Contacts of the helix formed by residues 226 - 249 (chain C) in PDB entry 2QW4
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 GLY 226 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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222C SER 3.0 19.1 + - - -
223C ARG* 3.8 6.5 - - - -
224C LEU 2.9 2.6 - - - -
225C LEU* 1.3 77.4 - - - +
227C LYS* 1.3 66.8 + - - +
228C LEU 3.3 0.2 - - - -
229C PRO* 3.1 15.6 - - - +
230C GLU* 3.5 12.8 - - - +
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Residues in contact with LYS 227 (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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118C LEU* 6.0 1.1 - - + -
158C PHE* 4.1 23.7 - - + -
161C SER* 2.6 34.1 + - - +
162C LEU* 4.6 19.1 - - + +
165C LEU* 3.8 29.0 - - + +
175C LEU* 5.3 4.7 - - + -
223C ARG 3.8 14.5 + - - -
224C LEU* 3.0 21.5 + - + +
226C GLY* 1.3 76.8 - - - +
228C LEU* 1.3 57.2 + - + +
230C GLU* 2.7 57.7 + - - +
231C LEU* 3.1 10.1 + - - -
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Residues in contact with LEU 228 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175C LEU* 3.8 25.1 - - + +
178C LEU* 5.7 7.0 - - + +
179C VAL* 3.7 29.8 - - + -
225C LEU* 3.3 38.8 - - + +
227C LYS* 1.3 76.8 - - + +
229C PRO* 1.4 64.1 - - + +
231C LEU* 3.1 15.0 - - + +
232C ARG* 3.1 29.6 + - - +
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Residues in contact with PRO 229 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
225C LEU 4.1 2.7 - - - +
226C GLY* 3.1 28.7 - - - +
227C LYS 3.4 0.4 - - - +
228C LEU* 1.4 84.0 - - + +
230C GLU* 1.3 58.8 + - + +
232C ARG* 3.2 10.1 + - + +
233C THR* 3.0 35.2 + - + +
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Residues in contact with GLU 230 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158C PHE* 4.0 17.5 - - + -
161C SER* 4.7 2.3 + - - -
226C GLY 3.5 14.9 - - - +
227C LYS* 2.7 49.4 + - - +
229C PRO* 1.3 72.5 - - + +
231C LEU* 1.3 54.9 + - - +
233C THR* 3.2 11.7 + - - -
234C LEU* 3.0 27.5 + - - +
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Residues in contact with LEU 231 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114C GLU* 3.7 42.0 - - + +
117C ILE* 3.5 33.0 - - + -
118C LEU* 4.0 23.6 - - + +
158C PHE* 3.8 26.5 - - + -
179C VAL* 4.4 12.1 - - + -
227C LYS 3.1 7.0 + - - +
228C LEU* 3.1 19.1 - - + +
230C GLU* 1.3 77.3 - - - +
232C ARG* 1.3 61.4 + - - +
234C LEU* 3.3 7.5 + - + +
235C CYS* 3.1 22.2 + - - -
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Residues in contact with ARG 232 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114C GLU* 2.9 43.6 + - - -
182C THR* 5.1 9.1 + - - +
183C ASP 5.6 1.6 + - - -
184C ARG* 2.7 36.7 - - - +
228C LEU* 3.1 16.4 + - - +
229C PRO* 3.2 13.6 + - + +
231C LEU* 1.3 75.1 - - - +
233C THR* 1.3 65.2 + - + +
235C CYS* 3.1 16.4 + - + +
236C THR* 3.1 14.6 + - - -
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Residues in contact with THR 233 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
229C PRO* 3.0 19.1 + - + +
230C GLU* 3.2 9.8 + - - -
232C ARG* 1.3 76.2 - - + +
234C LEU* 1.3 64.8 + - - +
236C THR* 2.9 21.7 + - - -
237C GLN* 3.3 13.6 + - - +
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Residues in contact with LEU 234 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117C ILE* 3.7 27.4 - - + -
151C TRP* 3.1 29.8 + - - +
154C SER* 3.4 42.8 - - - +
155C ILE* 4.0 5.2 - - + +
158C PHE* 3.5 43.1 - - + -
230C GLU 3.0 11.1 + - - +
231C LEU* 3.3 11.7 - - + +
233C THR* 1.3 77.8 + - - +
235C CYS* 1.3 61.2 + - - +
237C GLN* 3.3 19.4 - - - +
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Residues in contact with CYS 235 (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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113C LEU* 3.7 14.5 - - + +
114C GLU* 3.4 38.6 - - + -
117C ILE* 2.8 33.4 - - - -
231C LEU* 3.1 15.4 + - - +
232C ARG* 3.5 10.5 - - - +
233C THR 3.0 0.6 - - - -
234C LEU* 1.3 76.0 - - - +
236C THR* 1.3 64.3 + - - +
237C GLN 3.1 1.8 - - - -
238C GLY* 3.1 11.0 + - - +
239C LEU* 3.1 21.3 + - + +
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Residues in contact with THR 236 (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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244B TYR* 6.4 0.7 - - + -
247B LEU* 3.7 41.7 - - + -
232C ARG 3.1 14.9 + - - -
233C THR* 2.9 12.9 + - - -
235C CYS* 1.3 76.6 - - - +
237C GLN* 1.3 61.0 + - - +
239C LEU* 3.4 12.9 + - + +
240C GLN* 3.1 26.8 + - - +
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Residues in contact with GLN 237 (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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150C ASP* 4.8 1.6 - - - +
151C TRP* 3.5 24.5 + - + +
154C SER* 2.7 40.8 + - - -
233C THR* 3.3 7.8 + - - +
234C LEU* 3.3 24.0 - - - +
235C CYS 3.1 0.2 - - - -
236C THR* 1.3 74.8 - - - +
238C GLY* 1.3 65.8 + - - +
240C GLN* 3.0 15.7 + - - +
241C ARG* 2.9 20.8 + - - +
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Residues in contact with GLY 238 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113C LEU* 4.3 3.4 - - - -
151C TRP* 3.5 36.2 - - - -
234C LEU 3.5 5.3 + - - -
235C CYS 3.1 6.8 + - - -
237C GLN* 1.3 77.7 - - - +
239C LEU* 1.3 65.6 + - - +
241C ARG* 2.8 3.3 + - - +
242C ILE* 2.8 31.4 + - - +
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Residues in contact with LEU 239 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243B PHE* 3.9 18.2 - - + -
247B LEU* 5.1 6.3 - - + -
113C LEU* 4.0 16.0 - - + +
235C CYS* 3.1 18.5 + - + +
236C THR* 3.6 18.8 - - + +
238C GLY* 1.3 73.6 - - - +
240C GLN* 1.3 53.6 + - - +
242C ILE* 3.2 3.1 + - + +
243C PHE* 2.8 35.9 + - - +
260C ILE* 5.6 3.4 - - + +
261C PHE* 3.5 41.3 - - + +
263C ASP 5.2 6.5 - - - +
264C THR* 4.9 11.9 - - - +
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Residues in contact with GLN 240 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
240B GLN* 4.9 17.8 + - - +
243B PHE* 3.8 23.1 - - + -
244B TYR* 3.4 41.1 - - - +
247B LEU* 4.6 5.5 - - + +
236C THR* 3.1 17.2 + - - +
237C GLN* 3.0 18.2 + - - +
239C LEU* 1.3 77.5 - - - +
241C ARG* 1.3 58.9 + - - +
243C PHE* 3.6 2.8 - - - +
244C TYR* 3.1 22.5 + - - +
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Residues in contact with ARG 241 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67C GLU* 4.2 10.1 + - - -
75C PHE* 5.1 3.6 - - + -
146C ARG 3.1 21.4 + - - -
147C GLY 2.7 29.4 + - - +
148C PHE* 2.9 30.8 + - - +
149C GLY* 3.8 12.9 - - - +
151C TRP* 4.4 13.2 - - + -
237C GLN 2.9 10.6 + - - +
238C GLY* 2.8 14.8 + - - +
240C GLN* 1.3 69.8 - - - +
242C ILE* 1.3 66.9 + - - +
244C TYR* 3.2 33.0 + - - +
245C LEU* 3.0 40.9 + - + +
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Residues in contact with ILE 242 (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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75C PHE* 3.8 24.9 - - + -
76C TYR* 4.2 16.7 + - + +
79C LEU* 3.9 22.2 - - + -
113C LEU* 4.2 22.7 - - + -
151C TRP* 5.6 0.4 - - + -
238C GLY* 2.8 22.7 + - - +
239C LEU* 3.8 5.6 - - + +
241C ARG* 1.3 76.9 - - - +
243C PHE* 1.3 60.9 + - - +
245C LEU* 3.3 8.1 + - - +
246C LYS* 2.9 28.8 + - + +
253C PRO* 6.1 1.6 - - + -
257C ILE* 4.9 8.5 - - + -
258C ASP* 6.3 0.9 - - - -
261C PHE* 3.6 31.4 - - + -
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Residues in contact with PHE 243 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
239B LEU* 3.8 12.6 - - + -
240B GLN* 4.7 8.1 - - + -
243B PHE* 3.8 39.9 - + + -
261B PHE* 3.6 27.4 - + - -
264B THR* 4.0 31.6 - - + -
239C LEU 2.8 20.0 + - - +
240C GLN 3.6 4.9 - - - +
242C ILE* 1.3 70.8 - - - +
244C TYR* 1.3 64.0 + - - +
246C LYS* 2.9 9.1 + - + +
247C LEU* 2.8 53.3 + - + +
261C PHE* 3.6 27.4 - + + -
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Residues in contact with TYR 244 (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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236B THR* 4.6 9.2 - - + -
240B GLN* 3.5 38.4 - - - +
67C GLU* 2.9 28.5 + - - -
240C GLN 3.1 8.9 + - - +
241C ARG* 3.2 43.3 + - - +
243C PHE* 1.3 82.4 - - - +
245C LEU* 1.3 80.5 + - + +
247C LEU* 3.2 4.5 + - - +
248C GLU* 2.9 59.8 + - + +
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Residues in contact with LEU 245 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67C GLU* 4.6 5.6 - - + +
72C VAL* 4.1 36.8 - - + +
75C PHE* 3.5 39.9 - - + -
76C TYR* 4.2 12.9 + - - +
146C ARG 5.6 0.2 - - - +
147C GLY* 3.9 2.9 - - - +
241C ARG* 3.0 52.4 + - - +
242C ILE* 3.8 3.6 - - - +
244C TYR* 1.3 87.4 - - + +
246C LYS* 1.3 56.7 + - - +
248C GLU* 3.8 7.2 - - + +
249C ASP* 3.0 23.1 + - - -
250C LEU 4.4 3.1 + - - -
251C VAL 5.2 3.3 - - - +
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Residues in contact with LYS 246 (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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264B THR* 6.0 6.9 - - + +
76C TYR* 4.5 5.4 - - - +
242C ILE* 2.9 15.2 + - + +
243C PHE* 2.9 14.9 + - + +
245C LEU* 1.3 75.3 - - - +
247C LEU* 1.3 64.9 + - - +
249C ASP* 3.7 16.0 - - - +
253C PRO* 4.3 19.0 - - + +
258C ASP* 2.9 41.2 + - - -
261C PHE* 4.1 30.1 - - + -
262C MET* 5.9 3.7 - - - +
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Residues in contact with LEU 247 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236B THR* 3.7 29.4 - - + +
239B LEU* 3.8 30.1 - - + -
240B GLN* 4.8 1.6 - - + +
264B THR* 4.2 25.1 - - + +
243C PHE* 2.8 45.7 + - + +
244C TYR* 3.6 8.3 - - - +
246C LYS* 1.3 75.2 - - - +
248C GLU* 1.3 66.5 + - - +
249C ASP* 3.2 7.1 + - - +
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Residues in contact with GLU 248 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236B THR* 4.7 10.5 + - - +
66C LYS* 3.9 22.9 - - - -
67C GLU* 4.2 8.6 - - - +
72C VAL* 6.0 2.0 - - + -
244C TYR* 2.9 49.8 + - + +
245C LEU* 3.8 11.7 - - + +
247C LEU* 1.3 77.3 - - - +
249C ASP* 1.3 69.1 + - - +
250C LEU* 4.8 19.2 - - + +
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Residues in contact with ASP 249 (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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245C LEU 3.0 14.6 + - - -
246C LYS 3.7 10.8 - - - +
247C LEU 3.2 10.2 - - - +
248C GLU* 1.3 85.5 - - - +
250C LEU* 1.3 71.0 + - - +
251C VAL 4.2 12.5 - - - +
252C PRO* 4.8 4.2 - - - +
253C PRO* 5.7 1.7 - - - +
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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
------------------------------------------------------------
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