Contacts of the helix formed by residues 457 - 508 (chain D) in PDB entry 5TWV
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 GLY 457 (chain D).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
453D TYR* 4.7 13.5 - - - -
456D LEU* 1.3 75.2 - - - +
458D VAL* 1.3 61.8 + - - +
459D SER 3.3 2.0 - - - -
460D ALA* 3.1 8.0 + - - +
461D LEU* 3.0 25.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 458 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
456D LEU* 4.5 1.2 - - - +
457D GLY* 1.3 73.4 - - - +
459D SER* 1.3 60.1 + - - +
461D LEU* 3.4 9.8 + - - +
462D ILE* 2.9 28.1 + - - +
559D PHE* 5.4 2.6 - - + -
560D VAL* 4.8 0.8 - - - -
563D VAL* 4.5 8.9 - - + +
564D SER* 3.8 29.4 - - - +
567D LYS* 5.3 7.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 459 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
452D LEU* 5.7 2.7 - - - -
455D ILE* 6.2 2.0 - - - -
456D LEU* 4.7 12.6 - - - -
457D GLY 3.3 0.8 - - - +
458D VAL* 1.3 78.0 - - - +
460D ALA* 1.3 57.5 + - - +
462D ILE* 3.2 1.4 + - - +
463D GLY* 2.9 27.4 + - - -
560D VAL* 3.7 32.8 - - - +
564D SER* 3.9 9.1 - - - -
575D VAL* 6.1 4.5 - - - -
579D SER* 5.7 9.0 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 460 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
449D VAL* 4.8 6.7 - - + +
452D LEU* 4.3 25.2 + - + +
453D TYR* 4.7 7.0 - - + +
456D LEU 4.2 12.2 + - - +
457D GLY* 3.1 10.6 + - - +
459D SER* 1.3 75.7 - - - +
461D LEU* 1.3 56.0 + - - +
463D GLY* 5.4 0.2 - - - -
464D ALA* 2.7 43.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 461 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
457D GLY 3.0 12.5 + - - +
458D VAL* 3.6 12.1 - - - +
459D SER 3.3 0.4 - - - -
460D ALA* 1.3 76.0 - - - +
462D ILE* 1.3 58.5 + - - +
464D ALA* 4.7 1.3 - - - -
465D ALA* 2.8 34.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 462 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
458D VAL 2.9 17.2 + - - +
459D SER 3.2 4.7 + - - +
461D LEU* 1.3 78.5 - - - +
463D GLY* 1.3 58.8 + - - +
465D ALA* 3.8 2.5 - - - +
466D VAL* 2.9 27.9 + - - +
556D LEU* 3.7 23.8 - - + +
559D PHE* 3.8 31.0 - - + -
560D VAL* 3.8 5.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 463 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
459D SER 2.9 14.1 + - - -
462D ILE* 1.3 73.8 - - - +
464D ALA* 1.3 59.5 + - - +
466D VAL* 3.1 3.4 + - - +
467D ILE* 2.9 28.9 + - - +
556D LEU* 4.0 14.1 + - - +
560D VAL* 5.3 0.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 464 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
449D VAL* 5.8 8.1 - - + -
460D ALA* 2.7 25.2 + - + +
461D LEU* 4.6 1.1 - - - +
463D GLY* 1.3 73.0 - - - +
465D ALA* 1.3 60.0 + - - +
467D ILE* 3.7 4.6 + - - +
468D ILE* 2.9 29.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 465 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
461D LEU* 2.8 24.5 + - - +
462D ILE* 3.9 2.9 - - - +
464D ALA* 1.3 75.5 - - - +
466D VAL* 1.3 58.1 + - - +
468D ILE* 3.7 7.8 - - - +
469D LEU* 2.9 29.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 466 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
462D ILE 2.9 18.4 + - - +
463D GLY* 3.1 6.3 + - - +
465D ALA* 1.3 75.7 - - - +
467D ILE* 1.3 59.3 + - - +
469D LEU* 3.6 3.9 + - - +
470D LEU* 2.9 28.8 + - - +
552D ILE* 4.2 21.1 - - + +
553D ALA* 4.8 4.3 - - + -
556D LEU* 3.8 19.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 467 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
463D GLY 2.9 14.7 + - - +
464D ALA* 4.2 4.7 - - - +
466D VAL* 1.3 75.1 - - - +
468D ILE* 1.3 59.0 + - - +
470D LEU* 3.7 7.6 - - - +
471D ALA* 3.0 32.7 + - - +
586D LEU* 5.5 11.0 - - + -
590D LEU* 4.9 16.2 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 468 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
464D ALA 2.9 21.4 + - - +
465D ALA* 3.7 10.5 - - - +
466D VAL 3.3 0.2 - - - -
467D ILE* 1.3 76.5 - - - +
469D LEU* 1.3 55.4 + - - +
471D ALA* 5.1 1.1 - - - +
472D PRO* 3.5 17.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 469 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
465D ALA 2.9 15.7 + - - +
466D VAL* 4.2 4.0 - - - +
468D ILE* 1.3 77.4 - - - +
470D LEU* 1.3 61.9 + - - +
471D ALA 3.3 1.1 - - - -
472D PRO* 3.4 12.1 - - - +
473D VAL* 3.8 13.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 470 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
466D VAL 2.9 20.0 + - - +
467D ILE* 3.0 10.2 + - - +
469D LEU* 1.3 77.8 - - - +
471D ALA* 1.3 62.3 + - - +
473D VAL* 3.9 4.8 + - - +
474D GLN* 3.2 22.5 + - - +
549D ALA* 5.3 15.1 - - + +
552D ILE* 5.5 7.0 - - + -
590D LEU* 5.5 7.4 - - + -
591D PHE* 4.6 10.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 471 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
467D ILE 3.0 13.9 + - - +
468D ILE* 5.1 1.8 - - - +
470D LEU* 1.3 77.0 - - - +
472D PRO* 1.4 63.6 - - + +
474D GLN* 2.9 20.7 + - - +
475D TYR* 3.0 26.9 + - + -
590D LEU* 5.2 12.5 - - + +
593D LEU* 6.3 1.3 - - + -
594D SER* 4.2 8.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 472 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
468D ILE 3.5 17.7 - - - +
469D LEU* 3.4 14.8 - - - +
471D ALA* 1.4 91.0 - - + +
473D VAL* 1.3 52.8 + - - +
475D TYR* 3.6 24.2 - - + +
476D PHE* 2.7 40.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 473 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
469D LEU 3.8 12.8 + - - +
470D LEU* 4.2 5.4 - - - +
471D ALA 3.3 0.6 - - - -
472D PRO* 1.3 79.3 - - - +
474D GLN* 1.3 57.5 + - - +
476D PHE* 4.8 1.6 - - - -
477D VAL* 2.7 40.4 + - + +
545D PHE* 5.8 3.5 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 474 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
470D LEU 3.2 15.6 + - - +
471D ALA* 2.9 14.1 + - - +
473D VAL* 1.3 77.1 - - - +
475D TYR* 1.3 59.3 + - - +
478D ALA* 2.8 32.9 + - - +
590D LEU 5.7 0.4 - - - +
591D PHE* 3.7 34.1 - - + -
594D SER* 4.3 9.6 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 475 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
471D ALA* 3.0 30.2 + - + -
472D PRO* 3.6 29.4 - - + +
474D GLN* 1.3 73.8 - - - +
476D PHE* 1.3 71.2 + + + +
478D ALA* 4.1 4.6 - - - +
479D THR* 2.9 28.0 + - - -
594D SER* 3.8 31.0 - - - +
597D VAL* 5.6 8.1 - - + -
598D ARG* 5.4 11.8 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 476 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
472D PRO* 2.7 23.3 + - + +
473D VAL* 5.7 1.6 - - - -
475D TYR* 1.3 87.1 - + + +
477D VAL* 1.3 63.1 + - + +
479D THR* 3.2 9.5 + - - -
480D LYS* 2.9 29.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 477 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
473D VAL* 2.7 27.7 + - + +
474D GLN 4.6 0.2 - - - +
476D PHE* 1.3 82.3 - - + +
478D ALA* 1.3 57.4 + - - +
480D LYS* 3.2 10.0 + - - +
481D LEU* 2.9 26.3 + - - +
542D ILE* 3.9 22.1 - - + +
545D PHE* 5.0 11.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 478 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
474D GLN 2.8 23.6 + - - +
475D TYR* 4.1 4.5 - - - +
477D VAL* 1.3 76.7 - - - +
479D THR* 1.3 59.9 + - - +
481D LEU* 3.4 9.8 + - - +
482D SER* 2.9 25.5 + - - -
542D ILE* 5.4 1.3 - - - -
598D ARG* 5.2 15.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 479 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
475D TYR* 2.9 22.0 + - - -
476D PHE* 3.2 12.5 + - - -
478D ALA* 1.3 75.5 - - - +
480D LYS* 1.3 58.7 + - - +
482D SER* 3.1 9.1 + - - -
483D GLN* 2.9 27.5 + - - +
598D ARG* 6.2 0.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 480 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
476D PHE* 2.9 19.5 + - + +
477D VAL* 3.4 12.3 - - - +
479D THR* 1.3 77.0 - - - +
481D LEU* 1.3 56.7 + - - +
483D GLN* 3.5 7.4 + - - +
484D ALA* 2.9 26.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 481 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
477D VAL 2.9 14.0 + - - +
478D ALA* 3.6 12.3 - - - +
480D LYS* 1.3 77.0 - - - +
482D SER* 1.3 57.4 + - - +
484D ALA* 3.4 9.8 + - - +
485D GLN* 2.9 25.6 + - - +
538D VAL 5.8 0.7 - - - -
539D TYR* 4.5 24.3 - - + +
542D ILE* 4.5 9.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 482 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
478D ALA 2.9 13.7 + - - -
479D THR* 3.1 12.7 + - - -
481D LEU* 1.3 74.6 - - - +
483D GLN* 1.3 59.6 + - - +
485D GLN* 3.1 10.6 + - - +
486D ARG* 2.9 24.8 + - - +
598D ARG* 5.3 12.3 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 483 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
479D THR 2.9 15.1 + - - +
480D LYS* 3.8 7.4 - - - +
482D SER* 1.3 74.0 - - - +
484D ALA* 1.3 58.1 + - - +
486D ARG* 3.1 10.2 + - + +
487D THR* 2.9 30.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 484 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
480D LYS 2.9 18.7 + - - +
481D LEU* 3.4 11.7 - - - +
482D SER 3.2 0.2 - - - -
483D GLN* 1.3 76.9 - - - +
485D GLN* 1.3 49.5 + - - +
487D THR* 4.7 2.7 - - - +
488D THR* 2.7 40.2 + - - -
535D ALA* 4.0 29.1 - - + +
538D VAL* 5.1 5.8 - - + -
539D TYR* 4.8 7.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 485 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
481D LEU 2.9 14.7 + - - +
482D SER* 3.1 13.2 + - - +
484D ALA* 1.3 74.6 - - - +
486D ARG* 1.3 53.9 + - - +
488D THR* 4.3 4.0 - - - -
489D LEU* 2.7 37.2 + - - +
1134D GLN* 5.9 6.5 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 486 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
482D SER 2.9 11.9 + - - +
483D GLN* 3.1 12.7 + - - +
485D GLN* 1.3 76.4 - - - +
487D THR* 1.3 61.3 + - - +
489D LEU* 3.2 5.9 + - - +
490D GLU* 2.9 26.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 487 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
483D GLN 2.9 14.7 + - - -
484D ALA* 4.6 2.7 - - - -
486D ARG* 1.3 73.6 - - - +
488D THR* 1.3 60.8 + - - +
490D GLU* 3.1 9.7 + - - +
491D HIS* 2.9 27.5 + - - +
535D ALA* 5.9 3.4 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 488 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
484D ALA 2.7 24.2 + - - -
485D GLN* 4.3 3.6 - - - -
487D THR* 1.3 78.2 - - - +
489D LEU* 1.3 56.1 + - - +
491D HIS* 4.1 2.0 - - - +
492D SER* 2.9 30.3 + - - -
532D SER* 4.1 22.2 - - - +
535D ALA* 4.0 19.6 - - - +
1134D GLN* 5.6 5.6 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 489 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
485D GLN 2.7 24.4 + - - +
486D ARG* 3.5 6.5 - - - +
487D THR 3.2 0.2 - - - -
488D THR* 1.3 75.4 - - - +
490D GLU* 1.3 59.1 + - - +
492D SER* 3.8 6.0 - - - -
493D ASN* 2.9 27.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 490 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
486D ARG 2.9 14.0 + - - +
487D THR* 3.1 11.0 + - - +
489D LEU* 1.3 74.6 - - - +
491D HIS* 1.3 61.0 + - - +
493D ASN* 3.1 8.8 + - - +
494D GLU* 2.9 24.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 491 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
487D THR 2.9 15.6 + - - +
488D THR* 4.1 2.9 - - - +
490D GLU* 1.3 76.3 - - - +
492D SER* 1.3 57.1 + - - +
494D GLU* 3.2 7.9 + - - +
495D ARG* 2.9 22.5 + - - +
528D LYS* 3.5 42.1 - - + +
531D THR* 4.9 6.3 - - - -
532D SER* 4.3 9.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 492 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
488D THR 2.9 20.5 + - - -
489D LEU* 3.9 6.7 - - - -
491D HIS* 1.3 74.1 - - - +
493D ASN* 1.3 60.9 + - - +
495D ARG* 3.2 11.4 + - - +
496D LEU* 2.9 25.1 + - - +
532D SER* 5.2 3.7 - - - -
1130D ASN* 5.5 11.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 493 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
489D LEU 2.9 19.6 + - - +
490D GLU* 3.1 9.6 + - - +
492D SER* 1.3 75.0 - - - +
494D GLU* 1.3 58.8 + - - +
496D LEU* 3.2 9.3 + - - +
497D LYS* 2.9 26.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 494 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
490D GLU 2.9 12.4 + - - +
491D HIS* 3.2 13.6 + - - +
493D ASN* 1.3 74.6 - - - +
495D ARG* 1.3 57.7 + - - +
497D LYS* 3.3 8.2 + - - +
498D GLN* 2.9 29.3 + - - +
528D LYS* 4.4 11.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 495 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
491D HIS 2.9 13.7 + - - +
492D SER* 3.2 15.2 + - - +
494D GLU* 1.3 75.9 - - - +
496D LEU* 1.3 58.5 + - - +
498D GLN* 3.7 6.0 + - - +
499D THR* 2.9 27.7 + - - -
525D THR* 5.7 12.6 - - - +
528D LYS* 4.9 5.8 - - + +
529D GLU* 6.0 4.0 - - + +
1098D HIS* 5.9 6.5 - - + -
1126D SER* 5.8 0.9 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 496 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
492D SER 2.9 12.7 + - - +
493D ASN* 3.2 12.5 + - - +
495D ARG* 1.3 76.4 - - - +
497D LYS* 1.3 59.2 + - - +
499D THR* 3.4 7.2 - - - -
500D ASN* 2.9 29.3 + - - +
1126D SER* 5.2 9.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 497 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
493D ASN 2.9 15.4 + - - +
494D GLU* 3.3 9.2 + - - +
496D LEU* 1.3 78.3 - - - +
498D GLN* 1.3 56.1 + - - +
500D ASN* 3.9 3.2 - - - +
501D GLU* 2.9 28.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 498 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
494D GLU 2.9 17.2 + - - +
495D ARG* 3.7 7.0 - - - +
497D LYS* 1.3 76.4 - - - +
499D THR* 1.3 57.8 + - - +
501D GLU* 3.6 9.1 - - - +
502D MET* 2.9 26.3 + - - +
521D ARG* 4.8 24.1 - - + +
524D VAL* 5.6 6.3 - - + -
525D THR* 5.4 9.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 499 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
495D ARG 2.9 19.2 + - - -
496D LEU* 3.1 11.1 + - - -
498D GLN* 1.3 76.0 - - - +
500D ASN* 1.3 60.1 + - - +
501D GLU 3.2 0.2 - - - -
502D MET* 3.1 9.0 + - - +
503D LEU* 2.9 23.0 + - - +
1122D LEU* 4.0 24.7 - - - +
1125D PHE* 6.0 4.3 - - - -
1126D SER* 5.2 11.9 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 500 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
496D LEU 2.9 14.9 + - - +
497D LYS* 4.3 4.0 - - - +
499D THR* 1.3 73.5 - - - +
501D GLU* 1.3 60.2 + - - +
503D LEU* 3.2 12.2 + - + +
504D ARG* 2.9 23.7 + - - +
1122D LEU* 5.8 1.3 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 501 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
497D LYS 2.9 21.0 + - - +
498D GLN* 3.6 11.0 - - - +
499D THR 3.2 0.2 - - - -
500D ASN* 1.3 78.1 - - - +
502D MET* 1.3 56.6 + - - +
504D ARG* 3.3 11.8 + - + +
505D GLY* 2.9 21.0 + - - -
517D ILE* 5.7 1.9 - - - +
1432D PHE* 6.2 1.6 - - + -
1433D SER* 5.3 16.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 502 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
498D GLN 2.9 15.4 + - - +
499D THR* 3.1 12.7 + - - +
501D GLU* 1.3 73.4 - - - +
503D LEU* 1.3 61.1 + - - +
504D ARG 3.2 0.4 - - - -
505D GLY* 3.1 4.7 + - - +
506D MET* 2.9 24.9 + - - +
517D ILE* 5.7 6.3 - - + -
521D ARG* 5.3 9.9 - - + -
1122D LEU* 5.8 3.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 503 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
499D THR 2.9 10.3 + - - +
500D ASN* 3.2 17.2 + - + +
502D MET* 1.3 77.1 - - - +
504D ARG* 1.3 56.6 + - - +
506D MET* 3.2 10.0 + - - +
507D LYS* 2.9 24.4 + - - +
1118D LEU* 5.5 6.5 - - + -
1122D LEU* 4.6 20.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 504 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
500D ASN 2.9 13.9 + - - +
501D GLU* 3.3 13.9 - - - +
502D MET 3.2 0.2 - - - -
503D LEU* 1.3 76.5 - - - +
505D GLY* 1.3 57.8 + - - +
507D LYS* 3.1 12.0 + - + +
508D LEU* 2.9 27.5 + - - +
1430D VAL* 4.1 10.2 - - + +
1431D LEU 5.2 9.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 505 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
501D GLU 2.9 14.6 + - - -
502D MET* 3.1 8.4 + - - -
504D ARG* 1.3 74.6 - - - +
506D MET* 1.3 59.0 + - - +
508D LEU* 3.1 22.0 + - - +
509D LEU 3.9 2.6 - - - +
513D ALA* 3.5 24.8 - - - +
517D ILE* 5.0 8.5 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 506 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
502D MET 2.9 12.2 + - - +
503D LEU* 3.2 12.5 + - - +
505D GLY* 1.3 76.1 - - - +
507D LYS* 1.3 62.1 + - - +
508D LEU 3.5 5.7 + - - +
1110D MET* 5.6 10.1 - - + +
1113D PHE* 5.7 9.9 - - + +
1114D GLU* 5.3 11.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 507 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
503D LEU 2.9 12.9 + - - +
504D ARG* 3.1 15.8 + - - +
506D MET* 1.3 75.0 - - - +
508D LEU* 1.3 60.8 + - - +
1430D VAL* 4.7 8.5 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 508 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
504D ARG 2.9 13.6 + - - +
505D GLY* 3.1 11.7 + - - +
506D MET 3.7 7.6 - - - +
507D LYS* 1.3 83.2 - - - +
509D LEU* 1.3 68.0 + - - +
513D ALA* 3.8 14.4 - - + -
1430D VAL* 4.0 22.9 - - + +
----------------------------------------------------------
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