Contacts of the helix formed by residues 274 - 303 (chain B) in PDB entry 3RHW
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 LYS 274 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134B LEU* 3.1 43.3 - - + +
135B GLN 3.5 5.6 - - - -
137B TYR* 3.9 9.4 - - + -
264B ASN* 4.3 7.4 + - - -
267B LEU* 3.6 28.6 - - + +
268B PRO 5.2 3.8 + - - -
270B VAL* 3.8 21.0 - - + +
272B TYR* 4.2 9.5 + - + -
273B ILE* 1.3 79.6 - - - +
275B ALA* 1.3 60.6 + - - +
276B ILE* 3.5 21.1 - - + +
277B ASP* 2.9 47.0 + - - +
278B VAL* 3.4 5.1 + - - +
215C PHE* 6.1 2.8 - - - -
219C GLN* 5.5 1.8 - - - +
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Residues in contact with ALA 275 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135B GLN 2.9 15.7 + - - +
136B TYR* 3.9 14.1 - - + +
137B TYR 4.5 0.2 - - - +
138B PRO* 4.4 3.1 - - + -
139B MET* 5.3 1.1 - - + -
274B LYS* 1.3 70.4 - - - +
276B ILE* 1.3 62.9 + - - +
278B VAL* 3.3 3.9 + - - +
279B TRP 3.2 13.7 + - - -
334B TYR* 3.2 21.9 + - - +
338B PHE* 3.4 48.0 - - + -
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Residues in contact with ILE 276 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137B TYR* 4.0 12.1 - - + -
138B PRO* 3.5 27.5 - - + +
216B TYR* 5.8 0.9 - - + -
220B LEU* 3.1 45.8 - - + -
221B TYR* 4.7 0.9 - - - +
263B ILE* 4.3 20.4 - - + -
264B ASN* 5.1 4.7 - - - +
267B LEU* 4.8 2.5 - - + -
274B LYS* 3.5 35.0 - - + -
275B ALA* 1.3 79.4 - - - +
277B ASP* 1.3 64.0 + - - +
279B TRP* 3.3 2.6 + - + -
280B ILE* 3.0 42.1 + - + +
334B TYR* 4.6 1.6 - - - -
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Residues in contact with ASP 277 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
264B ASN* 4.1 6.1 + - - +
272B TYR 4.4 0.3 - - - +
273B ILE* 3.9 12.4 - - + -
274B LYS* 2.9 46.4 + - - +
276B ILE* 1.3 86.2 - - - +
278B VAL* 1.3 58.2 + - - +
280B ILE* 4.1 4.9 - - - +
281B GLY* 2.9 30.0 + - - -
218C LEU* 3.7 25.3 - - + +
219C GLN* 4.0 17.4 + - - -
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Residues in contact with VAL 278 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
273B ILE* 4.3 13.0 - - + -
274B LYS 3.4 10.3 + - - +
275B ALA* 3.3 9.1 + - - +
277B ASP* 1.3 76.4 - - - +
279B TRP* 1.3 58.1 + - - +
281B GLY* 4.1 0.6 - - - -
282B ALA* 3.2 26.5 + - - +
330B PHE* 4.7 9.2 - - + -
334B TYR* 4.1 18.8 - - + -
338B PHE* 4.3 21.3 - - + -
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Residues in contact with TRP 279 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220B LEU* 3.8 11.2 - - + -
221B TYR* 3.4 42.2 - + + -
224B SER* 2.9 42.4 - - - -
225B CYS* 4.0 20.4 - - - -
256B MET* 4.6 0.7 - - + -
275B ALA 3.2 5.2 + - - +
276B ILE* 3.9 5.6 - - + +
277B ASP 3.1 0.6 - - - -
278B VAL* 1.3 78.3 - - - +
280B ILE* 1.3 75.2 + - + +
282B ALA* 3.5 1.4 + - - +
283B CYS* 3.3 47.1 + - - -
327B PHE* 4.7 1.3 - + - -
330B PHE* 3.7 13.0 - + - -
331B ASN* 3.7 20.0 + - - -
334B TYR* 3.3 50.5 - + + +
335B TRP* 4.6 2.7 - + - -
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Residues in contact with ILE 280 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220B LEU* 3.6 29.2 - - + -
224B SER* 4.8 1.3 - - - +
256B MET* 4.0 23.4 - - + +
259B GLN* 4.8 2.7 - - - +
260B SER* 3.6 39.7 - - - +
263B ILE* 5.7 1.1 - - + -
264B ASN* 5.6 2.5 - - - +
276B ILE* 3.0 26.0 + - + +
277B ASP* 4.1 4.7 - - - +
279B TRP* 1.3 82.1 - - + +
281B GLY* 1.3 59.2 + - - +
282B ALA 3.3 0.2 + - - -
283B CYS* 3.4 2.1 + - - +
284B MET* 2.9 39.4 + - - +
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Residues in contact with GLY 281 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
277B ASP 2.9 17.6 + - - -
278B VAL* 4.2 0.9 - - - -
280B ILE* 1.3 79.4 - - - +
282B ALA* 1.3 58.5 + - - +
284B MET* 3.3 9.2 - - - +
285B THR* 3.0 25.9 + - - -
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Residues in contact with ALA 282 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
278B VAL* 3.2 12.5 + - + +
279B TRP 3.9 1.3 - - - +
280B ILE 3.2 0.4 - - - -
281B GLY* 1.3 73.3 - - - +
283B CYS* 1.3 61.5 + - - +
285B THR* 2.8 23.7 + - - -
286B PHE* 3.1 23.4 + - + -
330B PHE* 3.2 47.8 - - + -
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Residues in contact with CYS 283 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
224B SER* 4.3 1.1 - - - -
228B VAL* 3.8 17.0 - - + +
256B MET* 3.3 23.1 - - + -
279B TRP* 3.3 55.1 + - - +
282B ALA* 1.3 78.1 - - - +
284B MET* 1.3 62.5 + - - +
286B PHE* 3.2 8.7 + - - +
287B ILE* 3.2 28.1 + - - +
327B PHE* 4.0 17.9 - - - -
330B PHE* 5.2 2.0 - - - -
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Residues in contact with MET 284 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
253B LEU* 3.8 18.3 - - + +
256B MET* 3.4 31.3 - - - +
257B THR* 2.9 35.0 - - - +
260B SER* 6.1 0.4 - - - -
280B ILE* 2.9 21.1 + - - +
281B GLY* 3.3 15.0 - - - +
283B CYS* 1.3 78.6 - - - +
285B THR* 1.3 55.9 + - - +
287B ILE* 3.4 1.0 + - - -
288B PHE* 2.9 28.6 + - - +
223C PRO* 6.1 4.5 - - + -
226C MET* 3.4 38.8 - - + -
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Residues in contact with THR 285 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
281B GLY 3.0 13.5 + - - -
282B ALA* 2.8 11.5 + - - -
284B MET* 1.3 76.1 - - - +
286B PHE* 1.3 60.0 + - + +
288B PHE* 2.9 9.8 + - + +
289B CYS* 2.7 52.1 + - - -
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Residues in contact with PHE 286 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
228B VAL* 4.3 15.3 - - + -
231B SER* 4.5 3.3 + - - -
232B TRP* 4.6 3.1 + + - +
282B ALA* 3.1 32.9 + - + -
283B CYS 3.2 8.0 + - - +
285B THR* 1.3 80.1 - - + +
287B ILE* 1.3 59.0 + - - +
289B CYS* 4.7 4.3 - - - -
290B ALA* 3.3 17.8 + - - +
323B PHE* 3.5 36.3 - + + -
326B LEU* 3.8 17.0 - - + -
327B PHE* 3.3 62.4 - + + -
330B PHE* 4.2 17.9 - + + -
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Residues in contact with ILE 287 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
227B LEU* 4.2 10.5 - - + +
228B VAL* 4.2 15.3 - - + -
231B SER* 4.1 15.3 - - - +
249B GLY* 3.4 14.5 - - - +
252B THR* 3.3 48.0 - - - +
253B LEU* 3.7 16.2 - - + +
256B MET* 4.4 15.5 - - + -
283B CYS 3.2 14.1 + - - +
284B MET 3.8 6.5 - - - +
285B THR 3.1 0.6 - - - -
286B PHE* 1.3 75.5 - - - +
288B PHE* 1.3 65.2 + - - +
290B ALA* 3.3 14.0 + - - +
291B LEU* 3.3 14.9 + - - +
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Residues in contact with PHE 288 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
253B LEU* 4.1 7.3 - - + +
284B MET 2.9 18.4 + - - +
285B THR* 2.9 11.1 + - + +
287B ILE* 1.3 78.9 - - - +
289B CYS* 1.3 64.6 + - - +
291B LEU* 3.4 8.9 + - + +
292B LEU* 3.1 55.3 + - + +
226C MET* 4.1 23.3 - - + -
229C ILE* 3.6 30.1 - - + -
230C VAL* 3.5 34.3 - - + -
233C VAL* 5.0 2.0 - - + -
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Residues in contact with CYS 289 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
285B THR* 2.7 41.4 + - - +
286B PHE* 4.7 1.3 - - - -
288B PHE* 1.3 78.6 - - - +
290B ALA* 1.3 59.7 + - - +
292B LEU* 3.5 15.3 - - + +
293B GLU* 2.9 28.8 + - - +
323B PHE* 3.7 21.1 - - + -
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Residues in contact with ALA 290 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231B SER* 4.2 20.2 - - - +
232B TRP* 5.4 0.2 - - + -
235B PHE* 4.3 10.3 - - + -
249B GLY* 5.5 0.7 - - - -
286B PHE 3.3 15.2 + - - +
287B ILE* 3.3 14.4 - - - +
288B PHE 3.2 0.2 - - - -
289B CYS* 1.3 75.0 - - - +
291B LEU* 1.3 65.3 + - + +
293B GLU* 3.1 4.3 + - - +
294B PHE* 3.0 43.7 + - + -
323B PHE* 3.8 10.3 - - + -
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Residues in contact with LEU 291 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246B VAL* 4.4 9.9 - - + -
249B GLY* 3.9 30.1 - - - +
250B VAL* 4.0 27.4 - - + +
253B LEU* 4.7 8.5 - - + -
287B ILE 3.3 9.5 + - - +
288B PHE* 3.6 10.5 - - + +
290B ALA* 1.3 77.0 - - - +
292B LEU* 1.3 66.6 + - + +
294B PHE* 2.9 34.7 + - + +
295B ALA* 3.1 12.0 + - - +
230C VAL* 4.0 27.8 - - + -
233C VAL* 5.1 11.3 - - + +
237C PHE* 4.9 3.7 - - + -
248C LEU* 4.2 7.2 - - + -
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Residues in contact with LEU 292 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
288B PHE* 3.1 39.5 + - + +
289B CYS* 3.5 17.5 - - - +
290B ALA 3.3 0.2 - - - -
291B LEU* 1.3 77.6 - - + +
293B GLU* 1.3 63.8 + - - +
295B ALA* 3.2 7.7 + - + +
296B LEU* 3.0 23.4 + - - +
233C VAL* 3.6 29.2 - - + -
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Residues in contact with GLU 293 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
235B PHE* 3.4 17.1 - - + -
245B ARG* 3.4 7.6 + - - -
289B CYS 2.9 14.3 + - - +
290B ALA* 3.1 9.8 + - - +
292B LEU* 1.3 76.5 - - - +
294B PHE* 1.3 68.5 + - - +
296B LEU* 3.1 9.0 + - + +
297B VAL* 2.8 41.6 + - - +
315B VAL* 3.4 15.7 - - + +
316B ASP* 2.7 23.7 - - - +
319B SER* 3.2 29.5 + - - +
323B PHE* 4.7 4.5 - - + -
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Residues in contact with PHE 294 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231B SER 4.1 6.3 - - - -
234B SER* 2.8 31.2 - - - -
235B PHE* 3.5 20.6 - + - -
242B ILE* 3.9 16.5 - - + +
245B ARG* 3.1 53.4 - - + +
246B VAL* 4.3 1.8 - - - -
249B GLY* 4.1 7.2 - - - -
290B ALA* 3.1 19.5 - - + -
291B LEU* 2.9 35.2 + - + +
293B GLU* 1.3 83.8 - - - +
295B ALA* 1.3 57.3 + - - +
297B VAL* 3.8 0.5 - - - +
298B ASN* 2.8 34.0 + - - +
237C PHE* 4.0 8.1 - - + -
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Residues in contact with ALA 295 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
291B LEU 3.1 6.0 + - - +
292B LEU* 3.5 11.2 - - + +
294B PHE* 1.3 80.6 - - - +
296B LEU* 1.3 56.9 + - - +
298B ASN* 3.8 0.9 - - - +
299B HIS* 2.9 34.6 + - - +
233C VAL* 3.9 27.4 - - + +
236C TRP* 4.3 15.7 - - + +
237C PHE* 3.7 19.2 - - + -
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Residues in contact with LEU 296 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
292B LEU 3.0 13.8 + - - +
293B GLU* 3.1 11.2 + - + +
295B ALA* 1.3 76.6 - - - +
297B VAL* 1.3 63.8 + - - +
299B HIS* 3.8 4.2 - - + +
300B ILE* 3.2 45.6 + - + +
315B VAL* 4.4 26.0 - - + -
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Residues in contact with VAL 297 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
239B ARG* 3.5 31.4 - - + -
245B ARG* 4.0 11.0 - - - +
293B GLU* 2.8 32.9 + - - +
294B PHE 3.8 2.5 - - - +
296B LEU* 1.3 74.2 - - - +
298B ASN* 1.3 65.8 + - + +
300B ILE* 3.7 4.5 - - - +
301B ALA* 3.0 13.7 + - - +
312B SER* 3.0 34.0 + - - +
315B VAL* 3.5 22.9 - - + -
316B ASP* 3.3 20.9 - - - +
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Residues in contact with ASN 298 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
239B ARG 4.0 15.4 - - - +
240B THR 5.3 1.0 - - - +
242B ILE* 4.0 20.3 - - + +
294B PHE 2.8 22.0 + - - +
295B ALA 4.0 1.6 - - - +
297B VAL* 1.3 77.3 - - + +
299B HIS* 1.3 63.2 + - - +
301B ALA* 3.5 13.0 + - - +
302B ASN* 3.5 15.1 + - - +
237C PHE* 3.6 23.8 - - + +
238C ASP* 3.2 41.3 + - - +
241C ALA* 5.5 0.3 - - - +
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Residues in contact with HIS 299 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
295B ALA 2.9 19.6 + - - +
296B LEU* 3.8 5.2 - - + +
297B VAL 3.2 0.2 - - - -
298B ASN* 1.3 76.0 - - - +
300B ILE* 1.3 71.2 + - + +
301B ALA 3.1 4.0 - - - -
302B ASN* 2.7 28.8 + - - +
303B ALA* 3.9 4.3 + - - +
236C TRP* 3.3 39.2 + + + +
238C ASP 5.9 0.2 + - - -
320C ARG* 3.9 31.6 + - - -
----------------------------------------------------------
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Residues in contact with ILE 300 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
296B LEU* 3.2 34.9 + - + +
297B VAL* 3.7 6.7 - - - +
299B HIS* 1.3 85.6 - - + +
301B ALA* 1.3 61.5 + - - +
303B ALA* 3.9 9.3 - - - +
308B TRP* 3.2 55.7 - - + +
311B ILE* 3.5 32.5 - - + +
312B SER* 3.5 19.3 - - - +
315B VAL* 4.6 9.2 - - + -
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Residues in contact with ALA 301 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
239B ARG* 5.0 12.8 - - + +
297B VAL* 3.0 20.2 + - + +
298B ASN* 3.5 11.0 - - - +
299B HIS 3.1 0.4 - - - -
300B ILE* 1.3 77.8 - - - +
302B ASN* 1.3 62.9 + - - +
303B ALA 3.1 12.2 + - - +
309B ASN* 4.0 21.9 + - - +
312B SER* 3.5 17.5 - - - +
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Residues in contact with ASN 302 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
298B ASN* 3.5 9.7 + - - +
299B HIS* 2.7 31.4 + - - +
301B ALA* 1.3 76.5 - - - +
303B ALA* 1.3 73.7 + - - +
304B GLY* 3.2 4.2 + - - -
238C ASP* 3.1 41.6 - - + +
----------------------------------------------------------
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Residues in contact with ALA 303 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
299B HIS 3.9 4.7 + - - +
300B ILE* 3.9 18.9 - - - +
301B ALA 3.1 8.0 - - - +
302B ASN* 1.3 82.6 + - - +
304B GLY* 1.3 68.0 + - - +
305B THR 3.1 10.4 + - - +
308B TRP* 4.2 22.0 - - + -
309B ASN* 5.1 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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