Contacts of the helix formed by residues 223 - 250 (chain B) in PDB entry 2FXK
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 223 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214B HIS* 4.6 3.5 + - - -
215B PRO 5.2 2.6 - - - +
221B TYR* 3.3 28.4 + - - -
222B ILE* 1.3 76.2 - - - +
224B GLY* 1.3 71.6 + - - +
226B VAL* 4.2 0.3 + - - +
227B GLY* 3.2 14.2 + - - -
228B ASN* 3.4 13.0 - - - -
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Residues in contact with GLY 224 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
221B TYR* 4.3 4.9 + - - -
223B GLY* 1.3 82.1 - - - +
225B GLU* 1.3 69.4 + - - +
226B VAL 3.0 1.5 + - - -
228B ASN* 3.0 20.9 + - - +
315B ARG* 6.0 7.9 - - - -
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Residues in contact with GLU 225 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204B ILE* 5.1 0.2 - - - +
224B GLY* 1.3 71.7 - - - +
226B VAL* 1.3 66.2 + - + +
228B ASN* 3.5 12.4 - - - +
229B THR* 3.4 13.5 + - - +
351B PHE* 2.8 57.8 - - + +
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Residues in contact with VAL 226 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204B ILE* 4.1 15.7 - - + -
212B VAL* 5.4 0.2 - - + -
213B VAL 4.0 14.4 - - - +
214B HIS* 3.9 17.7 - - + -
215B PRO* 4.1 11.9 - - + +
223B GLY 5.2 0.2 - - - +
224B GLY 3.1 1.0 - - - -
225B GLU* 1.3 77.5 - - + +
227B GLY* 1.3 64.5 + - - +
229B THR* 3.0 9.7 + - - -
230B LEU* 3.0 35.8 + - + +
309B PRO* 3.6 34.1 - - + -
310B SER 5.5 0.7 - - - +
351B PHE* 4.4 11.0 - - + -
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Residues in contact with GLY 227 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214B HIS* 3.8 15.0 - - - -
222B ILE* 3.4 30.9 - - - +
223B GLY* 3.2 15.7 + - - -
226B VAL* 1.3 76.5 - - - +
228B ASN* 1.3 65.7 + - - +
230B LEU* 4.2 4.5 - - - -
231B GLU* 2.9 21.5 + - - +
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Residues in contact with ASN 228 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222B ILE 4.8 0.4 - - - +
223B GLY* 3.4 17.6 + - - -
224B GLY 3.0 27.8 + - - +
225B GLU* 3.5 7.0 - - - +
227B GLY* 1.3 78.1 - - - +
229B THR* 1.3 60.5 + - + +
231B GLU* 3.6 6.4 + - - +
232B LYS* 3.2 25.4 + - - +
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Residues in contact with THR 229 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203B ASP* 3.6 26.7 - - - +
204B ILE* 3.2 18.7 - - - +
205B ALA* 3.6 6.6 - - - +
225B GLU 3.4 9.2 + - - +
226B VAL 3.0 13.2 + - - -
228B ASN* 1.3 77.0 - - + +
230B LEU* 1.3 59.1 + - - +
231B GLU 3.0 1.8 - - - -
232B LYS* 2.8 29.8 + - - +
233B LYS 2.8 28.4 + - - -
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Residues in contact with LEU 230 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204B ILE* 4.6 2.5 - - + -
205B ALA* 3.7 29.4 - - - +
212B VAL* 4.2 18.8 - - + -
214B HIS* 3.8 31.0 - - + -
226B VAL* 3.0 26.7 + - + +
227B GLY* 3.7 3.4 - - - +
229B THR* 1.3 75.0 + - - +
231B GLU* 1.3 56.5 + - - +
234B GLY* 2.8 27.4 + - - -
238B PHE* 3.5 36.9 - - + -
265B LEU* 3.7 18.3 - - + +
270B VAL* 4.3 11.2 - - + -
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Residues in contact with GLU 231 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222B ILE* 4.7 13.7 - - + +
227B GLY 2.9 16.6 + - - +
228B ASN* 3.6 6.5 - - - +
230B LEU* 1.3 75.4 - - - +
232B LYS* 1.3 64.3 + - - +
234B GLY 2.9 0.3 + - - -
235B GLY* 2.5 36.9 + - - +
238B PHE* 3.7 13.4 - - + -
239B VAL* 3.7 31.3 - - + +
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Residues in contact with LYS 232 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203B ASP* 5.3 4.3 - - - +
228B ASN* 3.2 10.4 + - - +
229B THR* 2.8 40.3 + - + +
231B GLU* 1.3 79.6 - - - +
233B LYS* 1.3 60.5 + - - +
235B GLY* 4.3 2.1 + - - -
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Residues in contact with LYS 233 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203B ASP* 5.1 2.7 - - - +
205B ALA* 3.6 33.2 - - + +
206B SER* 2.7 38.5 + - - +
229B THR 2.8 10.1 + - - +
232B LYS* 1.3 76.1 - - - +
234B GLY* 1.3 59.8 + - - +
264B GLY* 3.7 14.2 - - - +
265B LEU* 4.1 6.5 - - + -
266B PRO* 4.4 14.7 - - + +
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Residues in contact with GLY 234 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230B LEU 2.8 23.2 + - - -
231B GLU 2.9 1.6 + - - -
233B LYS* 1.3 76.0 - - - +
235B GLY* 1.3 64.4 + - - +
237B GLU* 3.5 10.6 + - - +
238B PHE* 3.2 21.3 + - - -
263B HIS 4.2 1.2 - - - +
264B GLY* 4.2 11.6 - - - -
265B LEU* 3.9 10.1 - - - -
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Residues in contact with GLY 235 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231B GLU* 2.5 28.6 + - - +
232B LYS 4.3 1.9 + - - -
233B LYS 3.6 1.0 - - - -
234B GLY* 1.3 68.9 - - - +
236B LYS* 1.3 66.5 + - - -
238B PHE* 2.8 15.1 + - - +
239B VAL* 3.2 18.1 + - - +
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Residues in contact with LYS 236 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
235B GLY* 1.3 68.7 - - - +
237B GLU* 1.3 60.6 + - + +
239B VAL* 3.4 6.8 + - - +
240B GLU* 2.9 62.7 + - + +
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Residues in contact with GLU 237 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234B GLY 3.5 7.8 + - - +
235B GLY 2.9 3.4 + - - -
236B LYS* 1.3 78.6 - - + +
238B PHE* 1.3 63.5 + - - +
240B GLU* 4.3 7.1 - - - +
241B ALA* 3.5 21.3 + - - +
263B HIS* 3.7 37.6 + - + +
264B GLY* 3.8 16.6 + - - +
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Residues in contact with PHE 238 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214B HIS* 4.8 6.1 - + - -
222B ILE* 3.5 38.8 - - + -
230B LEU* 3.5 48.0 - - + -
231B GLU* 3.7 15.9 - - + -
234B GLY* 3.2 22.8 + - - -
235B GLY 2.8 13.3 + - - +
237B GLU* 1.3 70.7 - - - +
239B VAL* 1.3 64.8 + - - +
241B ALA* 3.2 7.9 + - + +
242B VAL* 3.2 43.4 + - + +
260B SER* 5.7 0.9 - - - -
262B GLY* 6.3 0.2 - - - -
263B HIS 3.7 7.8 + - - +
265B LEU* 4.2 16.2 - - + -
270B VAL* 4.5 7.2 - - + -
272B HIS* 4.4 7.4 - + - -
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Residues in contact with VAL 239 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222B ILE* 4.0 21.5 - - + -
231B GLU* 3.7 34.5 - - + +
235B GLY 3.2 18.0 + - - +
236B LYS* 4.0 5.4 - - - +
238B PHE* 1.3 75.5 - - + +
240B GLU* 1.3 60.3 + - + +
242B VAL* 3.0 5.4 + - - +
243B LEU* 2.9 43.9 + - + +
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Residues in contact with GLU 240 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236B LYS* 2.9 57.9 + - + +
237B GLU* 4.5 6.4 + - - +
239B VAL* 1.3 79.9 - - + +
241B ALA* 1.3 51.4 + - - +
243B LEU* 3.3 14.3 + - + +
244B GLU* 2.7 52.9 + - - +
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Residues in contact with ALA 241 (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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237B GLU 3.5 18.6 + - - +
238B PHE* 3.2 8.2 + - + +
239B VAL 3.2 0.6 - - - -
240B GLU* 1.3 78.4 - - - +
242B VAL* 1.3 57.0 + - - +
244B GLU* 3.9 7.1 - - - +
245B LEU* 3.0 25.6 + - - +
260B SER* 3.6 12.7 - - - +
261B ALA 3.7 23.8 - - - +
263B HIS* 4.4 12.3 - - + -
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Residues in contact with VAL 242 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214B HIS* 5.7 0.4 - - + -
220B PHE* 3.6 38.6 - - + +
222B ILE* 4.0 14.6 - - + -
238B PHE* 3.3 43.7 - - + +
239B VAL 3.0 7.2 + - - +
241B ALA* 1.3 74.7 - - - +
243B LEU* 1.3 61.3 + - + +
245B LEU* 3.2 6.7 + - - +
246B ARG* 2.8 33.5 + - - +
260B SER* 4.7 2.9 - - - +
272B HIS* 3.7 21.8 - - + +
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Residues in contact with LEU 243 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222B ILE* 5.7 1.1 - - + -
239B VAL* 2.9 34.1 + - + +
240B GLU* 3.5 20.6 - - + +
242B VAL* 1.3 76.5 - - + +
244B GLU* 1.3 68.6 + - - +
246B ARG* 3.1 34.0 + - - +
247B LYS* 3.1 29.3 + - - +
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Residues in contact with GLU 244 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183A PHE 5.1 0.7 - - - +
240B GLU* 2.7 48.9 + - - +
241B ALA* 3.9 8.3 - - - +
243B LEU* 1.3 75.3 - - - +
245B LEU* 1.3 60.9 + - - +
247B LYS* 3.4 34.3 + - + +
248B LYS* 3.3 21.7 + - - +
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Residues in contact with LEU 245 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220B PHE* 3.8 19.3 - - + -
241B ALA 3.0 19.7 + - - +
242B VAL* 3.2 6.5 + - - +
244B GLU* 1.3 73.6 - - - +
246B ARG* 1.3 67.2 + - - +
248B LYS* 3.1 36.9 + - - +
249B ASN* 3.0 27.3 + - + +
258B ALA* 3.9 16.2 - - + -
259B VAL 3.2 20.2 - - - +
260B SER* 3.7 6.5 - - - -
272B HIS* 3.3 34.8 - - + +
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Residues in contact with ARG 246 (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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219B ASP* 2.9 53.4 + - - +
220B PHE* 3.2 41.5 + - + +
221B TYR* 4.5 2.6 - - - +
222B ILE* 5.6 1.2 - - - +
242B VAL* 2.8 15.5 + - - +
243B LEU* 3.3 35.8 - - - +
245B LEU* 1.3 74.5 - - - +
247B LYS* 1.3 62.1 + - - +
250B GLY* 3.1 29.1 + - - +
251B PRO* 6.1 0.7 - - + -
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Residues in contact with LYS 247 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183A PHE 4.1 10.5 - - - +
184A THR* 4.2 28.7 + - + +
185A VAL* 3.1 30.1 + - - +
243B LEU* 3.1 22.4 + - - +
244B GLU* 3.4 37.0 - - + +
245B LEU 3.2 0.2 - - - -
246B ARG* 1.3 76.8 - - + +
248B LYS* 1.3 62.7 + - - +
249B ASN 3.5 0.2 + - - -
250B GLY* 4.1 0.9 + - - -
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Residues in contact with LYS 248 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183A PHE* 3.6 49.1 - - + +
185A VAL* 3.4 14.9 - - - +
198A GLN* 4.2 4.3 + - - -
208A ASP* 3.9 27.1 + - + +
347A TYR* 4.5 6.2 + - - +
244B GLU 3.3 13.1 + - - +
245B LEU* 3.1 32.4 - - + +
246B ARG 3.2 0.8 - - - -
247B LYS* 1.3 80.4 - - - +
249B ASN* 1.3 59.0 + - - +
258B ALA* 5.6 0.6 - - - +
259B VAL* 3.3 22.0 + - - +
301B LYS* 5.7 0.6 - - - +
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Residues in contact with ASN 249 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185A VAL* 4.8 0.4 - - - -
196A LYS* 3.9 22.4 + - - +
198A GLN* 3.5 16.2 - - - +
220B PHE* 3.9 17.4 - - + -
245B LEU* 3.0 23.4 + - + +
248B LYS* 1.3 81.3 - - + +
250B GLY* 1.3 72.6 + - - +
251B PRO 3.3 14.4 - - - +
252B LEU* 4.2 2.9 - - - +
253B GLU* 4.1 8.5 + - - +
257B ALA 5.1 2.0 + - - -
258B ALA* 3.6 19.4 - - - +
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Residues in contact with GLY 250 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185A VAL* 4.6 7.2 - - - +
188A THR* 5.3 3.6 - - - -
198A GLN* 4.8 3.8 - - - -
220B PHE* 3.5 10.4 - - - -
246B ARG* 3.1 15.5 + - - +
247B LYS 4.1 4.1 + - - -
248B LYS 3.7 1.2 - - - -
249B ASN* 1.3 94.0 - - - +
251B PRO* 1.3 71.5 - - - +
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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