Contacts of the helix formed by residues 246 - 273 (chain H) in PDB entry 2ACL
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 GLU 246 (chain H).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
244H SER* 2.9 5.7 + - - +
245H ARG* 1.3 110.8 + - + +
247H ALA* 1.3 62.5 + - - +
248H ARG 3.2 1.1 - - - -
249H GLN* 3.3 24.6 - - - +
250H GLN* 3.9 4.2 + - - +
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Residues in contact with ALA 247 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
237H PRO* 4.1 9.6 - - + +
239H ALA* 5.2 4.0 - - + +
241H ASP* 3.1 30.7 - - + +
244H SER* 2.9 12.7 + - - +
246H GLU* 1.3 73.7 - - - +
248H ARG* 1.3 59.0 + - - +
249H GLN 2.8 9.7 + - - -
250H GLN* 3.1 16.7 + - - +
251H ARG* 3.5 23.0 + - - +
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Residues in contact with ARG 248 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
294C LEU* 3.3 29.8 - - + +
295C ASP* 4.4 21.0 + - - -
241H ASP 5.0 2.7 + - - -
242H PRO 3.7 9.7 + - - -
243H GLN* 3.6 28.7 - - - +
244H SER* 2.8 23.4 + - - +
245H ARG 4.5 2.7 - - - -
247H ALA* 1.3 78.3 - - - +
249H GLN* 1.3 57.2 + - - +
251H ARG* 4.3 2.6 + - - +
252H PHE* 3.6 18.4 + - - +
325H ALA 4.7 4.8 + - - -
326H LYS* 4.0 49.1 - - - +
327H ALA 4.9 1.7 - - - +
328H GLY* 5.3 6.7 - - - +
431H LYS* 3.6 24.8 + - - +
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Residues in contact with GLN 249 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
245H ARG 4.9 0.4 - - - +
246H GLU* 3.3 25.2 + - - +
247H ALA 2.8 1.6 - - - -
248H ARG* 1.3 80.6 - - - +
250H GLN* 1.3 64.0 + - - +
252H PHE* 3.1 16.9 - - - +
253H ALA* 3.0 24.1 + - + +
431H LYS* 3.2 34.3 - - - +
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Residues in contact with GLN 250 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234H THR* 3.7 26.8 - - + +
235H PRO* 3.8 11.2 + - - +
236H TRP 4.9 0.2 - - - -
237H PRO* 3.3 31.4 - - + +
246H GLU 3.9 3.9 + - - +
247H ALA* 3.1 7.9 + - - +
249H GLN* 1.3 74.8 - - - +
251H ARG* 1.3 66.7 + - - +
252H PHE 3.0 1.3 - - - -
253H ALA* 3.0 8.5 + - - +
254H HIS* 2.9 21.8 + - - +
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Residues in contact with ARG 251 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236H TRP* 2.9 56.5 - - + +
237H PRO* 3.0 42.0 + - + +
238H ILE 3.7 10.7 + - - -
239H ALA 3.6 22.0 + - - -
240H PRO* 5.4 1.2 - - - +
241H ASP 5.4 1.8 + - - +
247H ALA* 3.7 17.1 + - - +
248H ARG* 4.5 3.1 - - - +
249H GLN 3.4 0.4 - - - -
250H GLN* 1.3 75.9 - - - +
252H PHE* 1.3 56.7 + - - +
254H HIS* 3.3 3.6 - - - +
255H PHE* 3.0 27.0 + - - +
326H LYS* 2.9 64.9 - - - +
327H ALA* 4.1 2.4 - - - +
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Residues in contact with PHE 252 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104H L05 3.5 32.8 - + - -
248H ARG 3.6 14.2 + - - +
249H GLN* 3.1 33.3 + - - +
251H ARG* 1.3 75.9 - - - +
253H ALA* 1.3 57.0 + - - +
255H PHE* 3.1 4.5 + - + +
256H THR* 2.7 52.8 + - + -
327H ALA 3.5 22.8 + - - +
328H GLY* 5.2 1.1 - - - -
426H LEU* 4.6 3.4 - - + -
431H LYS* 3.7 31.4 - - + -
432H LYS 3.0 32.5 - - - -
433H LEU* 4.5 5.6 - - + -
434H PRO* 5.4 0.4 - - + -
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Residues in contact with ALA 253 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234H THR* 4.4 16.8 - - + +
249H GLN* 3.0 13.4 + - + +
250H GLN* 3.0 11.5 + - - +
252H PHE* 1.3 82.4 - - - +
254H HIS* 1.3 57.8 + - - +
256H THR* 3.0 7.9 + - - -
257H GLU* 2.8 43.0 + - - +
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Residues in contact with HIS 254 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
233H VAL* 3.1 26.4 - - + +
234H THR* 3.0 29.7 + - - +
235H PRO* 4.8 2.5 - - + +
236H TRP* 3.2 37.6 + + + -
250H GLN 2.9 10.6 + - - +
251H ARG* 3.3 10.1 - - - +
253H ALA* 1.3 74.6 - - - +
255H PHE* 1.3 70.9 + + - +
257H GLU* 3.3 6.5 + - - +
258H LEU* 2.9 38.3 + - + +
317H PHE* 4.5 11.2 - + - -
319H TYR* 2.4 38.4 + + - -
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Residues in contact with PHE 255 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104H L05 3.2 69.1 + + + +
236H TRP* 4.2 11.7 - + - -
251H ARG 3.0 10.8 + - - +
252H PHE* 3.6 7.2 - - - +
254H HIS* 1.3 81.1 - + - +
256H THR* 1.3 63.6 + - + +
258H LEU* 3.2 7.6 + - + +
259H ALA 3.1 15.9 + - - -
313H PHE* 3.9 14.4 - + - -
319H TYR* 4.5 14.6 - + + -
324H PHE* 3.3 47.1 - + - -
327H ALA* 3.7 26.2 - - + +
329H LEU* 4.1 15.5 - - + -
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Residues in contact with THR 256 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104H L05 3.3 17.7 - - + +
252H PHE* 2.7 51.1 + - + +
253H ALA* 3.0 17.7 + - - -
255H PHE* 1.3 76.5 - - - +
257H GLU* 1.3 56.7 + - - +
259H ALA* 2.9 18.6 + - - +
260H ILE* 3.0 17.3 + - - +
433H LEU* 4.5 4.7 - - + -
434H PRO* 3.7 36.4 - - + +
437H LEU* 3.6 6.0 - - + +
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Residues in contact with GLU 257 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232H ARG 4.0 10.0 - - - +
233H VAL* 4.7 10.3 - - + -
234H THR* 2.7 51.3 + - - -
253H ALA* 2.8 32.1 + - - +
254H HIS* 3.7 4.5 - - - +
256H THR* 1.3 74.8 - - - +
258H LEU* 1.3 62.3 + - - +
260H ILE* 3.3 16.9 + - + +
261H VAL* 3.2 26.7 + - - +
434H PRO* 6.0 2.5 - - + -
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Residues in contact with LEU 258 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104H L05 4.0 21.9 - - + +
233H VAL* 4.1 22.2 - - + -
254H HIS* 2.9 41.0 + - + +
255H PHE* 3.5 11.0 - - + +
256H THR 3.1 0.2 - - - -
257H GLU* 1.3 76.9 - - - +
259H ALA* 1.3 62.1 + - - +
261H VAL* 3.6 6.6 + - + +
262H SER* 3.1 20.8 + - - -
313H PHE* 4.1 19.1 - - + -
314H LEU* 3.3 35.0 - - + -
317H PHE* 4.9 4.9 - - + -
319H TYR* 3.8 16.4 - - + -
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Residues in contact with ALA 259 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104H L05 3.6 46.2 - - + +
255H PHE 3.1 4.2 + - - -
256H THR 2.9 12.7 + - - +
258H LEU* 1.3 77.1 - - - +
260H ILE* 1.3 57.2 + - - +
262H SER* 3.1 4.7 - - - -
263H VAL* 2.9 31.5 + - - +
296H MET* 3.4 5.7 - - + +
437H LEU* 3.7 17.5 - - + -
441H TRP* 4.5 1.1 - - + -
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Residues in contact with ILE 260 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
454G MET* 5.7 2.5 - - + -
256H THR 3.0 12.7 + - - +
257H GLU* 3.7 15.0 - - + +
258H LEU 3.3 0.2 - - - -
259H ALA* 1.3 73.6 - - - +
261H VAL* 1.3 67.5 + - + +
262H SER 3.0 1.8 - - - -
263H VAL* 3.1 8.6 + - - +
264H GLN* 3.0 24.3 + - + +
434H PRO* 3.5 31.0 - - + -
436H LEU* 4.0 26.1 - - + +
437H LEU* 4.0 15.3 - - + -
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Residues in contact with VAL 261 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104H L05 6.4 0.7 - - - -
226H SER* 2.9 34.5 + - - +
229H ASP* 4.1 35.2 - - + +
233H VAL* 4.9 8.1 - - + -
257H GLU 3.2 16.5 + - - +
258H LEU* 4.0 8.1 - - + +
259H ALA 3.3 0.2 - - - -
260H ILE* 1.3 79.9 - - + +
262H SER* 1.3 57.8 + - - +
264H GLN* 3.8 7.2 - - - +
265H GLU* 3.0 30.7 + - - +
314H LEU* 4.6 14.6 - - + -
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Residues in contact with SER 262 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104H L05 3.9 22.9 - - - -
258H LEU 3.1 15.4 + - - -
259H ALA 3.1 13.5 - - - -
261H VAL* 1.3 76.4 - - - +
263H VAL* 1.3 57.8 + - - +
265H GLU* 3.4 9.7 + - - +
266H ILE* 2.8 39.3 + - - +
296H MET* 3.4 28.5 - - - +
299H GLU* 5.8 2.9 - - - +
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Residues in contact with VAL 263 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
451G LEU* 4.5 13.2 - - + -
454G MET* 4.3 7.2 - - - -
259H ALA 2.9 15.3 + - - +
260H ILE 3.1 5.4 + - - +
262H SER* 1.3 72.5 - - - +
264H GLN* 1.3 61.5 + - - +
266H ILE* 3.2 9.8 + - + +
267H VAL* 3.0 40.3 + - + +
292H ALA* 5.1 7.6 - - + -
296H MET* 3.4 18.6 - - + -
436H LEU* 3.8 22.2 - - + -
437H LEU* 4.2 9.0 - - + -
440H ILE* 4.2 21.5 - - + -
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Residues in contact with GLN 264 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
453G GLU* 5.0 2.6 - - - +
454G MET* 3.2 43.8 + - + +
457G ALA* 4.9 8.7 - - - +
229H ASP* 5.9 5.8 - - - +
260H ILE* 3.0 17.7 + - + +
261H VAL* 3.8 7.6 - - + +
263H VAL* 1.3 76.0 - - - +
265H GLU* 1.3 62.7 + - - +
267H VAL* 3.2 4.3 + - - +
268H ASP* 3.1 38.1 + - - +
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Residues in contact with GLU 265 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104H L05 5.9 2.8 - - - +
219H GLN* 5.2 3.2 - - - +
222H CYS* 3.8 26.1 - - + +
223H ASN* 3.7 21.3 + - - +
226H SER* 3.0 25.1 + - - +
261H VAL* 3.0 21.1 + - - +
262H SER* 3.5 9.0 - - - +
263H VAL 3.3 0.2 - - - -
264H GLN* 1.3 78.2 - - - +
266H ILE* 1.3 60.2 + - + +
268H ASP* 3.7 13.3 + - - +
269H PHE* 3.4 18.4 + - - +
299H GLU* 5.5 6.8 - - - +
303H ARG* 4.6 8.7 + - - -
314H LEU* 4.3 7.6 - - - +
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Residues in contact with ILE 266 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
262H SER* 2.8 40.0 + - - +
263H VAL* 3.6 9.4 - - + +
264H GLN 3.2 0.2 - - - -
265H GLU* 1.3 77.2 - - + +
267H VAL* 1.3 60.2 + - - +
268H ASP 3.3 0.2 - - - -
269H PHE* 3.4 7.5 - - + +
270H ALA* 3.1 25.6 + - - +
288H LEU* 3.9 18.4 - - + -
291H SER* 5.3 0.7 - - - +
292H ALA* 3.8 24.2 - - + +
295H VAL* 3.7 46.2 - - + -
296H MET* 3.9 7.0 - - + +
299H GLU* 6.0 2.5 - - + -
362H ILE* 4.5 7.2 - - + -
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Residues in contact with VAL 267 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
451G LEU* 4.9 5.8 - - + -
454G MET* 3.9 41.3 - - + +
455G LEU* 3.6 28.5 - - + -
263H VAL* 3.0 24.1 + - + +
264H GLN* 3.2 8.0 + - - +
266H ILE* 1.3 74.9 - - + +
268H ASP* 1.3 69.8 + - - +
270H ALA* 3.5 2.5 + - - +
271H LYS* 3.2 25.7 + - - +
288H LEU* 4.3 20.6 - - + -
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Residues in contact with ASP 268 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222H CYS* 3.1 20.3 - - - +
225H ARG* 2.9 43.1 + - - +
226H SER* 6.0 0.3 - - - -
264H GLN* 3.1 32.6 + - - +
265H GLU* 3.7 11.7 - - - +
266H ILE 3.3 0.2 - - - -
267H VAL* 1.3 78.9 - - - +
269H PHE* 1.3 66.0 + - - +
271H LYS* 3.3 16.2 + - - +
272H GLN* 3.3 17.8 + - - +
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Residues in contact with PHE 269 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215H LEU* 3.9 16.6 - - + -
218H ALA* 4.2 17.0 - - + -
219H GLN* 3.3 47.3 - - + -
222H CYS* 3.5 8.0 - - + -
265H GLU 3.4 10.1 + - - +
266H ILE* 3.4 12.1 - - + +
267H VAL 3.2 0.2 - - - -
268H ASP* 1.3 77.0 - - - +
270H ALA* 1.3 68.6 + - - +
272H GLN* 2.7 19.1 + - - +
273H LEU* 3.2 40.9 + - + +
355H ALA* 4.3 11.9 - - + -
358H ILE* 4.0 20.4 - - + -
359H ALA 4.5 3.8 - - - -
362H ILE* 4.0 15.9 - - + -
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Residues in contact with ALA 270 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
266H ILE 3.1 13.2 + - - +
267H VAL 3.9 4.0 - - - +
269H PHE* 1.3 78.4 - - - +
271H LYS* 1.3 55.1 + - - +
273H LEU* 2.6 45.8 + - + +
276H PHE* 3.2 46.5 - - + +
288H LEU* 3.8 13.2 - - + -
362H ILE* 4.8 3.1 - - + -
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Residues in contact with LYS 271 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
454G MET 3.1 21.4 + - - -
455G LEU* 3.0 41.4 + - + +
457G ALA* 3.6 18.2 - - - +
225H ARG* 6.2 0.4 - - - +
267H VAL* 3.2 17.5 + - + +
268H ASP* 3.3 17.3 + - - +
269H PHE 3.1 0.6 - - - -
270H ALA* 1.3 78.3 - - - +
272H GLN* 1.3 63.0 + - - +
273H LEU 3.3 5.2 + - - +
276H PHE* 3.8 7.2 - - + -
277H LEU* 3.6 41.6 - - + +
----------------------------------------------------------
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Residues in contact with GLN 272 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214H LYS* 2.7 46.2 + - + +
215H LEU* 5.7 1.1 - - - +
218H ALA* 3.4 33.0 - - + +
221H GLN* 3.4 29.0 + - - +
222H CYS* 5.2 0.4 - - - -
225H ARG* 4.7 4.9 - - - +
268H ASP 3.3 10.1 + - - +
269H PHE 2.7 15.9 + - - +
271H LYS* 1.3 76.3 - - - +
273H LEU* 1.3 60.1 + - + +
274H PRO* 3.1 6.6 - - - +
----------------------------------------------------------
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Residues in contact with LEU 273 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215H LEU* 3.5 24.7 - - + -
269H PHE* 3.4 37.7 - - + +
270H ALA* 2.6 35.8 + - + +
271H LYS 4.1 4.1 - - - +
272H GLN* 1.3 71.3 - - - +
274H PRO* 1.3 71.8 - - + +
275H GLY 3.2 0.5 + - - -
276H PHE* 2.9 25.5 + - + +
277H LEU 4.3 1.0 + - - -
359H ALA* 4.3 10.1 - - + -
362H ILE* 4.1 26.5 - - + -
363H PHE* 4.1 20.9 - - + -
383H TYR* 4.5 5.6 - - + +
----------------------------------------------------------
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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