Contacts of the helix formed by residues 421 - 451 (chain E) in PDB entry 1K7L
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 421 (chain E).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
419E ASP* 3.3 2.6 + - - -
420E ILE* 1.3 96.8 - - + +
422E LEU* 1.3 61.1 + - - +
423E PHE 3.2 2.9 - - - -
424E PRO* 2.8 34.7 - - + +
425E LYS* 2.9 29.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 422 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
368E LEU* 4.0 34.1 - - + +
370E LEU* 3.7 19.5 - - + -
412E LEU* 3.5 39.0 - - + +
416E HIS* 3.8 21.1 - - + +
419E ASP* 3.0 41.5 + - - +
420E ILE 3.3 1.4 + - - -
421E PHE* 1.3 75.7 - - - +
423E PHE* 1.3 57.9 + - - +
425E LYS* 3.1 6.0 + - + +
426E LEU* 2.8 33.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 423 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
405E VAL* 3.5 30.7 - - + -
408E LEU* 4.6 11.0 - - + -
409E ARG* 3.1 58.1 - - + -
412E LEU* 3.6 25.8 - - + +
413E GLN* 6.6 0.2 - - + -
420E ILE 4.9 1.9 + - - +
422E LEU* 1.3 78.8 - - - +
424E PRO* 1.3 75.4 - - + +
426E LEU* 2.9 14.5 + - + +
427E LEU* 2.9 55.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 424 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
420E ILE 4.8 1.6 - - - +
421E PHE* 2.8 51.6 - - + +
423E PHE* 1.3 94.7 - - + +
425E LYS* 1.3 58.9 + - + -
427E LEU* 3.4 15.8 + - + +
428E GLN* 3.2 24.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 425 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
368E LEU* 4.0 26.5 - - + +
419E ASP* 3.1 27.2 + - - +
421E PHE* 2.9 28.2 + - + +
422E LEU* 3.2 13.5 - - + +
424E PRO* 1.3 78.3 - - - +
426E LEU* 1.3 57.9 + - - +
428E GLN* 3.2 31.3 - - - +
429E LYS* 3.2 25.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 426 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
365E PHE* 4.0 15.0 - - + -
368E LEU* 3.8 17.3 - - + -
370E LEU* 3.6 33.0 - - + -
374E ASP* 5.9 0.7 - - + -
378E PHE* 3.6 26.6 - - + -
408E LEU* 4.7 10.1 - - + -
412E LEU* 3.5 38.8 - - + -
422E LEU* 2.8 16.8 + - + +
423E PHE* 3.5 8.3 - - + +
425E LYS* 1.3 72.9 - - - +
427E LEU* 1.3 70.5 + - + +
428E GLN 3.1 1.3 - - - -
429E LYS* 3.0 11.2 + - + +
430E MET* 3.0 17.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 427 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
405E VAL* 5.5 5.6 - - + -
408E LEU* 5.9 2.2 - - + -
423E PHE* 2.9 63.9 + - + +
424E PRO* 3.6 12.3 - - + +
426E LEU* 1.3 78.2 - - + +
428E GLN* 1.3 63.4 + - - +
430E MET* 3.0 38.6 + - - +
431E ALA* 3.3 6.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 428 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
424E PRO 3.2 9.1 + - - +
425E LYS* 3.2 32.1 - - - +
426E LEU 3.1 0.4 - - - -
427E LEU* 1.3 80.4 - - - +
429E LYS* 1.3 76.7 + - + +
431E ALA* 3.3 9.4 + - - +
432E ASP* 3.0 42.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 429 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
361E PHE* 3.7 10.2 + - + -
364E LYS* 3.8 39.9 - - - +
365E PHE* 3.4 38.3 - - + +
368E LEU* 3.6 29.4 - - + -
378E PHE* 4.5 2.9 - - + -
425E LYS* 3.2 9.5 + - - +
426E LEU* 3.0 10.9 + - - +
428E GLN* 1.3 92.2 + - + +
430E MET* 1.3 64.1 + - - +
432E ASP* 3.7 18.5 + - - +
433E LEU* 3.1 29.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 430 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315E GLU* 4.5 8.2 - - - +
378E PHE* 3.5 31.4 - - + -
381E ALA* 3.5 43.3 - - + +
382E ILE* 3.8 16.2 - - + +
385E CYS* 5.8 6.3 - - + -
401E GLN* 4.7 6.1 - - - +
405E VAL* 5.9 2.9 - - + -
426E LEU 3.0 6.7 + - - +
427E LEU* 3.0 30.3 + - - +
429E LYS* 1.3 78.1 - - - +
431E ALA* 1.3 63.8 + - - +
433E LEU* 3.5 7.6 + - - +
434E ARG* 3.3 28.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 431 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
427E LEU 3.3 6.1 + - - +
428E GLN* 3.3 12.8 + - - +
429E LYS 3.2 0.2 - - - -
430E MET* 1.3 79.6 - - - +
432E ASP* 1.3 66.3 + - - +
434E ARG* 3.2 10.6 + - - +
435E GLN* 3.2 20.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 432 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
361E PHE* 4.0 16.9 - - + -
428E GLN* 3.0 24.5 + - - +
429E LYS* 3.7 28.8 + - - +
430E MET 3.4 0.2 - - - -
431E ALA* 1.3 79.4 - - - +
433E LEU* 1.3 52.4 + - - +
435E GLN* 3.1 8.0 + - - +
436E LEU* 2.7 36.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 433 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315E GLU* 3.6 36.6 - - + +
318E PHE* 4.0 20.6 - - + -
319E ALA* 3.7 17.3 - - + +
361E PHE* 3.4 32.1 - - + -
378E PHE* 3.9 16.8 - - + -
382E ILE* 4.0 7.4 - - + -
429E LYS 3.1 18.5 + - - +
430E MET* 3.7 6.5 - - - +
431E ALA 3.3 0.2 - - - -
432E ASP* 1.3 79.6 - - - +
434E ARG* 1.3 53.7 + - - +
436E LEU* 3.4 9.9 - - + +
437E VAL* 2.7 39.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 434 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315E GLU* 3.7 19.2 + - - +
385E CYS* 3.3 27.3 - - - -
387E ASP* 5.0 12.1 + - - +
388E ARG* 3.2 33.0 - - - +
430E MET* 3.3 15.6 + - - +
431E ALA* 3.2 13.7 + - - +
433E LEU* 1.3 78.0 - - - +
435E GLN* 1.3 59.1 + - - +
437E VAL* 3.3 3.3 + - - +
438E THR* 2.9 36.4 + - - +
468E TYR* 4.4 17.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 435 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
431E ALA 3.2 8.1 + - - +
432E ASP* 3.1 10.8 + - - +
434E ARG* 1.3 79.3 - - - +
436E LEU* 1.3 57.9 + - - +
438E THR* 3.4 18.9 + - - +
439E GLU* 2.9 31.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 436 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
318E PHE* 3.8 36.6 - - + -
357E PRO* 3.4 28.7 - - + +
358E LYS* 4.2 18.5 + - + +
361E PHE* 4.4 17.5 - - + -
432E ASP 2.7 17.0 + - - +
433E LEU* 3.4 17.0 - - + +
435E GLN* 1.3 77.9 - - - +
437E VAL* 1.3 56.4 + - - +
439E GLU* 3.3 22.1 + - - +
440E HIS* 2.9 28.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 437 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
311E TYR 5.2 0.4 - - - +
314E TYR* 3.8 25.1 - - + +
315E GLU* 3.5 39.5 - - + +
318E PHE* 4.0 8.5 - - + -
433E LEU 2.7 28.8 + - - +
434E ARG* 3.7 4.9 - - - +
436E LEU* 1.3 71.9 - - - +
438E THR* 1.3 64.9 + - - +
440E HIS* 3.2 6.9 + - + +
441E ALA* 3.0 24.5 + - + +
464E TYR* 6.0 1.3 - - + -
467E MET* 3.4 33.0 - - + -
468E TYR* 5.2 0.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 438 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
434E ARG* 2.9 21.6 + - - +
435E GLN* 3.6 19.7 + - - +
437E VAL* 1.3 75.8 - - - +
439E GLU* 1.3 65.6 + - - +
441E ALA* 3.5 5.0 + - - +
442E GLN* 3.3 30.3 + - - +
468E TYR* 3.5 40.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 439 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
357E PRO* 3.7 35.9 - - - +
358E LYS* 5.1 2.6 + - - +
435E GLN* 2.9 18.8 + - + +
436E LEU* 3.5 18.8 - - - +
437E VAL 3.2 0.2 - - - -
438E THR* 1.3 80.0 - - - +
440E HIS* 1.3 58.2 + - - +
442E GLN* 3.3 12.0 - - - +
443E LEU* 2.9 34.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 440 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
314E TYR* 4.8 1.8 - + - -
318E PHE* 3.8 21.5 - + + -
354E ILE* 3.7 22.0 - - + +
355E MET* 4.5 0.7 - - + -
358E LYS* 2.7 35.4 + - - +
436E LEU 2.9 16.6 + - - +
437E VAL* 3.2 6.9 + - + +
439E GLU* 1.3 73.4 - - - +
441E ALA* 1.3 55.1 + - - +
442E GLN 3.1 1.8 - - - -
443E LEU* 3.0 6.8 + - + +
444E VAL* 2.6 49.8 + - + +
464E TYR* 3.1 23.1 - + - -
501E 544 2.8 39.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 441 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
437E VAL* 3.0 16.4 + - + +
438E THR* 3.9 6.5 - - - +
440E HIS* 1.3 77.0 - - - +
442E GLN* 1.3 56.7 + - - +
444E VAL* 3.5 1.7 + - - +
445E GLN* 3.0 35.3 + - - +
464E TYR* 3.7 34.3 - - + -
467E MET* 5.2 10.8 - - + -
468E TYR* 5.6 10.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 442 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
438E THR* 3.3 20.1 + - - +
439E GLU* 3.3 14.8 - - - +
440E HIS 3.1 0.2 - - - -
441E ALA* 1.3 77.7 - - - +
443E LEU* 1.3 64.4 + - - +
445E GLN* 3.1 16.6 + - + +
446E ILE* 3.2 23.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 443 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
349E LYS* 5.6 2.9 - - - +
350E PRO* 4.2 18.6 - - + +
353E ASP* 3.8 13.5 - - + +
354E ILE* 3.5 50.0 - - + +
357E PRO* 5.6 1.8 - - + -
358E LYS* 4.7 6.3 - - - +
439E GLU* 2.9 22.3 + - + +
440E HIS* 3.4 9.9 - - - +
442E GLN* 1.3 73.7 - - - +
444E VAL* 1.3 56.9 + - + +
445E GLN 3.0 4.3 - - - -
446E ILE* 2.9 40.2 + - + +
447E ILE* 3.2 15.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 444 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
273E PHE* 4.8 17.1 - - + -
354E ILE* 5.8 1.3 - - + -
440E HIS* 2.6 52.6 + - + +
441E ALA* 3.7 8.1 - - - +
443E LEU* 1.3 73.3 - - + +
445E GLN* 1.3 63.6 + - - +
446E ILE 3.4 0.2 - - - -
447E ILE* 3.7 12.2 + - + +
448E LYS* 3.1 24.5 + - + +
456E LEU* 4.3 28.3 - - + -
464E TYR* 3.8 12.1 - - + +
501E 544 3.8 10.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 445 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
441E ALA* 3.0 21.5 + - - +
442E GLN* 3.3 12.1 - - + +
443E LEU 3.0 0.4 - - - -
444E VAL* 1.3 83.4 - - - +
446E ILE* 1.3 64.0 + - - +
447E ILE 3.2 0.2 - - - -
448E LYS* 3.4 44.6 + - - +
449E LYS* 3.7 17.1 + - - +
464E TYR* 5.1 10.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 446 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
349E LYS* 6.1 1.8 - - - +
350E PRO* 4.1 21.1 - - + -
442E GLN* 3.2 19.5 + - + +
443E LEU* 2.9 27.0 + - + +
445E GLN* 1.3 76.5 - - + +
447E ILE* 1.3 58.6 + - - +
449E LYS* 3.0 17.8 - - + +
450E THR* 2.8 41.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 447 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
273E PHE* 3.8 24.7 - - + -
350E PRO* 3.5 22.2 - - + -
351E PHE* 3.3 35.9 - - + -
354E ILE* 3.3 35.0 - - + -
443E LEU* 3.2 10.9 + - + +
444E VAL* 3.9 12.1 - - + +
445E GLN 3.2 0.2 - - - -
446E ILE* 1.3 73.2 - - - +
448E LYS* 1.3 57.1 + - - +
449E LYS 2.9 5.5 + - - -
450E THR* 4.4 6.3 - - - -
451E GLU* 2.8 44.6 + - + +
454E ALA* 4.2 5.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 448 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205A SER* 6.0 1.2 - - - -
273E PHE* 6.4 1.3 - - + -
444E VAL* 3.1 18.9 + - + +
445E GLN* 3.4 36.3 - - - +
446E ILE 3.3 0.6 - - - -
447E ILE* 1.3 75.6 - - - +
449E LYS* 1.3 57.4 + - - +
451E GLU 4.7 4.5 - - - +
452E SER* 5.7 1.4 - - - -
454E ALA 4.8 10.3 - - - +
455E ALA* 6.5 1.1 - - - -
456E LEU* 4.6 20.2 - - + -
461E GLN* 4.9 16.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 449 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202A ASP* 3.0 61.4 + - + +
205A SER* 5.5 7.0 - - - +
445E GLN 3.7 10.9 + - - +
446E ILE* 3.0 23.8 - - + +
447E ILE 3.0 0.6 - - - -
448E LYS* 1.3 79.6 - - - +
450E THR* 1.3 85.8 + - + +
451E GLU* 3.3 1.9 + - - -
452E SER* 4.1 11.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 450 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
348E ARG* 4.2 14.1 + - - -
350E PRO* 4.6 11.1 - - + +
351E PHE* 5.6 0.2 - - - -
446E ILE* 2.8 31.0 + - + +
447E ILE* 4.3 2.9 + - - -
449E LYS* 1.3 91.3 - - + +
451E GLU* 1.3 69.7 + - - +
452E SER* 3.7 3.7 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 451 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
267E GLU* 2.8 14.5 - - - +
270E VAL* 3.2 16.5 - - + +
348E ARG* 3.0 24.9 + - - +
351E PHE* 3.8 15.5 - - + -
447E ILE* 2.8 30.1 + - + +
448E LYS 4.7 3.2 - - - +
449E LYS 4.7 1.8 - - - -
450E THR* 1.3 79.6 + - - +
452E SER* 1.3 57.8 + - - +
453E ASP* 3.0 41.4 + - - +
454E ALA* 3.2 19.6 + - + +
469E YT3 2.6 29.5 - - - -
----------------------------------------------------------
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