D LEU* 4.1 12.3 - - + -
1121D ILE* 5.1 0.2 - - + -
1169D ASP 3.0 16.9 + - - +
1170D MET* 3.9 8.3 - - + +
1172D LYS* 1.3 78.8 - - - +
1174D SER* 1.3 68.0 + - - +
1176D TYR* 3.0 2.2 + - - -
1177D LEU* 2.8 48.9 + - + +
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Residues in contact with SER1174 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1014D TRP* 3.4 21.9 + - - -
1017D ALA* 3.7 23.8 - - - +
1018D ASP* 4.0 10.6 + - - -
1021D ASN* 3.9 17.9 + - - -
1170D MET 3.0 19.0 + - - -
1171D SER* 3.6 3.4 - - - -
1173D VAL* 1.3 76.5 - - - +
1175D THR* 1.3 65.5 + - - +
1177D LEU 3.4 0.2 + - - -
1178D ARG* 2.9 25.7 + - - +
1371E VAL* 5.7 1.6 - - - +
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Residues in contact with THR1175 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1067D THR* 5.1 0.2 - - + -
1171D SER* 2.7 25.4 + - - -
1172D LYS 3.6 2.9 - - - -
1174D SER* 1.3 73.7 - - - +
1176D TYR* 1.3 64.9 - - + +
1178D ARG* 3.5 6.2 + - - +
1179D THR* 3.0 28.1 + - - +
1243E ARG* 2.9 34.3 + - - +
1304E TRP* 3.9 11.9 - - + -
1368E GLY 3.9 3.6 - - - +
1369E TRP* 3.6 39.0 - - + +
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Residues in contact with TYR1176 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1060D THR* 3.4 10.7 - - - -
1061D PRO* 3.3 26.3 + - + +
1067D THR* 4.0 29.4 - - + -
1075D LEU* 4.2 19.8 - - + +
1078D ILE* 3.6 29.8 - - + -
1079D SER* 3.4 23.1 - - - +
1082D LEU* 3.9 4.9 - - + -
1172D LYS* 2.8 60.2 + - + +
1173D VAL* 4.2 1.1 - - - -
1175D THR* 1.3 74.0 - - + +
1177D LEU* 1.3 65.7 + - - +
1179D THR* 3.0 9.7 + - - -
1180D VAL* 3.0 25.8 + - - +
1304E TRP* 4.1 14.3 - + - -
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Residues in contact with LEU1177 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1010D ALA* 5.1 1.0 - - - +
1013D ALA* 3.9 20.6 - - + +
1014D TRP* 4.4 14.5 - - - +
1017D ALA* 3.8 12.3 - - + -
1075D LEU 5.1 0.4 - - - +
1076D LEU* 3.4 33.4 - - + +
1079D SER* 3.9 17.7 - - - +
1117D LEU* 4.1 12.8 - - + -
1121D ILE* 4.3 9.2 - - + -
1124D LEU* 5.4 0.4 - - + -
1173D VAL* 2.8 42.6 + - + +
1174D SER 4.0 2.5 - - - +
1176D TYR* 1.3 70.1 - - - +
1178D ARG* 1.3 62.0 + - - +
1180D VAL* 3.7 6.1 - - + +
1181D GLN* 2.8 30.7 + - - +
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Residues in contact with ARG1178 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1014D TRP* 3.6 33.6 - - + +
1174D SER 2.9 18.6 + - - +
1175D THR* 3.7 3.4 - - - +
1177D LEU* 1.3 77.5 - - - +
1179D THR* 1.3 52.7 + - - +
1181D GLN* 3.0 37.1 + - - +
1182D CYS* 2.8 44.0 + - - -
1189D CYS* 4.0 24.4 - - - +
1190D GLY* 4.3 17.4 + - - +
1365E ILE* 5.0 3.6 + - - +
1368E GLY* 3.3 26.9 - - - +
1370E MET 5.1 2.0 + - - -
1371E VAL* 3.6 33.7 - - + +
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Residues in contact with THR1179 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1067D THR* 3.9 19.9 - - + +
1068D GLN* 4.2 13.3 + - - +
1075D LEU* 3.9 18.8 - - + -
1175D THR* 3.0 14.2 + - - +
1176D TYR* 3.0 10.2 + - - -
1178D ARG* 1.3 78.9 - - - +
1180D VAL* 1.3 54.6 + - - +
1181D GLN 3.2 0.9 + - - -
1182D CYS 3.3 8.5 + - - -
1183D ARG* 2.7 48.0 + - + +
1367E LYS 3.6 18.1 + - - +
1368E GLY 3.8 9.5 + - - -
1369E TRP* 4.5 1.6 + - - -
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Residues in contact with VAL1180 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1010D ALA* 5.1 5.0 - - + +
1072D ASN* 3.5 53.8 + - + +
1075D LEU* 3.5 41.3 - - + -
1076D LEU* 4.5 19.1 - - + -
1124D LEU* 5.2 8.1 - - + -
1128D LEU* 5.2 2.0 - - + -
1176D TYR 3.0 13.2 + - - +
1177D LEU* 3.9 7.6 - - + +
1179D THR* 1.3 77.7 - - - +
1181D GLN* 1.3 60.8 + - - +
1183D ARG* 3.5 6.9 + - - +
1184D SER* 4.3 4.2 + - - -
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Residues in contact with GLN1181 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1010D ALA* 3.9 29.5 - - + +
1011D ASP* 2.9 34.3 - - - +
1014D TRP* 3.1 29.7 - - - +
1177D LEU 2.8 17.8 + - - +
1178D ARG* 3.0 42.8 + - - +
1180D VAL* 1.3 74.3 - - - +
1182D CYS* 1.3 58.6 + - - +
1183D ARG 3.0 8.7 + - - -
1184D SER* 3.6 15.8 + - - +
1189D CYS* 4.9 3.9 - - - -
----------------------------------------------------------
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Residues in contact with CYS1182 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1178D ARG* 2.8 36.8 + - - +
1179D THR 3.3 3.3 + - - -
1181D GLN* 1.3 71.3 - - - +
1183D ARG* 1.3 56.5 + - - +
1184D SER 3.1 11.9 + - - +
1188D SER* 5.1 3.3 + - - +
1189D CYS* 2.8 41.3 - - - -
1365E ILE 4.2 0.2 - - - -
1366E GLN 3.9 14.0 - - - +
1367E LYS* 3.7 22.1 - - - +
1368E GLY* 3.7 16.6 - - - +
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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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