Contacts of the helix formed by residues 229 - 253 (chain C) in PDB entry 2AXT
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 ASN 229 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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189C TRP* 4.8 4.9 - - + -
212C TYR* 3.9 6.1 + - - -
227C VAL* 3.4 3.3 + - - +
228C ASN* 1.3 94.2 - - - +
230C LEU* 1.3 63.7 + - - +
231C GLU* 3.1 32.3 + - + +
232C ASP* 2.5 44.9 + - - +
233C VAL* 3.4 12.5 + - - +
295C THR* 4.0 8.7 - - - +
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Residues in contact with LEU 230 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185C LEU* 4.0 22.4 - - + -
186C TYR 2.7 33.0 - - - +
187C ASP* 4.0 20.2 + - + +
197C ARG* 4.8 4.0 - - - +
199C ILE* 3.8 32.1 - - + -
229C ASN* 1.3 70.2 - - - +
231C GLU* 1.3 66.4 + - - +
232C ASP 3.2 0.2 - - - -
233C VAL* 3.7 20.2 - - + -
234C VAL* 2.8 32.0 + - + +
295C THR* 4.4 17.9 - - + +
296C VAL* 5.0 2.7 - - + -
491C CLA 4.6 11.0 - - - -
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Residues in contact with GLU 231 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197C ARG* 2.3 40.0 + - - -
199C ILE* 4.4 9.9 - - - +
200C THR 5.1 0.3 + - - -
201C ASN* 3.6 37.5 + - - +
202C PRO* 3.6 1.8 - - - +
203C THR* 3.1 21.5 + - - +
229C ASN* 3.1 21.7 - - + +
230C LEU* 1.3 72.7 + - - +
232C ASP* 1.3 53.1 + - - +
234C VAL* 3.6 0.2 - - - +
235C GLY 2.7 31.7 + - - -
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Residues in contact with ASP 232 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203C THR* 3.0 21.7 + - - +
208C VAL* 3.0 26.1 - - - +
209C ILE* 4.1 3.1 - - + +
212C TYR* 2.9 36.5 + - + +
227C VAL* 4.4 2.2 - - + -
229C ASN* 2.5 36.4 + - - +
230C LEU 3.2 0.4 - - - -
231C GLU* 1.3 73.8 - - - +
233C VAL* 1.3 57.9 + - - +
236C GLY* 2.6 33.8 + - - -
506C BCR 3.4 10.2 - - + +
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Residues in contact with VAL 233 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175C LEU* 4.7 4.9 - - + -
185C LEU* 5.6 0.9 - - + -
227C VAL* 3.4 25.1 - - + -
229C ASN 3.4 10.3 + - - +
230C LEU* 3.3 21.4 + - + +
232C ASP* 1.3 78.1 - - - +
234C VAL* 1.3 61.4 + - + +
237C HIS* 2.7 44.7 + - + +
295C THR* 4.8 1.1 - - + -
296C VAL* 3.6 21.5 - - + -
491C CLA 3.3 32.3 - - + +
506C BCR 3.7 9.3 - - - +
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Residues in contact with VAL 234 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175C LEU* 5.6 4.7 - - + -
176C VAL* 3.9 27.8 - - + +
179C ALA* 3.9 13.2 - - + -
180C MET* 4.0 8.3 - - + -
185C LEU* 4.4 9.2 - - + -
199C ILE* 3.8 26.0 - - + -
202C PRO* 3.7 22.7 - - + -
230C LEU* 2.8 26.3 + - + +
231C GLU 3.6 2.7 - - - +
233C VAL* 1.3 76.3 - - + +
235C GLY* 1.3 67.5 + - - +
237C HIS* 2.8 16.4 + - - +
238C ILE* 3.0 12.1 + - - +
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Residues in contact with GLY 235 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202C PRO* 3.7 9.8 - - - +
203C THR 3.2 29.8 - - - -
209C ILE* 3.9 0.7 - - - -
231C GLU 2.7 21.2 + - - -
232C ASP 3.8 0.2 - - - -
234C VAL* 1.3 72.5 - - - +
236C GLY* 1.3 56.6 + - - +
238C ILE* 3.1 7.2 + - - +
239C TRP* 2.9 32.1 + - - +
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Residues in contact with GLY 236 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209C ILE* 3.5 18.1 - - - +
232C ASP 2.6 22.2 + - - -
233C VAL 4.0 0.9 - - - -
235C GLY* 1.3 72.7 - - - -
237C HIS* 1.3 60.5 + - - +
239C TRP* 3.4 8.3 + - - +
240C ILE* 3.4 23.0 + - - +
506C BCR 4.0 24.4 - - - +
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Residues in contact with HIS 237 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172C ALA* 4.3 15.8 - - + +
173C LEU* 4.4 3.6 - - - +
175C LEU* 3.5 26.3 - - + +
176C VAL* 4.0 14.6 - - + -
233C VAL* 2.7 26.8 + - + +
234C VAL 2.8 9.6 + - - +
236C GLY* 1.3 73.2 - - - +
238C ILE* 1.3 60.0 + - - +
239C TRP 3.1 1.6 - - - -
240C ILE* 2.7 32.4 + - + +
241C GLY 3.5 4.2 + - - -
491C CLA 2.2 72.1 + + + -
506C BCR 3.4 19.2 - - + +
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Residues in contact with ILE 238 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173C LEU* 4.1 9.8 - - + +
176C VAL* 3.4 37.0 - - + -
180C MET* 3.8 5.6 - - + -
202C PRO* 3.5 33.9 - - + -
234C VAL 3.0 12.5 + - - +
235C GLY* 3.4 7.0 - - - +
237C HIS* 1.3 76.2 - - - +
239C TRP* 1.3 62.9 + - + +
240C ILE 2.9 6.2 + - - -
241C GLY 3.7 0.9 + - - -
242C LEU* 3.2 46.1 + - + +
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Residues in contact with TRP 239 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203C THR 3.9 6.1 - - - -
204C LEU* 3.8 5.2 - - - +
205C ASP 3.5 21.6 - - - +
206C PRO* 3.8 31.0 - - + -
209C ILE* 3.9 22.9 - - + -
210C PHE* 3.5 33.1 - + + -
235C GLY* 2.9 20.6 + - - +
236C GLY* 3.5 11.9 - - - +
237C HIS 3.1 0.2 - - - -
238C ILE* 1.3 81.2 - - + +
240C ILE* 1.3 57.2 + - - +
242C LEU* 4.6 7.6 - - + -
243C ILE* 2.9 42.1 - - + +
506C BCR 5.3 2.3 - - + +
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Residues in contact with ILE 240 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172C ALA* 4.0 18.6 - - + -
236C GLY 3.5 13.5 - - - +
237C HIS* 2.7 18.7 + - + +
238C ILE 2.9 1.0 + - - -
239C TRP* 1.3 80.7 - - - +
241C GLY* 1.3 55.1 + - - +
242C LEU 3.2 0.9 - - - -
243C ILE* 2.9 8.7 + - + +
244C CYS* 2.4 55.1 + - + +
491C CLA 3.4 46.9 - - + -
497C CLA 3.8 17.9 - - + -
506C BCR 4.4 21.1 - - + -
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Residues in contact with GLY 241 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169C GLY* 4.1 12.8 - - - -
172C ALA* 4.7 0.8 - - - +
173C LEU* 4.5 7.0 - - - -
237C HIS 3.5 6.5 + - - -
238C ILE 3.7 1.2 + - - -
240C ILE* 1.3 75.7 - - - +
242C LEU* 1.3 56.4 + - - +
243C ILE 2.4 18.2 + - - -
244C CYS* 4.0 6.3 - - - -
245C ILE* 2.6 46.7 + - - +
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Residues in contact with LEU 242 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173C LEU* 4.6 18.4 - - + -
238C ILE* 3.2 37.0 - - + +
239C TRP* 5.0 6.2 - - + -
240C ILE 3.2 0.4 - - - -
241C GLY* 1.3 74.7 - - - +
243C ILE* 1.3 65.5 + - + +
245C ILE* 5.5 3.1 - - + -
246C ALA* 4.2 10.8 - - - +
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Residues in contact with ILE 243 (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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210C PHE* 3.8 18.4 - - + -
239C TRP* 2.9 48.5 - - + +
240C ILE* 3.1 11.9 - - + +
241C GLY 2.4 20.0 + - - -
242C LEU* 1.3 73.6 - - - +
244C CYS* 1.3 59.5 + - - +
245C ILE 3.3 1.1 - - - -
246C ALA* 3.4 10.9 + - - +
247C GLY 3.0 20.8 + - - -
496C CLA 3.1 35.2 - - + +
497C CLA 4.9 17.0 - - + -
506C BCR 5.6 1.1 - - + -
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Residues in contact with CYS 244 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165C LEU* 3.0 48.6 - - - +
168C LEU* 4.4 17.0 - - - -
169C GLY* 4.3 4.0 - - - -
240C ILE* 2.4 43.7 + - + +
241C GLY* 4.0 3.8 - - - -
243C ILE* 1.3 75.5 - - - +
245C ILE* 1.3 55.7 + - - +
248C GLY 3.0 16.3 + - - -
491C CLA 5.0 2.5 - - - -
496C CLA 3.9 7.2 - - - -
497C CLA 4.1 26.9 - - + -
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Residues in contact with ILE 245 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165C LEU 4.1 3.1 - - - -
166C ILE* 3.4 31.2 - - + +
169C GLY* 3.7 32.8 - - - -
170C ILE* 4.3 13.2 - - + +
173C LEU* 4.2 18.4 - - + -
241C GLY 2.6 21.4 + - - +
242C LEU* 5.5 3.4 - - + -
244C CYS* 1.3 69.6 - - - +
246C ALA* 1.3 61.6 + - - +
247C GLY 2.9 5.6 - - - -
248C GLY 2.9 10.5 + - - +
249C ILE* 3.0 32.2 - - + +
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Residues in contact with ALA 246 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241C GLY 3.7 1.6 + - - -
242C LEU* 4.2 6.5 - - - +
243C ILE* 3.4 23.7 - - - +
245C ILE* 1.3 79.2 - - - +
247C GLY* 1.3 58.4 + - - +
249C ILE* 3.8 6.0 + - - +
250C TRP* 3.4 20.6 + - - +
496C CLA 3.8 11.3 - - + +
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Residues in contact with GLY 247 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165C LEU* 4.3 1.8 - - - -
243C ILE 3.0 12.0 + - - -
244C CYS 3.8 2.5 - - - -
245C ILE 2.9 0.8 - - - -
246C ALA* 1.3 76.2 - - - +
248C GLY* 1.3 61.8 + - - +
249C ILE 2.9 6.0 + - - -
250C TRP* 3.2 4.5 + - - -
251C HIS* 3.1 32.8 + - - -
496C CLA 3.5 29.8 - - - -
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Residues in contact with GLY 248 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162C GLY* 3.0 29.2 - - - +
165C LEU* 3.4 12.7 - - - +
166C ILE* 3.5 5.8 - - - -
244C CYS 3.0 8.8 + - - -
245C ILE 2.9 7.4 + - - -
247C GLY* 1.3 76.6 - - - +
249C ILE* 1.3 61.9 + - - +
252C ILE* 2.9 28.9 + - - +
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Residues in contact with ILE 249 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166C ILE* 3.8 13.5 - - + -
245C ILE* 3.0 42.1 + - + +
246C ALA* 4.0 6.3 - - - +
247C GLY 2.9 0.8 - - - -
248C GLY* 1.3 79.1 - - - +
250C TRP* 1.3 56.4 + - - +
251C HIS 2.7 16.6 + - - -
252C ILE* 2.8 18.7 + - + -
253C LEU* 3.0 37.2 + - + +
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Residues in contact with TRP 250 (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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246C ALA 3.4 14.8 + - - +
247C GLY* 3.2 7.2 + - - +
249C ILE* 1.3 81.8 - - - +
251C HIS* 1.3 78.5 + + - +
253C LEU* 3.9 5.2 - - - -
254C THR* 2.7 37.2 + - + -
257C PHE* 3.5 32.3 - + - -
496C CLA 3.1 64.8 + + + -
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Residues in contact with HIS 251 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155C ASN* 4.7 1.0 + - - -
158C THR* 2.9 56.1 - - + +
159C THR* 4.0 0.7 + - - -
161C LEU* 4.1 7.2 - - + +
162C GLY* 3.9 8.1 - - - -
165C LEU* 3.3 22.9 - - + -
247C GLY* 3.1 23.8 + - - +
249C ILE 2.7 5.7 + - - -
250C TRP* 1.3 82.1 - + - +
252C ILE* 1.3 61.0 + - - +
253C LEU 2.9 5.9 + - - -
254C THR 3.2 8.0 - - - +
496C CLA 2.5 76.0 + + + -
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Residues in contact with ILE 252 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155C ASN* 5.8 1.4 + - - -
159C THR* 3.6 44.7 + - + +
162C GLY* 3.8 0.4 - - - -
163C PHE* 3.3 36.8 - - + +
166C ILE* 3.6 15.3 - - + -
248C GLY 2.9 25.8 - - - +
249C ILE* 2.8 12.9 + - + +
251C HIS* 1.3 71.9 - - - +
253C LEU* 1.3 66.9 + - + +
254C THR 3.6 1.0 + - - -
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Residues in contact with LEU 253 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
249C ILE* 3.0 38.6 + - + +
250C TRP* 4.2 5.4 - - - +
251C HIS 2.9 1.0 - - - -
252C ILE* 1.3 89.9 - - + +
254C THR* 1.3 64.4 + - - +
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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
------------------------------------------------------------
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