Contacts of the helix formed by residues 430 - 459 (chain B) in PDB entry 1OH7
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 430 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
425B ILE* 5.6 0.4 - - - +
426B ALA 5.1 0.6 + - - -
428B GLY 3.6 0.9 - - - -
429B TYR* 1.3 82.3 - - + +
431B GLU* 1.3 67.3 + - - +
432B GLU* 2.9 28.0 + - - +
433B LEU* 2.9 23.1 + - + +
434B ASP* 3.6 18.2 + - - +
523B LEU* 3.7 7.0 - - - +
527B LEU* 3.7 42.8 - - + +
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Residues in contact with GLU 431 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
430B ASN* 1.3 76.0 + - - +
432B GLU* 1.3 66.8 + - + +
433B LEU 3.2 0.3 + - - -
434B ASP* 3.3 12.3 + - - +
435B GLU* 3.3 37.1 + - + +
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Residues in contact with GLU 432 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
430B ASN* 2.9 18.5 + - - +
431B GLU* 1.3 76.0 - - + +
433B LEU* 1.3 56.1 + - - +
435B GLU* 3.1 18.7 + - - +
436B TRP* 2.9 52.2 + - + +
523B LEU* 3.5 26.1 - - + +
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Residues in contact with LEU 433 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
425B ILE* 3.5 34.3 - - + -
426B ALA 4.7 3.4 - - - +
430B ASN* 2.9 22.8 + - + +
431B GLU 3.2 0.2 + - - -
432B GLU* 1.3 76.2 - - - +
434B ASP* 1.3 58.9 + - - +
436B TRP* 3.5 4.1 + - - +
437B ARG* 3.1 62.4 + - - +
520B ALA* 3.1 42.4 - - + +
523B LEU* 3.6 15.5 - - + +
524B GLU* 3.8 8.1 - - + +
527B LEU* 4.1 5.8 - - + -
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Residues in contact with ASP 434 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
426B ALA 4.4 2.6 - - - +
427B SER* 4.1 8.4 + - - -
428B GLY* 3.1 38.5 + - - -
430B ASN 3.6 12.2 + - - +
431B GLU* 3.3 8.9 + - - +
433B LEU* 1.3 79.1 - - - +
435B GLU* 1.3 58.3 + - + +
437B ARG* 3.4 14.4 + - - +
438B ALA* 2.9 32.3 + - - +
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Residues in contact with GLU 435 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
431B GLU* 3.3 40.2 + - + +
432B GLU* 3.1 18.9 + - - +
434B ASP* 1.3 77.5 - - + +
436B TRP* 1.3 66.2 + - + +
438B ALA* 3.4 5.1 + - - +
439B LEU* 3.1 35.5 + - + +
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Residues in contact with TRP 436 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
432B GLU* 2.9 52.3 + - + +
433B LEU* 3.5 2.4 + - - +
435B GLU* 1.3 79.5 + - + +
437B ARG* 1.3 57.6 + - - +
439B LEU* 3.9 17.5 - - + -
440B ALA* 3.1 21.0 + - - +
516B SER* 3.3 31.7 + - - +
519B LYS* 3.4 54.3 - - + +
520B ALA* 3.8 22.7 - - + -
523B LEU* 4.5 9.4 - - + +
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Residues in contact with ARG 437 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
423B GLY* 4.5 7.9 - - - +
425B ILE 3.1 29.3 + - - +
426B ALA 4.2 9.9 + - - -
427B SER* 4.3 6.7 + - - +
433B LEU* 3.1 43.6 + - - +
434B ASP* 3.8 13.7 + - - +
435B GLU 3.2 0.2 - - - -
436B TRP* 1.3 75.8 - - - +
438B ALA* 1.3 60.6 + - - +
440B ALA* 3.6 7.2 - - - +
441B ASP* 3.0 39.5 + - - +
520B ALA* 4.3 13.1 - - + +
524B GLU* 3.1 33.5 + - - -
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Residues in contact with ALA 438 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
434B ASP 2.9 18.8 + - - +
435B GLU* 3.8 6.3 - - - +
437B ARG* 1.3 75.1 - - - +
439B LEU* 1.3 62.4 + - + +
441B ASP* 3.9 6.3 - - - +
442B GLY* 2.9 25.3 + - - -
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Residues in contact with LEU 439 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
435B GLU* 3.1 23.4 + - + +
436B TRP* 3.8 27.4 - - + +
438B ALA* 1.3 76.7 - - + +
440B ALA* 1.3 62.9 + - - +
442B GLY* 3.5 1.1 + - - -
443B ALA* 3.1 24.6 + - - +
512B LYS* 4.9 1.8 - - - +
516B SER* 3.2 14.8 - - - +
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Residues in contact with ALA 440 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
436B TRP 3.1 17.9 + - - +
437B ARG* 3.6 9.0 - - - +
438B ALA 3.3 0.2 - - - -
439B LEU* 1.3 77.0 - - - +
441B ASP* 1.3 58.6 + - - +
443B ALA* 3.2 7.6 + - - +
444B THR* 2.8 35.1 + - - +
513B VAL* 4.3 5.2 - - - +
516B SER* 3.6 16.3 + - - -
517B LYS* 4.2 25.8 - - + +
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Residues in contact with ASP 441 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
437B ARG* 3.0 27.6 + - - +
438B ALA* 3.9 6.4 - - - +
440B ALA* 1.3 79.0 - - - +
442B GLY* 1.3 52.0 + - - +
444B THR* 3.2 9.2 + - - +
445B ASP* 2.7 46.6 + - - +
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Residues in contact with GLY 442 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
438B ALA 2.9 18.0 + - - -
439B LEU* 3.9 2.0 - - - -
441B ASP* 1.3 72.6 - - - +
443B ALA* 1.3 58.3 + - - +
445B ASP* 3.8 10.5 - - - +
446B TYR* 3.3 22.0 + - - +
449B ARG* 5.4 1.4 + - - -
509B TYR* 5.2 1.2 - - - -
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Residues in contact with ALA 443 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
439B LEU 3.1 17.4 + - - +
440B ALA 3.5 5.4 - - - +
441B ASP 3.2 0.2 - - - -
442B GLY* 1.3 77.9 - - - +
444B THR* 1.3 59.4 + - - +
445B ASP 3.2 0.2 - - - -
446B TYR* 3.4 5.0 - - - +
447B LEU* 3.4 26.7 + - - +
509B TYR* 4.2 13.8 - - + +
512B LYS* 3.7 26.5 - - + -
513B VAL* 3.5 21.8 - - + +
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Residues in contact with THR 444 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
440B ALA 2.8 22.4 + - - -
441B ASP* 3.6 11.2 + - - +
443B ALA* 1.3 73.6 - - - +
445B ASP* 1.3 64.0 + - - +
447B LEU* 3.6 7.4 + - + +
448B GLU* 3.3 36.7 + - - +
473B TYR* 4.2 9.9 + - + +
513B VAL* 3.7 22.7 - - - +
517B LYS* 5.0 5.7 - - - -
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Residues in contact with ASP 445 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
441B ASP* 2.7 28.7 + - - +
442B GLY* 4.1 9.3 - - - +
444B THR* 1.3 75.9 - - - +
446B TYR* 1.3 65.2 + - - +
447B LEU 3.1 2.2 + - - -
448B GLU* 3.2 27.9 + - - +
449B ARG* 3.2 25.5 + - - +
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Residues in contact with TYR 446 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
442B GLY 3.3 14.0 + - - +
443B ALA 3.4 11.4 - - - +
445B ASP* 1.3 78.2 - - - +
447B LEU* 1.3 59.5 + - + +
449B ARG* 3.2 28.9 + - - +
450B LEU* 2.8 34.8 + - + -
453B ARG* 3.5 24.9 + - - -
505B GLU* 2.8 29.2 + - - +
509B TYR* 3.3 55.1 + + + -
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Residues in contact with LEU 447 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
443B ALA 3.4 18.7 + - - +
444B THR* 4.0 6.7 - - - +
445B ASP 3.1 1.4 - - - -
446B TYR* 1.3 77.1 - - + +
448B GLU* 1.3 67.6 + - - +
449B ARG 3.1 0.9 - - - -
450B LEU* 3.6 18.1 - - + +
451B GLU* 3.2 20.8 + - - +
465B VAL* 4.0 13.1 - - + +
473B TYR* 3.9 42.8 - - + -
506B LEU* 3.8 31.9 - - + +
509B TYR* 3.9 33.4 - - + +
510B GLU 4.5 0.2 - - - +
513B VAL* 4.2 2.9 - - + -
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Residues in contact with GLU 448 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
444B THR* 3.3 32.8 + - - +
445B ASP* 3.2 22.1 + - - +
447B LEU* 1.3 77.3 - - - +
449B ARG* 1.3 58.0 + - + +
451B GLU* 3.4 27.1 - - - +
452B VAL* 3.5 14.3 + - - +
465B VAL* 6.1 0.2 - - - -
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Residues in contact with ARG 449 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
442B GLY 5.4 1.8 + - - -
445B ASP* 3.2 19.1 + - - +
446B TYR* 3.2 36.5 + - - +
447B LEU 3.1 0.2 - - - -
448B GLU* 1.3 77.2 - - + +
450B LEU* 1.3 58.3 + - - +
451B GLU 3.2 1.8 - - - -
452B VAL* 3.5 10.4 + - + +
453B ARG* 3.0 40.3 + - - +
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Residues in contact with LEU 450 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
446B TYR* 2.8 22.1 + - + +
447B LEU* 3.3 22.9 + - + +
449B ARG* 1.3 76.4 - - - +
451B GLU* 1.3 59.9 + - - +
453B ARG* 3.7 17.1 - - - +
454B GLU* 3.0 51.3 + - + +
465B VAL* 4.1 10.8 - - + -
475B ILE* 4.2 8.7 - - + -
503B ILE* 4.8 2.7 - - + -
505B GLU* 3.6 41.7 - - + +
506B LEU* 3.6 27.1 - - + +
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Residues in contact with GLU 451 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
447B LEU 3.2 4.4 + - - +
448B GLU* 3.4 19.9 - - - +
450B LEU* 1.3 80.9 - - - +
452B VAL* 1.3 57.7 + - - +
455B ARG* 3.1 54.4 + - - +
463B LEU* 3.9 9.9 - - + +
464B LYS* 3.5 39.5 - - - +
465B VAL* 3.5 32.5 + - + +
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Residues in contact with VAL 452 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
448B GLU 3.5 15.0 + - - +
449B ARG* 3.5 12.0 + - + +
451B GLU* 1.3 76.8 - - + +
453B ARG* 1.3 58.5 + - - +
455B ARG* 4.0 25.5 - - - +
456B GLU* 3.2 30.7 + - + +
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Residues in contact with ARG 453 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
446B TYR* 3.5 28.9 + - - -
449B ARG* 3.0 32.7 + - - +
450B LEU* 3.7 19.7 - - - +
452B VAL* 1.3 76.3 - - - +
454B GLU* 1.3 74.3 + - - +
455B ARG 3.2 0.9 - - - -
456B GLU* 3.3 3.9 + - - +
457B ARG* 3.0 34.3 + - + +
505B GLU* 2.9 29.7 + - - -
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Residues in contact with GLU 454 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
450B LEU* 3.0 36.9 + - + +
453B ARG* 1.3 89.9 + - - +
455B ARG* 1.3 52.6 + - - +
457B ARG* 2.9 30.6 + - - -
458B THR* 2.7 42.5 + - - +
463B LEU* 4.1 16.2 - - + -
475B ILE* 4.9 4.0 - - + -
488B ASN* 5.5 0.3 + - - -
489B TYR* 2.4 39.3 + - - +
503B ILE* 4.4 11.3 - - + +
505B GLU* 5.1 4.9 - - - +
----------------------------------------------------------
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Residues in contact with ARG 455 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
451B GLU* 3.1 39.9 + - - +
452B VAL* 4.1 25.1 - - - +
454B GLU* 1.3 78.3 - - - +
456B GLU* 1.3 57.3 + - - +
458B THR* 3.8 6.5 - - - -
459B GLY* 3.3 21.8 + - - -
460B LEU 3.3 23.6 - - - +
461B ASP* 4.2 19.4 + - - +
462B THR 5.5 0.2 - - - -
463B LEU* 3.3 27.7 + - + -
464B LYS* 5.2 1.2 - - - +
----------------------------------------------------------
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Residues in contact with GLU 456 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
452B VAL* 3.2 25.4 + - + +
453B ARG* 3.3 3.8 + - - +
455B ARG* 1.3 77.2 - - - +
457B ARG* 1.3 60.8 + - - +
458B THR 3.5 0.4 - - - -
459B GLY* 4.4 3.6 + - - -
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Residues in contact with ARG 457 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
453B ARG* 3.0 22.6 + - + +
454B GLU* 2.9 38.1 + - - +
456B GLU* 1.3 79.3 - - - +
458B THR* 1.3 68.2 + - - +
486B PRO* 4.0 28.1 - - - +
488B ASN* 4.4 7.5 + - - +
489B TYR* 4.3 2.8 + - - -
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Residues in contact with THR 458 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
454B GLU 2.7 23.8 + - - +
455B ARG* 3.8 2.6 - - - -
457B ARG* 1.3 92.9 - - - +
459B GLY* 1.3 62.1 + - - +
460B LEU* 3.5 36.8 + - + +
463B LEU* 3.9 4.2 - - + +
484B LEU 5.2 2.2 - - - +
486B PRO* 3.9 32.5 - - + -
489B TYR* 4.6 6.1 - - - +
----------------------------------------------------------
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Residues in contact with GLY 459 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
455B ARG 3.3 12.7 + - - -
456B GLU 4.4 4.4 + - - -
457B ARG 3.8 0.6 - - - -
458B THR* 1.3 79.0 + - - +
460B LEU* 1.3 65.0 + - - +
461B ASP 3.9 2.6 + - - -
481B GLN* 5.1 1.9 + - - -
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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