Contacts of the helix formed by residues 318 - 345 (chain B) in PDB entry 2CX9
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 PHE 318 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243B ARG* 4.8 9.6 - - + -
246B ASP* 3.7 38.6 - - + -
247B GLY 4.2 3.6 - - - -
250B ILE* 3.7 25.4 - - + -
308B ALA 4.0 3.8 - - - +
311B LEU* 3.8 19.7 - - + -
312B LYS* 3.5 39.9 - - + -
316B ARG 3.3 13.7 - - - -
317B PRO* 1.3 75.7 - - + +
319B THR* 1.3 62.2 + - - +
320B LEU 3.3 2.7 - - - -
321B GLU* 3.2 12.6 - - + +
322B ALA* 2.8 35.6 + - + +
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Residues in contact with THR 319 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246B ASP* 2.6 39.6 + - - +
249B ARG* 5.2 1.7 + - - +
317B PRO* 5.3 1.0 - - - +
318B PHE* 1.3 77.9 + - - +
320B LEU* 1.3 63.3 + - - +
321B GLU* 4.1 0.2 + - - -
322B ALA* 4.1 1.2 - - - +
323B ALA* 3.1 23.8 + - - +
378B VAL* 3.9 21.3 - - + -
382B ARG* 3.2 41.2 + - + +
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Residues in contact with LEU 320 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
318B PHE 3.3 0.4 - - - -
319B THR* 1.3 81.2 - - - +
321B GLU* 1.3 75.1 + - - +
323B ALA* 3.3 5.5 + - - +
324B GLN* 2.9 50.2 + - - +
378B VAL* 5.4 0.7 - - - -
379B ILE* 3.5 46.0 - - + +
382B ARG* 4.0 25.8 - - + +
383B LEU* 4.1 19.5 - - + +
299D GLU* 5.4 5.6 - - - +
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Residues in contact with GLU 321 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
304B LEU* 4.7 1.8 - - - +
307B LYS* 3.9 24.4 + - + +
308B ALA* 3.8 15.0 - - + +
311B LEU* 3.3 31.7 - - + +
317B PRO 3.6 4.9 - - - +
318B PHE* 3.2 21.9 - - - +
319B THR 4.1 0.2 + - - -
320B LEU* 1.3 94.2 + - - +
322B ALA* 1.3 65.3 + - - +
324B GLN* 3.4 13.1 + - - +
325B ALA* 3.0 23.7 + - - +
299D GLU* 5.6 1.2 - - - +
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Residues in contact with ALA 322 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246B ASP* 3.3 33.2 - - - +
249B ARG* 3.8 8.0 - - + +
250B ILE* 3.9 13.5 - - + -
308B ALA* 3.8 9.3 - - - +
318B PHE* 2.8 26.6 + - + +
319B THR 4.1 2.5 - - - +
321B GLU* 1.3 70.5 - - - +
323B ALA* 1.3 66.3 + - - +
325B ALA* 3.8 2.7 - - - +
326B LYS* 3.1 25.8 + - - +
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Residues in contact with ALA 323 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
249B ARG* 4.6 6.8 - - - +
319B THR 3.1 19.3 + - - +
320B LEU 3.6 4.3 - - - +
322B ALA* 1.3 76.7 - - - +
324B GLN* 1.3 58.0 + - - +
327B LEU* 2.9 32.9 + - - +
375B LEU* 3.7 25.1 - - + +
378B VAL* 4.2 15.9 - - + -
379B ILE* 3.7 20.8 - - + +
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Residues in contact with GLN 324 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
304B LEU* 4.5 8.9 - - + +
307B LYS* 4.8 2.4 - - - +
320B LEU* 2.9 40.1 + - - +
321B GLU* 3.7 19.5 + - - +
322B ALA 3.3 0.2 - - - -
323B ALA* 1.3 77.6 - - - +
325B ALA* 1.3 61.5 + - - +
327B LEU* 4.6 0.2 - - - -
328B PHE* 3.0 29.0 + - - +
379B ILE* 3.8 16.3 - - + +
383B LEU* 5.1 0.5 - - - +
295D ALA* 3.9 11.6 - - - +
296D THR* 3.5 44.8 + - + +
299D GLU* 3.9 26.5 + - - +
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Residues in contact with ALA 325 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
249B ARG 5.3 0.4 - - - +
250B ILE* 5.5 1.3 - - - -
253B ALA* 3.7 10.1 - - + -
304B LEU* 3.7 17.8 - - - +
305B TYR* 3.7 34.3 - - + +
308B ALA* 4.6 2.0 - - + -
321B GLU 3.0 17.0 + - - +
322B ALA* 3.8 7.2 - - - +
324B GLN* 1.3 77.4 - - - +
326B LYS* 1.3 58.6 + - - +
328B PHE* 4.1 0.2 - - - +
329B ALA* 2.8 35.3 + - - +
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Residues in contact with LYS 326 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
249B ARG* 3.4 34.8 - - + +
252B ILE* 3.9 17.9 - - + -
253B ALA* 3.7 10.1 - - - +
322B ALA 3.1 15.0 + - - +
325B ALA* 1.3 77.0 - - - +
327B LEU* 1.3 53.8 + - - +
330B SER* 2.7 37.2 + - - +
365B THR 2.7 28.1 + - - +
366B ARG* 3.9 9.1 + - - +
368B GLY 2.9 20.5 + - - -
369B GLU* 4.2 7.6 - - - -
370B GLY 2.7 27.4 + - - -
371B THR 4.6 0.6 - - - -
372B SER* 4.7 0.6 + - - +
375B LEU* 3.4 16.3 - - + +
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Residues in contact with LEU 327 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
323B ALA 2.9 19.4 + - - +
324B GLN 3.9 1.6 - - - +
326B LYS* 1.3 76.6 - - - +
328B PHE* 1.3 64.1 + - - +
330B SER* 3.1 15.0 + - - -
331B GLU* 3.1 27.1 + - + +
372B SER* 3.4 43.3 - - - +
375B LEU* 3.6 13.3 - - + +
376B LYS* 4.0 30.3 - - + -
379B ILE* 4.0 17.3 - - + -
292D ALA 5.1 3.1 - - - +
293D GLU* 5.2 5.6 - - + -
296D THR* 4.1 15.9 - - + +
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Residues in contact with PHE 328 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
297B GLU* 3.2 40.8 - - + -
300B ALA* 3.8 6.1 - - + -
301B ALA* 3.7 22.7 - - + -
304B LEU* 3.5 16.4 - - + -
324B GLN 3.0 18.0 + - - +
327B LEU* 1.3 81.0 - - - +
329B ALA* 1.3 56.1 + - - +
331B GLU* 4.0 2.8 - - - +
332B ALA* 2.9 34.5 + - + +
296D THR* 3.8 16.8 - - + -
297D GLU* 4.0 16.2 - - + -
300D ALA* 4.6 2.5 - - + -
328D PHE* 3.5 40.6 - + - -
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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
----------------------------------------------------------
253B ALA* 3.4 33.4 - - + +
256B ALA* 3.7 2.6 - - + -
257B VAL* 4.0 5.2 - - + -
298B LEU* 5.3 0.7 - - - +
301B ALA* 3.7 25.7 - - + +
325B ALA 2.8 23.3 + - - +
328B PHE* 1.3 74.8 - - - +
330B SER* 1.3 53.7 + - - +
332B ALA* 3.9 0.5 - - - +
333B ALA* 2.8 38.5 + - - +
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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
----------------------------------------------------------
252B ILE* 5.6 0.2 - - - -
253B ALA* 6.3 0.2 - - - -
256B ALA* 3.8 4.6 - - - +
326B LYS* 2.7 25.6 + - - +
327B LEU* 3.1 9.0 + - - -
329B ALA* 1.3 76.6 - - - +
331B GLU* 1.3 68.6 + - - +
333B ALA* 4.0 0.2 - - - +
334B VAL* 3.0 31.5 + - - +
365B THR* 3.2 48.0 + - - -
366B ARG* 3.6 12.8 - - - +
372B SER* 4.1 3.5 + - - -
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Residues in contact with GLU 331 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
327B LEU* 3.1 28.7 + - + +
328B PHE* 4.0 3.8 - - - +
330B SER* 1.3 81.4 + - - +
332B ALA* 1.3 62.2 + - - +
334B VAL* 4.0 1.6 - - - +
335B LYS* 3.1 23.7 + - - +
366B ARG* 2.7 41.0 + - - +
372B SER* 2.7 29.2 + - - +
373B GLU* 5.3 0.5 - - - +
376B LYS* 6.2 2.2 - - - -
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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
----------------------------------------------------------
294B ALA* 6.0 0.3 - - - -
297B GLU* 3.8 44.0 - - + +
298B LEU* 4.7 6.2 - - + +
301B ALA* 4.9 0.4 - - + -
328B PHE* 2.9 29.4 + - + +
329B ALA* 3.9 3.6 - - - +
331B GLU* 1.3 75.6 - - - +
333B ALA* 1.3 60.6 + - - +
335B LYS* 3.3 3.5 + - - +
336B ALA* 2.9 30.1 + - - +
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Residues in contact with ALA 333 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256B ALA* 3.0 37.0 - - + +
260B GLY* 4.0 12.7 - - - +
298B LEU* 4.2 8.2 - - + +
329B ALA 2.8 22.6 + - - +
330B SER* 4.0 1.8 - - - +
332B ALA* 1.3 70.6 - - - +
334B VAL* 1.3 60.8 + - - +
336B ALA* 3.2 2.1 + - - +
337B CYS* 2.9 35.4 + - - -
362B ALA* 4.8 7.4 - - + -
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Residues in contact with VAL 334 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
338A ASP* 5.0 1.6 - - - +
330B SER 3.0 22.8 + - - +
331B GLU 4.0 2.0 - - - +
333B ALA* 1.3 75.2 - - - +
335B LYS* 1.3 58.6 + - - +
337B CYS* 3.3 5.1 + - - -
338B ASP* 3.0 25.7 + - + +
359B TRP* 3.6 23.5 - - + +
362B ALA* 3.4 35.7 - - + +
363B ARG* 3.9 9.0 - - - +
365B THR* 4.3 0.2 - - - +
366B ARG* 3.5 39.5 - - + +
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Residues in contact with LYS 335 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
293B GLU* 4.3 26.4 + - - +
294B ALA* 6.0 2.5 - - - +
297B GLU* 3.8 33.4 + - - +
331B GLU 3.1 18.5 + - - +
332B ALA 3.6 3.6 - - - +
334B VAL* 1.3 76.3 - - - +
336B ALA* 1.3 65.4 + - - +
338B ASP* 3.2 8.3 + - + +
339B GLU* 3.0 38.5 + - + +
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Residues in contact with ALA 336 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260B GLY 4.3 15.9 - - - +
263B ALA* 4.3 2.6 - - - +
264B LEU* 5.2 2.9 + - + -
294B ALA* 3.9 30.0 - - + +
298B LEU* 4.3 11.0 - - + -
332B ALA 2.9 17.6 + - - +
333B ALA* 3.6 5.6 - - - +
335B LYS* 1.3 77.1 - - - +
337B CYS* 1.3 58.4 + - - +
339B GLU* 3.3 5.4 + - - +
340B ALA* 2.9 28.2 + - - +
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Residues in contact with CYS 337 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
259B LEU 4.0 9.4 - - - -
260B GLY* 4.1 2.7 - - - -
263B ALA* 3.7 25.1 - - + -
333B ALA 2.9 20.4 + - - +
334B VAL* 3.7 5.6 - - - +
335B LYS 3.2 0.2 - - - -
336B ALA* 1.3 78.3 - - - +
338B ASP* 1.3 61.4 + - - +
340B ALA* 3.2 3.1 + - - +
341B ILE* 3.1 26.2 + - - +
355B VAL 4.6 1.0 - - - +
358B TYR* 3.8 25.4 - - + -
359B TRP* 3.6 23.3 - - + +
362B ALA* 4.1 11.4 - - - -
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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
----------------------------------------------------------
334A VAL* 5.1 1.7 - - - +
359A TRP* 3.7 14.3 - - - -
363A ARG* 2.8 51.3 + - - -
366A ARG* 2.9 29.0 + - - -
334B VAL* 3.0 17.9 + - + +
335B LYS* 3.2 8.7 + - - +
337B CYS* 1.3 76.3 - - - +
339B GLU* 1.3 67.7 + - - +
341B ILE* 3.5 4.0 + - - +
342B GLN* 3.2 5.4 + - - +
359B TRP* 3.7 14.1 - - + +
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Residues in contact with GLU 339 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
366A ARG* 3.8 18.5 + - - -
290B LYS* 2.6 59.7 + - + +
293B GLU* 6.2 0.4 - - - +
294B ALA* 5.9 2.2 - - + -
335B LYS* 3.0 36.9 + - + +
336B ALA* 3.7 7.9 - - - +
337B CYS 3.2 0.2 - - - -
338B ASP* 1.3 83.4 - - - +
340B ALA* 1.3 59.8 + - - +
342B GLN* 3.1 6.4 + - - +
343B ILE* 2.8 37.8 + - + +
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Residues in contact with ALA 340 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263B ALA* 3.5 34.1 - - + +
264B LEU* 5.3 0.2 - - - -
267B ALA* 4.1 16.4 - - + -
336B ALA 2.9 14.5 + - - +
337B CYS 3.2 8.9 + - - +
339B GLU* 1.3 76.0 - - - +
341B ILE* 1.3 63.9 + - - +
343B ILE* 3.5 0.8 + - - -
344B LEU* 3.1 30.0 + - - +
355B VAL* 4.2 13.6 - - + +
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Residues in contact with ILE 341 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208A LEU* 4.6 6.7 - - + -
359A TRP* 4.4 14.8 - - + -
363A ARG* 3.5 23.3 - - + +
367A ILE* 4.2 9.5 - - + +
337B CYS 3.1 14.2 + - - +
338B ASP* 3.5 10.8 - - - +
340B ALA* 1.3 77.6 - - - +
342B GLN* 1.3 62.4 + - - +
344B LEU 3.3 2.3 + - - -
345B GLY 3.2 20.8 + - - +
348B GLY* 3.7 21.5 - - - +
349B TYR* 5.3 1.3 - - + -
355B VAL* 3.7 29.4 - - + +
356B GLU* 4.1 8.1 - - - -
359B TRP* 3.7 33.0 - - + -
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Residues in contact with GLN 342 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
363A ARG* 3.0 35.7 + - - +
366A ARG* 3.0 40.8 + - - +
367A ILE* 3.9 6.6 - - - +
371A THR* 3.9 8.0 - - - +
372A SER* 3.8 6.4 + - - +
373A GLU* 2.9 41.3 + - - +
290B LYS* 4.3 8.3 - - - +
338B ASP 3.2 5.5 + - - +
339B GLU* 3.1 16.5 + - - +
341B ILE* 1.3 80.8 - - - +
343B ILE* 1.3 57.0 + - - +
345B GLY* 2.9 20.8 + - - +
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Residues in contact with ILE 343 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
267B ALA* 3.9 23.8 - - + +
270B TYR* 3.7 16.3 - - + -
271B ALA* 4.5 3.1 - - + -
281B ILE* 4.9 10.1 - - + +
287B VAL* 4.2 28.0 - - + -
290B LYS* 4.1 31.6 - - + -
291B LEU* 3.7 27.4 - - + -
339B GLU* 2.8 26.4 + - + +
340B ALA 3.8 4.5 - - - +
341B ILE 3.3 0.2 - - - -
342B GLN* 1.3 73.3 - - - +
344B LEU* 1.3 72.0 + - + +
345B GLY* 3.3 0.9 + - - -
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Residues in contact with LEU 344 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
266B TYR* 3.8 25.6 - - + -
267B ALA* 4.2 10.8 - - - -
270B TYR* 3.6 56.8 + - + -
340B ALA 3.1 17.0 + - - +
342B GLN 3.2 0.4 - - - -
343B ILE* 1.3 81.5 - - + +
345B GLY* 1.3 62.8 + - - +
346B GLY 3.3 0.7 + - - -
347B TYR* 3.1 35.2 + - + +
348B GLY* 3.4 22.0 - - - +
353B TYR* 5.0 8.5 - - + -
355B VAL* 4.3 9.4 - - + -
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Residues in contact with GLY 345 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
367A ILE* 3.6 26.9 - - - +
371A THR* 5.0 7.4 - - - -
341B ILE 3.2 6.4 + - - +
342B GLN 2.9 17.3 + - - -
343B ILE 3.1 1.6 - - - -
344B LEU* 1.3 76.4 - - - +
346B GLY* 1.3 57.8 + - - +
348B GLY* 2.8 22.7 + - - -
349B TYR 3.6 0.3 + - - -
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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).
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