Contacts of the helix formed by residues 315 - 350 (chain D) in PDB entry 5UQ9
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 315 (chain D).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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312D PHE* 3.9 2.6 - - - -
314D GLY* 1.3 70.3 - - - -
316D LYS* 1.3 68.9 + - - +
317D LYS* 3.3 13.7 + - - +
318D SER* 3.1 31.3 + - - +
319D PHE* 3.0 24.3 + - - +
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Residues in contact with LYS 316 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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208D VAL 5.4 0.7 - - - -
209D LEU* 3.0 55.1 + - + +
210D GLY* 5.2 0.8 - - - -
211D MET* 6.1 0.9 - - + -
312D PHE* 4.0 19.7 - - + -
314D GLY 3.7 3.5 + - - +
315D ASP* 1.3 75.3 + - - +
317D LYS* 1.3 59.9 + - - +
319D PHE 4.1 0.2 - - - -
320D LEU* 3.3 23.0 + - - +
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Residues in contact with LYS 317 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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315D ASP* 3.1 13.4 + - - +
316D LYS* 1.3 77.3 - - - +
318D SER* 1.3 65.1 + - - +
319D PHE 3.3 0.4 - - - -
320D LEU* 3.5 9.4 + - + +
321D GLU* 3.1 21.3 + - - +
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Residues in contact with SER 318 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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315D ASP* 3.1 33.6 + - - +
317D LYS* 1.3 77.9 - - - +
319D PHE* 1.3 59.6 + - - +
321D GLU* 3.4 7.7 + - - +
322D ASP* 2.9 37.3 + - - +
408D ARG* 5.3 6.0 + - - -
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Residues in contact with PHE 319 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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204D LEU* 4.9 6.7 - - + -
208D VAL* 3.6 23.8 - - + -
209D LEU* 3.7 20.0 - - + -
312D PHE* 3.4 31.0 - + + -
315D ASP 3.0 8.3 + - - +
316D LYS 4.3 2.0 - - - +
318D SER* 1.3 76.7 + - - +
320D LEU* 1.3 59.4 + - - +
322D ASP* 3.0 16.4 + - + +
323D ILE* 2.8 55.5 + - + +
408D ARG* 4.1 5.8 - - + -
409D ALA* 3.8 25.8 - - + -
412D THR* 3.5 41.5 - - + -
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Residues in contact with LEU 320 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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205D MET* 4.1 7.2 - - + -
209D LEU* 3.9 4.5 - - + -
211D MET* 3.5 40.6 - - + -
219D ALA* 3.9 16.4 - - + -
223D TRP* 3.3 40.9 - - + +
316D LYS 3.3 16.8 + - - +
317D LYS* 3.8 9.0 - - + +
318D SER 3.4 0.2 - - - -
319D PHE* 1.3 79.2 - - - +
321D GLU* 1.3 66.8 + - + +
323D ILE* 3.3 10.7 + - - +
324D ARG 3.1 15.9 + - - -
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Residues in contact with GLU 321 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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223D TRP* 4.8 3.1 + - - -
317D LYS* 3.1 14.5 + - + +
318D SER* 3.5 12.1 - - - +
319D PHE 3.1 0.4 - - - -
320D LEU* 1.3 79.2 - - + +
322D ASP* 1.3 60.9 + - - +
324D ARG* 2.6 50.7 + - - +
325D LYS* 3.0 47.9 + - - +
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Residues in contact with ASP 322 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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318D SER* 2.9 18.7 + - - +
319D PHE* 3.0 16.4 + - + +
321D GLU* 1.3 79.0 - - - +
323D ILE* 1.3 60.4 + - - +
325D LYS* 3.4 1.9 + - - +
326D ALA* 2.9 30.0 + - - +
405D SER* 2.9 42.6 + - - +
408D ARG* 2.8 44.3 + - - +
409D ALA* 4.3 7.6 - - + +
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Residues in contact with ILE 323 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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201D ALA* 3.8 26.0 - - + +
204D LEU* 3.6 35.7 - - + -
205D MET* 4.2 13.9 - - + -
209D LEU* 4.5 2.9 - - + -
223D TRP* 3.7 17.9 - - + -
319D PHE* 2.8 48.8 + - + +
320D LEU* 3.5 14.4 - - - +
321D GLU 3.2 0.2 - - - -
322D ASP* 1.3 74.7 - - - +
324D ARG* 1.3 57.0 + - - +
326D ALA* 3.3 6.3 + - - +
327D LEU* 2.8 28.1 + - - +
409D ALA* 4.4 3.1 - - + -
423D PHE* 4.5 2.3 - - + -
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Residues in contact with ARG 324 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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223D TRP* 3.5 47.7 - - + +
226D THR* 2.5 44.0 + - - -
227D GLU* 3.8 24.5 + - - +
228D LEU* 3.8 18.3 - - + +
320D LEU 3.1 6.9 + - - +
321D GLU* 2.6 41.1 + - - +
323D ILE* 1.3 77.6 - - - +
325D LYS* 1.3 79.6 + - - +
327D LEU* 3.2 5.7 + - - +
328D TYR* 2.9 30.3 + - - +
402D CYS* 5.9 0.6 - - - -
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Residues in contact with LYS 325 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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227D GLU* 6.1 0.2 - - - -
321D GLU* 3.0 46.2 + - - +
322D ASP* 3.9 1.2 + - - +
323D ILE 3.4 0.2 - - - -
324D ARG* 1.3 93.0 - - - +
326D ALA* 1.3 57.6 + - - +
328D TYR* 4.6 1.6 - - - -
329D ALA* 3.0 30.0 + - - +
401D ASN* 3.5 25.1 - - - +
402D CYS* 3.5 32.0 - - + +
405D SER* 3.8 28.2 + - - +
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Residues in contact with ALA 326 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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322D ASP 2.9 18.1 + - - +
323D ILE* 3.7 4.9 - - - +
325D LYS* 1.3 75.6 - - - +
327D LEU* 1.3 59.9 + - - +
330D SER* 2.8 35.4 + - - -
406D TRP* 3.5 36.2 + - + +
409D ALA* 4.1 13.7 - - + -
410D VAL* 5.6 0.2 - - + -
423D PHE* 3.9 14.6 - - + -
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Residues in contact with LEU 327 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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197D LEU* 3.4 48.0 - - + +
198D ILE* 4.1 7.2 - - + +
201D ALA* 4.2 7.2 - - + -
220D PHE* 4.8 4.9 - - + -
223D TRP* 4.2 24.5 - - + -
228D LEU* 4.2 22.0 - - + -
233D ILE* 4.5 11.2 - - + -
323D ILE 2.8 18.3 + - - +
324D ARG* 3.2 5.1 + - - +
326D ALA* 1.3 76.9 - - - +
328D TYR* 1.3 56.8 + - - +
330D SER* 4.0 1.2 - - - -
331D LYS* 3.0 31.2 + - + +
423D PHE* 3.7 13.4 - - + -
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Residues in contact with TYR 328 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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227D GLU* 3.3 49.3 + - + +
228D LEU* 3.6 27.3 - - + +
324D ARG* 2.9 19.0 + - - +
325D LYS* 4.0 5.2 - - - +
327D LEU* 1.3 76.5 - - - +
329D ALA* 1.3 64.9 + - - +
331D LYS* 3.2 7.6 + - + +
332D ILE* 3.1 47.7 + - + +
372D PHE* 3.8 30.1 - + + -
375D LYS* 5.3 1.6 - - - +
394D PHE* 3.7 27.1 - + - -
398D ALA* 3.8 13.7 - - + -
402D CYS* 4.3 15.7 - - - -
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Residues in contact with ALA 329 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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325D LYS 3.0 19.8 + - - +
326D ALA 4.1 0.2 - - - +
328D TYR* 1.3 78.6 - - - +
330D SER* 1.3 62.3 + - - +
332D ILE* 3.3 14.0 + - - +
333D ILE* 3.2 24.9 + - - +
399D VAL* 4.7 10.0 - - + +
402D CYS* 4.1 14.4 - - + -
406D TRP* 3.5 34.3 - - + -
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Residues in contact with SER 330 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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197D LEU* 3.6 26.7 - - - -
280D LEU* 3.5 10.7 - - - +
326D ALA 2.8 22.1 + - - -
327D LEU 4.1 0.4 - - - -
329D ALA* 1.3 74.9 - - - +
331D LYS* 1.3 65.3 + - - +
333D ILE* 3.2 1.9 + - - +
334D SER 3.0 18.2 + - - -
406D TRP* 3.2 17.5 + - - -
422D CYS 4.6 0.2 - - - -
423D PHE* 3.2 16.1 - - - -
426D ALA* 3.9 17.3 - - - -
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Residues in contact with LYS 331 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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194D ASP* 3.5 26.7 - - - +
197D LEU* 3.8 12.5 - - + +
228D LEU* 4.9 16.8 - - + +
230D SER* 5.3 9.0 - - - -
327D LEU* 3.0 22.6 + - + +
328D TYR* 3.2 9.2 + - + +
330D SER* 1.3 76.8 - - - +
332D ILE* 1.3 62.1 + - - +
334D SER* 3.4 2.3 + - - -
335D TYR* 3.1 54.9 + - + -
368D ILE 5.1 0.6 + - - -
370D SER* 3.8 15.8 + - - -
372D PHE* 3.0 41.5 - - + -
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Residues in contact with ILE 332 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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328D TYR* 3.1 41.0 + - + +
329D ALA* 3.5 8.5 - - - +
330D SER 3.2 0.2 - - - -
331D LYS* 1.3 74.9 - - - +
333D ILE* 1.3 59.9 + - - +
335D TYR* 3.4 1.9 + - - +
336D ALA* 2.8 28.5 + - + +
372D PHE* 3.7 24.0 - - + -
389D LEU* 4.8 5.9 - - + +
390D LEU* 3.9 23.3 - - + -
395D PHE* 4.0 27.4 - - + +
398D ALA* 3.8 17.5 - - + -
399D VAL* 4.0 16.6 - - + +
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Residues in contact with ILE 333 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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280D LEU* 5.2 0.9 - - + -
329D ALA 3.2 15.5 + - - +
330D SER 3.2 7.2 + - - +
332D ILE* 1.3 76.3 - - - +
334D SER* 1.3 62.8 + - - +
336D ALA* 3.7 3.3 - - - +
337D GLN* 3.0 33.8 + - - +
390D LEU* 3.7 37.5 - - + -
399D VAL* 5.1 2.0 - - + -
406D TRP* 3.6 20.2 - - + -
426D ALA* 3.8 21.5 - - + +
429D PHE* 3.5 24.2 - - + -
430D TYR* 4.1 20.4 - - + -
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Residues in contact with SER 334 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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190D ILE* 4.7 10.5 - - - +
193D GLY* 4.8 3.1 - - - -
194D ASP* 4.7 5.9 + - - -
197D LEU* 4.8 3.1 - - - -
280D LEU* 3.6 30.4 - - - +
281D ILE* 4.4 14.4 - - - +
330D SER 3.0 13.0 + - - -
331D LYS* 3.6 11.4 - - - -
332D ILE 3.2 0.2 - - - -
333D ILE* 1.3 76.7 - - - +
335D TYR* 1.3 62.9 + - - +
337D GLN* 3.2 14.1 + - - +
338D GLY* 2.9 23.0 + - - -
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Residues in contact with TYR 335 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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190D ILE* 3.4 38.8 - - + +
194D ASP* 2.7 33.8 + - - -
331D LYS* 3.1 51.7 + - + +
332D ILE 4.1 1.8 - - - +
334D SER* 1.3 78.4 - - - +
336D ALA* 1.3 64.3 + - - +
338D GLY 3.1 6.6 + - - +
339D PHE* 3.1 31.5 + + - -
362D TRP* 4.4 5.2 - + - -
368D ILE* 3.6 9.4 + - - +
372D PHE* 3.4 11.0 - + + -
373D LEU* 3.6 33.3 - - + +
376D ILE* 3.7 27.4 - - + -
389D LEU* 5.1 2.9 - - + -
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Residues in contact with ALA 336 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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332D ILE* 2.8 19.2 + - + +
333D ILE* 3.7 6.5 - - - +
335D TYR* 1.3 77.3 - - - +
337D GLN* 1.3 60.9 + - + +
339D PHE* 3.7 2.8 + - - +
340D MET* 3.1 28.5 + - - +
343D ARG* 5.0 0.3 + - - -
388D ASN* 4.0 15.5 + - - +
389D LEU* 3.9 27.8 + - + +
390D LEU* 4.0 17.5 - - + -
429D PHE* 5.4 1.1 - - + -
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Residues in contact with GLN 337 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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277D PRO 3.3 25.1 + - - +
278D VAL* 3.6 23.5 - - + +
279D THR* 2.9 25.6 + - - -
280D LEU* 3.2 28.3 + - - +
281D ILE* 5.5 0.2 - - - +
333D ILE* 3.0 21.0 + - - +
334D SER* 3.6 6.3 - - - +
336D ALA* 1.3 73.3 - - - +
338D GLY* 1.3 64.7 + - - +
340D MET* 3.3 11.1 + - - +
341D LEU 3.2 16.3 + - - -
429D PHE* 3.2 41.2 - - + +
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Residues in contact with GLY 338 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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186D VAL* 3.9 17.7 - - - +
190D ILE* 4.4 11.9 - - - -
278D VAL* 5.1 1.1 - - - +
281D ILE* 5.2 5.6 - - - -
334D SER 2.9 14.7 + - - -
335D TYR 3.1 4.8 + - - -
337D GLN* 1.3 77.2 - - - +
339D PHE* 1.3 58.9 + - - +
341D LEU* 3.2 8.5 + - - +
342D LEU* 3.1 30.1 + - - +
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Residues in contact with PHE 339 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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190D ILE* 5.2 0.2 - - + -
335D TYR* 3.1 30.9 + + - +
336D ALA* 4.3 3.6 - - - +
338D GLY* 1.3 74.7 - - - +
340D MET* 1.3 60.5 + - - +
341D LEU 3.2 0.4 - - - -
342D LEU* 3.8 16.0 - - + +
343D ARG* 2.8 41.3 + - - +
355D TYR* 3.6 39.8 - + + -
358D ILE* 4.6 2.9 - - + -
359D ALA* 4.2 10.3 - - + -
362D TRP* 4.3 25.6 - + - -
376D ILE* 3.8 33.9 - - + -
380D PHE* 3.5 31.9 - + + -
389D LEU* 5.3 7.9 - - + +
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Residues in contact with MET 340 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
293C LEU* 3.8 23.6 - - + -
296C GLU* 4.6 2.7 - - - +
276D VAL* 3.9 10.4 - - + +
277D PRO* 3.8 32.3 - - + -
336D ALA 3.1 18.9 + - - +
337D GLN* 3.5 16.8 - - - +
338D GLY 3.3 0.4 - - - -
339D PHE* 1.3 76.9 - - - +
341D LEU* 1.3 56.6 + - - +
343D ARG* 3.8 18.6 + - - +
344D GLN* 3.1 27.4 + - - +
387D GLN 4.7 0.4 - - - +
388D ASN* 3.0 31.4 - - - +
429D PHE* 4.2 16.4 - - + -
433D TYR* 5.3 0.9 - - + -
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Residues in contact with LEU 341 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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182D PHE* 4.1 6.5 - - + -
186D VAL* 3.8 23.6 - - + -
267D THR* 3.7 30.5 - - + +
270D SER* 4.0 20.4 - - - +
271D ALA* 3.8 24.7 - - - +
274D TYR* 4.3 8.3 - - + -
276D VAL* 3.8 17.0 - - + +
278D VAL* 4.1 13.5 - - + -
337D GLN 3.2 11.5 + - - +
338D GLY* 3.5 8.5 - - - +
339D PHE 3.2 0.6 - - - -
340D MET* 1.3 76.3 - - - +
342D LEU* 1.3 64.0 + - - +
344D GLN* 3.3 1.0 + - - +
345D ALA* 3.0 22.9 + - - +
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Residues in contact with LEU 342 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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182D PHE* 3.7 18.2 - - + -
183D VAL* 4.1 16.4 - - + -
186D VAL* 3.7 29.4 - - + -
338D GLY 3.1 14.3 + - - +
339D PHE* 3.4 34.7 + - + +
341D LEU* 1.3 76.4 - - - +
343D ARG* 1.3 61.3 + - - +
345D ALA* 3.3 2.9 + - - +
346D ALA 3.1 18.0 + - - -
353D LEU* 3.5 16.1 - - + +
355D TYR* 4.0 12.3 - - + -
358D ILE* 4.2 23.6 - - + -
362D TRP* 4.4 12.1 - - + -
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Residues in contact with ARG 343 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
336D ALA 5.0 0.2 + - - -
339D PHE* 2.8 20.4 + - - +
340D MET* 3.8 28.8 + - - +
342D LEU* 1.3 77.5 - - - +
344D GLN* 1.3 61.2 + - - +
346D ALA* 3.4 3.8 + - - +
347D THR* 3.1 30.2 + - - +
355D TYR* 3.3 27.8 - - + +
380D PHE* 4.5 13.3 - - - -
386D LEU 3.0 18.4 + - - -
387D GLN* 2.5 63.3 + - - +
388D ASN* 3.7 8.5 - - - +
389D LEU 4.9 1.2 - - - +
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Residues in contact with GLN 344 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
274D TYR* 4.0 25.2 + - + +
275D GLY 6.0 0.2 - - - -
276D VAL* 3.7 25.4 - - + +
340D MET 3.1 20.8 + - - +
341D LEU 3.7 3.4 - - - +
342D LEU 3.2 0.2 - - - -
343D ARG* 1.3 76.1 - - - +
345D ALA* 1.3 63.8 - - - +
347D THR* 3.2 15.7 + - - +
348D GLU* 3.1 37.7 + - + +
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Residues in contact with ALA 345 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182D PHE* 3.5 45.5 - - + -
274D TYR* 4.8 7.1 - - + -
341D LEU 3.0 6.7 + - - +
342D LEU 3.3 3.6 + - - +
344D GLN* 1.3 76.5 - - - +
346D ALA* 1.3 57.4 + - - +
348D GLU* 3.3 2.6 + - - +
349D PHE* 3.0 50.3 + - + +
351D TRP* 4.5 7.0 - - + -
353D LEU* 5.7 0.2 - - + -
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Residues in contact with ALA 346 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
342D LEU 3.1 9.9 + - - +
343D ARG 3.7 7.9 - - - +
344D GLN 3.3 0.2 - - - -
345D ALA* 1.3 76.6 - - - +
347D THR* 1.3 58.4 + - - +
350D GLY* 2.8 23.9 + - - -
351D TRP* 2.9 43.3 + - - +
353D LEU* 4.0 11.9 - - + +
355D TYR* 3.8 18.6 - - - +
----------------------------------------------------------
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Residues in contact with THR 347 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
343D ARG* 3.1 17.4 + - - +
344D GLN* 3.2 21.5 + - - +
345D ALA 3.2 0.6 - - - -
346D ALA* 1.3 77.6 - - - +
348D GLU* 1.3 65.9 + - + +
349D PHE 3.5 0.3 + - - -
350D GLY* 3.7 5.4 + - - -
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Residues in contact with GLU 348 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
274D TYR* 4.0 30.1 - - + -
344D GLN* 3.1 34.7 + - - +
345D ALA* 4.0 5.2 - - - +
347D THR* 1.3 78.6 - - + +
349D PHE* 1.3 73.0 + - + +
----------------------------------------------------------
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Residues in contact with PHE 349 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106D TYR* 3.6 24.2 - + - -
107D ARG* 5.4 4.7 - - + -
110D THR* 5.6 6.7 - - + -
114D ARG* 5.1 14.5 + - - -
177D GLU* 4.6 5.1 - - - +
274D TYR* 3.2 34.5 - + - -
345D ALA* 3.0 33.7 + - + +
348D GLU* 1.3 85.2 - - + +
350D GLY* 1.3 61.5 + - - +
351D TRP* 3.3 47.0 + + + +
----------------------------------------------------------
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Residues in contact with GLY 350 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176D ASP* 4.2 6.1 - - - +
346D ALA 2.8 14.2 + - - -
347D THR 3.7 4.5 + - - -
348D GLU 3.6 2.0 - - - -
349D PHE* 1.3 80.1 - - - +
351D TRP* 1.3 63.3 + - - +
352D THR* 4.6 5.2 - - - +
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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