Contacts of the strand formed by residues 171 - 185 (chain B) 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 B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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141B GLY 5.0 0.7 - - - +
142B VAL* 4.0 14.6 - - + -
165B ASN* 4.4 10.1 - - - +
170B GLN* 1.3 76.5 - - - +
172B ILE* 1.3 64.2 + - - +
174B ALA* 4.0 5.0 - - + +
207B ILE* 3.7 1.9 - - - -
208B PHE* 2.8 57.8 + - + +
243B PHE* 3.7 30.5 - - + -
245B GLY* 3.6 34.5 - - - -
246B HIS 3.5 5.6 - - - +
247B HIS* 3.8 31.4 - - + +
254B VAL* 4.4 4.0 - - + -
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Residues in contact with ILE 172 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242A LEU* 5.3 9.9 - - + -
244A THR* 5.5 7.2 - - + -
255A HIS* 3.6 29.4 - - + +
257A ARG* 4.9 4.5 - - + +
170B GLN* 5.0 0.9 - - + -
171B ILE* 1.3 74.8 - - - +
173B GLU* 1.3 88.8 + - + +
174B ALA 3.0 2.2 + - - -
206B PRO 3.1 7.4 - - - +
207B ILE* 4.7 10.8 - - + -
246B HIS* 2.8 62.1 + - + +
248B GLU* 3.4 28.9 - - + +
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Residues in contact with GLU 173 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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177A HIS* 5.3 9.3 + - + +
242A LEU* 5.5 2.3 - - + +
244A THR* 5.6 7.5 + - - +
172B ILE* 1.3 96.6 - - + +
174B ALA* 1.3 63.8 + - - +
175B ASP* 3.8 2.8 + - - +
204B ARG* 3.8 35.1 + - - +
206B PRO* 2.5 30.3 + - + +
244B THR 4.2 0.5 - - - +
245B GLY* 4.1 6.0 - - - -
246B HIS* 4.7 10.8 + - + +
253B ASN* 5.2 6.2 + - - +
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Residues in contact with ALA 174 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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171B ILE* 4.0 9.0 - - + +
172B ILE 3.0 1.2 - - - -
173B GLU* 1.3 79.3 - - - +
175B ASP* 1.3 62.6 + - - +
204B ARG* 3.4 0.9 - - - -
205B SER 2.8 37.3 + - - +
208B PHE* 3.7 20.0 - - + -
212B TRP* 4.2 4.5 - - + -
243B PHE* 3.6 29.2 - - + -
244B THR 3.3 6.5 - - - -
245B GLY* 3.9 2.7 - - - -
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Residues in contact with ASP 175 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173B GLU 4.4 1.5 - - - +
174B ALA* 1.3 76.5 - - - +
176B VAL* 1.3 61.3 + - - +
177B HIS* 4.5 15.2 + - - -
203B SER* 3.0 22.0 - - - +
204B ARG* 2.5 38.2 + - - +
212B TRP* 4.1 5.5 - - - -
242B LEU 3.9 0.5 - - - +
243B PHE* 3.6 2.6 - - - -
244B THR* 2.8 47.3 + - - +
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Residues in contact with VAL 176 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161B MET* 5.6 0.2 - - - -
163B LEU* 4.5 11.0 - - + -
175B ASP* 1.3 78.0 - - - +
177B HIS* 1.3 71.5 + - - +
178B LEU* 6.3 0.4 - - + -
200B LEU* 3.6 15.3 - - + +
203B SER* 3.2 15.8 + - - +
212B TRP* 4.0 19.7 - - + -
214B VAL* 3.5 37.0 - - + -
241B VAL* 3.5 26.2 - - + -
242B LEU 3.2 14.1 - - - +
243B PHE* 4.2 9.0 - - + -
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Residues in contact with HIS 177 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175B ASP* 4.5 15.0 + - - -
176B VAL* 1.3 82.3 + - - +
178B LEU* 1.3 58.7 + - - +
179B VAL* 3.8 8.7 - - + -
197B ASP* 3.1 28.9 + - - +
200B LEU* 4.8 0.7 - - - -
203B SER* 5.6 4.9 + - - -
240B LEU 3.4 1.6 - - - +
241B VAL* 3.3 9.5 - - - +
242B LEU* 2.9 54.5 + - + +
244B THR* 6.2 0.9 - - + -
206C PRO* 4.5 15.9 - - + +
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Residues in contact with LEU 178 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148B MET* 3.8 26.9 - - + -
159B LEU* 4.3 14.6 - - + +
161B MET* 4.6 9.4 - - + -
176B VAL* 4.3 1.2 + - + -
177B HIS* 1.3 69.8 - - - +
179B VAL* 1.3 62.8 + - - +
180B LEU 4.1 0.2 - - - -
197B ASP* 3.6 4.7 + - - +
198B LEU* 2.9 42.5 + - + +
200B LEU* 3.7 35.1 - - + +
214B VAL* 5.4 7.0 - - + +
216B HIS* 4.6 6.7 - - + +
239B PHE* 4.5 9.6 - - + -
240B LEU 3.7 4.3 - - - +
241B VAL* 3.4 30.3 - - + -
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Residues in contact with VAL 179 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177B HIS* 4.5 10.8 - - + -
178B LEU* 1.3 78.5 - - - +
180B LEU* 1.3 71.9 + - - +
181B VAL* 3.7 4.2 + - + +
195B PHE* 3.9 32.1 - - + -
196B HIS 3.4 9.4 - - - +
197B ASP* 3.9 26.7 - - + +
239B PHE* 3.4 4.3 - - - -
240B LEU* 2.7 52.1 + - + +
202C ARG* 5.2 1.6 - - - +
206C PRO* 4.8 15.3 - - + -
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Residues in contact with LEU 180 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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178B LEU 4.0 1.4 + - - -
179B VAL* 1.3 72.6 - - - +
181B VAL* 1.3 67.1 + - - +
182B ARG* 4.0 18.4 - - + +
194B ARG 3.6 0.9 - - - +
195B PHE* 3.5 4.0 - - - -
196B HIS* 2.8 49.7 + - + +
198B LEU* 4.0 11.0 - - + +
223B PRO* 3.8 24.2 - - + -
224B ILE* 3.8 23.8 - - + -
232B LEU* 5.1 0.9 - - + -
237B SER* 3.7 25.4 - - - -
238B GLU 3.5 12.6 - - - +
239B PHE* 3.9 24.5 - - + -
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Residues in contact with VAL 181 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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15B LEU* 4.7 17.5 - - + -
179B VAL* 4.2 10.1 - - + +
180B LEU* 1.3 79.6 - - - +
182B ARG* 1.3 63.4 + - - +
193B ARG* 3.1 35.1 + - + +
194B ARG 3.4 9.9 - - - +
195B PHE* 3.9 44.2 - - + -
237B SER* 3.1 2.9 - - - -
238B GLU 2.7 43.1 + - - +
240B LEU* 4.9 5.2 - - + -
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Residues in contact with ARG 182 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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180B LEU* 4.0 23.3 - - + +
181B VAL* 1.3 74.8 - - - +
183B SER* 1.3 63.7 + - - +
184B GLU* 3.1 31.3 + - + +
193B ARG* 3.2 14.1 - - - +
194B ARG* 2.9 31.2 + - - +
196B HIS* 4.0 13.5 + - - +
223B PRO* 2.8 34.3 + - - +
224B ILE* 4.8 2.6 - - - +
227B GLU* 4.0 16.4 + - - -
232B LEU* 5.7 2.0 - - - +
235B SER* 3.7 20.8 + - - +
237B SER* 3.2 20.6 - - - -
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Residues in contact with SER 183 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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182B ARG* 1.3 75.3 - - - +
184B GLU* 1.3 65.3 + - - +
191B VAL* 4.8 13.0 - - - -
192B PHE 3.2 11.2 - - - -
193B ARG* 3.6 17.7 + - - +
235B SER* 3.0 36.9 + - - -
236B HIS* 4.3 6.1 - - - +
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Residues in contact with GLU 184 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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182B ARG* 3.1 42.9 + - - +
183B SER* 1.3 81.1 - - - +
185B ILE* 1.3 67.4 + - - +
190B MET 3.4 0.9 - - - +
191B VAL* 3.2 8.1 - - - +
192B PHE* 2.9 44.9 + - + -
194B ARG* 3.3 38.7 + - + +
196B HIS* 3.4 13.8 + - - -
154C GLU* 5.4 0.5 - - - +
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Residues in contact with ILE 185 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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184B GLU* 1.3 77.4 - - - +
186B SER* 1.3 76.6 + - - +
189B GLY* 3.8 14.8 - - - +
190B MET 3.4 0.9 - - - +
191B VAL* 3.0 45.8 - - + +
192B PHE* 4.5 2.7 - - - -
154C GLU* 4.5 4.8 - - - +
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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