Contacts of the helix formed by residues 386 - 425 (chain A) in PDB entry 1P5Q
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 ASN 386 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
353A GLU* 3.0 30.5 + - - +
357A SER* 4.4 5.8 + - - -
379A VAL* 3.6 21.8 - - + +
380A LEU* 4.3 1.2 - - + +
383A TYR 3.1 18.6 - - - +
384A PRO 2.7 12.2 + - - +
385A ASN* 1.3 71.4 - - - +
387A LYS* 1.3 80.7 + - - +
388A ALA* 3.4 8.5 + - - +
389A ALA* 2.8 32.5 + - + +
390A LYS* 3.3 19.8 + - - +
----------------------------------------------------------
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
----------------------------------------------------------
353A GLU* 5.5 1.8 + - - -
385A ASN 4.0 6.3 - - - +
386A ASN* 1.3 90.1 - - - +
388A ALA* 1.3 79.9 + - + +
390A LYS* 3.5 3.4 + - - +
391A THR* 3.2 22.9 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 388 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
357A SER* 5.8 6.1 - - - -
361A GLU* 4.4 17.0 - - - +
376A PHE* 5.6 1.1 - - + -
386A ASN* 3.4 5.8 + - - +
387A LYS* 1.3 87.8 - - + +
389A ALA* 1.3 54.8 + - - +
391A THR* 3.0 5.9 + - - -
392A GLN* 2.6 44.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 389 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
357A SER* 5.8 1.5 - - - +
376A PHE* 3.7 20.2 - - + +
379A VAL* 3.6 21.1 - - + -
380A LEU* 3.2 24.5 - - + -
386A ASN* 2.8 26.2 + - + +
388A ALA* 1.3 73.0 - - - +
390A LYS* 1.3 57.6 + - - +
391A THR 2.9 0.5 + - - -
393A LEU* 2.6 35.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 390 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
380A LEU* 3.6 25.3 - - + +
384A PRO 5.0 6.5 + - - -
386A ASN 3.3 15.5 + - - +
387A LYS* 3.9 3.8 - - - +
389A ALA* 1.3 78.9 - - - +
391A THR* 1.3 64.9 + - - +
393A LEU* 3.6 6.6 - - - +
394A ALA* 3.3 17.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 391 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
387A LYS 3.2 11.7 + - - -
388A ALA* 3.0 9.5 + - - -
390A LYS* 1.3 78.1 - - - +
392A GLN* 1.3 76.9 + - - +
394A ALA* 2.9 24.6 + - + +
395A VAL* 3.1 11.2 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 392 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
361A GLU* 2.5 31.7 - - - +
364A LEU* 3.5 19.5 - - + +
376A PHE* 3.5 26.9 - - + -
388A ALA* 2.6 28.0 + - + +
391A THR* 1.3 81.3 - - - +
393A LEU* 1.3 63.3 + - - +
395A VAL* 3.1 23.6 + - - +
396A CYS* 3.1 25.8 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 393 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
373A ARG* 3.9 20.4 - - + -
376A PHE* 4.2 19.1 - - + -
377A GLN* 4.6 17.0 - - + +
380A LEU* 4.4 16.8 - - + -
389A ALA 2.6 22.0 + - - +
390A LYS* 3.6 6.7 - - - +
392A GLN* 1.3 71.5 - - - +
394A ALA* 1.3 64.3 + - - +
396A CYS* 3.1 7.7 + - - +
397A GLN* 2.9 47.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 394 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
390A LYS 3.3 9.1 + - - +
391A THR* 2.9 15.5 + - + +
393A LEU* 1.3 77.7 - - - +
395A VAL* 1.3 65.6 + - + +
397A GLN* 2.8 21.5 + - - +
398A GLN* 2.9 14.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 395 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
364A LEU* 4.7 17.5 - - + -
391A THR* 3.1 20.4 - - + +
392A GLN* 3.3 28.9 - - - +
394A ALA* 1.3 74.5 - - + +
396A CYS* 1.3 63.4 + - - +
398A GLN* 3.1 6.3 + - + +
399A ARG* 2.9 39.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 396 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
364A LEU* 4.0 16.2 - - - -
369A PHE* 4.3 16.4 - - + +
372A ALA* 3.6 31.6 - - - -
373A ARG* 3.7 26.0 - - + -
376A PHE* 4.2 7.0 - - - -
392A GLN 3.1 14.1 + - - -
393A LEU* 3.1 9.4 + - + +
395A VAL* 1.3 78.9 - - - +
397A GLN* 1.3 58.1 + - - +
399A ARG* 4.0 0.5 - - - +
400A ILE* 2.8 36.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 397 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
373A ARG* 3.6 33.2 + - - +
377A GLN* 5.4 1.6 + - - -
393A LEU* 2.9 38.0 + - + +
394A ALA* 2.8 16.4 + - - +
396A CYS* 1.3 72.6 - - - +
398A GLN* 1.3 51.6 + - - +
400A ILE* 3.6 3.3 - - - +
401A ARG* 2.7 38.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 398 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
394A ALA 2.9 11.5 + - - +
395A VAL* 3.5 10.5 - - + +
397A GLN* 1.3 76.3 - - - +
399A ARG* 1.3 64.1 + - + +
401A ARG* 3.1 41.6 - - - +
402A ARG* 2.8 71.7 + - - +
161B TYR* 5.2 4.8 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 399 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
364A LEU* 5.8 0.2 - - + -
367A ASN* 3.6 8.7 + - - -
369A PHE* 3.7 43.8 - - + -
395A VAL* 2.9 31.1 + - + +
396A CYS 4.0 0.4 - - - +
398A GLN* 1.3 83.8 - - + +
400A ILE* 1.3 52.5 + - - +
402A ARG* 2.6 54.9 + - - +
403A GLN* 2.7 37.7 + - - +
406A ARG* 3.7 12.1 - - - +
1004A SO4 2.8 45.0 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 400 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
369A PHE* 3.4 33.2 - - + +
370A GLU* 3.9 27.4 - - + +
373A ARG* 3.0 46.2 - - + +
396A CYS 2.8 23.7 + - - +
397A GLN* 3.8 4.9 - - - +
399A ARG* 1.3 72.7 - - - +
401A ARG* 1.3 65.1 + - - +
403A GLN* 3.6 9.9 - - - +
404A LEU* 3.2 39.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 401 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
397A GLN 2.7 22.9 + - - +
398A GLN* 3.1 45.9 + - - +
400A ILE* 1.3 76.6 - - - +
402A ARG* 1.3 68.7 + - - +
404A LEU* 3.3 14.4 + - - +
405A ALA* 3.3 12.0 + - - +
161B TYR* 5.3 7.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 402 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
398A GLN* 2.8 44.8 + - - +
399A ARG* 2.6 49.5 - - - +
401A ARG* 1.3 81.5 - - - +
403A GLN* 1.3 65.4 + - - +
405A ALA* 2.8 20.4 + - - +
406A ARG* 2.4 68.2 + - + +
1004A SO4 5.3 2.2 + - - -
161B TYR* 3.8 31.4 - - + -
163B LYS* 4.7 3.5 - - - +
212B GLU* 5.8 2.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 403 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
367A ASN 4.9 2.0 + - - -
369A PHE* 3.7 32.1 - - + -
370A GLU* 3.9 22.3 - - - +
399A ARG* 2.7 21.1 + - - +
400A ILE* 3.6 10.4 - - - +
402A ARG* 1.3 72.0 - - - +
404A LEU* 1.3 58.6 + - + +
406A ARG* 3.3 19.3 + - - +
407A GLU* 3.0 46.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 404 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
370A GLU* 5.8 4.3 - - - +
400A ILE* 3.2 33.9 + - + +
401A ARG* 3.7 8.7 - - - +
402A ARG 3.1 0.8 - - - -
403A GLN* 1.3 74.6 - - + +
405A ALA* 1.3 59.0 + - - +
407A GLU* 3.8 14.0 - - + +
408A LYS* 2.7 38.7 + - - +
----------------------------------------------------------
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
----------------------------------------------------------
401A ARG* 3.3 9.4 + - - +
402A ARG* 2.8 18.2 + - - +
404A LEU* 1.3 74.8 - - - +
406A ARG* 1.3 65.8 + - + +
408A LYS* 3.8 7.8 - - - +
409A LYS* 3.2 40.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 406 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
399A ARG* 3.7 12.1 - - - +
402A ARG* 2.4 55.4 + - + +
403A GLN* 3.5 17.6 - - - +
405A ALA* 1.3 79.2 - - + +
407A GLU* 1.3 66.9 + - + +
409A LYS* 2.9 19.4 + - - +
410A LEU* 3.1 11.1 + - - +
161B TYR* 5.0 12.3 + - - -
163B LYS* 3.3 31.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 407 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
403A GLN* 3.0 35.3 + - + +
404A LEU* 3.8 13.7 - - + +
406A ARG* 1.3 76.8 - - + +
408A LYS* 1.3 64.3 + - - +
410A LEU* 2.9 22.1 + - + +
411A TYR* 2.9 46.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 408 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
404A LEU 2.7 23.6 + - - +
405A ALA* 3.8 7.6 - - - +
407A GLU* 1.3 73.5 - - - +
409A LYS* 1.3 66.5 + - + +
411A TYR* 3.2 8.6 + - - +
412A ALA* 2.9 23.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 409 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
405A ALA* 3.3 32.0 + - - +
406A ARG* 2.9 15.5 + - - +
408A LYS* 1.3 76.3 - - + +
410A LEU* 1.3 57.5 + - - +
412A ALA* 3.2 8.3 + - - +
413A ASN* 2.8 45.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 410 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
406A ARG 3.1 8.6 + - - +
407A GLU* 2.9 21.9 + - + +
409A LYS* 1.3 79.3 - - - +
411A TYR* 1.3 73.6 + - + +
413A ASN* 3.2 5.8 + - - +
414A MET* 2.8 69.0 + - + +
259B TRP* 3.6 25.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 411 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
407A GLU* 2.9 58.6 + - + +
408A LYS* 3.2 7.4 + - - +
410A LEU* 1.3 85.2 - - + +
412A ALA* 1.3 58.0 + - - +
414A MET* 3.6 18.1 - - + +
415A PHE* 2.6 38.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 412 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
408A LYS* 2.9 15.7 + - + +
409A LYS* 3.3 13.9 - - - +
411A TYR* 1.3 78.8 - - - +
413A ASN* 1.3 59.7 + - - +
415A PHE* 3.1 6.1 + - - +
416A GLU* 2.9 38.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 413 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
409A LYS* 2.8 34.6 + - - +
410A LEU* 3.7 5.9 - - - +
412A ALA* 1.3 71.3 - - - +
414A MET* 1.3 60.5 + - - +
416A GLU* 4.0 6.2 - - - +
417A ARG* 2.9 32.7 + - - +
259B TRP* 4.1 20.0 - - + -
260B GLU* 6.0 0.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 414 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
410A LEU* 2.8 60.5 + - + +
411A TYR* 3.6 18.6 - - + +
413A ASN* 1.3 73.6 - - - +
415A PHE* 1.3 58.1 + - - +
417A ARG* 3.7 2.7 - - - +
418A LEU* 2.8 44.4 + - + +
259B TRP* 3.8 35.7 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 415 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
411A TYR 2.6 22.6 + - - +
412A ALA* 3.2 7.4 - - - +
414A MET* 1.3 71.8 - - - +
416A GLU* 1.3 83.8 + - + +
418A LEU* 2.9 14.6 + - + +
419A ALA* 2.8 42.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 416 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
412A ALA* 2.9 20.9 + - + +
413A ASN* 4.0 5.8 - - - +
415A PHE* 1.3 98.3 - - + +
417A ARG* 1.3 64.1 + - - +
419A ALA* 3.0 19.5 + - - +
420A GLU* 3.0 13.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 417 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
413A ASN 2.9 23.4 + - - +
414A MET* 3.9 5.4 - - - +
416A GLU* 1.3 72.8 - - - +
418A LEU* 1.3 68.2 + - - +
420A GLU* 2.7 53.4 + - - +
421A GLU* 3.2 39.3 + - - +
259B TRP* 2.7 37.1 + - + +
260B GLU* 4.3 12.4 + - - +
261B MSE 2.7 25.2 + - - -
262B ASN* 3.7 10.5 - - - +
266B LYS* 4.5 7.9 - - - +
303B GLU* 5.1 0.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 418 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
414A MET* 2.8 22.4 + - + +
415A PHE* 2.9 16.8 + - + +
417A ARG* 1.3 82.9 - - - +
419A ALA* 1.3 63.1 + - - +
420A GLU 3.2 0.3 + - - -
421A GLU* 3.3 12.8 + - + +
422A GLU* 3.1 20.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 419 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
415A PHE* 2.8 27.7 + - + +
416A GLU* 3.0 13.9 + - - +
418A LEU* 1.3 73.2 - - - +
420A GLU* 1.3 63.4 + - - +
422A GLU* 3.0 29.3 - - - +
423A ASN* 3.0 19.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 420 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
416A GLU 3.0 10.6 + - - +
417A ARG* 2.7 45.3 + - - +
418A LEU 3.1 0.2 - - - -
419A ALA* 1.3 75.4 - - - +
421A GLU* 1.3 69.5 + - - +
422A GLU 2.8 1.2 + - - -
423A ASN* 3.0 14.9 + - - +
424A LYS* 3.2 13.6 + - + +
260B GLU 5.6 0.2 - - - +
262B ASN* 3.5 20.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 421 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
417A ARG* 3.2 46.4 + - - +
418A LEU* 3.7 15.0 - - + +
420A GLU* 1.3 79.6 - - - +
422A GLU* 1.3 62.5 + - - +
424A LYS* 3.7 8.2 + - - +
425A ALA* 3.0 22.1 + - - +
262B ASN* 4.6 1.2 - - - +
263B SER* 4.5 8.7 + - - -
303B GLU* 3.7 14.8 - - - +
305B SER* 3.6 21.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 422 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
418A LEU 3.1 12.1 + - - +
419A ALA* 3.0 22.2 + - - +
420A GLU 2.8 0.8 + - - -
421A GLU* 1.3 74.4 - - - +
423A ASN* 1.3 68.1 + - - +
425A ALA* 2.7 36.6 + - + +
426A LYS* 4.0 13.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 423 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
419A ALA* 3.0 21.1 + - - +
420A GLU* 3.8 6.7 - - - +
422A GLU* 1.3 79.3 - - - +
424A LYS* 1.3 56.9 + - - +
426A LYS* 2.6 53.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 424 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
420A GLU* 3.2 9.8 + - + +
421A GLU* 3.7 11.9 - - - +
423A ASN* 1.3 77.6 - - - +
425A ALA* 1.3 53.3 + - - +
426A LYS* 2.6 18.4 + - - -
427A ALA* 3.8 5.9 + - - +
263B SER* 5.9 2.9 - - - -
305B SER* 5.8 6.5 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 425 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
421A GLU 3.0 14.2 + - - +
422A GLU* 2.7 23.4 + - + +
424A LYS* 1.3 73.9 - - - +
426A LYS* 1.3 57.9 + - - +
427A ALA* 3.5 4.8 + - - -
----------------------------------------------------------
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