Contacts of the helix formed by residues 324 - 353 (chain B) in PDB entry 1IAX
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 324 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66B TRP* 3.4 23.6 + - + +
70B ASN* 3.4 22.6 + - - +
320B ALA 3.8 2.1 + - - +
321B MET 3.1 11.9 + - - +
323B SER* 1.3 74.5 - - - +
325B GLU* 1.3 52.8 + - - +
326B LYS* 3.1 10.4 + - - +
327B PHE* 2.5 40.9 + - + +
328B VAL* 2.7 31.1 + - - +
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Residues in contact with GLU 325 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104B LYS* 5.8 6.9 - - - +
108B LYS* 3.8 26.8 + - - +
322B LEU 3.6 9.2 - - - +
323B SER* 2.6 27.2 + - - +
324B ASP* 1.3 69.0 - - - +
326B LYS* 1.3 59.4 + - - +
328B VAL* 4.2 7.3 - - - +
329B ASP* 2.6 49.8 + - - +
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Residues in contact with LYS 326 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70B ASN* 5.4 7.9 - - - +
324B ASP* 3.1 7.7 + - - +
325B GLU* 1.3 77.7 - - - +
327B PHE* 1.3 52.7 + - - +
329B ASP* 4.0 3.4 - - - +
330B ASN* 2.7 43.5 + - + +
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Residues in contact with PHE 327 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B LEU* 3.8 25.1 - - + -
63B ILE* 4.2 10.8 - - + -
66B TRP* 3.6 22.7 - + + -
70B ASN* 5.3 1.5 + - - +
280B MET* 3.6 27.4 - - + -
321B MET* 3.3 51.1 - - + -
322B LEU* 5.1 0.2 - - + -
324B ASP* 2.5 30.4 + - + +
326B LYS* 1.3 70.8 - - - +
328B VAL* 1.3 62.3 + - + +
329B ASP 2.9 4.0 - - - -
330B ASN* 2.9 6.6 + - + +
331B PHE* 2.6 54.5 + + + +
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Residues in contact with VAL 328 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105B PHE* 3.3 34.8 - - + -
108B LYS* 4.1 18.4 - - + -
280B MET* 5.9 0.2 - - - -
321B MET 3.9 3.1 - - - +
322B LEU* 3.3 46.9 - - + +
324B ASP 2.7 20.4 + - - +
325B GLU* 4.1 8.5 - - - +
327B PHE* 1.3 79.4 - - + +
329B ASP* 1.3 57.7 + - - +
331B PHE* 4.2 4.5 - - - -
332B LEU* 3.1 27.7 + - + +
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Residues in contact with ASP 329 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108B LYS* 3.0 42.1 - - - +
325B GLU* 2.6 36.4 + - - +
326B LYS* 4.0 3.8 - - - +
328B VAL* 1.3 74.6 - - - +
330B ASN* 1.3 63.3 + - - +
332B LEU* 4.2 3.9 - - - +
333B ARG* 3.5 20.4 + - - +
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Residues in contact with ASN 330 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B LEU* 4.5 19.0 - - - +
326B LYS* 2.7 29.3 + - + +
327B PHE* 3.7 7.4 - - - +
329B ASP* 1.3 76.0 - - - +
331B PHE* 1.3 60.1 + - - +
333B ARG* 3.3 24.7 + - - +
334B GLU* 2.9 40.4 + - - +
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Residues in contact with PHE 331 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B CYS* 3.3 41.1 - - + -
62B LEU* 4.3 15.0 - - + -
63B ILE* 4.5 5.2 - - + -
105B PHE* 5.0 2.2 - + - -
279B ASP 3.1 24.5 - - - -
280B MET* 3.2 49.8 - - + -
327B PHE* 2.6 41.4 + + + +
328B VAL* 4.5 2.2 - - - -
330B ASN* 1.3 73.5 - - - +
332B LEU* 1.3 66.7 + - + +
334B GLU* 4.6 3.4 - - - -
335B SER* 2.7 49.8 + - - -
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Residues in contact with LEU 332 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105B PHE* 3.9 24.7 - - + -
108B LYS* 4.0 38.6 - - + +
109B THR* 4.2 7.2 - - - +
242B ALA* 3.7 33.0 - - + +
328B VAL* 3.1 24.7 + - + +
329B ASP* 4.3 5.2 - - - +
330B ASN 3.4 0.4 - - - -
331B PHE* 1.3 87.8 - - + +
333B ARG* 1.3 62.2 + - - +
335B SER* 3.6 3.9 + - - -
336B ALA* 3.2 22.5 + - - +
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Residues in contact with ARG 333 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
329B ASP 3.5 15.9 + - - +
330B ASN* 3.3 22.6 + - - +
331B PHE 3.3 0.4 - - - -
332B LEU* 1.3 76.0 - - - +
334B GLU* 1.3 71.9 + - - +
336B ALA* 3.2 9.6 + - - +
337B MET* 3.2 50.8 + - + +
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Residues in contact with GLU 334 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B LEU* 3.7 24.2 - - + +
330B ASN* 2.9 32.7 + - - +
331B PHE 3.8 0.2 - - - +
333B ARG* 1.3 80.5 - - - +
335B SER* 1.3 59.7 + - - +
337B MET* 2.8 50.9 + - + +
338B ARG* 3.1 47.5 + - - +
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Residues in contact with SER 335 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B ASN* 4.4 9.4 + - - -
58B LEU* 6.1 0.3 - - - +
59B CYS* 3.6 23.7 - - - +
242B ALA 4.6 9.6 + - - -
243B THR* 6.0 0.2 - - - +
279B ASP* 5.6 2.8 + - - -
331B PHE* 2.7 39.2 + - - -
332B LEU* 3.9 6.5 - - - -
334B GLU* 1.3 73.5 - - - +
336B ALA* 1.3 61.4 + - - +
338B ARG* 4.4 1.0 - - - +
339B LEU* 3.3 39.0 + - - +
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Residues in contact with ALA 336 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242B ALA 5.4 3.1 + - - +
244B VAL 3.7 22.9 - - - +
245B PHE* 3.4 16.3 - - - +
332B LEU 3.2 12.3 + - - +
333B ARG* 3.2 12.0 + - - +
334B GLU 3.1 0.8 - - - -
335B SER* 1.3 74.8 - - - +
337B MET* 1.3 69.5 + - + +
339B LEU* 4.8 1.6 - - - -
340B GLY* 3.1 15.1 + - - -
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Residues in contact with MET 337 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
333B ARG* 3.2 47.3 + - + +
334B GLU* 2.8 37.9 + - - +
336B ALA* 1.3 79.5 - - + +
338B ARG* 1.3 53.2 + - + +
340B GLY* 2.9 4.2 + - - -
341B LYS* 2.7 37.1 + - + +
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Residues in contact with ARG 338 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58B LEU* 3.4 45.4 + - + -
59B CYS* 3.7 11.4 - - - -
61B ASP* 3.0 29.8 + - - -
62B LEU* 3.5 23.3 - - - +
334B GLU* 3.1 44.3 + - - +
335B SER 4.4 2.5 - - - +
337B MET* 1.3 74.3 - - + +
339B LEU* 1.3 54.2 + - - +
341B LYS* 3.0 9.1 + - - +
342B ARG* 2.7 36.4 + - - +
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Residues in contact with LEU 339 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B ASN* 3.5 24.0 - - - +
58B LEU* 3.6 24.2 - - + +
243B THR* 3.8 33.7 - - - +
245B PHE* 3.9 14.8 - - + -
335B SER* 3.3 25.4 + - - +
336B ALA* 4.1 2.7 - - - +
338B ARG* 1.3 77.6 - - - +
340B GLY* 1.3 58.3 + - - +
342B ARG* 3.8 0.9 - - - +
343B HIS* 2.8 31.5 + - - +
363B GLY 4.2 6.3 - - - +
364B LEU* 3.8 19.3 - - + -
415B PHE* 4.6 6.8 - - + -
416B ALA* 4.1 9.4 - - + -
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Residues in contact with GLY 340 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
245B PHE* 3.8 22.4 - - - +
336B ALA 3.1 7.6 + - - -
337B MET 2.9 7.5 + - - -
339B LEU* 1.3 74.1 - - - +
341B LYS* 1.3 65.9 + - - +
343B HIS* 4.4 0.4 - - - -
344B LYS* 2.8 51.5 + - - +
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Residues in contact with LYS 341 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
337B MET* 2.7 17.1 + - + +
338B ARG* 3.4 12.8 - - - +
340B GLY* 1.3 72.6 - - - +
342B ARG* 1.3 61.9 + - - +
344B LYS* 3.9 9.5 - - - +
345B HIS* 3.3 20.5 + - + +
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Residues in contact with ARG 342 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58B LEU* 3.2 39.3 - - + +
338B ARG 2.7 19.0 + - - +
339B LEU* 3.9 2.5 - - - +
341B LYS* 1.3 72.3 - - - +
343B HIS* 1.3 66.9 + - - +
345B HIS* 3.1 10.7 + - - +
346B PHE* 2.9 21.7 + - - +
415B PHE* 3.0 40.5 + - + +
416B ALA* 5.4 0.4 - - - +
418B MET 2.5 30.9 + - - +
419B ASP* 3.9 3.2 - - - +
420B ASP* 2.6 42.0 + - - +
423B VAL* 3.6 26.7 - - - +
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Residues in contact with HIS 343 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
245B PHE* 3.5 23.9 - + + -
339B LEU 2.8 21.9 + - - +
340B GLY 3.8 2.2 - - - +
342B ARG* 1.3 73.4 - - - +
344B LYS* 1.3 66.1 + - - +
346B PHE* 3.2 2.0 + - - +
347B THR* 2.8 57.6 + - + -
357B CYS* 6.1 1.0 - - - +
358B LEU 5.5 0.4 + - - -
359B LYS* 6.2 2.7 - - + -
360B ASN* 2.7 48.9 + - - -
366B CYS* 4.4 5.4 - - + +
415B PHE* 3.8 34.1 - + + -
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Residues in contact with LYS 344 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
245B PHE* 4.3 7.9 + - + -
246B ASP* 4.1 19.0 + - - +
340B GLY* 2.8 45.2 + - - +
341B LYS* 3.9 8.0 - - - +
343B HIS* 1.3 80.9 + - - +
345B HIS* 1.3 56.7 + - - +
347B THR* 3.0 7.4 + - - -
348B ASN* 2.8 43.8 + - - +
----------------------------------------------------------
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Residues in contact with HIS 345 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
341B LYS* 3.3 12.5 + - + +
342B ARG* 3.1 16.0 + - - +
344B LYS* 1.3 78.9 - - - +
346B PHE* 1.3 51.9 + - - +
348B ASN* 3.1 10.5 + - + +
349B GLY* 2.7 35.2 + - - -
420B ASP* 5.5 8.9 + - + +
423B VAL* 5.2 7.2 - - + +
424B ASP* 2.7 40.8 + - - -
427B LEU* 4.3 8.3 - - + +
----------------------------------------------------------
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Residues in contact with PHE 346 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51B MET* 3.8 17.7 - - + -
342B ARG* 2.9 15.4 + - + +
343B HIS 3.8 2.7 - - - +
345B HIS* 1.3 77.0 - - - +
347B THR* 1.3 60.5 + - - +
349B GLY* 3.5 1.4 + - - +
350B LEU* 3.2 47.5 + - + +
366B CYS* 3.7 28.0 - - - -
368B MET* 5.8 0.2 - - - -
413B VAL* 3.9 29.6 - - + -
415B PHE* 3.9 19.7 - + + -
423B VAL* 3.7 28.4 - - + +
427B LEU* 3.9 28.3 - - + -
430B ILE* 4.2 16.4 - - + -
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Residues in contact with THR 347 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
343B HIS* 2.8 45.6 + - + -
344B LYS* 3.0 9.4 + - - +
346B PHE* 1.3 76.0 - - - +
348B ASN* 1.3 68.7 + - - +
349B GLY 3.2 0.2 - - - -
350B LEU* 3.4 8.3 + - - +
351B GLU* 3.0 36.2 + - + +
355B ILE 5.0 0.2 - - - +
357B CYS* 5.4 10.5 - - + +
366B CYS* 5.5 2.9 - - - -
----------------------------------------------------------
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Residues in contact with ASN 348 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
344B LYS* 2.8 33.5 + - - +
345B HIS* 3.7 10.6 - - + +
347B THR* 1.3 77.7 - - - +
349B GLY* 1.3 67.6 + - - +
351B GLU* 3.6 8.8 - - - +
352B VAL* 3.0 32.1 + - + +
----------------------------------------------------------
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Residues in contact with GLY 349 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
345B HIS* 2.7 16.4 + - - -
346B PHE 3.8 0.4 - - - -
347B THR 3.2 0.4 - - - -
348B ASN* 1.3 78.7 - - - +
350B LEU* 1.3 58.1 + - - +
352B VAL* 3.5 17.2 - - - +
353B VAL* 3.9 10.0 + - - +
427B LEU* 3.4 34.6 - - - +
431B ARG* 5.9 0.5 + - - -
----------------------------------------------------------
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Residues in contact with LEU 350 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
346B PHE* 3.2 42.4 + - + +
347B THR* 3.4 4.5 + - - +
348B ASN 3.1 0.4 - - - -
349B GLY* 1.3 72.9 - - - +
351B GLU* 1.3 60.5 + - - +
352B VAL 3.0 1.3 - - - -
353B VAL* 3.4 6.7 + - + +
354B GLY 3.2 4.0 + - - -
355B ILE* 2.6 69.0 + - + +
357B CYS* 3.6 28.3 - - - -
368B MET* 4.2 12.8 - - - -
427B LEU* 4.2 9.0 - - + -
430B ILE* 4.0 26.2 - - + -
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Residues in contact with GLU 351 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
347B THR* 3.0 28.7 + - + +
348B ASN* 3.1 11.8 + - - +
350B LEU* 1.3 76.3 - - - +
352B VAL* 1.3 64.4 + - + +
354B GLY* 3.3 10.9 + - - -
355B ILE 3.9 10.7 - - - +
356B LYS* 4.8 17.3 - - - +
----------------------------------------------------------
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Residues in contact with VAL 352 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
348B ASN* 3.0 19.9 + - + +
349B GLY* 3.5 11.7 - - - +
351B GLU* 1.3 80.4 - - + +
353B VAL* 1.3 69.1 - - + +
354B GLY 3.2 4.3 + - - -
431B ARG* 5.2 9.9 - - - +
----------------------------------------------------------
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Residues in contact with VAL 353 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
349B GLY 4.2 6.3 - - - +
350B LEU* 3.5 11.4 - - + +
352B VAL* 1.3 84.2 - - + +
354B GLY* 1.3 57.7 + - - +
355B ILE* 3.5 31.9 - - + -
427B LEU* 5.4 1.6 - - + +
430B ILE* 4.8 6.1 - - + -
431B ARG* 3.3 46.2 - - + +
434B VAL* 3.5 28.8 - - + +
435B GLY* 5.7 0.4 - - - +
----------------------------------------------------------
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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