Contacts of the helix formed by residues 166 - 184 (chain A) in PDB entry 2WNW
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 CYS 166 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A PHE* 5.8 0.9 - - - -
150A MET* 3.9 26.5 - - + +
162A LEU* 3.9 15.3 - - + -
163A ARG* 2.7 54.5 + - - +
165A GLU* 1.3 83.2 - - - +
167A TYR* 1.3 58.1 + - - +
168A ALA 3.3 2.2 - - - -
169A ASP* 3.3 14.2 + - - +
170A TRP* 2.9 30.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 167 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162A LEU* 3.5 42.1 + - + +
163A ARG 3.5 10.5 - - - -
164A ARG* 3.3 50.0 + - - +
165A GLU 3.6 0.4 - - - -
166A CYS* 1.3 78.5 - - - +
168A ALA* 1.3 64.3 + - - +
171A ALA* 3.0 20.4 + - - +
208A TYR* 4.2 8.1 - + - -
212A GLU* 3.3 51.7 + - + +
215A ALA* 5.2 0.2 - - + -
216A PHE* 3.3 30.5 - + + -
220A TYR* 3.6 29.8 - + + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 168 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165A GLU 5.1 3.1 + - - +
166A CYS* 3.3 0.6 - - - +
167A TYR* 1.3 79.2 - - - +
169A ASP* 1.3 62.0 + - - +
171A ALA* 3.3 3.1 + - - +
172A ASP* 2.9 37.7 + - - +
220A TYR* 3.6 14.3 - - + -
224A ARG* 3.3 25.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 169 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A LEU* 3.8 26.9 - - + +
150A MET* 3.8 20.9 - - + -
165A GLU 3.8 16.3 - - - +
166A CYS* 3.3 12.7 + - + +
167A TYR 3.3 0.4 - - - -
168A ALA* 1.3 81.7 - - - +
170A TRP* 1.3 61.4 + - - +
172A ASP* 3.3 12.0 + - - +
173A ILE* 3.0 27.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 170 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90A ILE* 4.2 10.3 - - + -
91A GLN* 3.5 27.4 - - + -
143A PRO* 3.6 31.9 - - + +
145A SER 3.9 1.6 - - - -
146A PRO* 3.5 28.3 - - + +
147A PRO* 3.6 26.2 - - + -
150A MET* 4.1 5.3 - - - -
162A LEU* 3.7 16.2 - - + -
166A CYS 2.9 17.2 + - - +
167A TYR 3.8 3.1 - - - +
169A ASP* 1.3 73.6 - - - +
171A ALA* 1.3 66.5 + - - +
173A ILE* 3.1 27.4 + - + -
174A ILE* 3.0 34.6 + - + +
193A VAL 4.9 1.2 + - - -
194A GLN* 5.4 0.6 + - - -
208A TYR* 3.6 19.3 + - - -
216A PHE* 3.4 23.4 - + - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 171 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167A TYR 3.0 18.1 + - - +
168A ALA 3.6 4.7 - - - +
170A TRP* 1.3 77.6 - - - +
172A ASP* 1.3 61.6 + - - +
174A ILE* 3.2 4.7 + - - +
175A ILE* 3.1 25.8 + - - +
216A PHE* 3.7 18.7 - - + -
220A TYR* 4.0 15.0 - - + -
221A LEU* 4.3 12.4 - - + +
224A ARG* 3.7 21.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 172 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A LEU* 6.4 0.9 - - + -
168A ALA* 2.9 24.7 + - - +
169A ASP* 3.6 13.1 - - - +
170A TRP 3.2 0.2 - - - -
171A ALA* 1.3 74.5 - - - +
173A ILE* 1.3 63.9 + - + +
175A ILE* 3.3 8.1 + - - +
176A ASN* 3.1 31.5 + - - +
224A ARG* 2.8 31.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 173 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90A ILE* 5.6 0.4 - - + -
91A GLN* 4.4 0.4 - - - +
102A TYR* 3.9 30.5 - - + -
103A VAL* 3.4 25.1 - - + -
109A LEU* 4.8 7.9 - - + -
114A LEU* 5.0 11.2 - - + -
116A PHE* 4.8 0.7 - - + -
147A PRO* 3.9 10.1 - - + -
150A MET* 3.2 32.1 - - + -
169A ASP 3.0 15.2 + - - +
170A TRP* 3.1 26.7 + - + +
172A ASP* 1.3 76.7 - - + +
174A ILE* 1.3 59.2 + - - +
176A ASN* 3.1 8.6 + - - +
177A TYR* 2.9 25.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 174 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90A ILE* 4.2 26.2 - - + -
143A PRO* 4.4 11.0 - - + -
170A TRP* 3.0 40.4 + - + +
171A ALA 3.5 6.7 - - - +
173A ILE* 1.3 77.7 - - - +
175A ILE* 1.3 63.8 + - + +
177A TYR* 3.2 9.5 + - - +
178A LEU* 3.0 25.2 + - + +
191A LEU* 4.5 17.5 - - + -
193A VAL* 5.4 0.7 - - - +
216A PHE* 3.8 28.9 - - + -
221A LEU* 4.2 19.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 175 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171A ALA 3.1 15.2 + - - +
172A ASP* 3.6 9.6 - - - +
173A ILE 3.2 0.2 - - - -
174A ILE* 1.3 77.7 - - + +
176A ASN* 1.3 58.2 + - - +
178A LEU* 3.0 11.2 + - + +
179A LEU* 2.9 35.8 + - + +
221A LEU* 5.0 6.3 - - + +
224A ARG* 3.9 34.3 - - + +
225A LEU* 3.8 34.3 - - + +
228A GLN* 3.8 33.0 - - + +
230A MET* 4.9 2.5 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 176 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114A LEU* 3.6 31.6 - - + +
116A PHE* 3.8 6.6 - - + -
172A ASP* 3.1 24.5 + - - +
173A ILE 3.1 7.8 + - - +
175A ILE* 1.3 74.4 - - - +
177A TYR* 1.3 56.3 + - - +
179A LEU* 3.8 19.8 - - - +
180A GLU* 2.8 35.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 177 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88A MET* 3.5 30.0 - - - +
89A PRO 4.0 10.7 + - - -
90A ILE* 3.8 21.3 - - + -
102A TYR* 3.4 37.9 - + + -
116A PHE* 3.8 12.1 - + - -
141A ALA* 3.5 26.3 - - + +
173A ILE 2.9 12.3 + - - +
174A ILE* 3.2 15.3 - - - +
176A ASN* 1.3 78.4 - - - +
178A LEU* 1.3 73.4 + - + +
180A GLU* 3.4 0.5 - - - +
181A TYR* 3.0 68.5 + + - -
188A VAL* 4.5 6.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 178 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A ILE* 3.0 20.5 + - + +
175A ILE* 3.0 13.0 + - + +
177A TYR* 1.3 89.7 - - + +
179A LEU* 1.3 57.9 + - - +
181A TYR* 3.5 4.5 + - - +
182A ARG* 3.0 29.2 + - - +
186A ILE 4.7 1.0 - - - +
188A VAL* 3.6 40.1 - - + +
191A LEU* 4.3 12.8 - - + -
225A LEU* 3.7 21.1 - - + -
230A MET* 3.8 20.3 - - + +
233A MET* 3.7 24.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 179 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175A ILE* 2.9 34.5 + - + +
176A ASN* 3.8 21.1 - - - +
178A LEU* 1.3 71.5 - - - +
180A GLU* 1.3 66.3 + - - +
182A ARG* 3.2 33.9 + - - +
183A ARG* 3.0 31.6 + - + +
228A GLN* 3.9 18.8 - - - +
230A MET* 3.8 12.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 180 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116A PHE* 3.4 44.0 - - + +
120A GLU* 2.8 33.5 - - - +
124A ILE* 4.1 1.9 - - - +
176A ASN 2.8 22.4 + - - +
177A TYR 3.4 4.0 - - - +
179A LEU* 1.3 73.5 - - - +
181A TYR* 1.3 70.7 + - + +
183A ARG* 2.8 40.7 + - - +
184A HIS* 2.8 40.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 181 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88A MET* 4.0 11.6 - - + +
89A PRO 4.9 0.3 + - - -
116A PHE* 5.0 1.6 - + - -
119A ASP* 2.8 37.2 + - + +
123A LEU* 3.7 15.9 - - - +
124A ILE* 4.5 11.2 - - + -
127A ILE* 4.0 21.3 - - + -
177A TYR* 3.0 57.1 + + - +
178A LEU* 4.0 4.7 - - - +
180A GLU* 1.3 86.8 - - + +
182A ARG* 1.3 65.3 + - - +
184A HIS* 3.0 13.5 + - - +
185A GLY 3.4 0.2 + - - -
186A ILE* 2.8 62.0 + - + +
188A VAL* 5.0 4.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 182 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178A LEU 3.0 18.9 + - - +
179A LEU* 3.2 28.8 + - - +
181A TYR* 1.3 77.6 - - - +
183A ARG* 1.3 62.6 + - + +
185A GLY* 3.0 14.2 + - - -
186A ILE 3.3 11.2 + - - +
187A ASN* 3.5 21.5 - - - +
228A GLN* 4.5 14.1 + - - +
229A GLY 5.6 1.8 + - - -
230A MET* 3.7 30.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 183 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A GLU* 4.7 3.8 + - - -
179A LEU* 3.0 19.3 + - - +
180A GLU* 2.8 38.7 + - - +
181A TYR 3.2 0.2 - - - -
182A ARG* 1.3 77.3 - - - +
184A HIS* 1.3 73.0 + - + +
185A GLY 3.2 2.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 184 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A GLU* 3.0 26.5 + - + -
124A ILE* 3.7 32.1 - - + +
128A SER* 4.4 7.8 + - - -
180A GLU* 2.8 48.6 + - - +
181A TYR 3.0 8.0 + - - +
183A ARG* 1.3 92.6 + - + +
185A GLY* 1.3 61.4 + - - +
186A ILE* 3.3 10.2 + - + +
----------------------------------------------------------
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