Contacts of the helix formed by residues 294 - 322 (chain A) in PDB entry 1MUW
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 ASP 294 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29A THR 5.9 0.4 - - - -
30A ARG* 4.0 8.1 - - - +
292A THR 4.0 1.4 + - - -
293A GLU* 1.4 75.1 + - - +
295A ILE* 1.3 67.9 + - + +
296A ASP* 3.0 24.7 + - - +
297A GLY 2.9 17.5 + - - +
298A VAL* 3.0 11.8 + - - +
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Residues in contact with ILE 295 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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17A VAL 5.3 0.2 - - - +
30A ARG* 4.2 7.5 - - - +
31A PRO* 6.3 3.6 - - + -
33A LEU* 4.1 20.9 - - + -
294A ASP* 1.3 79.1 - - + +
296A ASP* 1.4 74.6 + - - +
298A VAL* 3.2 25.6 + - + +
299A TRP* 3.2 51.3 + - + +
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Residues in contact with ASP 296 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
294A ASP* 3.0 14.3 + - - +
295A ILE* 1.4 86.4 - - - +
297A GLY* 1.3 58.2 + - - +
299A TRP* 3.3 11.1 + - - +
300A ALA* 3.0 26.9 + - - +
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Residues in contact with GLY 297 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
293A GLU* 3.8 30.4 - - - +
294A ASP* 2.9 15.1 + - - -
296A ASP* 1.3 74.8 - - - +
298A VAL* 1.3 58.6 + - - +
300A ALA* 3.7 8.2 - - - +
301A SER* 2.9 31.7 + - - -
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Residues in contact with VAL 298 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A VAL* 3.5 42.2 - - + +
30A ARG* 3.3 46.4 - - - +
289A PRO* 3.9 16.6 - - + +
293A GLU* 4.3 0.4 - - - +
294A ASP 3.0 10.2 + - - +
295A ILE* 3.3 21.1 - - + +
297A GLY* 1.3 75.1 - - - +
299A TRP* 1.3 68.1 + - + +
301A SER* 3.3 3.6 + - - -
302A ALA* 3.0 26.9 + - - +
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Residues in contact with TRP 299 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A VAL* 3.7 40.6 - - + -
33A LEU* 4.0 23.1 - - + -
37A GLU* 5.0 2.3 + - + -
38A THR* 4.1 10.8 - - - -
41A ARG* 3.6 46.3 - - + +
42A LEU* 3.8 14.1 - - + -
45A LEU* 3.8 30.4 - - + +
295A ILE* 3.2 44.1 + - + +
296A ASP* 3.3 8.5 + - - +
298A VAL* 1.3 76.0 - - + +
300A ALA* 1.3 62.0 + - - +
302A ALA* 3.4 2.5 + - + +
303A ALA* 2.9 29.8 + - - +
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Residues in contact with ALA 300 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
258A ARG* 5.2 0.2 - - - -
296A ASP 3.0 17.3 + - - +
297A GLY* 3.7 9.2 - - - +
298A VAL 3.3 0.2 - - - -
299A TRP* 1.3 77.9 - - - +
301A SER* 1.3 56.2 + - - +
303A ALA* 3.4 6.2 + - - +
304A GLY* 2.9 25.1 + - - -
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Residues in contact with SER 301 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
258A ARG* 3.7 25.8 + - - +
287A PHE* 3.2 21.7 - - - -
289A PRO* 4.0 14.6 - - - +
290A PRO* 4.3 8.3 - - - +
293A GLU* 5.8 1.6 - - - -
297A GLY 2.9 17.8 + - - -
298A VAL 3.7 4.0 - - - -
300A ALA* 1.3 75.9 - - - +
302A ALA* 1.3 62.9 + - - +
304A GLY* 3.1 2.1 + - - -
305A CYS* 3.1 22.0 + - - -
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Residues in contact with ALA 302 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12A PHE* 3.5 29.2 - - + -
17A VAL* 3.9 18.2 - - + -
42A LEU* 4.5 2.7 - - + -
45A LEU* 4.1 13.2 - - + -
287A PHE* 3.6 10.8 - - - -
298A VAL 3.0 16.3 + - - +
299A TRP* 3.7 5.6 - - + +
301A SER* 1.3 77.0 - - - +
303A ALA* 1.3 62.2 + - - +
305A CYS* 3.2 18.6 + - - +
306A MET* 3.5 5.7 + - - +
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Residues in contact with ALA 303 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4A PRO* 5.5 1.8 - - - +
45A LEU* 4.2 17.6 - - + +
299A TRP 2.9 18.7 + - - +
300A ALA* 3.6 6.7 - - - +
302A ALA* 1.3 74.8 - - - +
304A GLY* 1.3 58.7 + - - +
306A MET* 3.2 16.5 + - + +
307A ARG* 2.9 28.7 + - - +
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Residues in contact with GLY 304 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
258A ARG* 4.3 13.2 - - - -
300A ALA 2.9 15.2 + - - -
301A SER 3.1 4.9 + - - -
303A ALA* 1.3 74.1 - - - +
305A CYS* 1.3 65.6 + - - +
307A ARG* 4.2 8.7 - - - -
308A ASN* 2.9 35.2 + - - -
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Residues in contact with CYS 305 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12A PHE* 4.3 0.4 - - - -
258A ARG* 3.7 13.4 - - - +
259A PHE* 3.6 31.2 - - - -
285A PHE* 3.6 44.3 - - + -
287A PHE* 3.8 26.5 - - - -
301A SER 3.1 12.6 + - - -
302A ALA 3.3 8.3 - - - +
304A GLY* 1.3 75.4 - - - +
306A MET* 1.3 62.5 + - - +
308A ASN* 3.5 2.1 + - - +
309A TYR* 3.2 16.8 + - - +
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Residues in contact with MET 306 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4A PRO* 3.8 20.6 - - + -
10A PHE* 3.5 47.3 - - + -
12A PHE* 3.9 19.1 - - + -
42A LEU* 5.7 0.2 - - + -
45A LEU* 3.6 38.1 - - + +
47A ALA* 4.2 10.8 - - + +
285A PHE* 3.8 15.3 - - + -
302A ALA 3.5 14.1 + - - +
303A ALA* 3.2 11.0 + - - +
305A CYS* 1.3 77.6 - - - +
307A ARG* 1.3 68.3 + - - +
309A TYR* 3.2 2.8 + - - +
310A LEU* 3.0 29.3 + - - +
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Residues in contact with ARG 307 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1A SER 3.7 21.2 + - - -
2A TYR* 3.9 39.1 + - + +
4A PRO* 5.2 1.7 - - + +
303A ALA 2.9 18.3 + - - +
304A GLY* 3.8 9.6 - - - +
306A MET* 1.3 76.7 - - - +
308A ASN* 1.4 61.1 + - - +
310A LEU* 3.1 4.0 + - - +
311A ILE* 2.9 49.2 + - + +
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Residues in contact with ASN 308 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
258A ARG* 4.0 19.0 + - - +
259A PHE* 2.9 28.5 - - + +
260A GLY* 4.0 15.4 - - - -
264A LEU* 6.5 0.9 - - + -
304A GLY* 2.9 20.7 + - - +
305A CYS 4.0 0.7 - - - +
307A ARG* 1.4 77.7 - - - +
309A TYR* 1.3 67.7 + - - +
311A ILE* 3.4 16.9 + - - +
312A LEU* 3.0 34.4 + - + +
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Residues in contact with TYR 309 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A PHE* 3.7 26.5 - + + -
245A LEU* 4.0 24.5 - - + -
259A PHE* 3.8 25.8 - + + -
271A VAL* 3.8 23.6 - - + +
274A LEU* 3.9 26.2 - - + +
275A GLU* 2.6 28.1 + - - +
279A TYR* 5.7 1.0 - - - -
283A ARG* 3.3 32.9 + - + +
285A PHE* 4.5 0.7 - - + -
305A CYS 3.2 13.1 + - - +
306A MET 3.2 8.3 + - - +
308A ASN* 1.3 77.1 - - - +
310A LEU* 1.3 59.8 + - + +
312A LEU* 3.3 3.4 + - - +
313A LYS* 2.9 31.7 + - + +
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Residues in contact with LEU 310 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2A TYR* 3.5 41.6 - - + +
3A GLN 3.8 3.1 - - - +
4A PRO* 3.6 29.6 - - + -
8A ASP* 4.0 19.7 - - - +
10A PHE* 3.9 16.6 - - + -
283A ARG* 5.1 1.1 - - - +
306A MET 3.0 17.6 + - - +
307A ARG 3.1 6.0 + - - +
309A TYR* 1.3 74.9 - - + +
311A ILE* 1.3 65.4 + - - +
313A LYS* 3.4 20.8 + - + +
314A GLU* 3.1 21.8 + - - +
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Residues in contact with ILE 311 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2A TYR* 3.6 32.5 - - + -
307A ARG* 2.9 46.9 + - + +
308A ASN* 3.9 16.8 - - - +
310A LEU* 1.3 73.5 - - - +
312A LEU* 1.3 69.8 + - + +
314A GLU* 3.1 4.7 + - - +
315A ARG* 3.0 52.5 + - + +
382A LEU* 5.8 1.1 - - + +
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Residues in contact with LEU 312 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
259A PHE* 4.1 12.8 - - + -
260A GLY* 4.9 3.6 - - - -
264A LEU* 4.2 14.4 - - + -
267A ALA* 3.7 37.2 - - + +
268A PHE* 4.1 15.2 - - + -
271A VAL* 4.0 13.9 - - + +
308A ASN* 3.0 24.6 + - + +
309A TYR 3.8 3.1 - - - +
311A ILE* 1.3 81.1 - - + +
313A LYS* 1.3 58.0 + - - +
315A ARG* 3.9 3.0 - - - +
316A ALA* 2.8 32.9 + - - +
382A LEU* 3.5 32.1 - - + -
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Residues in contact with LYS 313 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8A ASP* 4.6 8.9 + - - -
271A VAL* 3.6 15.4 - - + +
275A GLU* 3.7 33.5 + - + +
283A ARG* 3.6 23.3 - - - +
309A TYR* 2.9 22.8 + - + +
310A LEU* 3.6 17.5 - - + +
312A LEU* 1.3 74.7 - - - +
314A GLU* 1.3 63.6 + - - +
316A ALA* 4.0 1.9 - - - +
317A ALA* 3.0 26.8 + - + +
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Residues in contact with GLU 314 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1A SER* 5.2 2.6 + - - -
2A TYR* 2.4 39.4 + - + -
310A LEU 3.1 12.9 + - - +
311A ILE 3.1 6.9 + - - +
313A LYS* 1.3 77.1 - - - +
315A ARG* 1.3 76.4 + - - +
317A ALA* 3.8 5.3 - - - +
318A ALA* 3.0 30.0 + - + +
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Residues in contact with ARG 315 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2A TYR* 3.7 17.6 + - - -
268A PHE* 3.9 16.3 - - + -
311A ILE* 3.0 37.1 + - + +
312A LEU* 3.3 5.4 + - - +
314A GLU* 1.3 94.1 + - - +
316A ALA* 1.3 58.6 + - - +
318A ALA* 3.4 7.4 + - - +
319A PHE* 2.9 28.2 + - - +
381A HIS* 3.3 22.9 - - - +
382A LEU* 2.9 32.4 + - + +
383A LEU 3.9 2.0 - - - -
384A GLY* 3.4 22.0 - - - +
386A ARG 5.5 1.8 - - - -
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Residues in contact with ALA 316 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268A PHE* 3.6 17.8 - - + +
271A VAL* 4.8 0.9 - - + -
272A ASP* 3.8 41.1 - - + +
275A GLU* 6.1 1.8 - - + -
312A LEU 2.8 18.0 + - - +
313A LYS* 4.0 4.3 - - - +
315A ARG* 1.3 73.6 - - - +
317A ALA* 1.3 65.8 + - - +
319A PHE* 3.3 2.9 + - - +
320A ARG* 3.0 28.8 + - - +
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Residues in contact with ALA 317 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
313A LYS* 3.0 21.6 + - + +
314A GLU* 3.8 4.3 - - - +
316A ALA* 1.3 75.9 - - - +
318A ALA* 1.3 58.7 + - - +
320A ARG* 3.3 5.4 + - - +
321A ALA* 3.0 32.4 + - - +
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Residues in contact with ALA 318 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
314A GLU* 3.0 19.7 + - + +
315A ARG* 3.7 8.7 - - - +
317A ALA* 1.3 74.5 - - - +
319A PHE* 1.3 64.6 + - - +
321A ALA* 3.4 5.8 + - - +
322A ASP* 3.1 25.1 + - - +
381A HIS* 3.5 18.0 - - + +
386A ARG* 5.5 2.0 - - - +
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Residues in contact with PHE 319 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268A PHE* 4.3 11.7 - + + -
269A TRP* 4.0 16.8 - + - -
272A ASP* 4.5 3.8 - - - -
315A ARG 2.9 17.7 + - - +
316A ALA* 3.4 6.3 - - - +
318A ALA* 1.3 79.7 - - - +
320A ARG* 1.3 99.3 + - + +
322A ASP 3.3 2.8 + - - -
325A VAL* 3.1 61.0 - - + +
329A LEU* 5.4 0.9 - - + -
374A LEU* 4.2 19.1 - - + -
377A LEU 4.2 0.2 - - - -
378A ALA* 3.5 42.4 - - + -
381A HIS* 3.6 19.0 + + + -
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Residues in contact with ARG 320 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
269A TRP* 4.0 14.6 - - - -
272A ASP* 2.7 43.6 + - - +
276A SER* 5.7 8.4 - - - -
316A ALA 3.0 15.3 + - - +
317A ALA* 4.0 5.2 - - - +
319A PHE* 1.3 91.5 - - + +
321A ALA* 1.3 59.7 + - - +
325A VAL* 4.7 3.3 - - - +
326A GLN* 3.7 21.0 - - - +
329A LEU* 3.7 37.6 - - - +
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Residues in contact with ALA 321 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
317A ALA 3.0 18.5 + - - +
318A ALA* 4.0 5.2 - - - +
320A ARG* 1.3 76.0 - - - +
322A ASP* 1.3 64.8 + - - +
323A PRO* 3.2 8.3 - - - +
326A GLN* 3.2 11.8 - - - +
----------------------------------------------------------
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Residues in contact with ASP 322 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
318A ALA 3.1 17.3 + - - +
319A PHE 3.3 9.3 + - - +
321A ALA* 1.3 76.4 - - - +
323A PRO* 1.3 73.4 - - - +
324A GLU* 2.8 28.0 + - - +
325A VAL* 3.0 20.0 + - + +
326A GLN* 3.0 12.7 + - - +
381A HIS* 2.7 23.7 + - + +
386A ARG* 2.7 30.3 + - - -
----------------------------------------------------------
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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