Contacts of the helix formed by residues 255 - 289 (chain A) in PDB entry 4WLQ
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 VAL 255 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
245A GLU* 4.9 12.8 - - - +
254A THR* 1.3 80.8 + - - +
256A LEU* 1.3 74.9 + - + +
257A SER 3.3 0.2 - - - -
258A ALA* 2.9 26.1 + - + -
259A ILE* 3.0 29.9 + - + +
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Residues in contact with LEU 256 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241A GLN 5.7 0.7 - - - +
242A LEU* 3.7 36.5 - - + +
245A GLU* 5.5 6.1 - - + +
247A MET* 3.5 42.2 - - + +
254A THR* 3.0 14.9 - - + -
255A VAL* 1.3 85.7 - - + +
257A SER* 1.3 64.2 + - - +
258A ALA 3.2 0.2 + - - -
259A ILE* 3.2 3.7 + - + +
260A GLN* 3.0 36.8 + - - +
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Residues in contact with SER 257 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
254A THR* 2.7 27.3 + - - +
256A LEU* 1.3 78.4 - - - +
258A ALA* 1.3 53.7 + - - +
260A GLN* 4.0 9.3 - - - +
261A SER* 2.6 35.4 + - - -
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Residues in contact with ALA 258 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
254A THR 4.9 0.2 - - - +
255A VAL* 2.9 27.9 + - + +
257A SER* 1.3 80.2 + - - +
259A ILE* 1.3 64.2 + - + +
261A SER* 2.5 19.4 + - - -
262A GLU* 3.1 15.2 + - - +
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Residues in contact with ILE 259 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238A LEU* 3.6 35.7 - - + +
241A GLN* 3.3 35.0 - - + +
242A LEU* 3.6 31.9 - - + +
255A VAL* 3.0 32.9 + - + +
256A LEU* 5.2 2.0 - - + -
258A ALA* 1.3 74.3 - - + +
260A GLN* 1.3 61.1 + - - +
262A GLU* 2.8 25.0 + - - +
263A VAL* 2.9 12.9 + - - +
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Residues in contact with GLN 260 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242A LEU* 3.8 26.8 - - + +
256A LEU* 3.0 28.4 + - - +
257A SER* 4.0 7.6 + - - +
259A ILE* 1.3 77.2 - - - +
261A SER* 1.3 56.6 + - - +
263A VAL* 3.2 7.7 + - - +
264A ALA* 2.9 28.1 + - - +
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Residues in contact with SER 261 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257A SER 2.6 18.8 + - - -
258A ALA* 2.5 27.4 + - - -
260A GLN* 1.3 74.9 - - - +
262A GLU* 1.3 55.9 + - - +
264A ALA* 3.2 9.2 + - - +
265A ARG* 3.0 27.4 + - - +
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Residues in contact with GLU 262 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234A LYS* 5.9 1.2 - - - +
238A LEU* 3.6 21.6 - - + +
258A ALA 3.1 14.4 + - - +
259A ILE* 2.8 17.0 + - - +
261A SER* 1.3 75.4 + - - +
263A VAL* 1.3 61.9 + - - +
265A ARG* 3.2 41.8 + - - +
266A ASN* 3.1 33.6 + - - -
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Residues in contact with VAL 263 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
235A ILE* 3.8 20.6 - - + +
238A LEU* 3.4 35.7 - - + -
239A GLN* 4.5 11.9 - - + +
242A LEU* 4.5 12.3 - - + -
259A ILE* 2.9 18.8 + - + +
260A GLN* 3.2 7.2 + - - +
262A GLU* 1.3 76.5 - - - +
264A ALA* 1.3 62.5 + - - +
266A ASN* 3.5 1.7 + - - +
267A GLN* 3.1 47.8 + - - +
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Residues in contact with ALA 264 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260A GLN 2.9 13.0 + - - +
261A SER* 3.6 12.1 - - - +
262A GLU 3.1 0.2 - - - -
263A VAL* 1.3 79.3 - - - +
265A ARG* 1.3 61.9 + - - +
267A GLN* 3.4 10.3 + - - +
268A MET* 3.0 23.0 + - - +
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Residues in contact with ARG 265 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234A LYS* 4.6 16.6 - - - +
261A SER 3.0 13.2 + - - +
262A GLU* 3.2 38.6 + - - +
264A ALA* 1.3 77.8 - - - +
266A ASN* 1.3 64.1 + - - +
268A MET* 3.1 11.0 + - + +
269A LEU* 2.9 53.9 + - + +
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Residues in contact with ASN 266 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231A TYR* 3.6 17.9 - - + +
234A LYS* 3.4 45.9 - - - +
235A ILE* 3.5 23.5 - - + +
238A LEU* 3.8 14.3 - - - +
262A GLU* 3.1 27.0 + - - +
265A ARG* 1.3 81.1 + - - +
267A GLN* 1.3 61.5 + - - +
269A LEU* 2.9 12.2 + - - +
270A ILE* 2.8 32.1 + - - +
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Residues in contact with GLN 267 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
235A ILE* 3.6 22.2 - - + +
239A GLN* 4.7 4.9 - - - +
263A VAL* 3.1 42.0 + - - +
264A ALA* 3.8 8.2 - - - +
266A ASN* 1.3 76.7 - - - +
268A MET* 1.3 62.1 + - - +
270A ILE* 3.4 8.1 + - + +
271A GLU* 3.1 22.3 + - - +
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Residues in contact with MET 268 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
264A ALA 3.0 14.9 + - - +
265A ARG* 3.1 15.7 - - + +
267A GLN* 1.3 78.4 - - - +
269A LEU* 1.3 59.4 + - + +
271A GLU* 3.3 21.8 + - - +
272A GLU* 3.2 23.8 + - + +
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Residues in contact with LEU 269 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231A TYR* 3.5 45.7 - - + +
265A ARG* 2.9 48.0 + - + +
266A ASN* 2.9 11.6 + - - +
268A MET* 1.3 76.0 - - + +
270A ILE* 1.3 60.5 + - - +
272A GLU* 3.0 28.5 + - - +
273A GLU* 2.9 29.5 + - - +
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Residues in contact with ILE 270 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
228A LYS* 4.1 30.7 - - + -
231A TYR* 3.4 19.1 - - + -
232A GLU* 3.4 40.8 - - + +
235A ILE* 3.9 19.3 - - + -
266A ASN 2.8 14.6 + - - +
267A GLN* 3.7 8.7 - - + +
269A LEU* 1.3 76.3 - - - +
271A GLU* 1.3 61.8 + - - +
273A GLU* 3.3 6.9 + - - +
274A VAL* 3.0 26.1 + - + +
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Residues in contact with GLU 271 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
267A GLN 3.1 14.1 + - - +
268A MET* 3.3 23.4 + - - +
269A LEU 3.2 0.2 - - - -
270A ILE* 1.3 78.7 - - - +
272A GLU* 1.3 62.0 + - - +
274A VAL* 3.8 6.8 - - + +
275A GLN* 3.1 45.1 + - + +
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Residues in contact with GLU 272 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268A MET* 3.2 13.7 + - + +
269A LEU* 3.0 31.6 + - + +
271A GLU* 1.3 77.1 - - - +
273A GLU* 1.3 63.3 + - + +
275A GLN* 3.3 6.8 + - - +
276A LYS* 3.0 27.9 + - - +
279A ARG* 5.5 0.5 + - - -
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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
----------------------------------------------------------
31A GLN* 3.2 24.4 + - - +
226A ASP* 4.8 1.7 - - - +
227A ARG* 3.6 28.0 - - + +
228A LYS* 4.1 19.9 + - + +
231A TYR* 4.1 10.3 - - + -
269A LEU 2.9 13.6 + - - +
270A ILE* 3.3 12.1 + - - +
272A GLU* 1.3 77.0 - - + +
274A VAL* 1.3 60.9 + - - +
276A LYS* 2.5 38.9 + - - +
277A LEU* 3.2 25.9 + - - +
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Residues in contact with VAL 274 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
228A LYS* 4.0 29.4 - - + -
270A ILE* 3.0 22.9 + - + +
271A GLU* 3.8 7.6 - - + +
272A GLU 3.2 0.2 - - - -
273A GLU* 1.3 76.7 - - - +
275A GLN* 1.3 67.4 + - - +
277A LEU* 3.9 7.7 - - + +
278A LYS* 3.0 54.1 + - - +
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Residues in contact with GLN 275 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
271A GLU* 3.1 37.3 + - + +
272A GLU* 3.3 6.7 + - - +
274A VAL* 1.3 81.6 - - - +
276A LYS* 1.3 54.4 + - - +
278A LYS* 3.3 32.5 + - - +
279A ARG* 2.7 42.5 + - - +
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Residues in contact with LYS 276 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A GLN* 4.0 0.8 - - - +
33A GLU* 3.3 33.0 + - - +
227A ARG* 5.3 0.6 - - - +
272A GLU* 3.0 18.1 + - - +
273A GLU* 2.5 34.8 + - - +
275A GLN* 1.3 75.9 - - - +
277A LEU* 1.3 53.0 + - - +
279A ARG* 2.9 39.9 + - - +
280A TYR* 2.6 66.3 + - + +
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Residues in contact with LEU 277 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19A THR* 5.8 1.1 - - + -
20A GLU* 4.7 6.3 - - + +
23A LYS* 3.2 31.6 - - - +
228A LYS* 6.0 6.1 - - + -
273A GLU* 3.2 16.1 + - - +
274A VAL* 3.9 8.3 - - + +
276A LYS* 1.3 74.5 - - - +
278A LYS* 1.3 67.7 + - - +
280A TYR* 3.2 17.7 + - + +
281A LYS* 3.1 45.1 + - + +
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Residues in contact with LYS 278 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
274A VAL* 3.0 38.8 + - + +
275A GLN* 3.4 28.8 - - - +
277A LEU* 1.3 79.3 - - - +
279A ARG* 1.3 62.3 + - - +
281A LYS* 3.1 18.2 + - + +
282A ILE* 3.2 16.6 + - + +
319B SER* 5.5 9.1 - - - +
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Residues in contact with ARG 279 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
272A GLU 5.5 0.6 + - - -
275A GLN* 2.7 20.0 + - - +
276A LYS* 2.9 46.8 + - - +
278A LYS* 1.3 74.1 - - - +
280A TYR* 1.3 70.1 + - - +
282A ILE* 3.4 11.0 + - + +
283A GLU* 3.1 46.8 + - + +
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Residues in contact with TYR 280 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14A ASP* 4.8 2.7 - - - -
15A PRO* 3.8 22.4 - - + +
16A GLY* 3.5 39.9 - - - +
19A THR* 4.7 14.8 - - + -
20A GLU* 5.3 4.3 - - + -
31A GLN* 5.9 2.0 - - - -
33A GLU* 4.3 10.2 + - - -
276A LYS* 2.6 44.2 + - + +
277A LEU* 3.2 21.3 + - + +
279A ARG* 1.3 82.6 - - - +
281A LYS* 1.3 60.8 + - + +
283A GLU* 2.9 39.4 + - - +
284A ASN* 2.9 23.2 + - - +
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Residues in contact with LYS 281 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20A GLU* 3.0 35.6 + - - +
23A LYS* 6.1 0.2 - - - +
277A LEU* 3.1 31.9 + - + +
278A LYS* 3.1 11.9 + - + +
280A TYR* 1.3 75.3 - - - +
282A ILE* 1.3 63.2 + - + +
284A ASN* 3.4 6.0 + - - +
285A ILE* 3.1 33.2 + - + +
318B GLU* 4.3 22.5 + - + +
319B SER* 6.5 0.7 - - - -
----------------------------------------------------------
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Residues in contact with ILE 282 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
278A LYS 3.2 14.4 + - - +
279A ARG* 3.6 11.0 - - + +
281A LYS* 1.3 77.2 - - + +
283A GLU* 1.3 65.9 + - + +
285A ILE* 3.4 8.6 + - + +
286A ARG* 3.1 46.6 + - - +
319B SER* 3.2 48.0 - - - +
320B LEU* 3.9 19.5 - - + +
----------------------------------------------------------
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Residues in contact with GLU 283 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14A ASP* 4.5 8.1 - - - +
279A ARG* 3.1 41.0 + - + +
280A TYR* 2.9 32.0 + - - +
282A ILE* 1.3 77.5 - - + +
284A ASN* 1.3 60.3 + - - +
286A ARG* 3.5 2.9 + - - +
287A ARG* 3.0 44.5 + - - +
335B GLN* 3.2 22.7 + - - +
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Residues in contact with ASN 284 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16A GLY* 4.3 6.4 + - - -
17A VAL* 4.3 6.8 + - - +
20A GLU* 3.2 45.4 + - - +
143A PHE* 3.9 10.6 - - + -
280A TYR 2.9 17.4 + - - +
281A LYS* 4.0 4.3 - - - +
283A GLU* 1.3 74.8 - - - +
285A ILE* 1.3 60.2 + - - +
287A ARG* 2.2 38.9 + - - +
288A LYS* 2.8 54.8 + - - +
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Residues in contact with ILE 285 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
281A LYS* 3.1 21.5 + - + +
282A ILE* 3.5 12.6 - - + +
284A ASN* 1.3 78.3 - - - +
286A ARG* 1.3 61.9 + - - +
287A ARG 3.3 0.7 + - - -
288A LYS* 4.1 6.0 - - - +
289A HIS* 3.3 21.3 + - - +
315B PRO* 4.5 0.9 - - + -
316B SER 3.3 33.7 - - - +
317B GLY* 3.7 24.9 - - - +
318B GLU* 3.8 11.7 - - + +
319B SER 4.5 7.4 - - - +
320B LEU* 4.2 17.0 - - + -
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Residues in contact with ARG 286 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
282A ILE* 3.1 28.7 + - - +
283A GLU* 5.0 1.1 - - - +
285A ILE* 1.3 75.9 - - - +
287A ARG* 1.3 61.4 + - - +
289A HIS 4.3 1.1 - - - -
291A TYR* 2.5 38.1 + - - +
315B PRO* 4.0 10.4 - - + +
320B LEU* 3.3 45.7 - - + +
326B GLU* 3.3 14.1 + - - +
329B ASN* 4.0 13.8 - - - +
330B THR* 3.3 36.6 + - - +
333B SER* 4.1 13.1 + - - -
335B GLN* 3.3 33.3 - - - +
----------------------------------------------------------
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Residues in contact with ARG 287 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12A GLU* 2.6 37.5 + - - +
14A ASP* 4.0 7.9 + - - -
17A VAL* 3.2 25.9 - - - +
143A PHE* 4.8 13.6 - - - +
144A ALA 5.3 5.5 - - - +
145A ARG* 5.4 8.4 - - + +
146A GLN* 3.7 19.5 + - - +
283A GLU* 3.0 43.6 + - - +
284A ASN* 2.2 45.8 + - - +
286A ARG* 1.3 79.6 - - - +
288A LYS* 1.3 68.4 + - + +
289A HIS 3.4 2.4 + - - +
291A TYR* 4.8 0.7 - - - -
335B GLN* 3.8 20.2 - - + +
----------------------------------------------------------
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Residues in contact with LYS 288 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20A GLU* 4.8 3.4 + - - -
142A SER* 3.4 35.9 - - - +
143A PHE* 4.2 19.6 - - - +
144A ALA 5.2 7.0 - - - +
146A GLN* 3.4 18.4 - - - +
284A ASN* 2.8 43.6 + - - +
285A ILE* 4.1 5.3 - - - +
287A ARG* 1.3 74.1 - - + +
289A HIS* 1.3 63.8 + - - +
290A ASN* 3.6 0.5 + - - +
----------------------------------------------------------
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Residues in contact with HIS 289 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A GLN* 3.4 9.9 - - - -
285A ILE 3.3 16.0 + - - +
286A ARG 4.1 0.9 - - - +
287A ARG 3.4 0.7 - - - +
288A LYS* 1.3 81.0 - - - +
290A ASN* 1.3 76.1 + - - +
291A TYR* 3.3 43.8 - + + -
313B TYR* 3.1 23.6 + - - -
314B LEU 3.4 19.1 - - - -
315B PRO* 3.4 31.0 - - + +
316B SER 4.8 1.2 + - - -
----------------------------------------------------------
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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).
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