Contacts of the helix formed by residues 266 - 292 (chain A) in PDB entry 2W5X
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 ASN 266 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
224A GLU* 4.9 3.8 + - - -
261A GLY 3.1 6.5 + - - +
264A ALA* 4.0 20.7 - - + +
265A ASN* 1.3 75.1 - - - +
267A ALA* 1.3 58.5 + - - +
268A SER 3.3 0.2 + - - -
269A TYR* 3.1 34.4 + - + +
270A LEU* 3.0 28.9 + - - +
332A PHE* 3.8 2.4 - - - -
1380A MG 2.6 29.5 - - - -
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Residues in contact with ALA 267 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
265A ASN 3.9 3.6 + - - -
266A ASN* 1.3 71.4 + - - +
268A SER* 1.3 60.9 + - - +
270A LEU* 3.4 2.4 + - - +
271A ILE* 2.9 40.2 + - + +
307A PHE* 4.6 1.8 - - + -
330A PRO* 3.9 34.8 - - + +
332A PHE* 4.0 15.9 - - + -
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Residues in contact with SER 268 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
224A GLU* 2.7 25.4 + - - +
266A ASN* 3.3 1.2 + - - -
267A ALA* 1.3 79.3 - - - +
269A TYR* 1.3 55.1 + - - +
271A ILE* 4.2 6.2 - - - +
272A SER* 2.8 33.8 + - - -
1380A MG 2.5 26.8 - - - -
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Residues in contact with TYR 269 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222A THR* 3.6 21.6 - - + +
224A GLU* 4.2 11.7 - - + +
257A GLN* 2.8 28.7 + - - +
260A TRP* 3.4 26.7 - - + -
261A GLY* 3.7 20.9 - - - -
264A ALA* 4.9 5.4 - - + -
266A ASN* 3.1 36.7 + - + +
268A SER* 1.3 78.3 + - - +
270A LEU* 1.3 64.0 + - - +
272A SER* 3.1 5.9 + - - -
273A GLU* 3.0 60.1 + - + +
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Residues in contact with LEU 270 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A GLY 5.8 0.2 - - - +
49A GLN* 3.7 39.3 - - + +
52A SER* 4.6 1.3 - - - +
258A ILE* 4.0 20.2 - - + +
261A GLY* 4.0 9.6 - - - -
262A GLY* 3.8 26.2 - - - +
266A ASN 3.0 17.0 + - - +
267A ALA* 3.7 5.2 - - - +
269A TYR* 1.3 77.7 - - - +
271A ILE* 1.3 65.1 + - + +
273A GLU* 3.3 6.2 + - - +
274A ILE* 3.0 30.7 + - + +
307A PHE* 3.8 29.6 - - + -
332A PHE* 3.9 5.2 - - + -
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Residues in contact with ILE 271 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A SER* 4.0 17.9 - - - +
56A PHE* 3.6 54.3 - - + +
267A ALA* 2.9 29.4 + - + +
268A SER* 4.2 4.9 - - - +
270A LEU* 1.3 73.2 - - + +
272A SER* 1.3 57.9 + - - +
274A ILE* 3.3 7.7 + - - +
275A ASN* 2.9 42.9 + - - +
307A PHE* 4.2 18.6 - - + -
330A PRO* 4.4 9.4 - - + -
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Residues in contact with SER 272 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
223A MET* 3.6 27.1 - - - +
224A GLU* 3.8 21.4 - - - +
268A SER 2.8 22.9 + - - -
269A TYR* 3.1 9.7 + - - -
271A ILE* 1.3 76.8 - - - +
273A GLU* 1.3 62.6 + - - +
275A ASN* 3.9 9.4 - - - +
276A ASP* 3.3 16.5 + - - +
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Residues in contact with GLU 273 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130A THR* 4.8 0.2 + - - -
222A THR* 3.5 11.3 - - - -
223A MET* 2.8 34.2 + - - +
227A ARG* 2.9 31.8 + - - -
255A GLY* 5.7 1.4 - - - -
257A GLN* 3.6 19.4 + - - +
258A ILE* 3.8 22.2 - - + +
269A TYR* 3.0 43.9 + - + +
270A LEU 3.7 3.8 - - - +
272A SER* 1.3 78.5 + - - +
274A ILE* 1.3 57.3 + - - +
276A ASP* 3.4 6.2 + - - +
277A PHE* 3.0 23.7 + - - +
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Residues in contact with ILE 274 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A ALA* 3.8 24.2 - - + -
49A GLN* 3.4 29.8 - - + +
50A ILE* 3.7 11.0 - - - +
52A SER* 3.5 22.2 - - - +
53A THR* 3.9 12.9 - - + +
63A TYR* 4.1 14.6 - - + +
258A ILE* 3.7 20.4 - - + +
270A LEU* 3.0 18.8 + - + +
271A ILE* 3.4 10.5 - - - +
273A GLU* 1.3 73.9 - - - +
275A ASN* 1.3 64.3 + - - +
277A PHE* 3.2 3.3 + - + +
278A ASP* 2.9 27.4 + - - +
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Residues in contact with ASN 275 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A THR* 3.6 17.5 - - - +
56A PHE 3.2 24.1 + - - +
57A LYS* 3.4 35.6 - - + +
271A ILE* 2.9 32.2 + - - +
272A SER* 3.9 8.6 - - - +
274A ILE* 1.3 73.4 - - - +
276A ASP* 1.3 66.0 + - - +
278A ASP* 3.3 4.7 + - - -
279A ASP* 3.1 26.3 + - - +
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Residues in contact with ASP 276 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
223A MET* 3.5 32.4 - - + +
227A ARG* 2.7 20.8 + - - -
228A GLY 3.7 9.5 - - - +
229A ASN* 4.3 10.4 - - - +
231A LEU* 3.6 26.7 - - - +
232A SER* 4.6 1.9 + - - -
272A SER 3.3 12.3 + - - +
273A GLU 3.4 9.0 - - - +
274A ILE 3.2 0.4 - - - -
275A ASN* 1.3 76.3 - - - +
277A PHE* 1.3 65.0 + - - +
279A ASP* 3.0 24.6 + - - +
280A ALA* 3.1 11.1 + - - +
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Residues in contact with PHE 277 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A LEU* 3.8 28.9 - - + -
41A ILE 3.4 26.5 - - - -
42A SER* 3.4 31.9 - - - -
63A TYR* 3.5 24.0 - - - -
231A LEU* 4.2 13.0 - - + -
253A SER 4.4 2.0 - - - -
255A GLY* 3.7 23.8 - - - -
258A ILE* 3.9 9.4 - - + -
273A GLU 3.0 14.6 + - - +
274A ILE* 3.2 10.5 + - + +
276A ASP* 1.3 75.5 + - - +
278A ASP* 1.3 58.2 + - - +
280A ALA* 2.9 21.2 + - + +
281A ILE* 3.0 20.2 + - + +
298A VAL* 3.7 16.6 - - + -
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Residues in contact with ASP 278 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A THR* 4.5 7.0 - - + -
57A LYS* 2.6 28.2 + - - +
61A PRO* 3.4 8.8 - - - +
62A ASN* 2.8 54.4 + - - +
63A TYR* 3.1 34.0 + - + -
274A ILE 2.9 17.0 + - - +
275A ASN 3.7 2.9 - - - +
276A ASP 3.2 0.4 - - - -
277A PHE* 1.3 72.7 - - - +
279A ASP* 1.3 64.7 + - - +
281A ILE* 3.3 12.2 + - - +
282A GLY 3.1 8.1 + - - -
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Residues in contact with ASP 279 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A LYS* 2.7 33.8 + - - -
62A ASN* 4.2 4.5 + - - +
229A ASN* 5.6 6.1 - - + +
232A SER* 3.3 10.5 - - - +
275A ASN 3.1 11.6 + - - +
276A ASP* 3.0 18.5 + - - +
278A ASP* 1.3 76.1 - - - +
280A ALA* 1.3 63.7 + - - +
282A GLY* 3.1 2.9 + - - -
283A THR* 3.0 23.9 + - - -
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Residues in contact with ALA 280 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A LEU* 4.0 13.5 - - + +
231A LEU* 3.8 34.5 - - + +
232A SER* 3.3 14.5 + - - +
235A THR* 5.0 7.1 - - - +
276A ASP 3.1 5.3 + - - +
277A PHE* 2.9 16.2 + - + +
279A ASP* 1.3 76.3 - - - +
281A ILE* 1.3 61.9 + - - +
283A THR* 3.2 5.5 + - - -
284A ALA* 3.0 23.2 + - - +
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Residues in contact with ILE 281 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A LEU* 3.8 11.9 - - + -
62A ASN* 3.9 9.6 - - + +
63A TYR* 3.6 40.8 - - + -
66A PHE* 3.7 16.8 - - + -
277A PHE* 3.0 32.0 + - + +
278A ASP* 3.4 20.6 - - - +
279A ASP 3.2 0.2 - - - -
280A ALA* 1.3 76.4 - - - +
282A GLY* 1.3 57.4 + - - +
284A ALA* 3.2 2.8 + - - +
285A LEU* 2.8 56.3 + - + +
296A VAL* 5.8 0.2 - - + -
298A VAL* 4.0 15.0 - - + -
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Residues in contact with GLY 282 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A ASN* 3.4 30.0 - - - +
65A GLN* 4.6 1.6 + - - -
278A ASP 3.1 4.9 + - - -
279A ASP 3.1 6.4 + - - -
281A ILE* 1.3 80.6 - - - +
283A THR* 1.3 54.9 + - - +
285A LEU* 4.0 4.2 - - - +
286A ALA* 2.9 33.3 + - - +
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Residues in contact with THR 283 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232A SER* 3.2 38.2 + - - +
235A THR* 4.8 6.7 - - + -
236A ASP* 3.3 40.5 + - + +
239A ILE* 5.1 1.3 - - + +
279A ASP 3.0 6.5 + - - -
280A ALA* 3.5 9.0 - - - -
281A ILE 3.2 0.2 - - - -
282A GLY* 1.3 76.0 - - - +
284A ALA* 1.3 62.9 + - - +
286A ALA* 3.8 4.9 - - - +
287A PHE* 3.3 21.7 + - - +
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Residues in contact with ALA 284 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A ILE* 4.1 27.7 - - + +
40A LEU* 3.9 20.4 - - + -
235A THR* 5.0 3.8 - - + -
239A ILE* 4.8 3.6 - - - -
280A ALA 3.0 17.0 + - - +
281A ILE 3.6 3.4 - - - +
283A THR* 1.3 77.8 - - - +
285A LEU* 1.3 58.5 + - - +
287A PHE* 3.4 5.5 + - - +
288A ALA* 2.9 28.9 + - - +
296A VAL* 4.0 10.8 - - + +
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Residues in contact with LEU 285 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A ASN 4.0 2.5 - - - +
65A GLN* 3.6 51.1 - - + +
66A PHE* 3.9 16.2 - - + -
281A ILE* 2.8 39.6 + - + +
282A GLY 4.0 2.5 - - - +
284A ALA* 1.3 73.5 - - - +
286A ALA* 1.3 62.3 + - - +
288A ALA* 4.2 1.6 - - - -
289A LYS* 2.8 38.6 + - + +
296A VAL* 4.0 17.9 - - + -
347A TYR* 3.9 34.5 - - + -
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Residues in contact with ALA 286 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A GLN* 5.4 0.6 + - - +
282A GLY 2.9 17.9 + - - +
283A THR* 3.8 6.3 - - - +
285A LEU* 1.3 77.7 - - - +
287A PHE* 1.3 63.2 + - - +
289A LYS* 4.3 5.0 - - - +
290A LYS* 3.4 19.6 + - - +
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Residues in contact with PHE 287 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A ASN* 5.0 0.2 - - - -
38A ILE* 4.5 2.2 - - + -
236A ASP* 5.3 4.0 - - - +
239A ILE* 3.5 43.5 - - + -
243A SER* 5.2 6.1 - - - -
249A PHE* 3.6 23.8 - + - -
283A THR 3.3 11.1 + - - +
284A ALA 3.8 5.2 - - - +
285A LEU 3.2 0.2 - - - -
286A ALA* 1.3 77.6 - - - +
288A ALA* 1.3 63.1 + - - +
290A LYS* 3.2 7.3 + - + +
291A ASP* 2.8 51.8 + - + +
294A THR* 3.5 26.5 - - + -
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Residues in contact with ALA 288 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
284A ALA 2.9 18.6 + - - +
285A LEU* 3.8 4.7 - - - +
287A PHE* 1.3 83.2 - - - +
289A LYS* 1.3 55.9 - - - +
291A ASP* 3.8 0.6 - - - +
292A GLY* 2.8 31.2 + - - -
293A ASN 4.5 0.3 + - - -
294A THR* 3.9 25.3 + - + +
296A VAL* 3.5 24.2 - - + -
347A TYR* 4.4 11.9 - - + -
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Residues in contact with LYS 289 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A GLN* 2.8 43.3 + - - +
285A LEU* 2.8 26.1 + - - +
286A ALA* 4.3 4.9 - - - +
288A ALA* 1.3 73.0 - - - +
290A LYS* 1.3 62.0 + - - +
292A GLY* 4.0 6.3 + - - -
347A TYR* 3.1 50.5 + - + +
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Residues in contact with LYS 290 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
286A ALA 3.4 15.2 + - - +
287A PHE* 3.2 7.4 + - + +
289A LYS* 1.3 80.0 - - - +
291A ASP* 1.3 66.6 + - - +
292A GLY* 3.5 0.9 + - - -
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Residues in contact with ASP 291 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A ASN* 3.7 8.0 + - - -
287A PHE* 2.8 48.3 + - + +
288A ALA 3.8 2.5 - - - +
290A LYS* 1.3 77.3 - - - +
292A GLY* 1.3 55.6 + - - +
293A ASN* 2.8 35.8 + - - +
294A THR* 2.8 22.8 + - - +
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Residues in contact with GLY 292 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
288A ALA 2.8 19.7 + - - -
289A LYS* 4.4 6.3 - - - -
290A LYS 3.3 2.3 - - - -
291A ASP* 1.3 71.7 - - - +
293A ASN* 1.3 57.3 + - - +
294A THR 3.6 2.2 - - - -
349A PRO* 3.8 17.1 - - - +
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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