Contacts of the helix formed by residues 326 - 350 (chain B) 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 B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
253B ASP* 3.4 25.6 + - - +
256B ARG* 6.3 1.3 - - - +
324B ARG* 3.3 44.2 + - - +
325B ASN* 1.3 81.4 - - - +
327B TYR* 1.3 61.1 + - - -
329B ALA* 4.0 1.5 - - - +
330B SER* 3.1 33.3 + - - +
385B ILE* 3.9 22.0 - - + -
388B ARG* 4.8 4.0 - - - +
389B GLU* 4.2 5.4 - - - +
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Residues in contact with TYR 327 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
324B ARG 4.8 3.7 + - - +
325B ASN 2.9 5.8 + - - +
326B THR* 1.3 76.7 - - - +
328B TYR* 1.3 83.1 + + + +
330B SER* 3.8 1.5 + - - -
331B ILE* 3.2 39.7 + - + +
386B VAL* 3.7 26.7 - - + +
389B GLU* 4.0 27.1 + - + +
390B HIS* 4.6 12.2 + - + -
393B LYS* 3.0 37.8 - - - +
271C LEU* 5.8 0.5 - - - +
302C ALA* 3.9 16.7 + - + +
306C GLU* 3.3 29.1 + - + +
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Residues in contact with TYR 328 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
311B SER* 4.2 3.9 + - - +
314B ARG* 4.2 32.3 + - + -
315B ALA* 3.8 18.9 - - + +
318B GLU* 3.4 38.8 - - + -
324B ARG 4.8 4.9 - - - -
325B ASN 2.8 15.6 + - - +
327B TYR* 1.3 91.5 - + + +
329B ALA* 1.3 58.0 + - - +
331B ILE* 3.3 16.2 + - + +
332B ALA* 2.9 26.5 + - - +
306C GLU* 3.5 31.5 + - + -
310C MET* 5.0 5.2 - - + -
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Residues in contact with ALA 329 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256B ARG* 4.0 24.7 - - + +
257B PRO* 4.0 4.7 - - + -
315B ALA* 3.6 14.8 - - + +
325B ASN* 2.8 37.5 + - - +
326B THR* 3.5 4.0 + - - +
328B TYR* 1.3 75.5 - - - +
330B SER* 1.3 60.6 + - - +
332B ALA* 3.1 5.0 - - - +
333B LYS* 2.8 29.6 + - - +
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Residues in contact with SER 330 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256B ARG* 3.9 11.2 + - - +
326B THR* 3.1 20.4 + - - +
329B ALA* 1.3 72.9 - - - +
331B ILE* 1.3 56.9 + - - +
333B LYS 3.7 0.2 - - - -
334B ALA* 2.7 36.7 + - - +
382B GLN* 2.9 32.8 + - - +
385B ILE* 3.4 18.2 - - - +
386B VAL* 3.6 21.1 - - - -
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Residues in contact with ILE 331 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
311B SER* 3.6 13.2 - - - +
327B TYR* 3.2 40.3 + - + +
328B TYR* 3.3 15.9 + - + +
330B SER* 1.3 76.7 - - - +
332B ALA* 1.3 68.1 + - - +
334B ALA* 3.6 1.6 - - - +
335B PHE* 2.9 20.7 + - + +
386B VAL* 4.0 10.1 - - + -
303C MET* 3.7 43.1 - - + +
306C GLU* 4.0 17.5 - - + -
307C LEU* 3.8 21.1 - - + -
310C MET* 6.2 0.9 - - + -
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Residues in contact with ALA 332 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256B ARG 5.4 0.9 - - - +
257B PRO* 5.4 0.9 - - + -
260B ALA* 3.8 20.4 - - + -
311B SER* 3.1 19.9 + - - +
312B TYR* 3.8 18.8 - - - +
315B ALA* 4.6 0.9 - - + -
328B TYR 2.9 14.6 + - - +
329B ALA* 3.1 13.2 - - - +
330B SER 3.1 0.2 - - - -
331B ILE* 1.3 78.9 - - - +
333B LYS* 1.3 57.5 + - - +
336B ALA* 2.7 33.4 + - + +
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Residues in contact with LYS 333 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256B ARG* 4.3 16.4 - - + +
259B VAL* 3.7 24.7 - - + +
260B ALA* 3.8 10.0 - - - +
329B ALA 2.8 18.2 + - - +
332B ALA* 1.3 72.7 - - - +
334B ALA* 1.3 61.0 + - - +
336B ALA* 4.7 0.2 - - - -
337B GLY* 3.1 17.3 + - - +
372B TYR* 3.5 24.0 - - + +
373B GLN* 5.1 0.7 - - - +
375B TYR 3.0 21.7 + - - -
376B GLU* 2.7 36.5 + - - +
377B GLY 3.4 10.8 - - - -
379B SER* 5.2 2.4 + - - +
382B GLN* 3.3 29.1 - - + +
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Residues in contact with ALA 334 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
330B SER 2.7 23.3 + - - +
331B ILE 3.6 3.4 - - - +
333B LYS* 1.3 74.2 - - - +
335B PHE* 1.3 62.0 + - - +
338B ASP* 3.0 34.8 + - - +
379B SER* 4.7 3.3 + - - -
382B GLN* 3.9 20.4 - - + -
383B ARG* 4.1 15.0 - - + +
386B VAL* 5.6 0.7 - - + -
303C MET* 4.0 21.3 - - - -
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Residues in contact with PHE 335 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
304B LYS* 3.5 20.9 - - + -
307B LEU* 3.8 15.0 - - + -
308B ALA* 3.5 42.2 - - + -
311B SER* 4.8 3.1 - - - +
331B ILE 2.9 17.8 + - - +
332B ALA* 2.9 2.9 + - - +
334B ALA* 1.3 75.3 - - - +
336B ALA* 1.3 56.9 + - - +
338B ASP* 2.9 6.4 + - + +
339B ILE* 2.8 56.6 + - + +
303C MET* 4.3 17.9 - - + +
307C LEU* 3.7 33.0 - - + -
335C PHE* 5.2 8.3 - + - -
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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
----------------------------------------------------------
260B ALA* 3.5 36.1 - - + +
263B ALA* 3.5 7.4 - - + +
264B VAL* 4.1 12.6 - - + -
308B ALA* 4.1 9.4 - - + +
332B ALA 2.7 18.9 + - - +
335B PHE* 1.3 74.7 - - - +
337B GLY* 1.3 62.4 + - - +
339B ILE* 3.5 10.0 - - - +
340B ALA* 3.0 27.4 + - - +
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Residues in contact with GLY 337 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263B ALA* 4.2 1.7 - - - +
333B LYS* 3.1 17.9 + - - +
336B ALA* 1.3 80.1 - - - +
338B ASP* 1.3 63.1 + - - +
340B ALA* 3.7 8.1 - - - +
341B ASN* 3.6 17.8 - - - +
372B TYR* 3.1 36.3 - - - +
373B GLN* 3.6 4.5 - - - +
379B SER* 5.5 0.2 - - - -
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Residues in contact with ASP 338 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
334B ALA 3.0 15.7 + - - +
335B PHE* 2.9 7.9 + - + +
337B GLY* 1.3 75.1 - - - +
339B ILE* 1.3 65.1 + - + +
340B ALA 3.4 0.2 + - - -
341B ASN* 3.4 7.3 + - - +
342B GLN* 3.2 35.6 + - - +
373B GLN* 3.9 16.2 + - - +
379B SER* 3.0 26.9 + - - -
383B ARG* 2.7 35.4 + - - -
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Residues in contact with ILE 339 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
264B VAL* 5.2 2.2 - - + -
267B ALA* 4.6 13.5 - - + -
304B LYS* 3.0 62.8 - - + +
305B VAL* 4.1 5.8 - - + +
308B ALA* 3.3 17.7 - - + -
335B PHE* 2.8 52.8 + - + +
336B ALA* 3.5 9.2 - - - +
338B ASP* 1.3 70.9 - - + +
340B ALA* 1.3 57.6 + - - +
342B GLN* 2.9 12.7 + - - +
343B LEU* 2.7 37.2 + - + +
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Residues in contact with ALA 340 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263B ALA* 3.9 27.1 - - + +
266B LEU* 4.0 13.8 - - + +
267B ALA* 4.3 13.2 - - - -
336B ALA 3.0 20.4 + - - +
337B GLY* 3.7 5.2 - - - +
338B ASP 3.3 0.2 - - - -
339B ILE* 1.3 76.2 - - - +
341B ASN* 1.3 59.3 + - - +
343B LEU* 3.0 3.1 + - - +
344B ALA* 2.8 30.3 + - - +
369B ALA* 4.1 6.3 - - + -
372B TYR* 4.9 4.9 - - + -
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Residues in contact with ASN 341 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
345A THR* 4.6 6.1 + - - -
366A MET* 4.9 6.1 - - - +
337B GLY 3.6 2.2 + - - +
338B ASP 3.4 3.5 + - - +
340B ALA* 1.3 79.8 - - - +
342B GLN* 1.3 62.3 + - + +
344B ALA* 4.1 0.7 - - - +
345B THR* 2.9 34.0 + - - -
366B MET* 4.6 4.9 + - - +
369B ALA* 3.1 31.7 - - - +
370B LYS* 3.4 31.0 + - - +
373B GLN* 3.3 40.5 - - - +
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Residues in contact with GLN 342 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
304B LYS* 2.7 48.1 + - - +
338B ASP* 3.2 30.0 + - - +
339B ILE* 2.9 14.0 + - - +
341B ASN* 1.3 79.8 - - + +
343B LEU* 1.3 58.1 + - + +
345B THR* 4.1 3.1 - - - -
346B ASP* 3.2 33.1 + - - +
373B GLN* 6.0 0.2 - - - +
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Residues in contact with LEU 343 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
267B ALA* 3.1 33.9 - - + +
270B ALA* 3.8 5.2 - - + +
271B LEU* 4.1 11.7 - - + -
301B MET* 3.6 44.1 - - + +
304B LYS* 3.8 22.9 - - + +
305B VAL* 3.2 24.5 - - + -
339B ILE* 2.7 19.9 + - + +
340B ALA 3.0 5.6 + - - +
342B GLN* 1.3 73.8 - - - +
344B ALA* 1.3 59.0 + - - +
345B THR 3.1 1.8 - - - -
346B ASP* 3.2 4.5 + - - +
347B ALA* 2.8 31.4 + - - +
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Residues in contact with ALA 344 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
266B LEU* 4.1 5.4 - - + +
270B ALA* 4.0 11.6 - - - +
340B ALA 2.8 15.1 + - - +
341B ASN 4.1 1.6 - - - +
343B LEU* 1.3 76.4 - - - +
345B THR* 1.3 59.6 + - - +
347B ALA* 3.6 3.0 - - - +
348B VAL* 3.2 28.4 + - - +
362B VAL 4.2 2.1 - - - +
365B LEU* 3.6 38.6 - - + +
366B MET* 3.9 4.8 - - - +
369B ALA* 3.9 11.0 - - + -
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Residues in contact with THR 345 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
341A ASN* 5.9 2.7 - - + +
366A MET* 5.3 3.3 - - - +
370A LYS* 3.3 28.5 + - + +
373A GLN* 4.8 4.3 - - - +
341B ASN* 2.9 25.0 + - - -
342B GLN* 4.1 4.3 - - - -
343B LEU 3.1 0.8 - - - -
344B ALA* 1.3 75.7 - - - +
346B ASP* 1.3 67.1 + - - +
348B VAL* 3.1 4.3 + - - +
349B GLN 3.1 16.8 + - - -
366B MET* 3.8 27.3 - - + +
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Residues in contact with ASP 346 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
297B MET* 4.4 22.9 - - - +
300B GLU* 5.7 2.8 - - - +
301B MET* 3.9 29.6 - - + +
304B LYS* 5.8 1.4 + - - -
342B GLN* 3.2 22.0 + - - +
343B LEU* 3.7 3.5 - - - +
345B THR* 1.3 79.5 - - - +
347B ALA* 1.3 64.3 + - - +
349B GLN* 3.1 10.5 + - - +
350B ILE* 2.9 28.1 + - + +
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Residues in contact with ALA 347 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
270B ALA* 3.8 30.7 - - + +
274B ALA* 3.8 15.7 - - + -
301B MET* 4.2 1.3 - - + +
343B LEU 2.8 17.3 + - - +
344B ALA* 3.6 7.2 - - - +
345B THR 3.2 0.2 - - - -
346B ASP* 1.3 76.2 - - - +
348B VAL* 1.3 61.7 + - - +
350B ILE* 3.1 10.4 + - - +
351B LEU* 3.2 20.1 - - - +
362B VAL* 4.0 17.5 - - + -
365B LEU* 5.5 0.4 - - + -
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Residues in contact with VAL 348 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215A MET* 5.3 1.8 - - + -
370A LYS* 4.0 23.3 - - + -
374A ILE* 4.5 2.1 - - + +
344B ALA 3.2 18.2 - - - +
345B THR 3.1 5.7 + - - +
347B ALA* 1.3 74.5 - - - +
349B GLN* 1.3 65.0 + - - +
351B LEU* 3.1 13.9 + - - -
352B GLY 3.3 9.7 + - - +
355B GLY* 3.2 27.1 - - - +
356B PHE* 3.7 10.5 - - + +
362B VAL* 3.6 31.9 - - - +
363B GLU* 4.1 4.7 - - - +
366B MET* 3.9 17.0 - - + -
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Residues in contact with GLN 349 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
370A LYS* 3.5 14.5 + - - +
373A GLN* 3.1 39.9 + - - +
374A ILE* 3.1 32.7 - - - +
378A THR* 4.4 8.3 - - - +
379A SER* 3.7 5.1 + - - +
380A GLN* 3.7 23.8 - - - +
399A FAD 2.7 25.7 + - - -
297B MET* 4.6 8.5 - - + -
345B THR 3.1 11.1 + - - +
346B ASP* 3.1 15.0 + - - +
348B VAL* 1.3 79.5 - - - +
350B ILE* 1.3 54.9 + - - +
352B GLY* 3.1 8.6 + - - +
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Residues in contact with ILE 350 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
399A FAD 3.1 20.0 + - - +
274B ALA* 3.7 33.9 - - + +
277B TYR* 3.6 14.3 - - + -
278B ALA* 4.6 8.5 - - + -
288B LEU* 3.7 9.9 - - + +
294B ILE* 4.0 22.2 - - + -
297B MET* 3.6 39.7 - - + -
298B LEU* 5.0 4.5 - - + -
301B MET* 4.8 4.5 - - - -
346B ASP 2.9 22.9 + - - +
347B ALA 3.1 8.0 + - - +
349B GLN* 1.3 74.8 - - - +
351B LEU* 1.3 64.8 + - + +
352B GLY 3.2 2.6 + - - -
----------------------------------------------------------
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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