Contacts of the helix formed by residues 266 - 292 (chain B) 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 B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
224B GLU* 5.0 3.2 + - - -
261B GLY 2.9 7.3 + - - +
264B ALA* 3.9 19.8 - - + +
265B ASN* 1.3 75.8 - - - +
267B ALA* 1.3 64.6 + - - +
269B TYR* 3.3 30.6 + - + +
270B LEU* 3.0 22.0 + - - +
332B PHE* 3.6 2.4 - - - -
1380B MG 2.5 30.4 - - - -
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Residues in contact with ALA 267 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
265B ASN 3.9 1.4 + - - -
266B ASN* 1.3 73.2 + - - +
268B SER* 1.3 58.3 + - - +
270B LEU* 3.3 3.1 + - - +
271B ILE* 2.8 39.5 + - + +
307B PHE* 4.5 3.1 - - + -
330B PRO* 3.9 35.0 - - + +
332B PHE* 3.9 17.4 - - + -
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Residues in contact with SER 268 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
224B GLU* 2.6 25.8 + - - +
266B ASN* 3.4 1.6 + - - -
267B ALA* 1.3 78.5 - - - +
269B TYR* 1.3 57.1 + - - +
271B ILE* 4.1 6.6 - - - +
272B SER* 2.9 33.1 + - - -
1380B MG 2.5 26.7 - - - -
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Residues in contact with TYR 269 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222B THR* 3.5 23.0 - - + +
224B GLU* 4.2 12.6 - - + +
257B GLN* 2.7 23.5 + - - +
260B TRP* 3.3 32.1 - - + +
261B GLY* 3.6 23.3 - - - -
264B ALA* 5.0 3.8 - - + -
266B ASN* 3.3 31.6 + - + +
268B SER* 1.3 79.6 + - - +
270B LEU* 1.3 65.2 + - - +
272B SER* 3.0 7.9 + - - -
273B GLU* 3.0 57.3 + - + +
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Residues in contact with LEU 270 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44B GLY 5.8 0.2 - - - +
49B GLN* 3.6 41.7 - - + +
52B SER* 4.6 0.4 - - - +
258B ILE* 4.1 17.8 - - + +
261B GLY* 3.9 12.0 - - - -
262B GLY* 4.0 15.3 - - - +
266B ASN 3.0 16.9 + - - +
267B ALA* 3.7 4.0 - - - +
269B TYR* 1.3 76.0 - - - +
271B ILE* 1.3 75.5 + - + +
273B GLU* 3.3 4.3 + - - +
274B ILE* 3.1 27.8 + - + +
307B PHE* 3.8 28.0 - - + -
332B PHE* 3.9 14.8 - - + -
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Residues in contact with ILE 271 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52B SER* 4.0 18.6 - - - +
56B PHE* 3.7 48.7 - - + +
267B ALA* 2.8 31.0 + - + +
268B SER* 4.1 5.6 - - - +
270B LEU* 1.3 71.7 - - + +
272B SER* 1.3 60.9 + - - +
274B ILE* 3.4 6.9 + - - +
275B ASN* 2.9 46.5 + - - +
307B PHE* 4.3 17.7 - - + -
330B PRO* 4.4 9.4 - - + -
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Residues in contact with SER 272 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
223B MET* 3.7 21.7 - - - +
224B GLU* 3.8 17.8 - - - +
268B SER 2.9 22.6 + - - -
269B TYR* 3.0 12.0 + - - -
271B ILE* 1.3 77.6 - - - +
273B GLU* 1.3 63.7 + - - +
275B ASN* 3.5 9.0 + - - +
276B ASP* 3.2 22.3 + - - +
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Residues in contact with GLU 273 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130B THR* 4.9 0.3 + - - -
222B THR* 3.5 6.8 - - - -
223B MET* 2.8 35.7 + - - +
227B ARG* 2.8 31.2 + - - -
255B GLY* 5.7 1.4 - - - -
257B GLN* 3.7 19.0 + - + +
258B ILE* 3.8 22.3 - - + +
269B TYR* 3.0 45.9 + - + +
270B LEU 3.7 3.6 - - - +
272B SER* 1.3 79.5 + - - +
274B ILE* 1.3 58.5 + - - +
276B ASP* 3.4 5.7 + - - +
277B PHE* 3.1 23.7 + - - +
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Residues in contact with ILE 274 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45B ALA* 3.8 22.9 - - + -
49B GLN* 3.6 28.0 - - + +
50B ILE* 3.7 11.0 - - - +
52B SER* 3.7 20.6 - - - +
53B THR* 4.0 11.2 - - + +
63B TYR* 4.0 16.8 - - + +
258B ILE* 3.7 21.7 - - + +
270B LEU* 3.1 21.1 + - + +
271B ILE* 3.5 11.4 - - - +
273B GLU* 1.3 74.3 - - - +
275B ASN* 1.3 62.9 + - - +
277B PHE* 3.2 3.9 + - + -
278B ASP* 2.9 27.0 + - - +
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Residues in contact with ASN 275 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53B THR* 3.5 18.3 - - - +
56B PHE 3.3 23.6 + - - -
57B LYS* 3.4 43.2 + - + +
271B ILE* 2.9 32.4 + - - +
272B SER* 3.7 8.8 - - - +
274B ILE* 1.3 76.3 - - - +
276B ASP* 1.3 61.3 + - - +
278B ASP* 3.2 5.1 + - - +
279B ASP* 3.1 20.0 + - - -
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Residues in contact with ASP 276 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
223B MET* 3.5 35.0 - - + +
227B ARG* 2.8 21.8 + - - -
228B GLY 3.8 7.4 - - - +
229B ASN* 4.4 9.2 - - - +
231B LEU* 3.7 24.5 + - - +
232B SER* 4.4 2.4 + - - -
272B SER 3.2 10.6 + - - +
273B GLU 3.5 8.9 - - - +
275B ASN* 1.3 77.5 - - - +
277B PHE* 1.3 64.5 + - - +
279B ASP* 3.0 30.8 + - - +
280B ALA* 3.1 7.6 + - - +
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Residues in contact with PHE 277 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B LEU* 3.7 30.3 - - + -
41B ILE 3.4 24.5 - - - -
42B SER* 3.5 26.9 - - - -
63B TYR* 3.5 26.7 - - - -
231B LEU* 4.0 13.9 - - + -
253B SER 4.5 1.8 - - - -
255B GLY* 3.7 23.1 - - - -
258B ILE* 3.9 9.2 - - + -
273B GLU 3.1 14.9 + - - +
274B ILE* 3.4 9.6 - - + +
276B ASP* 1.3 77.1 + - - +
278B ASP* 1.3 58.7 + - - +
280B ALA* 2.9 20.1 + - + +
281B ILE* 3.0 28.6 + - + +
298B VAL* 3.7 9.4 - - + -
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Residues in contact with ASP 278 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53B THR* 4.5 3.8 - - + -
57B LYS* 2.6 27.0 + - + +
61B PRO* 3.5 8.6 - - - +
62B ASN* 2.8 56.9 + - - +
63B TYR* 3.1 32.0 + - + -
274B ILE 2.9 13.7 + - - +
275B ASN* 3.2 10.3 + - - +
277B PHE* 1.3 76.2 - - - +
279B ASP* 1.3 61.2 + - - +
281B ILE* 3.2 12.9 + - - +
282B GLY 3.1 8.8 + - - -
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Residues in contact with ASP 279 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57B LYS* 2.8 25.7 + - - +
62B ASN* 4.2 4.0 + - - +
229B ASN* 5.7 5.0 - - + +
232B SER* 3.3 14.0 + - - +
275B ASN 3.1 14.0 + - - +
276B ASP* 3.0 22.3 + - - +
278B ASP* 1.3 77.1 - - - +
280B ALA* 1.3 59.1 + - - +
282B GLY* 3.1 4.3 + - - -
283B THR* 3.1 18.9 + - - -
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Residues in contact with ALA 280 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B LEU* 4.1 12.9 - - + +
231B LEU* 3.7 34.5 - - + +
232B SER* 3.2 16.5 + - - +
235B THR* 4.8 7.4 - - - +
276B ASP 3.1 4.8 + - - +
277B PHE* 2.9 12.9 + - + +
279B ASP* 1.3 73.1 - - - +
281B ILE* 1.3 66.4 + - - +
283B THR* 3.1 7.3 + - - -
284B ALA* 3.0 22.2 + - - +
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Residues in contact with ILE 281 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B LEU* 3.7 11.8 - - + +
62B ASN* 3.9 9.9 - - + +
63B TYR* 3.6 42.2 - - + -
66B PHE* 3.7 26.5 - - + -
277B PHE* 3.0 36.1 + - + +
278B ASP* 3.2 13.4 + - - +
280B ALA* 1.3 76.5 - - - +
282B GLY* 1.3 63.4 + - - +
284B ALA* 3.1 2.6 + - - +
285B LEU* 2.9 36.1 + - + +
296B VAL* 5.7 0.2 - - + -
298B VAL* 3.8 16.6 - - + -
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Residues in contact with GLY 282 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B ASN* 3.4 30.4 - - - +
65B GLN* 4.6 2.4 + - - -
278B ASP 3.1 10.7 + - - -
279B ASP 3.1 3.1 + - - -
281B ILE* 1.3 75.7 - - - +
283B THR* 1.3 56.8 + - - +
285B LEU* 3.5 4.5 + - - +
286B ALA* 2.9 31.5 + - - +
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Residues in contact with THR 283 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232B SER* 3.4 39.8 - - - +
235B THR* 4.7 5.8 - - + -
236B ASP* 4.0 28.2 - - + +
239B ILE* 5.0 2.9 - - + -
279B ASP 3.1 8.2 + - - -
280B ALA* 3.1 12.5 + - - -
282B GLY* 1.3 78.6 - - - +
284B ALA* 1.3 62.6 + - - +
286B ALA* 3.4 4.7 + - - +
287B PHE* 3.2 21.1 + - - +
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Residues in contact with ALA 284 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38B ILE* 4.2 24.2 - - + +
40B LEU* 3.8 21.3 - - + -
235B THR* 5.1 3.8 - - + -
239B ILE* 4.8 4.5 - - - -
280B ALA 3.0 12.2 + - - +
281B ILE 3.7 6.3 - - - +
283B THR* 1.3 78.2 - - - +
285B LEU* 1.3 59.2 + - - +
287B PHE* 3.4 4.3 + - - +
288B ALA* 2.9 27.7 + - - +
296B VAL* 3.9 18.7 - - + +
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Residues in contact with LEU 285 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B ASN 4.0 3.8 - - - +
65B GLN* 3.6 50.9 - - + +
66B PHE* 4.0 15.9 - - + -
281B ILE* 2.9 37.1 + - + +
282B GLY 4.0 2.7 - - - +
284B ALA* 1.3 75.9 - - - +
286B ALA* 1.3 60.5 + - - +
288B ALA* 4.3 1.6 - - - -
289B LYS* 2.9 39.0 + - + +
296B VAL* 4.1 15.0 - - + -
347B TYR* 3.9 36.3 - - + -
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Residues in contact with ALA 286 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
282B GLY 2.9 19.2 + - - +
283B THR* 3.8 6.3 - - - +
284B ALA 3.4 0.2 - - - -
285B LEU* 1.3 77.1 - - - +
287B PHE* 1.3 62.2 + - - +
289B LYS* 3.7 4.3 + - - +
290B LYS* 3.4 31.6 + - - +
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Residues in contact with PHE 287 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36B ASN* 4.7 0.7 - - - -
38B ILE* 4.5 2.2 - - + -
236B ASP* 5.9 2.0 - - - +
239B ILE* 3.5 42.4 - - + -
243B SER* 5.1 7.0 - - - -
249B PHE* 3.6 25.4 - + - -
283B THR 3.2 9.9 + - - +
284B ALA 3.7 5.8 - - - +
285B LEU 3.2 0.6 - - - -
286B ALA* 1.3 79.6 - - - +
288B ALA* 1.3 59.9 + - - +
290B LYS* 3.3 13.6 + - + +
291B ASP* 2.8 55.9 + - + +
294B THR* 3.2 28.9 - - + -
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Residues in contact with ALA 288 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
284B ALA 2.9 17.8 + - - +
285B LEU* 3.2 5.4 + - - +
287B PHE* 1.3 76.9 - - - +
289B LYS* 1.3 58.7 + - - +
291B ASP* 4.3 0.2 - - - -
292B GLY* 2.8 30.7 + - - -
294B THR* 3.8 31.9 + - + +
296B VAL* 3.6 22.2 - - + -
347B TYR* 4.4 13.8 - - + -
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Residues in contact with LYS 289 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65B GLN* 3.0 40.6 + - - +
285B LEU* 2.9 21.2 + - - +
286B ALA* 4.2 4.3 - - - +
288B ALA* 1.3 76.2 - - - +
290B LYS* 1.3 59.6 + - - +
292B GLY* 4.1 6.6 + - - -
347B TYR* 3.2 47.1 - - + +
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Residues in contact with LYS 290 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
286B ALA* 3.4 22.8 + - - +
287B PHE* 3.3 11.8 + - + +
288B ALA 3.3 0.2 - - - -
289B LYS* 1.3 78.9 - - - +
291B ASP* 1.3 63.9 + - - +
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Residues in contact with ASP 291 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36B ASN* 3.4 7.4 + - - -
287B PHE* 2.8 45.5 + - + +
288B ALA 3.9 1.1 - - - +
290B LYS* 1.3 81.1 - - + +
292B GLY* 1.3 57.2 + - - +
293B ASN* 3.0 42.9 + - - +
294B THR* 2.7 22.9 + - - +
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Residues in contact with GLY 292 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32B LYS* 4.1 8.3 + - - -
288B ALA 2.8 20.2 + - - -
289B LYS 4.5 4.9 - - - -
290B LYS 3.6 1.2 - - - -
291B ASP* 1.3 71.7 - - - +
293B ASN* 1.3 64.7 + - - +
294B THR 3.6 2.7 - - - -
349B PRO* 3.7 16.2 - - - +
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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