Contacts of the helix formed by residues 326 - 350 (chain A) in PDB entry 1EGE
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 THR 326 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
253A ASP* 3.3 20.7 + - - +
256A ARG* 5.2 5.8 + - - +
324A ARG* 3.1 37.5 + - - +
325A ASN* 1.3 80.2 + - - +
327A TYR* 1.3 62.9 + - - +
329A ALA* 3.9 4.9 - - - +
330A SER* 3.3 24.9 + - - +
385A ILE* 3.8 11.8 - - + +
389A GLU* 3.0 28.9 - - - +
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Residues in contact with TYR 327 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
324A ARG 5.1 1.7 + - - +
325A ASN 3.2 1.0 - - - -
326A THR* 1.3 79.3 - - - +
328A TYR* 1.3 83.5 + + + +
330A SER* 3.9 4.4 + - - -
331A ILE* 3.3 39.6 + - + +
386A VAL* 4.1 16.8 - - + +
389A GLU* 3.7 36.7 - - + +
390A HIS* 4.0 27.6 + - + -
393A LYS* 4.7 13.5 + - + -
302D ALA* 3.8 20.1 + - + +
305D VAL* 5.5 0.7 - - - +
306D GLU* 2.7 33.1 + - - -
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Residues in contact with TYR 328 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
311A SER 4.2 4.2 - - - +
314A ARG* 3.5 40.4 + - + -
315A ALA* 3.8 25.5 - - + +
318A GLU* 3.7 36.6 - - + -
324A ARG 5.1 2.7 - - - -
325A ASN* 2.9 10.1 + - + +
327A TYR* 1.3 96.8 - + + +
329A ALA* 1.3 63.3 + - - +
330A SER 3.4 0.2 - - - -
331A ILE* 3.3 9.0 + - + +
332A ALA* 3.3 17.2 + - - +
306D GLU* 3.4 39.8 + - + -
310D MET* 5.4 3.4 - - + -
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Residues in contact with ALA 329 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
252A PHE 4.9 1.8 - - - +
253A ASP* 4.7 2.2 - - - +
256A ARG* 3.5 34.7 - - + +
257A PRO* 4.3 4.5 - - + -
315A ALA* 3.9 11.3 - - - +
325A ASN* 2.7 37.5 + - - +
326A THR* 3.9 6.3 - - - +
328A TYR* 1.3 72.0 - - - +
330A SER* 1.3 58.7 + - - +
332A ALA* 3.2 5.8 + - - +
333A LYS 3.0 24.3 + - - -
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Residues in contact with SER 330 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256A ARG* 3.3 17.5 + - - +
326A THR 3.3 15.4 + - - -
327A TYR 4.1 1.3 - - - -
329A ALA* 1.3 75.1 - - - +
331A ILE* 1.3 63.5 + - - +
333A LYS* 3.9 0.7 - - - -
334A ALA* 3.1 26.5 + - - +
382A GLN* 3.0 31.4 + - - +
385A ILE* 3.3 15.9 - - - +
386A VAL* 3.8 21.4 - - - +
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Residues in contact with ILE 331 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
311A SER* 4.8 5.4 - - - -
327A TYR* 3.3 48.6 + - + +
328A TYR* 3.3 13.6 + - + +
329A ALA 3.2 0.4 - - - -
330A SER* 1.3 78.1 - - - +
332A ALA* 1.3 61.3 + - - +
334A ALA* 3.9 1.7 - - - +
335A PHE* 2.9 30.6 + - + +
386A VAL* 4.1 16.4 - - + -
303D MET* 3.9 22.8 - - + +
306D GLU* 3.6 22.4 - - + -
307D LEU* 3.6 29.4 - - + -
310D MET* 6.0 1.1 - - + -
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Residues in contact with ALA 332 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257A PRO* 5.2 1.8 - - + -
260A ALA* 3.6 19.7 - - + -
308A ALA 5.2 0.2 - - - +
311A SER* 3.5 34.8 - - - +
312A TYR* 3.6 11.2 - - - +
315A ALA* 4.8 3.1 - - + -
328A TYR 3.3 4.9 + - - +
329A ALA* 3.2 8.8 + - - +
331A ILE* 1.3 76.8 - - - +
333A LYS* 1.3 59.4 + - - +
336A ALA* 2.8 36.5 + - - +
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Residues in contact with LYS 333 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256A ARG* 3.5 36.3 - - + +
259A VAL* 3.9 22.9 - - + -
260A ALA* 3.9 7.9 - - - +
329A ALA 3.0 15.6 + - - +
332A ALA* 1.3 75.6 - - - +
334A ALA* 1.3 59.1 + - - +
337A GLY* 2.8 30.5 + - - -
372A TYR* 2.9 26.7 + - - +
373A GLN* 4.6 3.0 - - - +
375A TYR* 2.7 25.4 + - - +
376A GLU* 3.5 12.6 - - + +
377A GLY 3.1 21.3 + - - -
379A SER* 5.2 1.7 - - - +
382A GLN* 3.7 16.2 - - - +
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Residues in contact with ALA 334 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
330A SER 3.1 17.6 + - - +
331A ILE* 3.9 1.8 - - - +
333A LYS* 1.3 80.5 - - - +
335A PHE* 1.3 59.0 + - - +
337A GLY* 3.6 0.9 - - - -
338A ASP* 2.8 43.1 + - - +
379A SER* 4.7 9.2 - - - +
382A GLN* 3.7 23.3 - - + +
383A ARG* 4.5 16.2 - - + +
386A VAL* 5.6 1.3 - - + -
303D MET* 4.8 7.0 - - - -
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Residues in contact with PHE 335 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
304A LYS* 3.1 37.5 - - - -
307A LEU* 4.0 2.0 - - + -
308A ALA* 3.5 38.6 - - + -
311A SER* 4.1 3.4 - - - -
331A ILE* 2.9 23.5 + - + +
332A ALA* 4.3 1.3 - - - +
334A ALA* 1.3 73.1 - - - +
336A ALA* 1.3 65.4 + - - +
338A ASP* 3.0 7.2 + - + +
339A ILE* 2.9 46.9 + - + +
303D MET* 3.9 22.6 - - + +
307D LEU* 3.6 31.9 - - + -
335D PHE* 5.3 5.4 - + - -
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Residues in contact with ALA 336 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260A ALA* 3.9 29.6 - - + +
263A ALA* 3.9 8.5 - - + -
264A VAL* 4.1 13.2 - - + -
308A ALA* 4.4 5.6 - - + +
332A ALA* 2.8 25.4 + - - +
335A PHE* 1.3 76.3 - - + +
337A GLY* 1.3 56.4 + - - +
339A ILE* 3.2 10.4 + - - +
340A ALA* 2.8 33.8 + - - +
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Residues in contact with GLY 337 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263A ALA* 4.2 1.9 - - - +
333A LYS* 2.8 23.1 + - - -
334A ALA 3.6 0.9 - - - -
336A ALA* 1.3 74.4 - - - +
338A ASP* 1.3 60.6 + - - +
339A ILE 3.7 0.2 + - - -
340A ALA* 3.9 1.8 + - - +
341A ASN* 3.3 16.3 + - - +
372A TYR* 3.8 30.9 - - - +
373A GLN* 3.2 21.1 + - - +
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Residues in contact with ASP 338 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
334A ALA 2.8 23.7 + - - +
335A PHE* 3.0 7.6 + - + +
337A GLY* 1.3 78.5 - - - +
339A ILE* 1.3 63.2 + - + +
341A ASN* 3.8 3.7 + - - +
342A GLN* 3.4 29.6 + - - +
373A GLN* 2.8 26.9 - - - +
379A SER* 3.6 16.1 + - - -
383A ARG* 2.9 29.3 + - - -
303D MET* 5.6 0.8 - - + +
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Residues in contact with ILE 339 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263A ALA 6.5 0.2 - - - -
264A VAL* 5.8 0.4 - - + -
267A ALA* 4.7 7.6 - - + -
304A LYS* 3.1 56.1 - - + +
305A VAL* 3.8 5.2 - - - +
308A ALA* 3.3 17.5 - - + -
335A PHE* 2.9 42.7 + - + +
336A ALA* 3.5 10.5 - - - +
338A ASP* 1.3 75.9 - - + +
340A ALA* 1.3 64.8 + - - +
341A ASN 3.1 2.2 - - - -
342A GLN* 2.9 13.0 + - - +
343A LEU* 2.8 40.3 + - + +
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Residues in contact with ALA 340 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263A ALA* 3.8 32.8 - - + +
266A LEU* 4.5 13.7 - - + +
267A ALA* 4.3 13.3 - - + -
270A ALA* 5.6 0.3 - - - +
336A ALA 2.8 18.1 + - - +
337A GLY* 4.1 4.9 - - - +
338A ASP 3.5 0.4 - - - -
339A ILE* 1.3 79.6 - - - +
341A ASN* 1.3 57.8 + - - +
343A LEU* 4.1 1.0 - - - +
344A ALA* 3.1 26.7 + - - +
369A ALA* 3.7 6.9 - - + +
372A TYR* 5.1 3.8 - - + -
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Residues in contact with ASN 341 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
337A GLY 3.3 12.4 + - - +
338A ASP 4.1 7.0 - - - +
339A ILE 3.1 0.8 - - - -
340A ALA* 1.3 77.4 - - - +
342A GLN* 1.3 68.5 + - - +
344A ALA* 3.3 2.6 + - - +
345A THR* 3.1 22.6 + - - +
366A MET* 4.1 8.2 + - - +
369A ALA* 2.9 28.7 - - - +
370A LYS* 3.1 32.9 - - - +
373A GLN* 3.1 32.1 + - - +
345B THR* 5.9 2.8 - - + +
366B MET* 4.5 4.9 - - - +
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Residues in contact with GLN 342 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
304A LYS* 3.9 26.9 - - - +
338A ASP* 3.4 21.4 + - - +
339A ILE* 2.9 15.7 + - - +
341A ASN* 1.3 77.2 - - - +
343A LEU* 1.3 67.0 + - + +
345A THR* 2.9 29.0 - - - +
346A ASP* 3.1 14.0 + - - +
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Residues in contact with LEU 343 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
267A ALA* 3.2 29.8 - - + +
270A ALA* 4.0 7.9 - - + -
271A LEU* 3.8 13.7 - - + -
301A MET* 3.6 45.6 - - + +
304A LYS* 3.6 22.7 - - + -
305A VAL* 3.4 23.6 - - + -
339A ILE* 2.8 24.3 + - + +
340A ALA 4.2 3.1 - - - +
342A GLN* 1.3 74.1 - - + +
344A ALA* 1.3 62.4 + - - +
346A ASP* 3.0 7.1 + - - +
347A ALA* 2.9 21.8 + - - +
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Residues in contact with ALA 344 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
266A LEU* 5.4 1.6 - - + -
270A ALA* 4.0 12.1 - - + +
340A ALA 3.1 19.4 + - - +
341A ASN* 3.4 6.3 - - - +
342A GLN 3.2 0.2 - - - -
343A LEU* 1.3 78.8 - - - +
345A THR* 1.3 62.1 + - - +
347A ALA* 3.2 11.1 + - - +
348A VAL* 3.2 16.6 + - - +
362A VAL 4.4 1.6 - - - +
365A LEU* 4.1 6.1 - - + -
366A MET* 3.7 32.3 - - + +
369A ALA* 4.0 9.6 - - + -
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Residues in contact with THR 345 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
341A ASN 3.1 9.7 + - - +
342A GLN* 2.9 27.4 - - - +
344A ALA* 1.3 78.6 - - - +
346A ASP* 1.3 69.4 + - - +
348A VAL* 3.6 0.4 + - - -
349A GLN* 3.2 7.3 + - - +
366A MET* 3.7 26.2 - - - +
341B ASN* 4.6 5.2 + - - -
370B LYS* 3.1 39.1 + - - +
373B GLN* 4.3 5.7 + - - -
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Residues in contact with ASP 346 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
297A MET* 4.0 21.7 - - + +
301A MET* 4.0 27.3 - - + +
342A GLN* 3.1 21.0 + - - +
343A LEU* 3.0 10.0 + - - +
345A THR* 1.3 81.7 - - - +
347A ALA* 1.3 54.2 + - - +
349A GLN* 3.0 9.1 + - - +
350A ILE* 2.7 39.6 + - - +
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Residues in contact with ALA 347 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
270A ALA* 3.5 33.0 - - + +
274A ALA* 4.0 13.5 - - + -
301A MET* 4.0 1.0 - - + +
343A LEU 2.9 11.2 + - - +
344A ALA 3.2 10.3 + - - +
346A ASP* 1.3 76.0 - - - +
348A VAL* 1.3 63.9 + - - +
350A ILE 3.3 0.7 + - - -
351A LEU* 3.0 30.3 + - - +
362A VAL* 3.6 18.8 - - + -
365A LEU* 5.3 0.2 - - + -
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Residues in contact with VAL 348 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
344A ALA 3.2 13.7 + - - +
345A THR 3.7 7.0 - - - +
346A ASP 3.2 0.2 - - - -
347A ALA* 1.3 75.8 - - - +
349A GLN* 1.3 63.1 + - - +
351A LEU* 3.0 15.6 + - - -
352A GLY 3.3 8.7 + - - +
355A GLY* 3.6 25.1 - - - +
356A PHE* 4.1 3.6 - - + +
362A VAL* 3.5 33.9 - - - +
363A GLU* 4.1 5.4 - - - +
366A MET* 3.8 18.2 - - + -
215B MET* 5.4 2.2 - - + -
370B LYS* 3.7 21.5 - - + -
374B ILE* 3.9 11.2 - - + -
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Residues in contact with GLN 349 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
297A MET* 4.5 8.5 - - + -
345A THR 3.2 9.1 + - - +
346A ASP* 3.0 14.3 + - - +
348A VAL* 1.3 79.8 - - - +
350A ILE* 1.3 61.4 + - - +
352A GLY* 3.0 13.4 + - - +
370B LYS* 2.5 31.7 - - - +
373B GLN* 2.8 33.5 + - - +
374B ILE* 3.5 14.1 - - - +
378B THR* 3.1 27.7 - - - +
379B SER* 4.5 2.4 + - - -
380B GLN* 3.8 22.8 + - - +
399B FAD 2.9 18.6 + - - +
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Residues in contact with ILE 350 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
274A ALA* 3.6 43.5 - - + +
277A TYR* 3.9 9.4 - - + -
278A ALA* 4.5 13.2 - - + +
288A LEU* 4.1 4.3 - - + +
294A ILE* 3.7 35.4 - - + -
297A MET* 3.5 24.5 - - + -
298A LEU* 4.1 11.0 - - + -
301A MET* 4.8 1.6 - - - -
346A ASP 2.7 22.2 + - - +
347A ALA 3.5 7.9 - - - +
348A VAL 3.2 0.2 - - - -
349A GLN* 1.3 72.3 - - - +
351A LEU* 1.3 60.8 + - + +
352A GLY 3.1 5.0 + - - -
399B FAD 3.5 19.4 - - - +
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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