Contacts of the helix formed by residues 373 - 407 (chain A) in PDB entry 1CEZ
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 ALA 373 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
364A PRO* 5.4 12.1 - - + -
367A ILE* 6.3 0.2 - - - -
369A MET* 4.7 4.9 - - + +
371A PRO* 2.5 32.2 + - + +
372A GLU* 1.3 70.5 - - - +
374A LEU* 1.3 58.2 - - + +
375A THR 2.9 4.3 - - - -
376A ALA* 3.8 3.0 - - - +
377A TRP* 2.8 33.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 374 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
363A LYS* 6.1 0.2 - - + -
364A PRO* 4.7 9.2 - - + -
367A ILE* 2.9 56.5 - - + +
368A ASP* 4.5 5.8 - - - +
369A MET 3.9 6.5 + - - +
370A ASN* 5.2 8.1 - - - +
371A PRO 3.5 5.9 + - - +
373A ALA* 1.3 79.5 - - + +
375A THR* 1.3 58.9 + - - +
377A TRP* 4.2 17.1 - - + -
378A LYS* 3.6 17.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 375 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
370A ASN* 5.2 0.7 + - - -
371A PRO 4.0 7.6 + - - -
372A GLU* 3.8 31.7 + - + +
373A ALA 2.9 0.2 - - - -
374A LEU* 1.3 81.5 - - - +
376A ALA* 1.3 64.6 + - - +
377A TRP 3.1 1.1 - - - -
378A LYS* 3.2 7.9 + - - +
379A ARG* 3.2 19.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 376 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
372A GLU* 2.8 22.6 + - + +
373A ALA* 4.1 3.6 - - - +
375A THR* 1.3 75.7 - - - +
377A TRP* 1.3 58.7 + - - +
379A ARG* 3.2 14.0 + - - +
380A ALA* 2.9 25.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 377 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
360A LEU* 5.6 11.0 - - + -
361A PRO* 3.0 35.6 + - + +
362A MET 4.5 2.2 - - - -
363A LYS* 3.9 17.2 - - + +
364A PRO* 4.2 20.0 - - + -
373A ALA 2.8 20.8 + - - +
374A LEU* 4.2 18.4 - - + -
376A ALA* 1.3 75.0 - - - +
378A LYS* 1.3 87.8 + - + +
379A ARG 2.9 4.7 - - - -
380A ALA* 2.9 6.9 + - + +
381A ALA* 2.9 48.5 + - + -
385A TYR* 6.3 0.2 - + - -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 378 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
374A LEU 3.6 15.0 + - - +
375A THR* 3.2 13.7 + - - +
377A TRP* 1.3 96.3 - - + +
379A ARG* 1.3 57.9 + - - +
381A ALA* 4.6 1.0 - - - +
382A ALA* 3.2 24.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 379 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
375A THR 3.2 10.6 + - - +
376A ALA* 3.3 14.6 - - - +
377A TRP 2.9 0.4 - - - -
378A LYS* 1.3 79.5 - - - +
380A ALA* 1.3 62.8 - - - +
382A ALA* 3.7 5.4 + - - +
383A ALA* 3.2 22.5 + - + +
386A ARG* 5.2 0.3 + - - -
656A GLN* 3.5 39.1 + - - +
659A ILE* 5.6 3.8 - - - +
660A ASP* 3.0 27.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 380 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
361A PRO* 4.1 18.6 - - + -
376A ALA 2.9 13.9 + - - +
377A TRP* 2.9 13.0 + - + +
379A ARG* 1.3 76.2 - - - +
381A ALA* 1.3 65.2 - - - +
383A ALA* 3.3 8.4 - - - +
384A VAL* 3.2 23.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 381 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
360A LEU* 4.4 6.5 - - + -
361A PRO* 4.1 14.0 - - + +
377A TRP* 2.9 43.5 + - + +
378A LYS 4.6 1.3 - - - +
380A ALA* 1.3 75.0 - - - +
382A ALA* 1.3 67.4 + - - +
384A VAL* 2.8 14.9 + - - +
385A TYR* 3.0 33.4 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 382 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
378A LYS 3.2 20.9 + - - +
379A ARG* 3.7 7.2 - - - +
381A ALA* 1.3 78.3 - - - +
383A ALA* 1.3 63.8 + - - +
385A TYR* 3.2 12.6 + - - +
386A ARG* 3.0 40.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 383 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
379A ARG* 3.2 13.1 + - + +
380A ALA* 3.3 13.2 - - - +
381A ALA 3.0 0.2 - - - -
382A ALA* 1.3 79.0 - - - +
384A VAL* 1.3 58.4 + - + +
386A ARG* 2.9 21.6 + - - +
387A LYS* 2.9 31.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 384 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
358A GLU* 3.5 35.9 - - + +
359A GLU 4.2 5.8 - - - +
360A LEU* 4.2 15.3 - - + -
361A PRO* 4.1 16.6 - - + -
380A ALA 3.2 13.0 + - - +
381A ALA* 2.8 13.5 + - - +
383A ALA* 1.3 73.6 - - + +
385A TYR* 1.3 59.0 + - + +
387A LYS* 4.0 6.5 - - - +
388A ASP* 3.0 28.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 385 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
360A LEU* 2.9 46.0 - - + +
381A ALA* 3.0 38.2 + - + -
382A ALA* 3.4 10.5 - - - +
384A VAL* 1.3 76.7 - - + +
386A ARG* 1.3 59.9 + - - +
388A ASP* 3.4 6.9 + - + +
389A LYS* 3.0 30.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 386 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
379A ARG 5.2 0.4 + - - -
382A ALA* 3.0 22.0 + - - +
383A ALA* 2.9 35.9 + - - +
385A TYR* 1.3 78.9 - - - +
387A LYS* 1.3 60.5 + - + +
389A LYS* 3.6 6.6 + - - +
390A ALA* 3.2 21.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 387 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
383A ALA* 2.9 16.3 + - + +
384A VAL* 4.0 7.4 - - - +
386A ARG* 1.3 76.3 - - + +
388A ASP* 1.3 61.6 + - - +
390A ALA* 3.3 7.0 + - + +
391A ARG* 2.8 30.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 388 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
357A ARG* 4.1 21.1 - - - +
358A GLU* 4.8 7.9 + - + +
384A VAL* 3.0 20.9 + - + +
385A TYR* 3.4 10.1 + - + +
387A LYS* 1.3 75.1 - - - +
389A LYS* 1.3 58.7 + - - +
391A ARG* 3.1 23.8 + - - +
392A LYS* 2.8 51.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 389 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126A LEU* 6.2 0.9 - - - -
128A SER 4.8 0.9 - - - -
129A ALA 3.8 19.5 + - - +
130A ASP 3.2 16.1 + - - -
132A THR* 2.9 33.3 + - - -
243A THR* 4.7 10.3 - - - +
244A ILE 5.0 0.4 - - - -
245A GLU* 3.3 29.9 + - + +
385A TYR 3.0 16.5 + - - +
386A ARG* 3.8 7.4 - - - +
388A ASP* 1.3 78.7 + - - +
390A ALA* 1.3 64.5 + - - +
392A LYS* 3.0 14.1 + - - +
393A SER* 2.9 24.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 390 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129A ALA* 4.6 16.1 + - + +
386A ARG 3.2 12.8 + - - +
387A LYS* 3.3 11.0 + - + +
389A LYS* 1.3 79.6 - - - +
391A ARG* 1.3 57.1 + - - +
393A SER* 2.8 21.9 + - - -
394A ARG* 2.9 31.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 391 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
251A ALA* 5.4 7.3 + - - +
252A GLU* 5.6 4.8 - - - +
255A ALA* 5.3 7.3 - - - +
353A PRO* 3.6 16.1 - - + +
354A ALA* 2.8 32.8 + - - +
355A ILE 3.1 20.8 + - - -
356A GLU 3.5 13.8 + - - -
357A ARG* 3.8 22.5 - - - +
387A LYS 2.8 21.5 + - - +
388A ASP* 3.4 39.3 + - - +
390A ALA* 1.3 74.7 - - - +
392A LYS* 1.3 75.0 + - - +
394A ARG* 4.7 3.8 - - - +
395A ARG* 3.1 24.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 392 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
245A GLU* 4.2 19.8 - - - +
246A LEU* 2.9 37.9 + - + +
248A PRO* 5.1 7.3 - - + +
251A ALA* 3.5 30.7 - - + -
357A ARG* 6.6 0.4 - - - -
388A ASP* 2.8 37.1 + - - +
389A LYS* 3.7 10.8 - - - +
391A ARG* 1.3 86.9 - - - +
393A SER* 1.3 66.9 + - - +
395A ARG* 3.3 6.9 + - - +
396A ILE* 3.0 32.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 393 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126A LEU 3.0 26.5 - - - -
127A THR* 4.0 10.6 - - - -
128A SER 3.7 13.7 - - - -
129A ALA* 3.6 12.1 - - - +
389A LYS* 2.9 14.4 + - - -
390A ALA* 2.8 22.3 + - - -
392A LYS* 1.3 78.9 - - - +
394A ARG* 1.3 55.5 + - - +
396A ILE* 3.2 4.9 + - - +
397A SER* 2.9 30.8 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 394 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129A ALA* 6.0 3.6 - - + -
351A ASP* 2.4 43.6 + - - +
352A ILE 4.3 0.2 - - - -
353A PRO* 3.7 25.3 - - + +
390A ALA* 2.9 31.1 + - - +
391A ARG* 4.1 5.0 - - - +
393A SER* 1.3 78.2 + - - +
395A ARG* 1.3 56.9 + - - +
397A SER* 3.5 6.6 - - - -
398A LEU* 2.9 30.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 395 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
251A ALA 5.1 1.8 - - - +
254A ILE* 4.7 3.1 - - + -
255A ALA* 3.6 44.7 + - + +
342A THR* 2.5 35.6 + - - -
343A LYS* 3.9 2.0 - - - +
352A ILE* 4.0 8.3 - - - +
353A PRO* 2.8 42.6 + - - +
354A ALA 5.1 3.8 - - - -
355A ILE* 4.1 10.0 - - - +
391A ARG* 3.1 19.8 + - + +
392A LYS* 3.4 8.7 - - - +
393A SER 3.1 0.2 - - - -
394A ARG* 1.3 75.7 - - - +
396A ILE* 1.3 69.0 + - + +
398A LEU* 3.2 10.0 + - - +
399A GLU* 2.9 56.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 396 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123A LEU* 3.7 35.0 - - + +
126A LEU* 4.9 9.0 - - + +
127A THR* 3.8 5.6 - - + +
246A LEU* 3.9 17.0 - - + -
251A ALA* 5.3 2.7 - - - +
254A ILE* 3.5 38.8 - - + -
261A LEU* 4.1 5.1 - - + +
392A LYS* 3.0 25.7 + - + +
393A SER* 3.5 8.7 - - - +
395A ARG* 1.3 76.6 - - + +
397A SER* 1.3 63.2 + - - +
399A GLU* 3.3 7.6 + - - +
400A PHE* 3.0 36.1 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 397 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A THR* 4.0 25.8 - - - +
393A SER 2.9 17.3 + - - -
394A ARG* 3.5 9.2 - - - -
396A ILE* 1.3 77.2 - - - +
398A LEU* 1.3 63.3 + - - +
400A PHE* 3.0 16.3 + - - +
401A MET* 3.1 25.6 + - - +
431A MET* 5.8 2.2 - - - -
437A ASN* 5.5 2.8 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 398 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
342A THR* 3.9 13.0 - - + -
352A ILE* 3.8 28.3 - - + -
353A PRO* 3.7 31.0 - - + -
394A ARG 2.9 18.9 + - - +
395A ARG* 3.5 9.6 - - - +
397A SER* 1.3 72.9 + - - +
399A GLU* 1.3 66.3 + - - +
401A MET* 3.4 8.0 + - - +
402A LEU* 3.1 48.2 + - + +
437A ASN* 6.2 0.2 - - - -
439A MET* 3.6 22.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 399 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
254A ILE* 3.6 29.1 - - + +
257A ARG 4.9 2.3 - - - +
259A GLY* 5.2 5.9 + - - -
260A ALA 5.8 0.7 + - - -
261A LEU* 3.9 18.3 - - + +
343A LYS* 3.2 18.9 + - - +
395A ARG* 2.9 52.5 + - - +
396A ILE 3.6 4.7 - - - +
397A SER 3.1 0.4 - - - -
398A LEU* 1.3 81.6 - - + +
400A PHE* 1.3 65.6 + - - +
402A LEU* 3.8 14.1 - - - +
403A GLU* 2.9 25.3 + - - +
----------------------------------------------------------
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
----------------------------------------------------------
120A LYS 4.8 4.5 - - - -
123A LEU* 3.7 33.4 - - + -
124A ALA* 4.0 8.1 - - + -
127A THR* 3.7 28.3 - - + -
261A LEU* 3.9 13.9 - - + +
264A ILE* 3.2 34.3 - - + -
265A SER 4.3 7.9 - - - -
266A PRO* 3.9 19.1 - - + +
396A ILE* 3.0 28.2 + - + -
397A SER* 3.0 8.1 + - - +
399A GLU* 1.3 74.4 - - - +
401A MET* 1.3 77.6 + - + +
403A GLU* 3.1 7.6 + - - +
404A GLN* 3.0 24.1 + - - +
431A MET* 3.9 12.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 401 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
266A PRO* 5.1 1.3 - - + -
397A SER* 3.1 23.0 + - - +
398A LEU* 3.5 10.1 - - - +
400A PHE* 1.3 81.4 - - + +
402A LEU* 1.3 56.8 + - - +
404A GLN* 3.2 3.3 + - - +
405A ALA* 2.8 30.1 + - - +
431A MET* 3.8 37.2 - - + +
432A PHE* 3.8 43.7 - - + +
437A ASN* 5.4 3.1 - - - +
439A MET* 4.0 10.3 - - + -
440A THR* 3.5 28.5 - - - +
443A LEU* 4.6 2.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 402 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
335A LEU* 5.2 2.9 - - + -
338A ALA* 3.8 25.4 - - + +
339A ASN* 3.7 21.3 - - - +
342A THR* 3.4 26.2 - - - +
343A LYS* 5.5 2.5 - - + -
398A LEU* 3.1 34.5 + - + +
399A GLU* 3.9 18.4 - - - +
401A MET* 1.3 74.0 - - - +
403A GLU* 1.3 65.5 + - - +
405A ALA* 4.1 2.0 - - + +
406A ASN* 2.9 37.1 + - - +
439A MET* 3.9 10.3 - - + -
443A LEU* 4.3 9.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 403 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
259A GLY* 6.5 0.9 - - - -
261A LEU* 3.3 15.4 - - + +
262A ALA* 3.3 26.2 - - - +
264A ILE 2.9 28.5 - - - +
265A SER* 3.0 19.6 + - - -
266A PRO* 4.3 0.8 - - - +
399A GLU 2.9 19.2 + - - +
400A PHE* 3.5 7.5 - - - +
402A LEU* 1.3 76.5 - - - +
404A GLN* 1.3 88.7 + - - +
406A ASN* 4.1 4.1 - - - +
407A LYS* 3.2 27.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 404 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
266A PRO* 3.5 19.7 - - + +
268A PHE 4.5 1.0 - - - +
269A GLN* 2.9 47.6 + - - +
270A PRO* 3.2 11.7 - - + +
400A PHE 3.0 15.2 + - - +
401A MET 3.6 4.0 - - - +
403A GLU* 1.3 97.3 + - - +
405A ALA* 1.3 64.5 + - - +
406A ASN 3.3 0.2 - - - -
407A LYS* 4.0 4.5 - - - +
408A PHE* 3.1 39.5 + - + +
432A PHE* 3.7 36.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 405 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
330A ILE* 3.5 28.0 - - + +
335A LEU* 3.6 11.5 - - + +
401A MET 2.8 16.4 + - - +
402A LEU* 4.1 4.3 - - + +
404A GLN* 1.3 76.3 - - - +
406A ASN* 1.3 57.6 + - - +
409A ALA* 3.0 29.1 + - - +
432A PHE* 4.0 10.5 - - + -
443A LEU* 3.6 25.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 406 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
335A LEU* 3.0 15.5 - - - +
339A ASN* 2.9 43.4 + - - +
402A LEU* 2.9 27.3 + - - +
403A GLU* 4.2 4.6 - - - +
405A ALA* 1.3 75.7 - - - +
407A LYS* 1.3 63.9 + - - +
409A ALA* 3.7 11.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 407 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A LEU* 3.9 13.4 - - - +
42A GLU* 2.8 23.4 + - - -
265A SER* 2.8 18.4 + - - +
269A GLN* 2.5 34.8 + - - +
403A GLU* 3.2 21.7 + - - +
404A GLN* 3.6 13.2 - - - +
405A ALA 3.3 0.6 - - - -
406A ASN* 1.3 80.5 - - - +
408A PHE* 1.3 69.4 + - + +
409A ALA 3.8 0.3 + - - -
410A ASN 5.2 0.5 + - - -
411A HIS* 4.1 11.4 + - - -
----------------------------------------------------------
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