Contacts of the helix formed by residues 364 - 397 (chain B) in PDB entry 4XK8
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 364 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86B PRO* 4.6 16.1 - - - +
116B ALA 4.9 1.2 - - - +
117B TYR* 4.8 4.9 - - - -
122B GLN* 3.3 28.3 + - - +
360B PHE 4.2 3.6 + - - +
361B ILE* 4.1 3.3 - - - -
362B ALA 3.2 1.6 + - - +
363B GLN* 1.3 75.3 - - - +
365B PHE* 1.3 65.1 + - - +
366B THR* 3.8 7.4 + - - -
367B THR* 2.8 32.8 + - - -
368B GLN* 3.2 26.2 + - - +
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Residues in contact with PHE 365 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
362B ALA 3.2 24.7 - - - -
363B GLN* 3.3 15.4 + - - -
364B ASP* 1.3 70.5 + - - +
366B THR* 1.3 63.5 + - - +
368B GLN* 3.2 9.0 + - + +
369B ALA* 2.9 29.6 + - - +
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Residues in contact with THR 366 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117B TYR* 3.5 42.9 + - + -
364B ASP* 3.8 4.0 + - - -
365B PHE* 1.3 78.4 - - - +
367B THR* 1.3 58.1 + - - +
369B ALA* 3.4 6.3 + - + +
370B ALA* 2.9 32.1 + - + +
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Residues in contact with THR 367 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116B ALA 4.1 2.1 + - - -
117B TYR* 3.7 27.3 - - - +
119B GLY* 3.6 31.7 + - - +
122B GLN* 4.6 0.8 + - - +
361B ILE* 3.9 22.0 - - + -
364B ASP* 2.8 35.3 + - - +
365B PHE 3.2 0.4 - - - -
366B THR* 1.3 78.7 - - - +
368B GLN* 1.3 56.7 + - - +
370B ALA* 3.4 0.7 + - - +
371B LEU* 2.9 36.4 + - + +
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Residues in contact with GLN 368 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
352B MET* 4.0 16.3 + - - +
353B TYR* 3.9 28.5 + - + +
356B PRO* 4.4 2.8 - - - +
361B ILE* 3.9 22.3 - - + +
362B ALA* 3.4 40.7 - - - +
364B ASP 3.2 15.2 + - - +
365B PHE* 3.2 10.7 + - + +
367B THR* 1.3 76.9 - - - +
369B ALA* 1.3 56.1 + - - +
371B LEU* 3.3 10.9 + - - +
372B TYR* 3.0 31.2 + - - +
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Residues in contact with ALA 369 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
365B PHE 2.9 16.3 + - - +
366B THR* 3.8 7.4 - - + +
368B GLN* 1.3 72.7 - - - +
370B ALA* 1.3 63.1 + - - +
372B TYR* 3.3 4.7 + - - +
373B THR* 2.8 34.9 + - - +
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Residues in contact with ALA 370 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117B TYR* 3.5 26.2 - - + +
366B THR* 2.9 20.3 + - + +
367B THR 3.5 4.3 - - - +
369B ALA* 1.3 76.2 - - - +
371B LEU* 1.3 57.7 + - + +
373B THR* 4.0 3.7 - - - -
374B HIS* 2.9 32.4 + - - +
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Residues in contact with LEU 371 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117B TYR 3.7 11.2 - - - +
118B SER* 3.4 28.0 - - - +
119B GLY 5.9 0.2 - - - +
349B ALA* 6.1 0.2 - - - -
352B MET* 4.3 22.7 - - + -
358B TYR* 5.9 1.1 - - + -
361B ILE* 4.1 15.9 - - + -
367B THR* 2.9 34.0 + - + +
368B GLN* 3.6 11.4 - - - +
370B ALA* 1.3 77.3 - - - +
372B TYR* 1.3 62.4 + - - +
374B HIS* 3.4 6.5 - - + +
375B HIS* 2.9 45.5 + - + +
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Residues in contact with TYR 372 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
349B ALA* 3.5 34.8 - - + +
350B GLN* 3.2 20.5 + - - -
353B TYR* 3.7 35.2 - + + -
368B GLN 3.0 16.5 + - - +
369B ALA* 3.8 5.4 - - - +
371B LEU* 1.3 78.2 - - - +
373B THR* 1.3 67.1 + - - +
375B HIS* 3.9 0.5 - - - -
376B GLN* 2.9 61.2 + - + +
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Residues in contact with THR 373 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
369B ALA* 2.8 20.4 + - - +
370B ALA* 4.0 4.5 - - - -
372B TYR* 1.3 81.3 - - - +
374B HIS* 1.3 63.8 + - - +
376B GLN* 3.3 3.3 + - - -
377B TYR* 3.0 57.1 + - + -
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Residues in contact with HIS 374 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
370B ALA 2.9 22.0 + - - +
371B LEU* 3.4 8.1 - - + +
373B THR* 1.3 76.5 - - - +
375B HIS* 1.3 93.7 + + - +
377B TYR* 3.9 2.9 - - - +
378B ILE* 3.0 52.7 + - + +
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Residues in contact with HIS 375 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
345B THR* 3.3 25.9 - - + +
348B VAL* 4.4 22.1 - - + +
349B ALA* 4.0 19.3 - - + -
352B MET* 5.1 7.7 - - - -
371B LEU* 2.9 36.6 + - + +
374B HIS* 1.3 104.1 + + - +
376B GLN* 1.3 57.4 + - - +
378B ILE* 4.3 5.8 - - + -
379B ALA* 2.9 29.5 + - - +
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Residues in contact with GLN 376 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
346B SER* 2.7 32.6 + - - -
349B ALA* 3.9 10.3 - - + -
350B GLN* 3.9 15.4 - - - +
372B TYR* 2.9 61.8 + - + +
373B THR* 3.9 4.5 - - - +
375B HIS* 1.3 74.4 - - - +
377B TYR* 1.3 63.0 + - + +
379B ALA* 3.4 2.4 + - - +
380B GLY* 2.9 23.6 + - - -
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Residues in contact with TYR 377 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
373B THR* 3.0 51.3 + - + +
374B HIS* 3.9 3.6 - - - +
376B GLN* 1.3 75.5 - - + +
378B ILE* 1.3 67.8 + - + +
380B GLY* 3.1 2.2 + - - -
381B PHE* 3.0 45.9 + + + -
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Residues in contact with ILE 378 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
345B THR* 4.3 9.4 - - + -
374B HIS* 3.0 48.3 + - + +
375B HIS* 3.8 9.0 - - + +
377B TYR* 1.3 75.0 - - - +
379B ALA* 1.3 57.9 + - - +
381B PHE* 3.4 7.6 + - + +
382B ILE* 2.9 55.3 + - + +
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Residues in contact with ALA 379 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
342B GLY* 3.7 15.5 - - - +
345B THR* 3.9 8.9 - - - +
346B SER* 3.3 31.6 - - - +
375B HIS 2.9 20.3 + - - +
376B GLN* 3.6 5.4 - - - +
378B ILE* 1.3 77.8 - - - +
380B GLY* 1.3 55.6 + - - +
382B ILE* 3.5 5.8 + - - +
383B MET* 2.9 36.3 + - + +
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Residues in contact with GLY 380 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
376B GLN 2.9 14.9 + - - -
377B TYR* 3.1 4.8 + - - -
379B ALA* 1.3 75.7 - - - +
381B PHE* 1.3 62.1 + - - +
383B MET* 3.0 9.4 + - - +
384B THR* 3.0 28.5 + - - +
----------------------------------------------------------
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Residues in contact with PHE 381 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
377B TYR* 3.0 44.5 + + + +
378B ILE* 3.9 7.6 - - + +
380B GLY* 1.3 73.6 - - - +
382B ILE* 1.3 63.7 + - + +
384B THR* 2.7 29.3 + - + -
385B GLY* 2.9 8.1 + - - -
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Residues in contact with ILE 382 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
338B LEU* 3.1 47.0 - - + +
341B LEU* 3.9 25.6 - - + -
342B GLY* 3.7 11.2 - - - +
345B THR* 4.3 9.0 - - - +
378B ILE* 2.9 41.0 + - + +
379B ALA 3.7 4.0 - - - +
381B PHE* 1.3 76.0 - - + +
383B MET* 1.3 57.3 + - - +
385B GLY* 3.3 2.5 + - - -
386B ALA* 2.9 26.0 + - - +
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Residues in contact with MET 383 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
339B ALA* 3.7 36.3 - - + +
342B GLY* 4.2 12.3 - - - -
343B VAL* 4.3 12.1 - - + -
379B ALA* 2.9 20.2 + - + +
380B GLY* 3.0 10.3 + - - +
382B ILE* 1.3 73.9 - - - +
384B THR* 1.3 66.9 + - + +
386B ALA* 3.0 6.3 + - + +
387B PHE* 3.0 52.8 + - + -
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Residues in contact with THR 384 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
380B GLY 3.0 14.7 + - - +
381B PHE* 2.7 28.8 + - + -
383B MET* 1.3 75.9 - - + +
385B GLY* 1.3 56.6 + - - +
387B PHE* 3.3 9.3 + - - +
388B ALA* 2.9 27.2 + - - +
----------------------------------------------------------
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Residues in contact with GLY 385 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
338B LEU* 3.6 11.2 - - - -
381B PHE 2.9 14.3 + - - -
382B ILE* 3.7 4.0 - - - -
384B THR* 1.3 75.1 + - - +
386B ALA* 1.3 63.3 + - - +
388B ALA* 3.3 8.7 - - - +
389B HIS* 2.9 32.0 + - - -
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Residues in contact with ALA 386 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
335B GLY* 3.6 15.2 - - - +
338B LEU* 3.5 14.0 - - + +
339B ALA* 3.4 37.7 - - + +
382B ILE 2.9 9.9 + - - +
383B MET* 3.3 13.2 - - + +
385B GLY* 1.3 74.9 - - - +
387B PHE* 1.3 59.7 + - + +
389B HIS 3.3 1.4 + - - -
390B GLY* 3.0 24.9 + - - -
----------------------------------------------------------
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Residues in contact with PHE 387 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
339B ALA* 6.5 0.4 - - + -
383B MET* 3.0 40.1 + - + +
384B THR* 3.5 10.5 - - - +
386B ALA* 1.3 77.7 - - + +
388B ALA* 1.3 57.1 + - - +
390B GLY* 4.4 2.2 - - - +
391B PRO* 2.9 22.3 - - + +
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Residues in contact with ALA 388 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
384B THR 2.9 13.1 + - - +
385B GLY* 2.9 14.3 + - - +
387B PHE* 1.3 77.4 - - - +
389B HIS* 1.3 64.8 + - + +
390B GLY 3.1 1.6 - - - -
391B PRO* 3.1 17.2 - - - +
392B ILE* 3.1 22.6 - - + +
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Residues in contact with HIS 389 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
331B HIS* 2.9 60.7 + + - +
334B LEU* 3.4 30.6 - - + +
335B GLY* 4.3 8.1 - - - +
338B LEU* 4.2 7.4 - - + +
385B GLY* 2.9 26.5 + - - +
386B ALA 3.8 2.5 - - - +
388B ALA* 1.3 78.3 - - + +
390B GLY* 1.3 65.5 + - - +
391B PRO 3.5 0.2 - - - -
392B ILE* 3.8 14.7 - - + +
393B PHE* 3.3 14.2 + - - +
----------------------------------------------------------
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Residues in contact with GLY 390 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
331B HIS 5.2 0.4 - - - -
332B PHE* 6.1 1.8 - - - -
335B GLY* 4.8 3.1 - - - -
386B ALA 3.0 15.5 + - - -
387B PHE* 4.3 3.1 - - - -
389B HIS* 1.3 77.0 - - - +
391B PRO* 1.3 61.6 - - - +
393B PHE* 3.1 31.0 - - - +
394B PHE* 3.3 9.6 + - - -
----------------------------------------------------------
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Residues in contact with PRO 391 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
387B PHE* 2.9 28.0 - - + +
388B ALA* 3.1 16.8 - - - +
390B GLY* 1.3 80.1 - - - +
392B ILE* 1.3 59.9 + - + +
393B PHE 3.1 1.3 - - - -
394B PHE* 3.3 17.5 - - + +
395B ILE* 2.8 42.1 + - + +
----------------------------------------------------------
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Residues in contact with ILE 392 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
331B HIS* 3.4 36.3 - - + +
388B ALA* 3.1 22.0 - - + +
389B HIS* 3.8 31.4 - - + +
390B GLY 3.4 0.6 - - - -
391B PRO* 1.3 78.1 - - + +
393B PHE* 1.3 54.5 + - - +
395B ILE* 4.7 6.1 - - - -
396B ARG* 2.7 54.1 + - + +
----------------------------------------------------------
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Residues in contact with PHE 393 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
325B THR* 3.8 18.4 - - - -
329B SER* 3.2 28.5 - - - +
331B HIS* 3.9 10.2 - - + +
332B PHE* 3.5 34.3 - + - +
389B HIS 3.3 10.6 + - - +
390B GLY* 3.1 16.3 + - - +
391B PRO 3.1 0.2 - - - -
392B ILE* 1.3 80.1 - - - +
394B PHE* 1.3 88.9 + + - +
397B ASP* 2.9 13.7 + - + -
398B TYR* 2.8 50.3 + + + -
408B LEU* 3.5 34.5 - - + -
----------------------------------------------------------
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Residues in contact with PHE 394 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
390B GLY 3.3 12.9 + - - -
391B PRO* 3.0 18.9 + - + +
393B PHE* 1.3 102.1 - + - +
395B ILE* 1.3 63.2 + - + +
398B TYR* 3.5 29.8 - + - +
408B LEU* 4.0 28.9 - - + -
411B MET* 5.7 4.5 - - + -
412B LEU* 3.9 42.2 - - + -
----------------------------------------------------------
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Residues in contact with ILE 395 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
391B PRO* 2.8 26.9 + - + +
392B ILE* 3.9 5.4 - - + +
394B PHE* 1.3 84.2 - - + +
396B ARG* 1.3 74.5 + - + +
397B ASP 3.5 0.6 + - - -
398B TYR 4.7 3.8 + - - +
----------------------------------------------------------
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Residues in contact with ARG 396 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30B ASP* 2.6 42.4 + - - -
32B GLU* 2.7 47.3 + - - +
33B SER* 4.3 9.5 - - - -
331B HIS* 3.9 5.8 + - + -
392B ILE* 2.7 39.9 + - + +
395B ILE* 1.3 84.1 - - + +
397B ASP* 1.3 70.4 + - - +
----------------------------------------------------------
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Residues in contact with ASP 397 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32B GLU* 4.0 11.0 - - - +
328B ASN 5.1 2.9 - - - +
329B SER* 2.5 46.7 + - - +
330B ILE 4.2 1.2 + - - -
331B HIS* 3.7 20.1 - - - +
393B PHE* 2.9 9.8 + - + +
396B ARG* 1.3 93.4 - - - +
398B TYR* 1.3 68.2 + - - +
399B ASN* 3.2 7.6 + - - +
----------------------------------------------------------
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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