Contacts of the strand formed by residues 171 - 185 (chain C) in PDB entry 2WLM
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 ILE 171 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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140C ALA* 4.7 0.4 - - + -
141C GLY 5.0 1.1 - - - +
142C VAL* 4.0 14.6 - - + -
165C ASN* 4.4 9.9 - - - +
170C GLN* 1.3 76.5 - - - +
172C ILE* 1.3 62.7 + - - +
174C ALA* 4.0 4.0 - - + +
207C ILE* 3.7 1.9 - - - -
208C PHE* 2.8 58.2 + - + +
243C PHE* 3.7 29.4 - - + -
245C GLY* 3.6 35.7 - - - +
246C HIS 3.5 6.1 - - - +
247C HIS* 3.8 29.6 - - + +
254C VAL* 4.4 4.7 - - + -
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Residues in contact with ILE 172 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242B LEU* 4.8 10.1 - - + -
244B THR* 5.1 8.1 - - + -
255B HIS* 3.2 43.1 - - + +
257B ARG* 5.2 1.8 - - - +
170C GLN* 5.0 1.3 - - + -
171C ILE* 1.3 75.4 - - - +
173C GLU* 1.3 86.6 + - + +
174C ALA 3.0 2.9 + - - -
206C PRO 3.2 7.6 - - - +
207C ILE* 4.7 10.8 - - + -
246C HIS* 2.8 61.2 + - + +
248C GLU* 3.5 28.7 - - + +
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Residues in contact with GLU 173 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242B LEU* 4.7 6.9 - - + +
244B THR* 5.7 3.8 + - - +
172C ILE* 1.3 96.8 - - + +
174C ALA* 1.3 63.1 + - - +
175C ASP* 3.8 2.9 + - - +
204C ARG* 3.8 33.8 + - - +
206C PRO* 2.5 29.9 + - + +
244C THR 4.2 0.3 - - - +
245C GLY* 4.0 5.9 - - - -
246C HIS* 4.7 10.4 - - + +
253C ASN* 5.2 6.1 + - - +
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Residues in contact with ALA 174 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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171C ILE* 4.0 9.2 - - + +
172C ILE 3.0 1.0 - - - -
173C GLU* 1.3 79.1 - - - +
175C ASP* 1.3 61.5 + - - +
204C ARG* 3.4 1.2 - - - -
205C SER 2.8 36.8 + - - +
208C PHE* 3.7 20.6 - - + -
212C TRP* 4.2 4.5 - - + -
243C PHE* 3.6 29.6 - - + -
244C THR 3.3 6.5 - - - -
245C GLY* 3.9 3.4 - - - -
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Residues in contact with ASP 175 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173C GLU 4.4 2.5 - - - +
174C ALA* 1.3 75.8 - - - +
176C VAL* 1.3 61.6 + - - +
177C HIS* 4.5 15.4 + - - -
203C SER* 3.0 22.7 - - - +
204C ARG* 2.5 37.9 + - - +
212C TRP* 4.1 5.8 - - - -
242C LEU 3.9 0.5 - - - +
243C PHE* 3.6 3.1 - - - -
244C THR* 2.8 46.3 + - - +
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Residues in contact with VAL 176 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161C MET* 5.6 0.2 - - - -
163C LEU* 4.5 10.5 - - + -
175C ASP* 1.3 78.2 - - - +
177C HIS* 1.3 69.8 + - - +
200C LEU* 3.6 15.2 - - + +
203C SER* 3.2 15.9 + - - +
212C TRP* 4.0 20.4 - - + -
214C VAL* 3.5 36.8 - - + -
241C VAL* 3.5 27.6 - - + -
242C LEU 3.2 14.1 - - - +
243C PHE* 4.2 7.6 - - + -
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Residues in contact with HIS 177 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175C ASP* 4.5 15.2 + - - -
176C VAL* 1.3 82.1 + - - +
178C LEU* 1.3 60.3 + - - +
179C VAL* 3.8 4.0 - - + -
197C ASP* 3.1 28.2 + - - +
200C LEU* 4.8 0.9 - - - -
203C SER* 5.6 4.2 + - - -
240C LEU 3.4 1.6 - - - +
241C VAL* 3.3 9.0 - - - +
242C LEU* 2.9 42.4 + - + +
244C THR* 6.2 0.4 - - + -
173D GLU* 6.3 0.8 - - - +
204D ARG* 5.3 16.7 + - + -
206D PRO* 3.6 35.2 - - + +
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Residues in contact with LEU 178 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148C MET* 3.9 28.0 - - + -
159C LEU* 4.3 14.8 - - + +
161C MET* 4.6 9.2 - - + -
176C VAL* 4.3 0.8 + - + -
177C HIS* 1.3 69.8 - - - +
179C VAL* 1.3 65.4 + - - +
197C ASP* 3.6 4.9 + - - +
198C LEU* 2.9 40.6 + - + +
200C LEU* 3.7 34.5 - - + +
214C VAL* 5.4 6.5 - - + +
216C HIS* 4.7 6.3 - - + +
239C PHE* 4.5 10.3 - - + -
240C LEU 3.7 3.6 - - - +
241C VAL* 3.4 29.2 - - + -
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Residues in contact with VAL 179 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177C HIS* 4.4 10.8 - - + -
178C LEU* 1.3 77.9 - - - +
180C LEU* 1.3 71.2 + - - +
181C VAL* 3.7 4.0 + - + -
195C PHE* 3.9 32.3 - - + -
196C HIS 3.5 9.6 - - - +
197C ASP* 3.8 26.5 - - - +
239C PHE* 3.4 3.9 - - - -
240C LEU* 2.7 53.0 + - + +
202D ARG* 4.9 3.6 - - - +
206D PRO* 4.7 13.9 - - + -
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Residues in contact with LEU 180 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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178C LEU 4.0 1.4 + - - -
179C VAL* 1.3 71.9 - - - +
181C VAL* 1.3 66.7 + - - +
182C ARG* 4.0 19.7 - - + +
194C ARG 3.6 1.2 - - - +
195C PHE* 3.5 2.8 - - - -
196C HIS* 2.8 50.8 + - + +
198C LEU* 4.0 11.0 - - + +
223C PRO* 3.8 24.5 - - + -
224C ILE* 3.8 23.3 - - + -
232C LEU* 5.1 0.4 - - + -
237C SER* 3.7 25.4 - - - +
238C GLU 3.5 12.6 - - - +
239C PHE* 3.9 24.2 - - + -
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Residues in contact with VAL 181 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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14C ILE* 6.0 0.4 - - + -
15C LEU* 4.3 20.6 - - + -
179C VAL* 3.7 9.8 + - + +
180C LEU* 1.3 77.9 - - - +
182C ARG* 1.3 63.5 + - - +
193C ARG* 3.2 36.0 + - + +
194C ARG 3.5 9.2 - - - +
195C PHE* 3.9 44.2 - - + -
237C SER* 3.1 2.6 - - - -
238C GLU 2.7 42.5 + - - +
240C LEU* 4.9 4.3 - - + -
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Residues in contact with ARG 182 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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180C LEU* 4.0 22.4 - - + +
181C VAL* 1.3 76.9 - - - +
183C SER* 1.3 62.4 + - - +
184C GLU* 2.4 35.1 + - + +
193C ARG* 3.3 13.2 - - - +
194C ARG 3.0 30.1 + - - +
196C HIS* 4.0 13.7 + - - +
223C PRO* 2.8 34.3 + - - +
224C ILE* 4.8 2.6 - - - +
227C GLU* 4.0 16.8 + - - -
232C LEU* 5.7 2.0 - - - +
235C SER* 3.7 20.8 + - - +
237C SER* 3.2 21.3 - - - -
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Residues in contact with SER 183 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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182C ARG* 1.3 70.6 - - - +
184C GLU* 1.3 72.5 + - - +
191C VAL* 5.1 10.8 - - - -
192C PHE 3.3 9.6 - - - -
193C ARG* 3.6 18.1 + - - +
234C ASN 5.8 0.2 - - - -
235C SER* 3.0 36.9 + - - -
236C HIS* 4.3 5.7 - - - +
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Residues in contact with GLU 184 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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182C ARG* 2.4 50.9 + - - +
183C SER* 1.3 84.8 - - - +
185C ILE* 1.3 68.8 + - - +
190C MET 3.4 0.6 - - - +
191C VAL* 3.1 27.2 - - - +
192C PHE* 2.9 24.6 + - + +
194C ARG* 3.3 38.1 + - + +
196C HIS* 3.4 10.3 - - - -
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Residues in contact with ILE 185 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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184C GLU* 1.3 80.6 - - - +
186C SER* 1.3 75.8 + - - +
187C GLN 4.0 0.2 + - - -
189C GLY* 3.8 15.3 - - - +
190C MET 3.4 1.3 - - - +
191C VAL* 3.1 42.4 - - + +
192C PHE* 4.6 2.4 - - - -
154D GLU* 5.7 0.2 - - - +
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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