Contacts of the helix formed by residues 1149 - 1168 (chain A) in PDB entry 5KTX
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 GLU1149 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1083A ALA 4.4 10.2 - - - +
1084A ALA* 5.9 0.4 - - - -
1085A PHE* 3.5 21.5 - - - -
1090A LEU* 4.6 4.5 - - - -
1147A TYR* 3.5 5.6 - - - +
1148A GLN* 1.3 90.3 - - + +
1150A PRO* 1.3 73.2 - - + +
1151A TRP* 3.4 36.9 + - + +
1152A GLN* 3.0 28.2 + - - +
1153A TYR 3.8 2.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PRO1150 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1085A PHE* 3.5 37.0 - - + -
1090A LEU* 3.8 15.7 - - + -
1094A LEU* 4.3 18.2 - - + -
1149A GLU* 1.3 85.7 - - + +
1151A TRP* 1.3 63.2 + - + +
1153A TYR* 3.0 15.8 + - - +
1154A VAL* 3.1 16.2 + - - +
1193A MET* 3.7 32.1 - - + -
1196A LEU* 4.1 13.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TRP1151 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1149A GLU* 3.4 34.8 - - + +
1150A PRO* 1.3 80.2 - - + +
1152A GLN* 1.3 86.8 + - + +
1154A VAL* 3.4 1.6 + - - +
1155A ASP* 2.9 63.0 + - - +
1204A DMS 3.5 33.5 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN1152 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1146A GLN 5.2 1.3 + - - -
1147A TYR* 3.6 22.6 - - + -
1148A GLN* 2.7 46.8 + - - +
1149A GLU* 3.0 21.2 + - - +
1151A TRP* 1.3 110.2 - - + +
1153A TYR* 1.3 63.9 + - - +
1155A ASP* 3.4 5.6 + - - +
1156A ASP* 3.2 19.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR1153 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1094A LEU* 3.5 37.2 + - + -
1097A THR* 2.7 28.8 + - - -
1098A LEU* 3.2 25.0 + - + +
1138A ILE* 3.4 33.0 - - + -
1142A LEU* 3.8 19.1 - - + -
1147A TYR* 3.6 29.3 - + + -
1149A GLU 3.8 1.2 + - - -
1150A PRO* 3.0 9.7 + - + +
1152A GLN* 1.3 76.3 - - - +
1154A VAL* 1.3 73.3 + - + +
1156A ASP* 3.1 12.6 + - - +
1157A VAL* 3.1 20.7 + - + +
1185A PHE* 3.8 20.3 - + - -
1189A ILE* 4.1 1.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL1154 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1150A PRO 3.1 13.8 + - - +
1151A TRP 3.7 6.7 - - - +
1153A TYR* 1.3 78.6 - - + +
1155A ASP* 1.3 65.8 + - - +
1157A VAL* 3.2 2.1 + - - +
1158A TRP* 2.9 42.1 + - + +
1185A PHE* 4.3 11.7 - - + -
1189A ILE* 4.1 30.3 - - + -
1193A MET* 4.4 1.6 - - - -
1204A DMS 3.7 35.2 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP1155 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1151A TRP* 2.9 48.0 + - - +
1152A GLN* 3.6 7.6 - - - +
1153A TYR 3.2 0.2 - - - -
1154A VAL* 1.3 80.7 - - - +
1156A ASP* 1.3 59.3 + - - +
1158A TRP* 3.4 6.0 + - - +
1159A LEU* 2.8 29.1 + - - +
1204A DMS 5.1 2.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP1156 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1133A MET* 3.4 31.4 - - + +
1138A ILE* 3.9 12.6 - - + -
1141A LYS* 2.7 28.1 + - - +
1147A TYR* 2.7 31.2 + - - +
1152A GLN 3.2 11.5 + - - +
1153A TYR 3.1 7.3 + - - +
1155A ASP* 1.3 75.0 - - - +
1157A VAL* 1.3 68.1 + - - +
1159A LEU* 3.3 11.3 + - - +
1160A MET* 3.0 18.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL1157 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1098A LEU* 4.6 4.9 - - + -
1101A LEU* 4.2 5.6 - - + -
1138A ILE* 3.9 20.4 - - + -
1153A TYR* 3.1 32.0 + - + +
1154A VAL 3.7 6.5 - - - +
1156A ASP* 1.3 75.0 - - - +
1158A TRP* 1.3 62.6 + - - +
1160A MET* 3.2 10.1 + - + +
1161A PHE* 3.1 51.2 + - + -
1185A PHE* 3.7 37.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TRP1158 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1154A VAL* 2.9 36.1 + - + +
1155A ASP* 3.9 6.3 - - - +
1157A VAL* 1.3 74.6 - - - +
1159A LEU* 1.3 61.6 + - - +
1161A PHE* 3.3 15.4 + + - +
1162A ASN* 2.8 55.9 + - - +
1165A TRP* 3.7 33.9 - + - -
1182A ALA* 5.1 8.5 - - + -
1185A PHE* 4.1 22.2 - + - -
1186A GLU* 5.9 6.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU1159 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1131A ASN* 3.5 37.7 - - + +
1132A PRO 4.6 0.2 - - - +
1133A MET* 3.9 18.4 - - + -
1155A ASP 2.8 18.6 + - - +
1156A ASP* 3.3 18.1 + - - +
1158A TRP* 1.3 76.0 - - - +
1160A MET* 1.3 57.5 + - - +
1162A ASN* 3.9 6.7 - - + +
1163A ASN* 2.9 52.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET1160 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1101A LEU* 4.5 2.0 - - + -
1111A PHE* 3.9 27.3 - - + -
1133A MET* 3.6 29.1 - - + +
1134A ASP* 3.7 4.0 - - - -
1135A LEU* 3.7 51.8 - - + -
1138A ILE* 4.5 2.7 - - + -
1156A ASP 3.0 12.9 + - - +
1157A VAL* 3.3 20.9 - - + +
1159A LEU* 1.3 76.0 - - - +
1161A PHE* 1.3 90.6 + - + +
1163A ASN* 3.7 4.8 - - - +
1164A ALA* 3.2 22.0 + - - +
1181A LEU* 4.7 3.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE1161 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1101A LEU* 4.3 2.7 - - + -
1111A PHE* 5.5 0.9 - + - -
1157A VAL* 3.1 34.7 + - + -
1158A TRP* 3.6 25.6 - + + +
1160A MET* 1.3 100.7 - - + +
1162A ASN* 1.3 61.9 + - - +
1164A ALA 3.1 2.1 + - - -
1165A TRP* 2.9 36.2 + - + -
1178A CYS* 3.5 30.5 - - - -
1181A LEU* 3.7 28.3 - - + -
1182A ALA* 3.6 33.7 - - + -
1185A PHE* 3.9 15.3 - + + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN1162 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1158A TRP* 2.8 45.2 + - - +
1159A LEU* 4.0 8.1 - - + +
1161A PHE* 1.3 73.2 - - - +
1163A ASN* 1.3 64.6 + - - +
1165A TRP* 3.4 22.7 + - - +
1166A LEU* 2.9 26.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN1163 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1125A TYR* 4.2 8.5 + - - +
1129A VAL* 3.5 32.0 - - + +
1130A LYS 5.4 0.3 + - - -
1131A ASN 2.8 26.3 + - - +
1132A PRO* 3.6 8.3 - - - +
1133A MET* 3.7 8.8 + - - +
1159A LEU* 2.9 36.4 + - - +
1160A MET* 3.7 5.9 - - - +
1162A ASN* 1.3 77.7 - - - +
1164A ALA* 1.3 57.3 + - - +
1166A LEU* 3.3 9.2 + - - +
1167A TYR* 2.9 32.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA1164 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1111A PHE* 3.7 31.0 - - + -
1125A TYR* 6.0 0.2 - - - -
1160A MET 3.2 4.5 + - - +
1161A PHE 3.1 8.9 + - - +
1163A ASN* 1.3 77.8 - - - +
1165A TRP* 1.3 64.6 + - - +
1168A ASN* 2.9 45.4 + - - +
1174A VAL* 4.3 3.1 - - + +
1175A TYR* 4.3 2.1 - - - -
1178A CYS* 3.9 13.0 - - + -
1201A 6XH 4.3 6.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TRP1165 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1158A TRP* 3.7 30.7 - + - -
1161A PHE* 2.9 25.7 + - + +
1162A ASN* 3.6 21.5 - - - +
1164A ALA* 1.3 77.0 - - - +
1166A LEU* 1.3 62.5 + - - +
1168A ASN 3.6 4.7 - - - +
1175A TYR* 3.5 51.9 - + + +
1178A CYS* 3.7 18.4 - - + -
1179A SER* 3.0 28.4 + - - +
1182A ALA* 3.8 31.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU1166 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1128A ILE* 3.6 39.6 - - + +
1129A VAL* 4.7 7.2 - - + -
1162A ASN 2.9 19.7 + - - +
1163A ASN* 3.6 7.4 - - - +
1164A ALA 3.2 0.2 - - - -
1165A TRP* 1.3 81.9 - - - +
1167A TYR* 1.3 63.6 + - - +
1168A ASN 4.3 1.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR1167 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1122A ILE* 3.3 32.3 - - + +
1124A ASP* 2.6 33.4 + - - -
1125A TYR* 3.7 36.3 - + + -
1128A ILE* 3.8 34.8 - - + -
1129A VAL* 4.0 12.3 - - + -
1163A ASN 2.9 17.4 + - - +
1166A LEU* 1.3 79.1 - - - +
1168A ASN* 1.3 84.0 + - - +
1169A ARG* 4.0 2.9 + - - +
1201A 6XH 4.3 4.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN1168 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1164A ALA* 2.9 28.1 + - - +
1165A TRP 3.6 7.3 - - - +
1166A LEU 4.3 1.6 - - - +
1167A TYR* 1.3 88.7 - - - +
1169A ARG* 1.3 63.6 + - - +
1170A LYS 3.8 0.3 + - - -
1172A SER* 3.4 17.4 + - - +
1174A VAL* 3.4 22.5 - - - +
1175A TYR* 3.3 20.4 - - + +
1201A 6XH 3.0 49.9 + - - +
----------------------------------------------------------
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