Contacts of the helix formed by residues 229 - 257 (chain C) in PDB entry 6XWQ
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 PRO 229 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112C GLY* 5.5 4.9 + - - -
113C ALA 5.8 3.8 - - - +
114C ASN 4.1 21.1 - - - +
115C VAL* 4.3 22.4 - - + -
228C GLY* 1.3 80.9 - - - +
230C LEU* 1.3 64.0 + - + +
231C ALA 3.1 0.4 - - - -
232C LYS* 3.3 23.0 + - + +
233C VAL* 3.7 12.0 + - - +
327C PHE* 5.5 2.9 - - + -
389C MET* 5.8 6.7 - - - -
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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
----------------------------------------------------------
225C ARG* 4.0 33.7 - - + +
226C VAL* 5.3 3.8 - - - -
228C GLY* 2.9 3.5 + - - +
229C PRO* 1.3 78.0 - - + +
231C ALA* 1.3 60.1 + - - +
232C LYS 3.2 0.2 - - - -
233C VAL* 3.1 19.0 + - + +
234C VAL* 2.9 30.5 + - - +
327C PHE* 4.7 4.5 - - + -
389C MET* 3.3 54.1 - - + +
390C ILE* 4.5 7.0 - - + -
392C GLY* 5.6 0.7 - - - -
393C ILE* 3.7 33.1 - - + +
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Residues in contact with ALA 231 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
226C VAL 4.2 18.8 + - - +
227C VAL 4.2 4.9 - - - +
228C GLY 3.0 15.7 + - - +
230C LEU* 1.3 76.7 - - - +
232C LYS* 1.3 60.9 + - + +
234C VAL* 3.3 12.6 - - + +
235C GLY* 2.9 26.5 + - - -
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Residues in contact with LYS 232 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109C PHE* 3.1 43.4 + - + -
110C ASN* 4.3 5.6 + - - +
111C VAL* 4.7 14.1 - - + +
112C GLY 5.5 1.8 - - - +
113C ALA* 6.0 1.8 - - - +
229C PRO* 3.3 15.8 + - + +
230C LEU 3.2 0.2 - - - -
231C ALA* 1.3 79.2 - - + +
233C VAL* 1.3 57.8 + - - +
235C GLY* 3.7 1.7 - - - +
236C ALA* 2.9 32.9 + - - +
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Residues in contact with VAL 233 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111C VAL* 3.6 27.1 - - + -
112C GLY 5.1 0.4 - - - +
229C PRO 3.7 14.1 - - - +
230C LEU* 3.1 22.6 + - + +
232C LYS* 1.3 77.3 - - - +
234C VAL* 1.3 57.1 + - - +
236C ALA* 3.2 1.9 + - - +
237C VAL* 2.9 47.2 + - + +
323C VAL* 5.9 1.8 - - + -
324C THR* 5.8 3.6 - - - +
327C PHE* 4.0 17.7 - - + -
390C ILE* 4.2 19.3 - - + -
393C ILE* 4.2 11.4 - - + -
397C LEU* 4.6 6.5 - - + -
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Residues in contact with VAL 234 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
226C VAL* 6.1 7.6 - - + +
230C LEU 2.9 14.8 + - - +
231C ALA* 3.3 16.4 - - - +
233C VAL* 1.3 76.9 - - - +
235C GLY* 1.3 61.5 + - - +
237C VAL* 4.2 0.6 - - - +
238C TYR* 3.6 37.4 + - + -
393C ILE* 4.5 11.6 - - + +
396C ILE* 3.9 29.4 - - + -
397C LEU* 4.1 18.6 - - + -
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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
----------------------------------------------------------
109C PHE* 3.3 10.2 - - - -
231C ALA 2.9 17.4 + - - -
232C LYS* 3.7 1.8 - - - -
234C VAL* 1.3 76.6 - - - +
236C ALA* 1.3 60.1 + - - +
238C TYR* 4.9 2.9 - - - +
239C THR* 2.8 28.0 + - - -
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Residues in contact with ALA 236 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105C VAL* 4.2 13.5 - - - +
109C PHE* 3.5 30.5 - - + -
111C VAL* 5.0 6.1 - - + -
232C LYS 2.9 18.3 + - - +
233C VAL* 3.8 4.7 - - - +
235C GLY* 1.3 78.3 - - - +
237C VAL* 1.3 60.8 + - - +
238C TYR 3.3 0.2 - - - -
239C THR* 3.8 0.9 - - - -
240C GLY* 2.8 26.2 + - - -
323C VAL* 4.7 16.2 - - + -
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Residues in contact with VAL 237 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
233C VAL* 2.9 29.1 + - + +
234C VAL 4.8 0.4 - - - +
236C ALA* 1.3 77.1 - - - +
238C TYR* 1.3 60.2 + - + +
240C GLY* 3.3 0.9 + - - -
241C LEU* 2.9 50.2 + - + +
319C LEU* 4.2 7.8 - - + +
320C TYR* 4.7 24.9 - - + -
323C VAL* 4.5 22.2 - - + -
324C THR* 5.4 1.3 - - - +
397C LEU* 3.6 36.6 - - + +
401C ARG* 5.7 0.4 - - + -
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Residues in contact with TYR 238 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234C VAL* 3.6 31.3 + - + +
235C GLY* 4.9 2.7 - - - +
236C ALA 3.3 0.2 - - - -
237C VAL* 1.3 80.1 - - + +
239C THR* 1.3 60.6 - - - +
241C LEU* 3.3 14.6 + - + +
242C PHE* 2.9 29.6 + - - +
275C PHE* 4.6 17.8 - + - -
396C ILE* 2.4 43.5 + - + +
397C LEU* 4.8 5.4 - - + -
399C MET* 4.8 3.6 - - - +
400C GLY* 4.1 22.8 + - - -
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Residues in contact with THR 239 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105C VAL* 5.0 9.6 - - + -
108C LEU* 6.2 1.6 - - + -
109C PHE* 3.7 24.6 - - + -
235C GLY 2.8 23.7 + - - -
236C ALA 3.5 2.3 + - - -
237C VAL 3.4 0.2 - - - -
238C TYR* 1.3 77.1 - - - +
240C GLY* 1.3 58.0 + - - +
242C PHE* 3.8 8.6 - - + +
243C LEU* 2.9 34.7 + - + +
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Residues in contact with GLY 240 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101C PHE* 5.1 1.3 - - - +
105C VAL* 4.0 25.7 - - - +
236C ALA 2.8 17.5 + - - -
237C VAL 3.7 1.6 - - - -
238C TYR 3.2 0.2 - - - -
239C THR* 1.3 77.2 - - - +
241C LEU* 1.3 55.7 + - - +
243C LEU* 3.4 1.8 + - - +
244C GLN* 2.8 29.8 + - - +
319C LEU* 3.4 16.5 - - - +
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Residues in contact with LEU 241 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
237C VAL* 2.9 30.8 + - + +
238C TYR* 3.3 16.8 + - + +
240C GLY* 1.3 76.6 - - - +
242C PHE* 1.3 57.1 + - - +
244C GLN* 3.3 4.7 - - + +
245C ILE* 2.9 33.9 + - - +
316C GLY* 3.7 30.7 - - - +
319C LEU* 4.4 14.6 - - + -
397C LEU 4.8 0.2 - - - +
400C GLY* 3.5 38.1 - - - +
401C ARG* 3.6 3.8 - - - +
403C MET* 5.9 1.3 - - + -
404C VAL* 3.5 25.0 - - + +
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Residues in contact with PHE 242 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238C TYR 2.9 16.7 + - - +
239C THR* 3.9 8.3 - - + +
241C LEU* 1.3 76.1 - - - +
243C LEU* 1.3 65.1 + - + +
245C ILE* 3.4 7.9 + - + +
246C VAL* 3.0 64.5 + - + +
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Residues in contact with LEU 243 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101C PHE* 4.0 26.2 - - + -
104C ILE* 5.8 2.9 - - + -
105C VAL* 3.9 23.8 - - + -
108C LEU* 5.6 4.3 - - + -
239C THR* 2.9 23.7 + - + +
240C GLY* 3.8 4.9 - - - +
242C PHE* 1.3 81.3 - - + +
244C GLN* 1.3 66.4 + - - +
246C VAL* 5.1 1.6 - - + -
247C ILE* 2.9 53.4 + - + +
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Residues in contact with GLN 244 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94C THR 4.6 2.4 + - - -
97C MET 4.3 1.2 - - - +
98C ALA* 3.2 34.9 + - + +
101C PHE* 4.6 10.0 - - - +
240C GLY 2.8 22.4 + - - +
241C LEU* 3.3 7.6 - - + +
243C LEU* 1.3 71.7 - - - +
245C ILE* 1.3 66.1 + - - +
248C THR* 2.9 46.8 + - - +
249C TYR* 3.1 37.4 + - - +
315C ASP* 4.0 9.1 + - + +
319C LEU* 3.9 11.4 - - + -
404C VAL* 4.0 20.0 - - + -
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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
----------------------------------------------------------
241C LEU 2.9 19.3 + - - +
242C PHE* 3.7 8.5 - - + +
244C GLN* 1.3 80.2 - - - +
246C VAL* 1.3 70.3 + - + +
247C ILE 3.0 1.9 + - - -
249C TYR* 2.9 53.4 + - + +
250C PHE* 3.4 17.9 + - + -
263C PHE* 6.3 0.2 - - + -
264C ILE* 4.6 11.4 - - + -
271C MET* 5.0 6.3 - - + -
403C MET* 4.3 14.4 - - + -
404C VAL* 4.0 24.2 - - + -
407C THR* 4.3 19.7 - - + +
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Residues in contact with VAL 246 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242C PHE* 3.0 55.9 + - + +
243C LEU* 4.5 1.8 - - + +
245C ILE* 1.3 83.0 - - + +
247C ILE* 1.3 69.8 + - + +
250C PHE* 3.3 48.9 - - + +
251C ILE* 5.6 0.3 - - - +
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Residues in contact with ILE 247 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101C PHE* 3.6 26.0 - - + -
243C LEU* 2.9 44.0 + - + +
246C VAL* 1.3 94.2 - - + +
248C THR* 1.3 60.8 + - - +
251C ILE* 3.1 39.3 - - + +
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Residues in contact with THR 248 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94C THR* 4.6 12.3 - - + -
97C MET* 4.4 12.4 - - + +
101C PHE* 4.1 17.2 - - - -
244C GLN* 2.9 32.3 + - - +
247C ILE* 1.3 78.6 - - - +
249C TYR* 1.3 78.7 + - + +
250C PHE 3.3 1.1 - - - -
251C ILE* 3.3 1.9 + - - +
252C LEU* 2.9 47.8 + - + +
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Residues in contact with TYR 249 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90C TYR* 3.7 23.8 - + - -
94C THR* 4.9 1.8 - - - -
244C GLN* 3.1 25.7 + - - -
245C ILE* 2.9 37.7 + - + +
248C THR* 1.3 85.4 - - + +
250C PHE* 1.3 62.7 + - + +
252C LEU* 4.6 3.1 - - + -
253C LEU* 2.9 44.1 + - + +
263C PHE* 5.1 4.5 - - + -
315C ASP* 2.4 34.0 + - - +
404C VAL* 3.8 7.3 + - + +
407C THR* 3.9 17.7 - - + -
408C GLY* 3.2 27.7 + - - -
411C ALA* 4.3 13.0 - - + -
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Residues in contact with PHE 250 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
245C ILE* 3.4 12.4 + - + -
246C VAL* 3.3 46.9 - - + +
248C THR 3.3 0.6 - - - -
249C TYR* 1.3 80.2 - - + +
251C ILE* 1.3 64.1 + - + +
253C LEU* 5.8 0.4 - - + -
254C LYS* 2.9 31.4 + - + +
260C PRO* 3.4 32.4 - - + +
261C ILE* 4.5 21.3 - - + -
263C PHE* 5.7 1.8 - + - -
264C ILE* 3.4 35.0 - - + -
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Residues in contact with ILE 251 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246C VAL 5.6 0.4 - - - +
247C ILE* 3.1 35.2 + - + +
248C THR* 3.3 4.5 + - - +
250C PHE* 1.3 80.6 - - + +
252C LEU* 1.3 73.1 + - + +
254C LYS* 3.9 2.7 - - - +
255C VAL* 2.9 40.9 + - + +
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Residues in contact with LEU 252 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90C TYR* 3.5 34.8 - - + +
94C THR* 4.1 7.4 - - + -
248C THR* 2.9 38.1 + - + +
249C TYR* 3.9 4.0 - - - +
251C ILE* 1.3 84.3 - - + +
253C LEU* 1.3 71.1 + - + +
255C VAL* 3.6 2.1 - - + +
256C PHE* 2.9 46.4 + - + -
415C ILE* 4.5 6.5 - - + -
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Residues in contact with LEU 253 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
249C TYR* 2.9 25.1 + - + +
250C PHE* 4.1 1.3 - - + +
252C LEU* 1.3 80.5 - - + +
254C LYS* 1.3 59.6 + - - +
256C PHE 3.3 1.0 + - - -
257C GLY 2.9 21.8 + - - -
258C ILE* 2.8 40.2 + - + +
260C PRO* 4.2 12.3 - - + -
263C PHE* 3.3 52.5 - - + -
411C ALA* 3.8 21.1 - - + +
414C VAL* 5.3 1.1 - - + -
415C ILE* 3.6 24.9 - - + -
----------------------------------------------------------
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Residues in contact with LYS 254 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
250C PHE* 2.9 19.7 + - + +
251C ILE* 4.1 2.7 - - - +
253C LEU* 1.3 77.2 - - - +
255C VAL* 1.3 62.9 + - + +
257C GLY* 3.6 9.2 + - - +
258C ILE 3.6 8.9 + - - +
259C ASP* 5.9 0.9 - - - +
260C PRO* 4.1 17.4 - - + +
----------------------------------------------------------
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Residues in contact with VAL 255 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
251C ILE* 2.9 34.8 + - + +
252C LEU* 3.6 4.5 - - + +
254C LYS* 1.3 79.2 - - + +
256C PHE* 1.3 76.9 + - + +
257C GLY* 3.3 1.6 + - - -
----------------------------------------------------------
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Residues in contact with PHE 256 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
252C LEU* 2.9 40.8 + - + +
253C LEU 3.3 0.9 + - - +
255C VAL* 1.3 90.8 - - + +
257C GLY* 1.3 56.2 + - - +
258C ILE 3.8 1.8 - - - -
415C ILE* 3.6 49.8 - - + -
418C LYS* 3.2 28.6 + - + +
419C THR* 3.5 24.2 - - - -
----------------------------------------------------------
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Residues in contact with GLY 257 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
253C LEU 2.9 4.4 + - - -
254C LYS* 3.6 8.3 + - - +
255C VAL 3.2 4.7 - - - -
256C PHE* 1.3 78.4 - - - +
258C ILE* 1.3 65.5 + - - +
259C ASP* 3.4 11.6 - - - +
418C LYS* 3.3 11.0 - - - -
428C TRP* 5.9 0.2 - - - -
----------------------------------------------------------
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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