Contacts of the helix formed by residues 222 - 250 (chain B) in PDB entry 1XHU
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 THR 222 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219B PHE* 3.7 5.0 - - - -
220B ASN 5.4 0.7 - - - +
221B GLY* 1.3 76.2 - - - -
223B ARG* 1.3 60.7 + - - +
224B GLU* 4.0 7.2 + - - +
225B GLU* 2.7 48.3 + - - +
226B TRP 2.7 25.6 + - - -
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Residues in contact with ARG 223 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155B MET* 4.5 14.8 - - - -
161B PHE* 3.6 38.9 + - + +
162B ASP* 5.7 1.6 - - - +
164B PHE* 3.8 9.5 + - - -
165B ASP* 3.1 18.6 + - - -
189B GLU* 5.6 2.8 + - - -
191B PHE* 3.1 70.4 + - - +
219B PHE* 5.4 0.6 - - - -
222B THR* 1.3 73.9 - - - +
224B GLU* 1.3 63.4 + - - +
226B TRP* 3.1 8.9 + - - +
227B ALA* 3.0 23.6 + - - +
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Residues in contact with GLU 224 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156B ILE* 4.4 3.0 - - + +
159B LYS* 3.3 26.8 + - - -
161B PHE* 3.5 42.9 - - + +
222B THR* 3.2 7.6 + - - +
223B ARG* 1.3 77.9 - - - +
225B GLU* 1.3 64.4 + - + +
227B ALA* 3.6 2.3 - - - +
228B LYS* 3.0 50.3 + - + +
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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
----------------------------------------------------------
219B PHE* 4.5 5.4 - - + -
221B GLY* 3.0 12.3 - - - -
222B THR* 2.7 51.1 + - - +
224B GLU* 1.3 80.5 - - + +
226B TRP* 1.3 68.2 + - - +
228B LYS* 3.1 8.5 + - + +
229B SER* 2.8 26.1 + - - -
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Residues in contact with TRP 226 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148B LEU* 4.0 20.2 - - + -
152B CYS* 3.7 12.8 - - - -
155B MET* 5.2 0.2 - - + -
190B LEU* 3.6 20.6 + - + -
191B PHE* 3.2 52.4 - + - +
193B SER 3.1 23.3 + - - -
195B PRO* 3.5 19.2 - - + +
198B LEU* 3.9 16.8 - - + -
219B PHE* 3.7 21.4 - + + -
222B THR 2.7 15.1 + - - +
223B ARG* 3.1 15.9 + - - +
225B GLU* 1.3 75.2 - - - +
227B ALA* 1.3 56.4 + - - +
229B SER* 2.9 2.1 + - - -
230B TYR* 2.7 65.2 + + + -
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Residues in contact with ALA 227 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152B CYS* 3.7 17.7 - - - +
155B MET* 3.7 22.4 - - + -
156B ILE* 3.6 21.3 - - + -
161B PHE* 4.6 1.6 - - + -
223B ARG 3.0 9.1 + - - +
224B GLU* 3.6 10.3 - - - +
226B TRP* 1.3 79.6 - - - +
228B LYS* 1.3 63.6 + - - +
230B TYR* 3.2 1.0 + - - +
231B LEU* 3.0 31.2 + - - +
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Residues in contact with LYS 228 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256A TYR* 3.7 29.8 + - + +
257A ILE* 5.1 1.4 - - - +
258A LEU* 4.5 15.9 + - - +
156B ILE* 4.3 17.0 - - + -
224B GLU* 3.0 42.3 + - + +
225B GLU* 3.1 6.9 + - + +
227B ALA* 1.3 78.9 - - - +
229B SER* 1.3 61.4 + - - +
231B LEU* 3.7 7.9 + - - +
232B LYS* 3.3 21.0 + - - +
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Residues in contact with SER 229 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194B GLU* 4.9 1.6 + - - -
195B PRO* 3.7 21.3 - - - +
196B SER* 4.6 9.4 + - - -
219B PHE* 5.7 1.3 - - - -
225B GLU 2.8 20.9 + - - -
226B TRP* 3.3 3.4 - - - -
228B LYS* 1.3 72.2 - - - +
230B TYR* 1.3 60.7 + - - +
232B LYS* 3.2 11.3 + - - +
233B HIS* 2.9 29.2 + - - +
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Residues in contact with TYR 230 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145B ALA* 2.7 40.1 + - - +
148B LEU* 3.4 25.2 - - + +
149B ALA* 3.4 32.1 - - + -
152B CYS* 3.5 21.3 - - + -
195B PRO* 3.7 22.6 - - + +
198B LEU* 4.7 2.9 - - + -
200B ILE* 4.1 1.7 - - + +
208B ILE* 4.2 9.5 - - + +
226B TRP* 2.7 41.6 + + + +
227B ALA 3.7 2.9 - - - +
229B SER* 1.3 71.3 - - - +
231B LEU* 1.3 53.9 + - - +
233B HIS* 2.9 16.8 + + - +
234B PHE* 2.7 46.7 + + + +
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Residues in contact with LEU 231 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
253A PHE* 3.4 35.0 - - + -
256A TYR* 4.1 24.0 - - + -
257A ILE* 3.6 11.4 - - + -
149B ALA* 3.9 23.8 - - + +
152B CYS* 3.1 34.1 - - + +
153B ALA* 4.1 2.2 - - - +
156B ILE* 5.1 2.5 - - + -
227B ALA 3.0 28.6 + - - +
228B LYS* 3.8 6.1 - - - +
230B TYR* 1.3 81.2 - - + +
232B LYS* 1.3 56.6 + - - +
234B PHE* 3.5 3.1 - - + +
235B VAL* 2.8 36.8 + - + +
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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
----------------------------------------------------------
257A ILE* 3.2 36.2 - - + +
228B LYS 3.3 11.9 + - - +
229B SER* 3.2 14.5 + - - +
230B TYR 3.2 0.4 - - - -
231B LEU* 1.3 79.0 - - - +
233B HIS* 1.3 62.2 + - - +
235B VAL* 4.0 1.7 - - - +
236B THR* 2.9 35.3 + - - +
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Residues in contact with HIS 233 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195B PRO 3.3 24.5 - - - +
196B SER* 3.1 28.8 + - - -
198B LEU* 2.9 28.0 + - + -
200B ILE* 4.4 7.8 - - + +
229B SER 2.9 13.0 + - - +
230B TYR* 3.2 20.4 - + - +
232B LYS* 1.3 78.2 - - - +
234B PHE* 1.3 57.8 + - - +
236B THR* 3.4 2.8 + - - -
237B GLN* 3.0 72.3 + - + +
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Residues in contact with PHE 234 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
249A PHE* 3.2 52.7 - + + -
253A PHE* 4.5 7.9 - + - -
145B ALA* 3.6 30.7 - - + -
146B TYR* 3.8 10.1 - + + -
149B ALA* 4.1 14.8 - - + -
200B ILE* 3.8 17.0 - - + -
202B TRP* 3.7 17.3 - + - -
230B TYR* 2.7 44.6 + - + +
231B LEU* 3.5 8.1 - - + +
233B HIS* 1.3 69.3 - - - +
235B VAL* 1.3 60.7 + - + +
236B THR 3.0 5.0 + - - -
237B GLN* 3.1 2.9 + - - +
238B ALA* 2.8 33.4 + - - +
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Residues in contact with VAL 235 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
249A PHE 4.1 8.1 - - - +
250A VAL* 3.5 29.0 - - + +
253A PHE* 3.3 35.2 - - + -
254A LYS* 4.2 17.7 - - - +
257A ILE* 3.7 19.7 - - + -
231B LEU 2.8 24.0 + - - +
232B LYS 4.0 3.1 - - - +
234B PHE* 1.3 76.8 - - + +
236B THR* 1.3 60.0 - - - +
238B ALA* 3.8 2.7 - - - +
239B GLU* 3.5 22.8 + - - +
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Residues in contact with THR 236 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232B LYS* 2.9 24.3 + - - +
233B HIS* 3.6 4.9 - - - -
234B PHE 3.0 0.8 - - - -
235B VAL* 1.3 76.6 - - - +
237B GLN* 1.3 78.6 + - - +
238B ALA 3.0 0.9 - - - -
239B GLU* 3.1 14.1 + - + +
240B GLN* 3.0 20.6 + - + +
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Residues in contact with GLN 237 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200B ILE* 4.1 14.6 - - + +
202B TRP* 3.6 24.5 + - + +
233B HIS* 3.0 54.9 + - + +
234B PHE 3.7 2.0 - - - +
236B THR* 1.3 86.5 - - - +
238B ALA* 1.3 67.7 + - - +
240B GLN* 2.9 13.0 + - - +
241B ARG* 2.9 20.4 + - - +
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Residues in contact with ALA 238 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
245A MET* 3.9 9.8 - - + +
249A PHE* 4.0 17.0 - - + +
250A VAL* 3.8 17.3 - - + -
202B TRP* 3.4 23.0 - - + -
234B PHE 2.8 16.5 + - - +
235B VAL 3.8 6.7 - - - +
237B GLN* 1.3 80.0 - - - +
239B GLU* 1.3 66.0 + - - +
241B ARG* 3.0 3.1 + - - +
242B ALA* 2.9 21.9 + - - +
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Residues in contact with GLU 239 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246A ILE* 4.2 11.9 - - + +
250A VAL* 4.0 23.5 - - + +
254A LYS* 4.0 19.3 + - - -
235B VAL* 3.5 16.0 + - - +
236B THR* 3.1 14.7 + - + +
238B ALA* 1.3 76.5 - - - +
240B GLN* 1.3 63.0 + - - +
242B ALA* 3.1 10.9 - - - +
243B ILE* 3.0 26.8 + - + +
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Residues in contact with GLN 240 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236B THR* 3.0 11.3 + - + +
237B GLN* 2.9 20.7 + - - +
239B GLU* 1.3 73.1 - - - +
241B ARG* 1.3 57.9 + - - +
243B ILE* 2.6 30.3 + - - +
244B SER* 2.8 14.7 + - - -
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Residues in contact with ARG 241 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206A MET* 3.5 13.9 - - - +
245A MET* 3.7 22.0 - - + -
202B TRP* 3.5 56.1 - - + +
203B ALA* 4.6 4.8 - - - +
237B GLN 2.9 8.3 + - - -
238B ALA 3.4 7.4 - - - +
240B GLN* 1.3 71.2 - - - +
242B ALA* 1.3 55.1 + - - +
244B SER* 2.9 16.9 + - - -
245B MET* 2.7 56.4 + - + +
249B PHE* 3.1 32.3 - - - -
4G G 5.0 3.6 + - - -
5G G 3.2 32.7 + - - -
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Residues in contact with ALA 242 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242A ALA* 3.7 33.3 - - + +
245A MET* 4.6 10.5 - - + +
246A ILE* 4.9 10.1 - - + -
238B ALA 2.9 12.8 + - - +
239B GLU* 3.1 16.4 - - - +
240B GLN 2.8 0.2 + - - -
241B ARG* 1.3 78.2 - - - +
243B ILE* 1.3 67.1 + - + +
245B MET* 3.6 5.5 + - - +
246B ILE* 3.6 17.3 + - - +
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Residues in contact with ILE 243 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
239B GLU* 3.0 16.9 + - + +
240B GLN* 2.6 14.9 + - - +
242B ALA* 1.3 74.0 - - + +
244B SER* 1.3 66.5 + - - +
246B ILE* 2.7 34.4 + - + +
247B ASP* 3.4 17.5 + - - +
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Residues in contact with SER 244 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
240B GLN* 2.8 9.1 + - - -
241B ARG* 2.9 39.8 + - - -
243B ILE* 1.3 74.2 - - - +
245B MET* 1.3 62.8 + - - -
247B ASP* 2.8 22.0 + - - +
248B LYS* 3.0 15.4 + - - +
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Residues in contact with MET 245 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202A TRP* 3.9 21.8 - - + -
238A ALA* 4.0 12.6 - - - +
241A ARG* 3.6 30.5 - - + -
242A ALA* 4.4 7.6 - - + +
245A MET* 3.6 31.2 - - - +
241B ARG* 2.7 51.3 + - - +
242B ALA* 3.7 5.6 - - - +
243B ILE 3.1 0.2 + - - -
244B SER* 1.3 72.9 + - - +
246B ILE* 1.3 56.4 + - - +
249B PHE* 2.8 57.2 + - + +
250B VAL* 3.8 1.9 - - - +
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Residues in contact with ILE 246 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
239A GLU* 5.1 8.1 - - + +
242A ALA* 4.1 18.4 - - + -
242B ALA 3.6 15.5 - - - +
243B ILE* 2.7 27.4 + - + +
245B MET* 1.3 73.8 - - - +
247B ASP* 1.3 62.1 + - - +
250B VAL* 2.8 52.8 + - + +
251B LYS* 3.0 7.7 + - + +
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Residues in contact with ASP 247 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243B ILE* 3.4 23.7 + - - +
244B SER* 2.8 14.6 + - - +
246B ILE* 1.3 77.1 - - - +
248B LYS* 1.3 58.0 + - - +
251B LYS* 3.9 21.0 - - + +
252B PRO* 3.1 18.7 - - - +
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Residues in contact with LYS 248 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A TYR* 3.7 34.9 + - - +
244B SER* 3.0 13.7 + - - +
247B ASP* 1.3 78.8 - - - +
249B PHE* 1.3 81.1 + - + +
250B VAL 3.6 0.7 - - - -
252B PRO* 3.5 14.8 - - - +
253B PHE* 4.2 1.7 - - - -
4G G 4.4 11.1 - - - -
5G G 3.2 38.2 + - - +
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Residues in contact with PHE 249 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A TYR* 3.6 39.7 - + + -
202A TRP* 4.6 2.5 - + - -
206A MET* 3.6 20.0 - - + -
234A PHE* 3.5 38.3 - + + -
235A VAL* 4.3 4.3 - - - -
238A ALA* 4.0 12.3 - - + +
241B ARG* 3.1 34.8 - - - -
245B MET* 2.8 48.4 + - + +
248B LYS* 1.3 101.7 - - + +
250B VAL* 1.3 62.5 + - - +
253B PHE* 3.8 12.3 - - - +
5G G 4.6 4.5 - - - -
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Residues in contact with VAL 250 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
235A VAL* 3.4 25.7 - - + +
238A ALA* 4.0 16.4 - - + -
239A GLU* 3.7 28.3 - - + +
245B MET 3.8 2.5 - - - +
246B ILE* 2.8 38.3 + - + +
248B LYS 3.6 0.8 - - - -
249B PHE* 1.3 85.1 - - - +
251B LYS* 1.3 58.6 + - - +
252B PRO* 3.2 1.8 - - - -
253B PHE* 2.6 28.6 + - - +
254B LYS* 3.0 22.9 + - + -
----------------------------------------------------------
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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