Contacts of the helix formed by residues 158 - 175 (chain A) in PDB entry 2WA2
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 GLU 158 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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13A TRP* 5.4 1.4 - - - -
14A LYS* 3.0 25.4 + - - +
150A GLU 4.6 0.2 - - - +
151A SER* 3.3 11.8 + - - -
152A ASN* 2.8 49.3 + - + +
154A THR 3.2 2.4 + - - +
155A ALA* 3.1 12.4 + - - +
157A VAL* 1.3 78.4 - - - +
159A ALA* 1.3 53.1 + - - +
161A ARG* 3.4 5.3 + - - +
162A THR* 2.7 38.2 + - - -
186A LEU* 3.6 32.0 - - + +
187A ASN* 3.8 12.5 - - + +
189A TYR* 4.2 6.1 + - - -
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Residues in contact with ALA 159 (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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155A ALA 2.8 18.8 + - - +
156A ALA* 3.7 10.5 - - - +
158A GLU* 1.3 72.3 - - - +
160A SER* 1.3 57.3 + - - +
162A THR* 3.2 1.7 + - - -
163A LEU* 2.9 35.1 + - - +
187A ASN* 3.6 6.3 - - - +
190A SER* 3.5 31.6 - - - +
192A ASP* 4.0 9.2 - - - +
193A VAL* 3.9 7.5 - - - +
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Residues in contact with SER 160 (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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156A ALA 3.0 18.3 + - - -
157A VAL* 3.6 7.0 - - - -
159A ALA* 1.3 76.1 - - - +
161A ARG* 1.3 64.4 + - - +
163A LEU* 3.4 9.6 + - - +
164A THR* 3.1 26.6 + - - -
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Residues in contact with ARG 161 (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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149A GLY* 5.8 1.8 - - - -
150A GLU* 3.1 33.0 + - - +
151A SER 4.6 1.2 + - - -
152A ASN* 3.8 19.8 - - - +
157A VAL* 3.1 41.7 + - + +
158A GLU* 3.8 6.1 - - - +
160A SER* 1.3 77.0 - - - +
162A THR* 1.3 63.7 + - - +
164A THR* 3.3 7.9 + - - -
165A VAL* 3.1 28.8 + - + +
186A LEU* 5.0 4.0 - - + -
1249A SO4 3.3 43.1 + - - +
21B ASP* 4.8 5.3 + - - -
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Residues in contact with THR 162 (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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158A GLU 2.7 22.1 + - - -
159A ALA 3.2 4.0 + - - -
161A ARG* 1.3 77.6 - - - +
163A LEU* 1.3 57.4 + - - +
165A VAL* 3.2 8.1 + - - +
166A LEU* 3.0 33.3 + - + +
184A LYS 5.3 1.1 - - - +
185A VAL* 3.5 34.1 - - + -
186A LEU* 3.5 13.7 - - - +
187A ASN 3.2 19.2 + - - +
193A VAL* 3.7 23.1 - - + -
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Residues in contact with LEU 163 (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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159A ALA 2.9 19.4 + - - +
160A SER* 3.7 8.1 - - - +
162A THR* 1.3 77.2 - - - +
164A THR* 1.3 56.5 + - - +
166A LEU* 3.4 4.9 + - + +
167A ASN* 2.9 31.6 + - - +
192A ASP* 3.2 53.4 - - + +
193A VAL* 3.6 20.6 - - + -
196A ALA* 3.8 14.8 - - + -
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Residues in contact with THR 164 (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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134A THR* 3.8 30.3 - - + -
135A LYS* 6.1 0.7 - - - +
160A SER 3.1 15.3 + - - -
161A ARG* 3.5 11.6 - - - -
163A LEU* 1.3 76.4 - - - +
165A VAL* 1.3 62.5 + - + +
167A ASN* 3.4 5.6 + - - +
168A VAL* 3.1 29.3 + - + +
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Residues in contact with VAL 165 (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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134A THR* 5.9 4.5 - - + -
146A CYS* 3.8 25.1 - - - -
148A ILE* 3.7 40.2 - - + +
149A GLY* 5.7 0.7 - - - -
161A ARG* 3.1 16.7 + - + +
162A THR* 3.6 9.6 - - + +
164A THR* 1.3 77.1 - - + +
166A LEU* 1.3 58.6 + - + +
168A VAL* 3.1 7.7 + - + +
169A ILE* 2.8 29.1 + - + +
183A VAL* 4.0 20.0 - - + -
184A LYS 4.3 9.2 - - - +
1249A SO4 5.4 0.4 - - - +
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Residues in contact with LEU 166 (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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162A THR* 3.0 24.8 + - + +
163A LEU* 3.8 6.5 - - + +
165A VAL* 1.3 75.9 - - + +
167A ASN* 1.3 57.6 - - - +
169A ILE* 3.4 1.3 + - - -
170A SER* 2.8 35.1 + - - -
183A VAL* 4.2 22.4 - - + -
184A LYS 5.0 1.1 - - - +
185A VAL* 4.3 8.5 - - + -
193A VAL* 4.0 17.9 - - + -
196A ALA* 4.1 18.6 - - + -
197A LEU* 3.7 35.9 - - + -
200A MET* 3.7 28.6 - - + +
223A PHE* 5.2 1.1 - - + -
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Residues in contact with ASN 167 (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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163A LEU 2.9 18.5 + - - +
164A THR* 3.8 6.3 - - - +
166A LEU* 1.3 77.2 - - - +
168A VAL* 1.3 62.8 + - - +
170A SER* 3.5 13.2 + - - -
171A ARG* 2.6 51.3 + - - +
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Residues in contact with VAL 168 (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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81A LEU* 5.3 2.2 - - + -
133A VAL* 3.8 25.4 - - + +
134A THR* 3.7 37.7 - - + +
136A MET 5.8 1.3 - - - +
164A THR* 3.1 19.4 + - + +
165A VAL* 3.5 8.5 - - - +
167A ASN* 1.3 76.2 - - + +
169A ILE* 1.3 69.8 + - + +
171A ARG* 3.1 31.2 + - - +
172A TRP* 3.3 30.5 - - + +
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Residues in contact with ILE 169 (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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81A LEU* 3.8 22.7 - - + -
144A VAL* 3.9 12.3 - - + -
146A CYS* 3.6 26.9 - - + -
165A VAL* 2.8 27.3 + - + +
166A LEU* 3.8 4.3 - - - +
168A VAL* 1.3 75.0 - - + +
170A SER* 1.3 63.1 + - - +
172A TRP* 3.0 6.8 + - + +
173A LEU* 2.9 37.4 + - + +
183A VAL* 3.6 37.2 - - + -
200A MET* 3.7 18.2 - - + -
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Residues in contact with SER 170 (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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166A LEU 2.8 24.5 + - - -
167A ASN* 3.7 11.8 - - - -
168A VAL 3.2 0.4 - - - -
169A ILE* 1.3 72.5 - - - +
171A ARG* 1.3 57.1 + - - +
173A LEU* 3.3 0.6 + - - -
174A GLU* 2.9 33.3 + - - +
200A MET* 3.3 27.1 - - - +
203A ARG* 3.9 19.7 + - - -
204A PHE* 3.6 13.7 - - - -
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Residues in contact with ARG 171 (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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134A THR 4.1 11.1 + - - -
136A MET 6.2 0.2 - - - -
138A PRO* 4.0 20.5 - - + +
167A ASN* 2.6 41.4 + - - +
168A VAL* 3.1 31.8 + - - +
170A SER* 1.3 77.6 - - - +
172A TRP* 1.3 57.7 + - + +
174A GLU* 3.5 11.4 + - - +
175A TYR* 3.0 30.7 + - - +
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Residues in contact with TRP 172 (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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79A VAL* 3.8 32.5 - - + -
81A LEU* 3.9 35.9 - - + +
133A VAL 4.9 2.4 + - - -
136A MET* 4.2 18.0 + - + -
137A GLU 4.0 5.2 - - - -
138A PRO* 3.6 28.6 - - + +
139A PHE* 3.5 59.0 - + - -
141A ALA* 4.6 0.4 - - + -
144A VAL* 4.3 18.4 - - + -
168A VAL* 3.3 37.4 + - + +
169A ILE* 3.0 9.2 + - - +
171A ARG* 1.3 79.1 - - + +
173A LEU* 1.3 58.7 + - - +
175A TYR* 3.3 0.7 + - - +
176A ASN* 2.9 44.2 + - - +
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Residues in contact with LEU 173 (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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144A VAL* 4.4 7.4 - - + -
169A ILE* 2.9 37.0 + - + +
172A TRP* 1.3 73.2 - - - +
174A GLU* 1.3 64.8 + - - +
176A ASN 3.5 18.0 - - - +
177A GLN* 3.7 4.5 + - - +
178A GLY 4.9 0.7 + - - -
179A CYS* 3.5 27.6 - - - -
181A PHE* 3.7 39.7 - - + -
200A MET* 4.3 1.8 - - + -
204A PHE* 3.5 51.5 - - + -
223A PHE* 4.2 10.5 - - + -
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Residues in contact with GLU 174 (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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170A SER 2.9 18.2 + - - +
171A ARG* 3.7 12.5 - - - +
173A LEU* 1.3 77.5 - - - +
175A TYR* 1.3 60.7 + - - +
177A GLN* 3.9 16.1 - - - +
203A ARG* 2.8 29.9 + - - +
204A PHE* 3.7 8.2 - - + -
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Residues in contact with TYR 175 (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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137A GLU* 5.3 6.5 - - - -
138A PRO* 4.0 24.5 - - + -
139A PHE* 3.5 35.4 - - - +
140A GLN* 3.6 9.3 + - + +
171A ARG 3.0 18.2 + - - +
172A TRP 3.7 4.0 - - - +
174A GLU* 1.3 78.8 - - - +
176A ASN* 1.3 68.7 + - - +
177A GLN* 3.6 4.9 + - - +
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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