Contacts of the helix formed by residues 237 - 267 (chain C) in PDB entry 3U1K
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 LEU 237 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
235C ASN 5.8 0.4 - - - +
236C ILE* 1.3 78.5 - - - +
238C GLN* 1.3 65.5 + - - +
239C GLN* 4.3 8.5 - - + +
240C ASP* 3.2 28.8 + - - +
241C PHE* 2.9 21.0 + - - +
552C LYS* 3.9 28.0 - - + +
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Residues in contact with GLN 238 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236C ILE 3.7 2.0 + - - -
237C LEU* 1.3 73.2 - - - +
239C GLN* 1.3 56.8 - - + +
241C PHE* 3.1 1.7 + - - +
242C CYS* 2.7 48.1 + - - -
552C LYS 5.1 2.2 + - - -
553C GLY* 5.6 0.6 - - - -
554C ILE* 4.0 18.5 - - + +
572C MET 5.2 0.7 - - - +
575C ILE* 3.9 26.0 - - + +
576C GLN* 2.9 44.8 + - - +
579C SER* 3.7 20.6 - - - -
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Residues in contact with GLN 239 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
237C LEU* 3.2 7.9 - - + +
238C GLN* 1.3 79.8 - - + +
240C ASP* 1.3 61.7 + - - +
242C CYS* 3.5 5.9 + - - +
243C HIS* 2.9 30.0 + - - +
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Residues in contact with ASP 240 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195C ILE* 4.5 7.8 - - + +
200C TYR* 3.4 25.8 + - - +
236C ILE* 4.4 14.6 - - + +
237C LEU* 3.2 36.9 + - + +
239C GLN* 1.3 77.7 - - - +
241C PHE* 1.3 67.3 + - - +
243C HIS 3.3 0.9 + - - -
244C ALA* 3.0 23.2 + - - +
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Residues in contact with PHE 241 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214C LEU* 3.8 13.9 - - + -
216C LEU* 4.4 4.6 - - + +
231C ALA* 3.6 33.0 - - + -
233C ALA* 4.5 4.0 - - + -
236C ILE* 3.9 24.2 - - + -
237C LEU 2.9 13.1 + - - +
238C GLN 3.4 7.9 - - - +
240C ASP* 1.3 77.2 - - - +
242C CYS* 1.3 63.8 + - - +
244C ALA* 3.2 8.4 + - - +
245C ILE* 3.2 36.8 + - + +
547C ILE* 4.8 1.3 - - + -
554C ILE* 3.6 39.9 - - + -
556C ALA 5.7 0.2 - - - -
557C LEU* 3.5 34.1 - - + -
575C ILE* 4.3 8.7 - - + -
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Residues in contact with CYS 242 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238C GLN* 2.7 40.9 + - - +
239C GLN* 3.8 6.5 - - - +
241C PHE* 1.3 72.8 - - - +
243C HIS* 1.3 65.5 + - - +
245C ILE* 3.1 8.0 + - - +
246C LYS* 3.1 29.1 + - - +
572C MET* 3.5 40.0 - - - +
575C ILE* 4.0 18.6 - - - -
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Residues in contact with HIS 243 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200C TYR* 3.4 41.2 - + + +
239C GLN 2.9 18.9 + - - +
240C ASP 3.7 4.7 - - - +
242C CYS* 1.3 76.4 - - - +
244C ALA* 1.3 61.1 + - - +
246C LYS* 3.1 19.6 + - + +
247C VAL* 2.8 38.3 + - + +
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Residues in contact with ALA 244 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193C ILE* 3.7 19.5 - - + +
200C TYR* 3.8 9.8 - - + -
214C LEU* 3.4 31.4 - - + -
216C LEU* 3.8 5.4 - - + -
240C ASP 3.0 12.0 + - - +
241C PHE 3.4 9.9 - - - +
242C CYS 3.2 0.2 - - - -
243C HIS* 1.3 77.1 - - - +
245C ILE* 1.3 55.3 + - - +
247C VAL* 3.2 10.8 - - - +
248C GLY* 2.9 26.0 + - - -
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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
----------------------------------------------------------
216C LEU* 3.9 23.3 - - + -
218C VAL* 4.7 2.0 - - - +
226C ILE* 3.9 28.5 - - + -
229C LEU* 4.0 22.9 - - + -
241C PHE* 3.2 37.4 + - + +
242C CYS* 3.1 7.7 + - - +
244C ALA* 1.3 77.0 - - - +
246C LYS* 1.3 58.1 + - - +
248C GLY* 3.3 0.9 + - - -
249C VAL* 3.0 29.1 + - + +
568C ILE* 4.1 11.9 - - + -
572C MET* 3.9 9.2 - - + -
575C ILE* 3.7 21.1 - - + -
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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
----------------------------------------------------------
242C CYS* 3.1 16.3 + - - +
243C HIS* 3.1 23.2 + - + +
245C ILE* 1.3 78.2 - - - +
247C VAL* 1.3 62.1 + - - +
249C VAL* 3.5 5.5 + - - +
250C LYS* 3.2 21.3 + - - +
568C ILE* 3.9 31.7 - - + +
572C MET* 3.9 22.6 - - - +
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Residues in contact with VAL 247 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193C ILE* 4.0 10.1 - - + -
200C TYR* 4.4 18.2 - - + +
243C HIS* 2.8 37.9 + - + +
244C ALA* 3.2 17.9 - - - +
246C LYS* 1.3 70.9 - - - +
248C GLY* 1.3 65.6 + - - +
250C LYS* 3.4 15.6 + - + +
251C TYR* 3.0 49.1 + - + +
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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
----------------------------------------------------------
191C VAL* 3.6 9.9 - - - +
193C ILE* 3.7 18.8 - - - -
218C VAL* 3.8 12.6 - - - -
244C ALA 2.9 15.7 + - - -
245C ILE 3.3 3.8 + - - -
246C LYS 3.3 0.2 - - - -
247C VAL* 1.3 77.7 - - - +
249C VAL* 1.3 61.9 + - - +
251C TYR* 3.1 13.9 + - - +
252C THR* 3.1 15.6 + - - +
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Residues in contact with VAL 249 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218C VAL* 3.9 12.0 - - + +
220C GLY* 5.8 1.6 - - - -
224C SER* 3.7 42.0 - - - +
225C GLN 5.5 1.3 - - - +
226C ILE* 3.7 33.9 - - + -
245C ILE* 3.0 22.1 + - + +
246C LYS* 3.8 6.7 - - - +
248C GLY* 1.3 74.6 - - - +
250C LYS* 1.3 65.9 + - - +
252C THR* 2.6 28.6 + - - +
253C GLN* 3.2 6.5 + - - +
568C ILE* 5.2 7.6 - - + -
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Residues in contact with LYS 250 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
224C SER* 6.0 0.2 - - - -
246C LYS 3.2 11.6 + - - +
247C VAL* 3.5 24.2 - - + +
248C GLY 3.2 0.2 - - - -
249C VAL* 1.3 81.7 - - - +
251C TYR* 1.3 98.3 + - - +
253C GLN* 3.3 21.0 + - - +
254C GLN* 3.6 22.9 + - - +
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Residues in contact with TYR 251 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51C LEU* 4.0 14.3 - - + +
52C GLY* 4.0 25.3 + - - -
191C VAL* 3.9 17.9 - - + -
193C ILE* 4.3 3.8 - - + -
200C TYR 5.5 4.2 + - - -
202C VAL* 3.7 32.7 - - + +
247C VAL* 3.0 43.4 + - + +
248C GLY 3.1 7.4 + - - +
250C LYS* 1.3 103.3 + - - +
252C THR* 1.3 63.9 - - - +
254C GLN* 3.0 34.6 + - - +
255C ILE* 3.2 14.2 + - - +
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Residues in contact with THR 252 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189C GLY* 3.0 35.8 - - - +
190C ALA* 4.0 3.1 - - - -
191C VAL* 4.3 4.3 - - + +
218C VAL* 3.6 22.4 - - + +
220C GLY* 3.7 16.2 - - - +
248C GLY 3.1 13.3 + - - +
249C VAL* 2.6 22.5 + - - +
251C TYR* 1.3 75.4 - - - +
253C GLN* 1.3 69.0 + - - +
255C ILE* 3.1 8.4 + - - +
256C ILE* 2.9 31.2 + - - +
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Residues in contact with GLN 253 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220C GLY* 4.6 1.2 - - - -
221C ALA 3.3 18.3 + - - +
222C PRO* 3.8 2.8 - - - +
223C LYS* 3.3 11.6 + - - -
224C SER* 2.9 42.5 + - - +
249C VAL* 3.4 12.6 + - - +
250C LYS* 3.5 11.0 - - - +
251C TYR 3.2 0.4 - - - -
252C THR* 1.3 99.4 + - - +
254C GLN* 1.3 62.2 + - + +
256C ILE* 3.5 13.7 + - - +
257C GLN* 3.1 23.2 + - - +
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Residues in contact with GLN 254 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49C VAL* 3.9 17.2 - - + +
50C ASP 3.0 24.0 - - - +
51C LEU* 3.9 0.8 - - + +
250C LYS* 3.6 32.6 + - - +
251C TYR* 3.0 31.7 + - - +
253C GLN* 1.3 79.5 - - + +
255C ILE* 1.3 61.7 + - - +
257C GLN* 3.3 12.3 + - - +
258C GLY 3.2 15.9 + - - -
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Residues in contact with ILE 255 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49C VAL* 4.1 9.4 - - + +
51C LEU* 4.0 13.0 - - + -
56C LEU* 3.6 30.5 - - + -
58C ILE* 4.4 6.1 - - + -
171C ASN* 3.4 18.6 - - - +
189C GLY* 3.9 9.0 - - - -
190C ALA 3.3 30.7 - - - +
191C VAL* 3.8 16.6 - - + -
203C ASN* 5.6 0.2 - - - +
251C TYR 3.2 8.5 + - - +
252C THR* 3.1 7.2 + - - +
254C GLN* 1.3 73.3 - - - +
256C ILE* 1.3 67.4 + - - +
258C GLY* 3.0 4.9 + - - -
259C ILE* 2.9 33.8 + - + +
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Residues in contact with ILE 256 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187C PRO* 3.6 24.2 - - + +
188C VAL 3.9 1.3 - - - -
189C GLY 3.7 11.4 - - - +
220C GLY 3.5 13.0 - - - +
221C ALA 3.3 35.4 - - - +
222C PRO* 3.5 10.5 - - + -
252C THR 2.9 18.2 + - - +
253C GLN* 3.7 21.5 - - - +
254C GLN 3.4 0.2 - - - -
255C ILE* 1.3 72.1 - - - +
257C GLN* 1.3 58.9 + - - +
259C ILE* 3.0 9.4 + - - +
260C GLN* 2.8 52.6 + - - +
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Residues in contact with GLN 257 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
253C GLN 3.1 13.8 + - - +
254C GLN* 3.5 14.3 - - - +
255C ILE 3.2 0.2 - - - -
256C ILE* 1.3 76.1 - - - +
258C GLY* 1.3 64.1 + - - +
260C GLN* 3.3 15.6 + - - +
261C GLN* 3.1 21.2 + - + +
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Residues in contact with GLY 258 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C VAL* 3.5 21.1 - - - +
48C ALA 6.0 0.2 - - - -
49C VAL* 4.0 19.1 - - - -
254C GLN 3.2 4.6 + - - -
255C ILE 3.0 7.8 + - - -
257C GLN* 1.3 81.0 - - - +
259C ILE* 1.3 60.0 - - - +
261C GLN* 3.2 17.6 + - - +
262C LEU 3.3 8.8 + - - -
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Residues in contact with ILE 259 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58C ILE* 4.5 8.5 - - + -
171C ASN* 4.8 2.0 - - + +
174C SER* 3.6 9.9 - - - +
175C VAL* 4.4 28.9 - - + -
178C SER* 3.8 21.1 - - - +
179C LEU* 5.9 0.4 - - + -
187C PRO* 3.6 24.5 - - + -
188C VAL 3.2 27.1 - - - +
255C ILE* 2.9 31.3 + - + +
256C ILE 3.6 5.2 - - - +
258C GLY* 1.3 76.6 - - - +
260C GLN* 1.3 57.4 + - - +
262C LEU* 3.1 11.7 + - + +
263C VAL* 2.9 26.9 + - + +
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Residues in contact with GLN 260 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187C PRO* 3.9 21.9 - - + +
222C PRO* 4.6 10.3 - - - +
256C ILE* 2.8 34.8 + - - +
257C GLN* 3.5 16.0 - - - +
259C ILE* 1.3 77.1 - - - +
261C GLN* 1.3 55.7 + - - +
263C VAL* 3.4 10.1 + - + +
264C LYS* 3.0 28.1 + - - +
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Residues in contact with GLN 261 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C VAL* 3.8 16.6 - - + -
257C GLN 3.1 11.6 + - - +
258C GLY* 3.3 12.3 - - - +
260C GLN* 1.3 74.5 - - - +
262C LEU* 1.3 59.9 + - - +
264C LYS* 3.1 36.3 + - - +
265C GLU* 2.7 63.6 + - - +
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Residues in contact with LEU 262 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45C SER* 4.0 14.8 - - - +
46C ALA* 3.7 26.0 - - - +
47C VAL* 3.6 31.6 - - + -
58C ILE* 3.2 37.7 - - + +
59C SER* 4.7 2.9 - - - +
175C VAL* 4.3 12.6 - - + -
179C LEU* 3.8 18.2 - - + -
258C GLY 3.3 5.5 + - - +
259C ILE* 3.1 13.9 + - + +
261C GLN* 1.3 78.2 - - - +
263C VAL* 1.3 56.8 + - - +
265C GLU* 3.5 5.6 + - - +
266C THR* 2.8 35.0 + - - -
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Residues in contact with VAL 263 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178C SER* 3.7 37.7 - - - +
179C LEU* 3.9 11.4 - - + -
187C PRO* 5.3 3.4 - - + -
259C ILE* 2.9 18.9 + - + +
260C GLN* 3.6 12.8 - - + +
261C GLN 3.2 0.2 - - - -
262C LEU* 1.3 77.9 - - - +
264C LYS* 1.3 62.9 + - - +
266C THR* 3.3 1.4 + - - -
267C GLY* 3.1 21.8 + - - -
268C VAL* 4.1 17.9 + - + +
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Residues in contact with LYS 264 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260C GLN 3.0 18.3 + - - +
261C GLN* 3.1 39.3 + - - +
263C VAL* 1.3 80.3 - - - +
265C GLU* 1.3 64.1 + - + +
267C GLY* 3.6 8.3 + - - -
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Residues in contact with GLU 265 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43C MET* 3.7 13.8 - - + +
45C SER* 4.3 20.8 + - - +
46C ALA 5.0 5.6 + - - +
47C VAL* 5.0 5.1 - - - +
261C GLN* 2.7 50.8 + - - +
262C LEU* 4.0 6.6 - - - +
264C LYS* 1.3 79.9 - - + +
266C THR* 1.3 63.0 + - - +
267C GLY* 3.4 0.7 + - - -
----------------------------------------------------------
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Residues in contact with THR 266 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C SER* 3.7 32.6 + - - +
43C MET* 3.7 13.5 - - + +
45C SER* 4.3 13.7 + - - -
60C SER* 5.9 0.5 - - - -
179C LEU* 3.6 25.3 - - + +
262C LEU* 2.8 22.5 + - - +
263C VAL 3.9 2.7 - - - -
265C GLU* 1.3 76.7 - - - +
267C GLY* 1.3 64.7 + - - +
268C VAL* 4.2 14.1 - - + -
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Residues in contact with GLY 267 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263C VAL 3.1 9.4 + - - -
264C LYS 3.6 6.7 + - - -
265C GLU 3.3 3.0 - - - -
266C THR* 1.3 82.8 - - - +
268C VAL* 1.3 62.8 + - - +
269C THR* 3.8 4.4 + - - -
----------------------------------------------------------
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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