Contacts of the helix formed by residues 1142 - 1156 (chain A) in PDB entry 1WUE
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 ASP1142 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1140A GLN* 3.0 19.1 + - - +
1141A GLU* 1.3 74.5 - - - +
1143A LEU* 1.3 66.2 + - - +
1144A PRO* 3.2 20.8 - - - +
1145A GLN* 3.0 41.8 + - - +
1146A LEU* 3.1 8.1 + - - +
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Residues in contact with LEU1143 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1140A GLN 4.4 3.4 - - - +
1141A GLU* 3.0 18.4 - - - +
1142A ASP* 1.3 69.2 - - - +
1144A PRO* 1.3 75.2 - - + +
1146A LEU* 2.7 22.8 + - + +
1147A LEU* 2.8 14.2 + - - +
1169A TYR* 4.7 0.9 - - + -
1172A GLU* 3.8 32.3 - - + +
1173A PRO* 3.7 35.2 - - + -
1176A LEU* 3.3 30.1 - - + +
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Residues in contact with PRO1144 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1142A ASP* 3.2 18.4 - - - +
1143A LEU* 1.3 94.2 - - + +
1145A GLN* 1.3 61.6 + - - +
1147A LEU* 3.5 10.4 + - + +
1148A LYS* 3.1 19.6 + - - +
1176A LEU* 5.6 0.4 - - + -
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Residues in contact with GLN1145 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1140A GLN* 2.9 30.9 + - - +
1142A ASP* 3.0 21.2 + - - +
1144A PRO* 1.3 76.6 - - - +
1146A LEU* 1.3 65.0 + - - +
1148A LYS* 2.8 19.8 + - + +
1149A GLN* 2.8 37.5 + - + +
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Residues in contact with LEU1146 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1137A LEU* 4.5 11.7 - - + -
1138A GLY 4.8 6.3 - - - +
1140A GLN* 3.8 21.9 - - + +
1142A ASP 3.1 8.2 + - - +
1143A LEU* 2.7 26.6 + - + +
1145A GLN* 1.3 70.8 - - - +
1147A LEU* 1.3 63.6 + - - +
1149A GLN* 2.8 24.0 + - - +
1150A VAL* 3.0 15.3 + - - +
1163A LEU* 4.3 21.5 - - + -
1169A TYR* 3.4 20.9 - - - +
1173A PRO* 3.5 25.4 - - + +
1176A LEU* 5.4 1.8 - - + -
1177A ILE* 4.3 17.9 - - + -
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Residues in contact with LEU1147 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1143A LEU 2.8 12.6 + - - +
1144A PRO* 3.7 13.0 - - + +
1146A LEU* 1.3 73.9 - - - +
1148A LYS* 1.3 57.2 + - - +
1150A VAL* 3.6 6.9 + - - +
1151A GLN* 2.9 51.0 + - + +
1176A LEU* 4.3 17.9 - - + +
1177A ILE* 5.4 4.9 - - + -
1180A HIS* 3.3 46.2 - - + +
1181A PHE* 3.9 15.9 - - + -
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Residues in contact with LYS1148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1144A PRO 3.1 13.6 + - - +
1145A GLN* 2.8 24.1 + - + +
1147A LEU* 1.3 76.9 - - - +
1149A GLN* 1.3 57.6 + - + +
1151A GLN* 3.3 18.5 + - - +
1152A LEU* 2.9 25.7 + - + +
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Residues in contact with GLN1149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1135A ILE* 5.7 0.9 - - - +
1137A LEU* 3.8 34.3 - - + +
1140A GLN* 3.4 41.0 - - - +
1145A GLN* 2.8 28.0 + - + +
1146A LEU* 2.8 11.3 + - - +
1148A LYS* 1.3 73.9 - - + +
1150A VAL* 1.3 61.9 + - - +
1152A LEU* 3.1 13.3 + - + +
1153A ALA* 2.8 29.0 + - - +
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Residues in contact with VAL1150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1137A LEU* 4.3 16.8 - - + -
1146A LEU* 3.0 16.6 + - + +
1147A LEU* 3.8 7.9 - - - +
1149A GLN* 1.3 76.1 - - - +
1151A GLN* 1.3 58.4 + - - +
1153A ALA* 3.4 5.9 + - - +
1154A VAL* 3.0 28.8 + - - +
1161A VAL* 4.9 7.0 - - + -
1177A ILE* 3.3 38.1 - - + -
1181A PHE* 3.6 29.4 - - + -
1184A LEU* 3.9 22.7 - - + -
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Residues in contact with GLN1151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1147A LEU* 2.9 46.5 + - + +
1148A LYS* 3.4 19.6 + - - +
1150A VAL* 1.3 77.0 - - - +
1152A LEU* 1.3 51.6 + - - +
1154A VAL* 3.7 1.6 + - - +
1155A GLU* 2.7 47.0 + - + +
1180A HIS* 5.5 0.7 + - - -
1181A PHE* 3.5 24.9 - - + -
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Residues in contact with LEU1152 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1148A LYS* 2.9 14.5 + - + +
1149A GLN* 3.3 14.6 - - + +
1151A GLN* 1.3 74.7 - - - +
1153A ALA* 1.3 53.4 + - - +
1155A GLU* 3.0 18.6 + - + +
1156A LYS* 2.7 76.7 + - + +
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Residues in contact with ALA1153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1135A ILE* 4.1 27.8 - - + -
1137A LEU* 6.0 0.9 - - + -
1149A GLN 2.8 14.8 + - - +
1150A VAL* 3.7 8.3 - - - +
1152A LEU* 1.3 77.3 - - - +
1154A VAL* 1.3 58.7 + - - +
1156A LYS* 2.8 20.0 + - - +
1157A GLY 2.9 9.9 + - - -
1158A TYR* 3.2 32.9 + - + +
1161A VAL* 4.5 8.5 - - + -
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Residues in contact with VAL1154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1150A VAL 3.0 18.5 + - - +
1151A GLN 4.0 3.1 - - - +
1153A ALA* 1.3 75.4 - - + +
1155A GLU* 1.3 66.3 + - + +
1157A GLY* 3.0 14.4 + - - +
1158A TYR 4.4 8.0 + - - +
1161A VAL* 5.8 0.4 - - + -
1181A PHE* 3.4 35.0 - - + -
1184A LEU* 4.0 26.9 - - + -
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Residues in contact with GLU1155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1151A GLN* 2.7 30.5 + - + +
1152A LEU* 3.0 20.6 + - + +
1154A VAL* 1.3 78.9 - - + +
1156A LYS* 1.3 60.1 + - + +
1337A GLN* 3.2 17.3 + - - +
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Residues in contact with LYS1156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1135A ILE* 6.5 0.2 - - + -
1152A LEU* 2.7 54.9 + - + +
1153A ALA* 2.8 7.1 + - - +
1155A GLU* 1.3 78.5 - - + +
1157A GLY* 1.3 55.6 + - - +
1158A TYR* 3.6 24.5 + - + +
1335A LEU* 5.7 0.2 - - - +
1337A GLN* 3.0 37.6 + - - +
1338A GLY 3.3 2.9 + - - -
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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
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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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