Contacts of the helix formed by residues 377 - 412 (chain A) in PDB entry 2DQM
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 377 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
355A GLU* 3.5 24.0 - - - +
362A HIS* 2.8 32.2 + - + -
374A ASN 3.3 26.2 - - - +
375A PHE* 3.1 6.7 + - - -
376A TYR* 1.3 77.5 - - - +
378A LEU* 1.3 59.7 + - - +
380A VAL* 3.1 15.6 + - - +
381A TYR* 2.8 36.5 + - - +
382A GLU* 4.7 0.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 378 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
347A THR* 3.9 23.6 - - + -
351A LEU* 3.6 42.4 - - + +
352A GLN* 3.5 15.4 - - + +
355A GLU* 3.6 16.6 + - + +
377A THR* 1.3 75.5 - - - +
379A THR* 1.3 57.0 + - - +
382A GLU* 2.8 47.1 + - + +
383A LYS 3.1 8.5 + - - -
832A ARG* 5.4 5.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 379 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
352A GLN* 3.0 28.2 + - - +
355A GLU* 2.6 27.8 + - - +
356A ASP* 4.6 4.1 + - - +
361A ALA* 6.0 0.2 - - - -
362A HIS* 3.2 44.7 + - + +
364A ILE* 3.5 20.3 - - + +
377A THR 3.0 0.4 - - - -
378A LEU* 1.3 75.5 - - - +
380A VAL* 1.3 62.0 + - - +
383A LYS* 3.2 10.0 - - + +
384A GLY 2.9 26.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 380 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
316A LEU* 3.8 23.3 - - + -
317A SER* 2.8 50.7 + - - +
320A GLU* 4.2 2.5 - - + -
321A GLY 3.8 4.3 + - - -
362A HIS* 4.0 14.8 - - + +
364A ILE* 3.7 18.8 - - - +
366A PRO* 4.4 9.6 - - + -
375A PHE 3.4 19.5 - - - +
377A THR* 3.1 15.2 + - - +
379A THR* 1.3 76.2 - - - +
381A TYR* 1.3 67.5 + - + +
384A GLY* 3.4 5.0 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 381 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
293A ARG* 5.5 0.4 - - - -
320A GLU* 3.2 40.7 + - + -
321A GLY* 3.8 4.2 - - - -
324A VAL* 3.6 27.2 - - + +
376A TYR* 3.3 41.6 - + + -
377A THR 2.8 24.9 + - - +
380A VAL* 1.3 84.1 - - + +
382A GLU* 1.3 73.2 + - - +
384A GLY 3.4 0.3 + - - -
385A ALA* 2.9 29.3 + - - +
901A BES 2.6 55.0 + + + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 382 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
293A ARG* 4.4 17.8 + - - -
324A VAL* 4.9 3.4 - - + -
328A GLN* 5.1 11.1 + - - +
344A ASN* 5.5 2.9 - - + +
347A THR* 3.8 24.6 - - + +
348A MET* 3.7 18.2 - - + -
352A GLN* 4.8 1.6 - - + -
378A LEU* 2.8 40.6 + - - +
381A TYR* 1.3 89.7 - - - +
383A LYS* 1.3 64.8 + - - +
385A ALA* 3.2 7.9 + - - +
386A GLU* 3.0 25.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 383 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
348A MET* 3.6 15.6 - - + -
352A GLN* 3.7 33.4 - - - +
356A ASP* 3.3 8.7 + - - +
362A HIS 5.7 0.6 + - - -
363A PRO* 6.0 0.4 - - - +
364A ILE* 3.8 18.6 - - + +
378A LEU 3.1 6.7 + - - -
379A THR* 3.2 15.9 - - + +
382A GLU* 1.3 74.1 - - - +
384A GLY* 1.3 66.1 + - - +
386A GLU* 3.0 3.6 + - - +
387A VAL* 2.9 25.2 + - + +
439A TRP* 4.2 32.4 - - - -
442A GLN 4.0 16.2 + - - -
443A SER* 4.6 1.0 - - - +
444A GLY 3.2 27.5 + - - +
445A THR* 5.2 0.4 - - - +
446A PRO* 5.1 1.2 - - - +
481A LEU* 6.1 0.4 - - - +
539A PRO* 4.7 9.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 384 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
317A SER* 3.5 12.2 + - - -
321A GLY* 3.7 7.0 - - - -
364A ILE* 4.0 12.1 - - - +
379A THR 2.9 11.2 + - - -
380A VAL 3.4 18.4 - - - -
381A TYR 3.4 1.0 + - - -
382A GLU 3.1 0.8 - - - -
383A LYS* 1.3 78.2 - - - +
385A ALA* 1.3 60.1 + - - +
387A VAL* 3.2 5.7 + - - +
388A ILE* 3.1 24.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 385 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
321A GLY* 3.4 16.1 - - - +
324A VAL* 3.5 25.6 - - + -
325A PHE* 3.8 12.7 - - - +
328A GLN* 4.3 11.4 - - - +
381A TYR 2.9 16.3 + - - +
382A GLU 3.5 5.4 - - - +
383A LYS 3.2 0.4 - - - -
384A GLY* 1.3 74.5 - - - +
386A GLU* 1.3 60.0 + - - +
388A ILE* 3.1 5.1 + - - +
389A ARG* 2.8 29.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 386 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
328A GLN* 4.4 12.0 + - - +
341A ARG* 2.8 44.8 + - - -
344A ASN* 5.0 2.9 - - - +
345A VAL* 6.0 0.2 - - - -
348A MET* 3.7 33.8 - - + +
382A GLU 3.0 19.6 + - - +
383A LYS 3.0 7.8 + - - +
385A ALA* 1.3 75.9 - - - +
387A VAL* 1.3 58.4 + - - +
389A ARG* 3.3 7.2 + - - +
390A MET* 2.9 33.2 + - - +
536A PHE* 3.4 14.0 - - - +
539A PRO* 4.1 21.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 387 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
364A ILE* 3.8 19.3 - - + -
383A LYS* 2.9 27.1 + - + +
384A GLY 3.5 7.6 - - - +
386A GLU* 1.3 76.1 - - + +
388A ILE* 1.3 64.6 + - + +
390A MET* 3.2 19.6 + - + -
391A ILE* 3.2 21.7 + - + +
436A PHE* 3.5 26.1 - - + -
439A TRP* 4.2 17.9 - - + +
440A TYR* 3.8 27.8 - - + +
539A PRO* 5.3 0.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 388 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
317A SER 5.5 2.2 - - - +
318A LEU* 5.9 0.7 - - - +
321A GLY* 3.9 2.9 - - - -
322A LEU* 3.9 34.1 - - + +
325A PHE* 3.6 31.2 - - + -
384A GLY 3.1 14.9 + - - +
385A ALA 3.1 6.4 + - - +
387A VAL* 1.3 76.1 - - + +
389A ARG* 1.3 62.3 + - - +
391A ILE* 3.1 9.8 + - + +
392A HIS* 3.0 18.5 + - - +
400A PHE* 3.7 17.8 - - + -
421A PHE* 3.5 29.8 - - + -
440A TYR* 4.0 14.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 389 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
325A PHE* 3.6 31.6 - - + -
328A GLN* 3.1 35.1 + - - +
329A GLU* 2.9 31.5 + - - -
332A SER* 5.5 1.0 + - - -
337A ARG* 4.2 8.3 - - - +
341A ARG* 3.5 47.2 - - - +
344A ASN* 5.5 0.6 - - - +
385A ALA 2.8 15.8 + - - +
386A GLU* 3.6 9.5 + - - +
387A VAL 3.2 0.2 - - - -
388A ILE* 1.3 77.6 - - - +
390A MET* 1.3 55.6 + - - +
392A HIS* 3.1 9.4 + - + +
393A THR* 2.8 37.8 + - - +
535A GLU 5.5 0.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 390 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
386A GLU 2.9 11.9 + - - +
387A VAL* 3.2 28.0 + - + +
389A ARG* 1.3 73.4 - - - +
391A ILE* 1.3 60.9 + - - +
393A THR* 3.2 8.2 + - - -
394A LEU* 2.9 34.2 + - - +
436A PHE* 3.7 10.8 - - + -
439A TRP* 3.4 41.7 - - + +
484A PRO* 3.5 27.3 - - + +
537A SER 3.4 19.3 - - - +
538A ALA* 3.9 4.0 - - - -
539A PRO* 3.4 30.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 391 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
387A VAL 3.2 8.2 + - - +
388A ILE* 3.1 10.2 + - - +
390A MET* 1.3 77.1 - - - +
392A HIS* 1.3 57.4 + - - +
394A LEU* 3.2 6.1 + - - -
395A LEU* 2.8 46.9 + - + +
400A PHE* 4.2 4.5 - - + -
421A PHE* 4.0 26.2 - - + -
422A VAL* 4.7 7.4 - - + -
425A MET* 3.9 32.5 - - + -
433A LEU* 4.5 8.3 - - + -
436A PHE* 3.3 33.7 - - + -
440A TYR* 4.3 11.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 392 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
240A ARG* 4.0 6.7 + - - -
325A PHE* 4.0 23.5 - + + -
329A GLU* 5.6 2.5 - - - -
388A ILE 3.0 10.5 + - - +
389A ARG* 3.3 15.6 + - + +
391A ILE* 1.3 78.4 - - - +
393A THR* 1.3 58.5 + - - +
396A GLY* 2.7 30.9 + - - -
397A GLU* 2.7 43.0 + - + -
400A PHE* 3.6 40.6 - + + -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 393 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
389A ARG* 2.8 23.0 + - - +
390A MET* 3.2 12.3 + - - -
392A HIS* 1.3 82.2 + - - +
394A LEU* 1.3 60.3 + - - +
395A LEU 3.6 0.2 + - - -
396A GLY* 4.1 3.6 + - - -
484A PRO* 4.2 10.1 - - + -
486A ALA* 5.9 0.4 - - + -
509A VAL* 4.0 38.5 - - + +
537A SER* 4.8 16.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 394 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
390A MET 2.9 21.1 + - - +
391A ILE* 3.8 4.0 - - - +
393A THR* 1.3 76.7 - - - +
395A LEU* 1.3 70.8 + - + +
431A VAL* 4.5 15.7 - - + +
433A LEU* 4.2 13.0 - - + -
436A PHE* 3.8 28.0 - - + -
482A HIS* 3.9 21.1 - - + +
484A PRO* 3.8 24.5 - - + -
509A VAL* 4.6 7.9 - - + -
511A ASN* 3.7 22.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 395 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
391A ILE* 2.8 31.8 + - + +
392A HIS 4.4 0.2 - - - +
394A LEU* 1.3 90.5 - - + +
396A GLY* 1.3 65.9 + - - +
399A ASN* 3.5 33.8 + - + +
400A PHE* 4.1 3.4 - - - +
425A MET* 3.7 35.7 - - + +
429A SER* 3.6 32.8 - - - +
431A VAL* 4.0 23.1 - - + -
433A LEU* 4.5 9.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 396 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
392A HIS* 2.7 23.9 + - - -
393A THR 4.1 3.4 + - - -
394A LEU 3.8 1.0 - - - -
395A LEU* 1.3 73.0 - - - +
397A GLU* 1.3 66.2 + - - -
398A GLU 3.3 3.7 + - - -
399A ASN 3.4 0.2 + - - -
400A PHE* 2.9 22.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 397 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
240A ARG* 2.9 39.6 + - - +
392A HIS* 2.7 46.2 + - + +
396A GLY* 1.3 70.5 - - - -
398A GLU* 1.3 64.6 + - - +
400A PHE* 3.3 2.5 + - - +
401A GLN* 2.9 50.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 398 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
396A GLY 3.3 1.0 + - - -
397A GLU* 1.3 80.7 - - - +
399A ASN* 1.3 63.3 + - - +
401A GLN* 3.3 5.5 + - - +
402A LYS* 3.1 55.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 399 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
395A LEU* 3.5 30.1 + - + +
396A GLY 3.4 2.2 + - - -
398A GLU* 1.3 81.8 + - - +
400A PHE* 1.3 60.5 + - - +
402A LYS* 3.2 27.4 + - - +
403A GLY* 2.9 24.8 + - - -
428A ALA* 4.2 0.9 - - - +
429A SER* 3.7 37.6 + - - +
431A VAL* 5.5 2.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 400 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241A PHE* 4.2 9.4 - + - -
322A LEU* 4.6 1.6 - - + -
325A PHE* 3.7 29.4 - + - -
388A ILE* 3.7 32.8 - - + -
391A ILE* 4.2 6.5 - - + -
392A HIS* 3.6 38.1 - + + -
395A LEU* 4.1 4.0 - - + +
396A GLY 2.9 19.7 + - - +
397A GLU 3.5 4.0 - - - +
399A ASN* 1.3 77.6 - - - +
401A GLN* 1.3 69.3 + - - +
403A GLY 3.0 2.3 + - - -
404A MET* 2.9 47.3 + - + +
421A PHE* 4.8 1.1 - + - -
425A MET* 3.3 39.2 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 401 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
240A ARG* 3.6 18.9 + - - +
241A PHE* 3.5 48.9 - - - +
397A GLU* 2.9 50.1 + - + +
398A GLU* 3.7 6.1 - - - +
400A PHE* 1.3 81.4 - - - +
402A LYS* 1.3 59.6 + - + +
404A MET* 3.1 10.3 + - - +
405A GLN* 2.9 46.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 402 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
398A GLU* 3.1 48.2 + - - +
399A ASN* 3.2 26.2 + - - +
401A GLN* 1.3 76.3 - - - +
403A GLY* 1.3 57.3 + - - +
405A GLN* 3.3 18.1 + - - +
406A LEU* 3.0 24.8 + - - +
428A ALA* 3.6 26.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 403 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
399A ASN 2.9 11.2 + - - -
400A PHE 3.0 4.9 + - - -
402A LYS* 1.3 75.5 - - - +
404A MET* 1.3 59.1 + - - +
406A LEU* 3.3 1.9 + - - +
407A TYR* 2.9 29.6 + - - +
424A ALA* 3.9 10.3 - - - +
425A MET* 3.7 21.9 - - - +
428A ALA* 3.6 15.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 404 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241A PHE* 3.8 20.6 - - + +
304A THR* 4.1 15.9 - - + -
322A LEU* 4.1 11.9 - - + -
326A ARG* 4.8 0.2 - - - -
400A PHE* 2.9 36.2 + - + +
401A GLN* 3.1 24.2 + - - +
403A GLY* 1.3 75.0 - - - +
405A GLN* 1.3 64.4 + - + +
407A TYR* 3.2 9.1 + - + +
408A PHE* 3.0 63.6 + - + -
421A PHE* 4.0 13.5 - - - -
425A MET* 3.8 15.0 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 405 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241A PHE 5.8 4.3 + - - +
401A GLN* 2.9 38.2 + - - +
402A LYS* 3.5 14.4 - - - +
404A MET* 1.3 78.3 - - + +
406A LEU* 1.3 56.3 + - - +
408A PHE* 3.4 8.6 + - + +
409A GLU* 3.0 38.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 406 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
402A LYS 3.0 15.7 + - - +
403A GLY 3.3 3.8 + - - +
405A GLN* 1.3 74.4 - - - +
407A TYR* 1.3 65.4 + - - +
409A GLU* 3.6 19.6 - - + +
410A ARG* 3.0 66.8 + - + +
424A ALA* 3.6 21.1 - - + +
427A ASP* 3.8 4.0 - - + -
428A ALA* 3.8 20.2 - - + +
903A SO4 4.0 18.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 407 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
304A THR* 4.9 4.0 - - + -
308A VAL* 3.2 35.9 + - + +
318A LEU* 3.4 31.1 + - + +
322A LEU* 4.3 12.4 - - + +
403A GLY 2.9 14.6 + - - +
404A MET* 3.3 14.8 - - + +
406A LEU* 1.3 77.5 - - - +
408A PHE* 1.3 83.7 + + - +
411A HIS* 2.9 52.7 + + - +
416A ALA* 4.6 3.8 - - + -
421A PHE* 3.9 49.1 - + + -
424A ALA* 3.8 12.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 408 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241A PHE* 5.5 0.9 - + - -
243A LEU* 4.0 26.7 - - + -
303A TRP* 3.8 54.7 - + + -
304A THR* 3.8 12.6 - - + -
308A VAL* 3.7 16.2 - - + -
404A MET* 3.0 59.1 + - + +
405A GLN* 3.9 6.1 - - + +
407A TYR* 1.3 89.3 - + - +
409A GLU* 1.3 64.9 + - - +
412A ASP* 2.9 33.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 409 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
405A GLN* 3.0 25.2 + - + +
406A LEU* 3.6 29.5 - - + +
408A PHE* 1.3 78.5 - - - +
410A ARG* 1.3 61.8 + - + +
412A ASP* 4.5 3.0 + - - +
903A SO4 5.6 0.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 410 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
406A LEU* 3.0 35.9 + - + +
409A GLU* 1.3 81.2 - - + +
411A HIS* 1.3 87.2 + - + +
412A ASP 3.8 1.1 - - - +
414A SER* 4.9 0.7 + - - -
420A ASP 5.1 1.0 + - - -
423A GLN* 4.1 7.5 - - - +
424A ALA* 3.8 23.9 - - - +
427A ASP* 2.8 38.4 + - - +
903A SO4 2.8 46.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 411 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
308A VAL* 3.6 25.9 - - + +
407A TYR* 2.9 44.8 + + + +
410A ARG* 1.3 103.6 + - + +
412A ASP* 1.3 67.3 + - - +
413A GLY 3.2 0.3 + - - -
414A SER* 2.7 37.0 + - - +
415A ALA 5.7 0.2 + - - -
416A ALA* 4.1 11.0 - - + +
420A ASP* 3.6 40.1 + - + +
424A ALA* 5.4 0.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 412 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
303A TRP* 3.8 13.0 - - - -
307A ARG* 2.8 52.7 + - - +
308A VAL* 3.9 6.3 - - + +
408A PHE* 2.9 24.4 + - + +
409A GLU* 4.5 3.1 + - - +
410A ARG 3.8 2.0 - - - +
411A HIS* 1.3 75.9 - - - +
413A GLY* 1.3 70.6 + - - +
414A SER* 3.6 1.2 + - - -
----------------------------------------------------------
Back to top of page
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