Contacts of the helix formed by residues 1141 - 1169 (chain B) in PDB entry 1KEK
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 PHE1141 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1181A LYS 3.3 26.9 - - - -
1182A ALA* 4.2 7.9 - - + -
1183A ASP 4.2 8.5 - - - -
1184A GLY* 3.1 37.5 - - - -
1185A SER 4.5 11.0 - - - -
1186A VAL* 4.9 1.3 - - + -
1015B ALA 4.6 0.4 - - - -
1016B ALA* 4.1 17.5 - - + -
1137B LEU* 2.6 40.9 + - + +
1140B SER* 1.3 87.6 - - - +
1142B PRO* 1.3 59.2 - - - +
1143B GLU 3.2 3.7 + - - -
1144B ASP* 3.3 15.8 + - + +
1145B ALA* 2.9 24.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PRO1142 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1138B ASP* 3.5 29.8 - - - +
1139B ARG 4.5 3.8 - - - +
1140B SER* 3.3 10.3 - - - +
1141B PHE* 1.3 90.6 - - - +
1143B GLU* 1.3 67.5 + - + +
1145B ALA* 3.8 1.3 - - + +
1146B LYS* 3.1 29.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU1143 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1141B PHE 3.2 1.0 - - - -
1142B PRO* 1.3 79.2 - - + +
1144B ASP* 1.3 70.3 + - - +
1146B LYS* 3.4 15.7 - - + +
1147B ARG* 3.3 25.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP1144 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1180A GLY* 3.7 10.4 - - - -
1181A LYS 3.1 21.9 + - - +
1019B ARG* 2.8 27.2 + - - +
1137B LEU* 5.0 1.8 - - + -
1141B PHE* 3.3 19.4 + - + +
1143B GLU* 1.3 82.8 - - - +
1145B ALA* 1.3 52.7 + - - +
1147B ARG* 3.2 31.6 + - - +
1148B LEU* 2.9 41.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA1145 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1134B PHE 5.2 0.4 - - - +
1137B LEU* 3.7 21.3 - - + +
1138B ASP* 3.6 26.0 - - - +
1141B PHE 2.9 17.5 + - - +
1142B PRO 3.8 0.9 - - - +
1143B GLU 3.3 0.2 - - - -
1144B ASP* 1.3 75.7 - - - +
1146B LYS* 1.3 61.2 + - - +
1148B LEU* 3.1 1.9 + - - +
1149B ARG* 2.8 53.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS1146 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1138B ASP* 5.0 0.4 - - - +
1142B PRO* 3.1 19.4 + - + +
1143B GLU* 3.4 18.1 - - + +
1145B ALA* 1.3 78.7 - - - +
1147B ARG* 1.3 66.7 + - + +
1149B ARG* 4.1 21.4 - - - +
1150B ALA* 3.1 24.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG1147 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1178A ALA 5.2 3.0 + - - -
1179A GLY 3.0 28.5 + - - -
1180A GLY* 3.8 3.2 - - - -
1019B ARG* 3.8 9.3 - - - +
1143B GLU 3.3 19.0 + - - +
1144B ASP* 3.2 42.5 + - - +
1145B ALA 3.2 0.4 - - - -
1146B LYS* 1.3 80.3 - - + +
1148B LEU* 1.3 74.4 + - - +
1150B ALA* 3.3 6.2 + - - +
1151B GLN* 2.8 38.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU1148 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1007B THR* 3.6 23.1 - - + +
1008B GLY* 3.8 19.1 - - - -
1016B ALA 4.1 0.7 - - - +
1018B LYS 4.1 3.1 - - - +
1019B ARG* 3.6 44.9 - - - +
1137B LEU* 3.7 22.7 - - + -
1144B ASP 2.9 21.7 + - - +
1145B ALA* 3.1 4.7 + - - +
1147B ARG* 1.3 93.0 - - - +
1149B ARG* 1.3 57.2 + - + +
1151B GLN* 3.3 15.5 + - - +
1152B VAL* 3.0 30.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG1149 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1008B GLY* 6.6 0.2 - - - -
1125B GLU* 2.9 41.5 + - - +
1128B LEU* 3.8 27.2 - - + +
1129B MET* 3.2 31.6 - - + +
1134B PHE* 4.9 8.5 + - + +
1138B ASP* 2.9 43.2 + - - +
1145B ALA* 2.8 33.0 + - + +
1146B LYS* 4.1 18.1 - - - +
1148B LEU* 1.3 73.5 - - + +
1150B ALA* 1.4 64.9 + - - +
1152B VAL* 3.4 6.4 + - - +
1153B ALA* 3.1 22.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA1150 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1146B LYS 3.1 18.2 + - - +
1147B ARG* 3.6 6.7 - - - +
1149B ARG* 1.4 75.8 - - - +
1151B GLN* 1.3 58.6 + - - +
1153B ALA* 3.3 8.1 + - - +
1154B HIS* 2.9 28.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN1151 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1176A ALA* 5.8 6.6 - - - +
1007B THR* 3.8 13.7 + - + +
1019B ARG 5.5 5.1 + - - -
1020B THR* 6.1 0.4 - - - +
1021B GLY 5.4 2.8 - - - +
1147B ARG* 2.8 26.3 + - - +
1148B LEU* 3.5 19.6 - - - +
1150B ALA* 1.3 76.8 - - - +
1152B VAL* 1.3 51.1 + - - +
1154B HIS* 3.1 10.2 + - + +
1155B GLU* 2.8 62.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL1152 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1006B PRO* 5.2 5.6 - - + -
1007B THR* 3.2 39.5 - - - +
1095B TYR* 4.4 18.6 - - + -
1124B VAL* 4.4 2.2 - - + -
1128B LEU* 4.1 23.1 - - + -
1134B PHE* 5.3 0.9 - - + -
1148B LEU 3.0 14.2 + - - +
1149B ARG* 3.5 10.8 - - - +
1150B ALA 3.3 0.2 - - - -
1151B GLN* 1.3 77.4 - - - +
1153B ALA* 1.3 57.5 + - - +
1155B GLU* 3.1 12.3 + - - +
1156B LEU* 2.9 43.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA1153 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1124B VAL* 3.9 20.2 - - + -
1149B ARG 3.1 10.2 + - - +
1150B ALA* 3.6 10.8 - - - +
1152B VAL* 1.3 78.7 - - - +
1154B HIS* 1.3 63.7 + - - +
1156B LEU* 3.5 14.7 - - - +
1157B ASP* 3.1 24.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS1154 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1172A PHE 4.9 1.5 + - - -
1174A SER* 3.3 37.5 - - - -
1150B ALA 2.9 14.4 + - - +
1151B GLN* 3.3 14.2 + - - +
1153B ALA* 1.3 79.5 - - - +
1155B GLU* 1.4 66.0 + - - +
1157B ASP* 3.2 9.2 + - - +
1158B VAL* 3.0 47.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU1155 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1173A GLU* 5.5 0.7 - - - +
1006B PRO* 5.9 0.3 - - - +
1007B THR* 2.6 34.0 + - - -
1021B GLY* 4.0 11.8 - - - -
1022B LYS 5.1 1.9 + - - -
1151B GLN* 2.8 42.4 + - + +
1152B VAL* 3.1 14.6 + - - +
1154B HIS* 1.4 75.6 - - + +
1156B LEU* 1.4 61.2 + - - +
1158B VAL* 3.4 4.6 + - - +
1159B ARG* 2.9 30.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU1156 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1093B SER 3.6 8.5 - - - +
1094B GLY 3.4 16.6 - - - +
1095B TYR* 4.0 14.1 - - + +
1097B PRO* 6.2 0.2 - - - +
1120B PRO* 3.4 34.5 - - + -
1124B VAL* 3.3 42.8 - - + -
1152B VAL* 2.9 22.5 + - + +
1153B ALA* 3.5 11.4 - - - +
1155B GLU* 1.4 76.4 - - - +
1157B ASP* 1.3 67.3 + - + +
1159B ARG* 3.9 6.4 - - - +
1160B PHE* 2.9 31.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP1157 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1120B PRO* 4.7 10.1 - - + +
1153B ALA 3.1 19.2 + - - +
1154B HIS* 3.2 11.9 + - + +
1156B LEU* 1.3 86.6 - - + +
1158B VAL* 1.3 64.4 + - - +
1160B PHE* 3.4 2.9 + - - +
1161B LYS* 3.2 54.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL1158 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1171A ILE* 3.7 6.9 - - + +
1172A PHE 3.7 17.7 - - - +
1173A GLU* 3.7 43.1 - - + +
1154B HIS* 3.0 40.8 + - + +
1155B GLU* 3.9 4.5 - - - +
1157B ASP* 1.3 73.8 - - - +
1159B ARG* 1.3 68.4 + - - +
1161B LYS* 3.1 14.9 + - + +
1162B GLU* 2.9 26.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG1159 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1173A GLU* 4.7 5.8 + - - +
1022B LYS* 6.5 1.1 - - - -
1024B ASP* 2.9 43.3 + - - +
1026B ALA* 4.3 4.4 - - - +
1027B ARG* 4.6 8.3 - - - +
1039B THR* 5.7 0.8 - - - +
1095B TYR 5.0 2.4 + - - -
1097B PRO* 3.5 36.8 + - + +
1099B PHE* 3.9 27.0 - - - -
1155B GLU 2.9 19.3 + - - +
1156B LEU* 3.9 6.7 - - - +
1158B VAL* 1.3 78.2 - - - +
1160B PHE* 1.3 62.2 + - - +
1162B GLU* 3.0 15.9 + - + +
1163B LEU* 3.0 35.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE1160 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1094B GLY* 5.2 4.9 - - - +
1097B PRO* 3.9 30.5 - - + +
1115B LEU* 3.9 19.3 - - + -
1117B SER* 3.7 13.0 - - - -
1118B LYS* 3.2 31.4 - - - -
1119B ALA* 3.4 15.5 - - + -
1120B PRO* 3.7 25.4 - - + -
1156B LEU 2.9 22.3 + - - +
1157B ASP 3.7 3.8 - - - +
1159B ARG* 1.3 72.9 - - - +
1161B LYS* 1.3 57.3 + - + +
1163B LEU* 3.2 9.2 + - + +
1164B GLU* 2.8 56.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS1161 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1171A ILE* 3.4 32.6 - - + +
1157B ASP* 3.2 46.6 + - - +
1158B VAL* 3.1 12.8 + - + +
1160B PHE* 1.3 76.2 - - + +
1162B GLU* 1.3 61.5 + - - +
1164B GLU* 3.2 20.5 + - - +
1165B HIS* 3.1 20.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU1162 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1171A ILE* 3.1 34.8 - - + +
1173A GLU* 2.6 38.7 - - - +
1027B ARG* 3.9 26.1 + - - +
1158B VAL* 2.9 18.1 + - - +
1159B ARG* 3.2 12.5 - - - +
1161B LYS* 1.3 73.6 - - - +
1163B LEU* 1.3 61.4 + - + +
1165B HIS* 3.3 4.8 + - - +
1166B MET* 3.1 34.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU1163 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1027B ARG* 4.4 16.8 - - + -
1097B PRO* 3.6 36.3 - - + -
1099B PHE* 3.8 25.8 - - + -
1113B PHE* 3.3 33.7 - - + -
1115B LEU* 4.1 13.7 - - + -
1159B ARG* 3.0 28.0 + - + +
1160B PHE* 3.2 10.7 + - + +
1162B GLU* 1.3 71.7 - - + +
1164B GLU* 1.3 61.5 + - - +
1166B MET* 3.3 17.2 + - - -
1167B ALA* 2.9 26.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU1164 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1115B LEU* 3.8 19.7 - - + -
1119B ALA* 4.8 6.3 - - - +
1160B PHE* 2.8 32.8 + - + +
1161B LYS* 3.3 28.4 + - - +
1162B GLU 3.2 0.2 - - - -
1163B LEU* 1.3 77.1 - - - +
1165B HIS* 1.3 60.4 + - - +
1167B ALA* 3.3 5.5 + - - +
1168B ALA* 3.1 20.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS1165 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1165A HIS* 3.4 45.0 + + + +
1171A ILE* 5.6 8.5 - - + -
1161B LYS 3.1 14.2 + - - +
1162B GLU* 3.3 4.6 + - - +
1164B GLU* 1.3 70.3 - - - +
1166B MET* 1.3 61.9 + - - +
1167B ALA 3.1 0.2 - - - -
1168B ALA* 2.9 16.9 + - + +
1169B THR* 2.8 54.9 + - - -
1170B ASN* 5.7 2.2 - - - -
1171B ILE* 5.2 1.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET1166 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1027B ARG* 4.4 18.2 - - - -
1030B MET* 4.0 19.7 - - + -
1101B TYR* 4.8 6.7 - - + -
1111B ASN* 2.8 22.9 + - - +
1113B PHE* 3.5 35.9 - - + +
1162B GLU* 3.1 22.3 + - + +
1163B LEU* 3.4 29.6 - - - +
1165B HIS* 1.3 76.4 - - - +
1167B ALA* 1.3 60.4 + - - +
1169B THR* 3.1 18.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA1167 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1111B ASN* 3.2 13.7 + - - +
1113B PHE* 3.7 23.8 - - + +
1114B GLN* 5.1 0.2 - - - -
1115B LEU* 4.2 19.5 - - + +
1163B LEU 2.9 17.5 + - - +
1164B GLU* 3.7 7.4 - - - +
1165B HIS 3.1 0.4 - - - -
1166B MET* 1.3 77.9 - - - +
1168B ALA* 1.3 58.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA1168 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1164B GLU 3.1 12.1 + - - +
1165B HIS* 2.9 26.3 + - + +
1167B ALA* 1.3 79.0 - - - +
1169B THR* 1.3 64.0 + - - +
1170B ASN* 3.9 8.0 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR1169 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1162A GLU* 6.0 0.2 - - - +
1111B ASN* 3.2 31.7 + - - +
1165B HIS* 2.8 29.5 + - - -
1166B MET* 3.1 21.7 + - - +
1168B ALA* 1.3 79.0 - - - +
1170B ASN* 1.3 64.5 + - - +
1171B ILE* 3.2 44.6 + - - +
1172B PHE* 4.4 2.5 - - + -
----------------------------------------------------------
Back to top of page
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