Contacts of the helix formed by residues 250 - 276 (chain C) in PDB entry 3QNQ
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 HIS 250 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
245C TRP* 3.3 28.3 - + + +
248C GLY 4.0 0.2 + - - -
249C ILE* 1.3 75.6 - - + +
251C GLY* 1.3 63.0 + - - +
252C ALA* 3.6 7.2 - - + +
253C THR* 2.9 57.6 + - + +
254C ILE* 3.3 10.7 - - + +
334C GLU* 4.8 1.8 - - - -
177D PRO* 4.1 20.0 - - + +
180D VAL* 5.5 0.6 - - + +
1I NAG 3.2 24.9 - - - -
2I NAG 2.8 31.7 + - - -
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Residues in contact with GLY 251 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241C VAL* 3.4 24.2 - - - -
244C LEU* 3.7 23.1 - - - -
245C TRP* 3.0 11.5 - - - +
249C ILE 3.1 3.0 + - - -
250C HIS* 1.3 71.1 - - - +
252C ALA* 1.3 65.4 + - - +
254C ILE 4.4 0.2 - - - -
255C VAL* 2.9 29.8 + - - +
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Residues in contact with ALA 252 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241C VAL* 3.7 13.3 - - - +
245C TRP* 3.4 4.6 - - - +
250C HIS* 3.3 4.2 - - + -
251C GLY* 1.3 75.4 - - - +
253C THR* 1.3 56.1 + - - +
255C VAL* 4.8 0.2 - - - +
256C GLY* 2.9 29.3 + - - -
263C TRP* 5.7 0.2 - - - -
294C TYR* 5.5 1.6 - - + -
1I NAG 3.0 44.9 + - - +
2I NAG 3.1 27.1 - - + +
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Residues in contact with THR 253 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26C ARG* 3.6 24.2 - - - +
250C HIS* 2.9 43.9 + - + +
251C GLY 3.2 0.2 - - - -
252C ALA* 1.3 74.1 - - - +
254C ILE* 1.3 70.4 + - - +
257C GLY* 3.3 13.7 + - - +
177D PRO* 5.8 2.7 - - + -
180D VAL* 5.4 3.6 - - + -
1I NAG 3.4 37.5 - - - +
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Residues in contact with ILE 254 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13C ALA 5.4 1.3 - - - +
16C VAL* 3.8 29.6 - - + -
17C ALA* 4.3 13.7 - - + +
26C ARG* 3.7 31.9 + - - +
244C LEU* 3.8 21.1 - - + -
249C ILE* 4.0 20.0 - - + -
250C HIS* 3.3 14.1 - - + +
251C GLY 3.1 2.1 + - - +
253C THR* 1.3 89.7 - - - +
255C VAL* 1.3 63.5 + - + +
257C GLY* 3.2 6.8 + - - -
258C VAL* 2.9 26.6 + - + +
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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
----------------------------------------------------------
237C ALA* 4.0 9.6 - - + +
240C LEU* 3.5 40.4 - - + +
241C VAL* 3.4 27.6 - - + +
244C LEU* 5.0 6.1 - - + -
251C GLY 2.9 14.7 + - - +
254C ILE* 1.3 77.7 - - + +
256C GLY* 1.3 60.0 + - - +
258C VAL* 2.9 24.4 + - - +
259C MET* 3.0 16.5 + - + +
263C TRP* 3.5 23.3 - - + -
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Residues in contact with GLY 256 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
252C ALA 2.9 24.1 + - - -
253C THR* 4.8 0.4 - - - -
255C VAL* 1.3 74.5 - - - +
257C GLY* 1.3 56.0 + - - +
260C SER* 3.0 36.5 + - - -
263C TRP* 3.8 21.3 - - - -
1I NAG 5.4 7.0 - - - -
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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
----------------------------------------------------------
22C LEU* 4.6 3.3 - - - +
25C ILE* 4.0 22.3 - - - +
26C ARG* 4.1 25.6 - - - +
29C LEU* 4.8 2.6 - - - +
253C THR 3.3 15.7 + - - -
254C ILE 3.2 7.4 + - - -
255C VAL 3.1 1.4 - - - -
256C GLY* 1.3 76.2 - - - +
258C VAL* 1.3 61.1 + - - +
260C SER* 4.6 4.0 - - - -
261C PRO* 4.4 5.4 - - - +
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Residues in contact with VAL 258 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16C VAL* 5.5 2.2 - - + -
22C LEU* 3.5 35.7 - - + -
26C ARG* 6.3 0.2 - - - +
254C ILE* 2.9 25.4 - - + +
255C VAL* 2.9 8.6 + - - +
257C GLY* 1.3 80.2 - - - +
259C MET* 1.3 69.6 + - + +
261C PRO* 4.1 8.3 - - - +
262C ILE* 5.4 4.0 - - - +
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Residues in contact with MET 259 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
228C GLY* 4.0 23.1 - - - -
233C GLY* 4.7 6.3 - - - +
237C ALA* 4.7 4.3 - - + -
255C VAL* 3.0 19.9 + - + +
258C VAL* 1.3 85.0 - - + +
260C SER* 1.3 51.3 + - - +
261C PRO* 2.6 9.9 - - - +
262C ILE* 2.4 54.7 + - + +
263C TRP* 3.4 59.9 - - + +
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Residues in contact with SER 260 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29C LEU* 3.6 17.7 - - - +
33C MET* 6.0 2.8 - - - +
256C GLY* 3.0 23.4 + - - -
257C GLY* 4.6 1.6 - - - -
259C MET* 1.3 72.7 - - - +
261C PRO* 1.3 70.2 - - - +
262C ILE 2.9 1.0 + - - -
263C TRP* 3.7 18.8 - - - +
264C LEU* 2.8 41.3 + - - +
286C ALA* 6.0 2.5 - - - -
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Residues in contact with PRO 261 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C ILE* 4.9 3.1 - - + -
29C LEU* 3.7 15.3 - - + -
146C LEU* 3.4 28.2 - - + +
147C PHE* 3.6 13.9 - - + -
150C MET* 3.4 41.3 - - + -
221C GLN* 4.3 2.4 + - - -
257C GLY 4.4 2.7 - - - +
258C VAL 4.1 12.3 - - - +
259C MET 2.6 13.2 - - - +
260C SER* 1.3 89.8 - - - +
262C ILE* 1.3 56.7 + - + +
264C LEU* 4.2 0.2 - - - +
265C SER* 3.3 20.8 + - - -
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Residues in contact with ILE 262 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147C PHE* 3.6 26.7 - - + -
221C GLN 5.5 0.2 - - - +
224C LEU* 3.6 39.9 - - + +
225C SER* 3.8 30.5 - - - +
228C GLY* 4.2 13.5 - - - -
258C VAL 5.4 3.6 - - - +
259C MET* 2.4 34.1 + - + +
261C PRO* 1.3 71.6 - - + +
263C TRP* 1.3 64.4 + - + +
264C LEU 2.9 6.0 + - - -
265C SER* 3.0 14.4 + - - -
266C LEU* 3.2 22.4 + - + +
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Residues in contact with TRP 263 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
228C GLY 4.1 14.9 + - - -
233C GLY 4.5 1.6 + - - -
237C ALA* 3.2 27.4 - - + -
241C VAL* 5.6 0.4 - - + -
255C VAL* 3.5 22.7 - - + -
256C GLY* 3.8 24.0 - - - -
259C MET* 3.4 40.5 + - + +
260C SER* 3.9 13.5 - - - -
262C ILE* 1.3 79.7 - - + +
264C LEU* 1.3 57.2 + - - +
266C LEU* 4.6 4.7 - - + -
267C MET* 3.5 10.7 + - - +
284C ILE* 4.4 6.1 - - + -
285C THR* 3.7 2.3 - - - -
286C ALA* 2.9 41.5 + - + +
289C PHE* 3.2 44.8 - + + -
294C TYR* 4.7 12.6 - + - -
1I NAG 5.8 3.6 - - - -
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Residues in contact with LEU 264 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29C LEU* 5.8 3.8 - - + -
32C THR* 5.3 5.6 - - - +
36C LEU* 3.7 29.6 - - + -
80C MET* 3.4 11.4 - - + -
143C SER* 4.0 1.8 - - - -
146C LEU* 3.3 31.2 - - + -
260C SER* 2.8 41.9 + - - +
262C ILE 3.0 0.8 - - - -
263C TRP* 1.3 76.7 - - - +
265C SER* 1.3 64.0 + - - +
266C LEU 3.1 0.4 - - - -
267C MET* 3.5 24.0 - - + +
268C ASP* 2.9 28.4 + - - +
286C ALA* 4.7 6.3 - - + -
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Residues in contact with SER 265 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143C SER* 4.0 17.5 + - - -
144C GLN* 5.6 2.3 - - - +
221C GLN* 3.7 20.2 + - - +
225C SER* 3.6 17.7 + - - -
261C PRO 3.3 22.4 + - - -
262C ILE* 3.0 9.4 + - - -
264C LEU* 1.3 79.7 - - - +
266C LEU* 1.3 62.8 + - - +
268C ASP* 3.4 3.8 + - - +
269C GLN* 3.3 27.9 + - - +
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Residues in contact with LEU 266 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
225C SER* 4.0 29.8 - - - +
226C ILE* 6.2 1.6 - - + -
228C GLY 4.6 4.7 - - - +
229C ALA* 4.1 27.6 - - + +
262C ILE* 3.3 18.6 - - + +
263C TRP* 4.3 4.7 - - - +
265C SER* 1.3 74.4 - - - +
267C MET* 1.3 67.2 + - - +
268C ASP 2.9 3.0 + - - -
269C GLN* 3.1 26.9 + - - +
270C ASN* 2.9 24.1 + - - +
282C ASN* 4.0 13.0 - - + +
284C ILE* 2.9 31.0 - - + +
285C THR* 3.7 6.1 - - + -
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Residues in contact with MET 267 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36C LEU* 4.3 12.3 - - + -
77C PHE* 3.7 23.1 - - + -
80C MET* 4.6 3.8 - - - -
263C TRP 3.5 8.5 + - - +
264C LEU* 3.4 43.0 + - + +
266C LEU* 1.3 77.4 - - - +
268C ASP* 1.3 69.0 + - + +
270C ASN* 3.7 0.4 + - - -
271C ARG* 3.1 16.3 + - - +
285C THR* 3.5 17.4 - - - +
286C ALA* 4.5 1.8 - - - +
287C GLN* 3.9 22.4 - - + +
377C GLY* 3.3 31.6 - - - +
379C ALA* 3.7 24.9 - - - -
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Residues in contact with ASP 268 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77C PHE* 3.4 16.0 - - - +
78C ASN* 5.3 1.7 - - - +
80C MET* 5.0 0.7 - - - -
142C GLY* 5.0 0.5 - - - -
143C SER* 2.6 43.8 + - - +
264C LEU 2.9 15.6 + - - +
265C SER 3.5 1.6 - - - +
266C LEU 3.0 0.2 - - - -
267C MET* 1.3 80.3 - - + +
269C GLN* 1.3 61.1 + - - +
271C ARG* 2.6 60.5 + - - +
272C ILE* 2.7 22.5 + - + +
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Residues in contact with GLN 269 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144C GLN* 5.5 4.7 + - - -
226C ILE* 6.4 0.2 - - - +
265C SER* 3.3 18.5 + - - +
266C LEU* 3.3 30.0 - - - +
268C ASP* 1.3 75.1 - - - +
270C ASN* 1.3 65.9 + - - +
272C ILE* 3.6 16.6 - - + +
273C ALA* 3.0 25.3 + - - +
281C PRO* 4.1 9.7 - - + +
282C ASN* 2.9 29.7 + - - +
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Residues in contact with ASN 270 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
266C LEU 2.9 12.5 + - - +
267C MET 3.8 5.2 - - - +
269C GLN* 1.3 75.6 - - - +
271C ARG* 1.3 62.2 + - - +
273C ALA 3.9 0.2 + - - -
274C PHE* 3.1 17.3 + - - +
280C VAL* 3.3 8.4 - - - +
281C PRO* 3.5 10.1 - - - +
282C ASN* 2.7 59.0 + - - +
285C THR* 3.9 10.2 - - + +
374C ARG* 3.8 7.5 - - - +
375C PRO* 3.0 33.7 + - - +
376C SER 2.8 13.0 - - - +
377C GLY* 4.1 2.2 - - - -
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Residues in contact with ARG 271 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43C LEU* 4.6 18.5 - - + +
73C VAL* 3.8 24.4 - - - +
77C PHE* 3.3 38.3 - - - +
78C ASN* 3.6 32.5 + - - +
267C MET 3.1 14.3 + - - +
268C ASP* 2.6 44.4 + - - +
270C ASN* 1.3 75.6 - - - +
272C ILE* 1.3 83.3 + - - +
274C PHE* 3.7 3.0 - - + +
275C GLN* 2.8 29.2 + - + +
376C SER 3.5 9.2 + - - -
377C GLY* 3.7 14.8 - - - +
378C ALA 5.1 0.2 - - - +
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Residues in contact with ILE 272 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78C ASN* 6.1 0.7 - - - +
143C SER* 5.9 0.2 - - - +
144C GLN* 5.7 6.7 - - - +
268C ASP* 2.7 30.0 + - - +
269C GLN* 3.2 17.2 + - + +
271C ARG* 1.3 94.8 - - - +
273C ALA* 1.3 69.7 + - - +
275C GLN* 3.2 10.9 + - - +
276C ALA* 3.5 10.1 + - + +
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Residues in contact with ALA 273 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
269C GLN 3.0 12.9 + - - +
272C ILE* 1.3 78.6 - - - +
274C PHE* 1.3 55.1 + - - +
276C ALA* 2.6 36.0 + - - +
277C GLY 3.6 2.1 + - - -
278C GLN* 3.6 19.9 + - + +
279C ASP 3.5 24.7 - - - +
280C VAL* 4.4 0.2 - - - -
281C PRO* 3.8 13.9 - - + -
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Residues in contact with PHE 274 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43C LEU* 4.6 12.1 - - + -
44C ILE* 5.8 0.4 - - + -
47C THR* 3.1 44.7 - - + +
49C PRO* 6.1 0.7 - - + -
270C ASN 3.1 18.3 + - - +
271C ARG* 3.7 4.0 - - - +
273C ALA* 1.3 77.7 - - - +
275C GLN* 1.3 60.8 + - + +
277C GLY* 2.9 20.6 + - - -
278C GLN 3.8 9.0 - - - -
280C VAL* 3.4 17.3 - - + +
376C SER* 3.3 31.2 - - - +
394C SER 4.6 3.4 - - - -
395C GLY* 3.9 31.6 - - - -
397C LYS* 5.5 9.4 - - - -
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Residues in contact with GLN 275 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43C LEU* 4.5 19.3 - - + -
47C THR* 5.4 6.1 - - + +
271C ARG* 2.8 26.2 + - + +
272C ILE* 3.5 7.9 - - - +
273C ALA 2.7 3.2 + - - -
274C PHE* 1.3 76.5 - - - +
276C ALA* 1.3 55.3 + - - +
277C GLY 3.4 1.5 + - - -
----------------------------------------------------------
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Residues in contact with ALA 276 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
272C ILE* 3.5 5.4 + - + +
273C ALA* 2.6 15.7 + - - +
275C GLN* 1.3 73.3 - - - +
277C GLY* 1.3 56.8 + - - +
278C GLN* 3.1 35.2 + - - +
----------------------------------------------------------
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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