Contacts of the helix formed by residues 463 - 493 (chain A) in PDB entry 4G7S
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with ALA 463 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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442A ALA* 4.7 3.1 - - + -
445A LEU* 3.8 14.3 - - + +
447A VAL* 3.9 28.0 - - + -
460A TYR* 2.9 14.0 + - + +
462A HIS* 1.3 76.3 - - - +
464A ALA* 1.3 64.3 + - - +
465A VAL 3.1 3.8 + - - -
466A PRO* 3.1 11.7 - - + +
467A MET* 2.9 37.1 + - + +
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Residues in contact with ALA 464 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
460A TYR 4.2 0.6 + - - -
461A PRO* 3.3 13.4 + - + +
462A HIS 3.2 4.4 + - - -
463A ALA* 1.3 76.9 - - - +
465A VAL* 1.3 63.4 + - + +
467A MET* 3.4 18.9 + - - +
468A VAL* 3.5 17.5 + - - +
610A OLC 3.9 29.0 - - - +
611A OLC 4.6 8.2 + - - +
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Residues in contact with VAL 465 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
441A TRP* 3.6 31.6 - - + -
462A HIS 4.8 1.2 + - - +
463A ALA 3.1 1.6 + - - -
464A ALA* 1.3 73.6 - - + +
466A PRO* 1.4 72.2 - - + +
467A MET 3.1 1.1 - - - -
468A VAL* 3.1 14.8 + - - +
469A PHE* 3.4 13.4 - - + -
610A OLC 3.9 53.2 - - + -
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Residues in contact with PRO 466 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
438A GLY* 3.3 27.7 - - - +
441A TRP* 3.8 39.7 - - + +
442A ALA* 3.9 10.3 - - + +
445A LEU* 4.0 3.1 - - + -
462A HIS 4.7 1.1 - - - +
463A ALA* 3.1 33.4 - - + +
465A VAL* 1.4 88.0 - - + +
467A MET* 1.3 59.7 + - - -
468A VAL 3.2 0.3 + - - -
469A PHE* 3.2 16.2 + - + +
470A ASN* 3.2 23.6 + - - -
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Residues in contact with MET 467 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A TYR 3.4 18.8 - - - +
47A GLY* 3.1 22.0 - - - +
48A ASN* 3.9 32.1 - - + +
442A ALA* 5.9 1.6 - - + -
447A VAL* 5.4 0.4 - - + -
453A ILE* 3.6 28.7 - - + -
457A PRO 5.9 0.4 - - - +
460A TYR* 3.9 29.2 - - + +
463A ALA* 2.9 39.3 + - + +
464A ALA* 3.5 12.3 - - - +
465A VAL 3.1 0.2 - - - -
466A PRO* 1.3 78.0 - - - +
468A VAL* 1.3 56.2 + - + +
470A ASN* 3.1 1.7 + - - +
471A VAL* 3.0 26.2 + - - +
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Residues in contact with VAL 468 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
464A ALA 3.6 8.5 - - - +
465A VAL 3.1 9.6 + - - +
467A MET* 1.3 76.0 - - + +
469A PHE* 1.3 63.9 + - - +
471A VAL* 3.3 8.5 + - - +
472A LEU* 3.0 22.2 + - - +
610A OLC 3.5 61.9 - - + +
611A OLC 4.0 49.7 - - + +
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Residues in contact with PHE 469 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
434A ILE* 3.3 41.7 - - + +
437A VAL* 3.9 23.6 - - + -
438A GLY* 3.9 5.4 - - - -
441A TRP* 4.1 20.6 - + - -
465A VAL* 3.4 24.5 - - + -
466A PRO* 3.4 13.5 - - + +
468A VAL* 1.3 77.3 - - + +
470A ASN* 1.3 52.1 + - - +
472A LEU* 4.3 3.6 - - - -
473A ALA* 2.7 31.5 + - - +
610A OLC 3.7 52.5 - - + -
613A OLC 4.4 4.7 - - + -
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Residues in contact with ASN 470 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A ALA* 3.3 30.3 - - + +
46A TYR* 2.8 35.7 + - + +
435A MET* 3.6 12.6 - - - +
438A GLY* 3.3 32.5 + - - -
439A LEU* 3.5 11.3 + - - +
442A ALA* 4.7 5.7 - - - +
466A PRO 3.5 12.4 + - - -
467A MET* 3.1 9.4 + - - +
469A PHE* 1.3 73.1 - - - +
471A VAL* 1.3 61.6 + - - +
473A ALA* 3.4 5.6 + - - +
474A GLY 2.8 24.9 + - - -
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Residues in contact with VAL 471 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A ALA 4.5 0.9 - - - -
44A LEU* 3.6 20.6 - - + +
47A GLY* 3.5 23.1 - - - +
49A VAL* 3.9 18.4 - - + -
467A MET 3.0 20.0 + - - +
468A VAL* 3.7 7.2 - - - +
469A PHE 3.2 0.2 - - - -
470A ASN* 1.3 77.7 - - - +
472A LEU* 1.3 65.4 + - - +
474A GLY* 3.0 2.8 + - - -
475A ILE* 3.0 35.0 + - + +
611A OLC 3.7 37.7 - - + +
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Residues in contact with LEU 472 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
434A ILE* 4.1 26.5 - - + -
468A VAL* 3.0 18.0 + - + +
469A PHE* 3.6 4.3 - - - +
471A VAL* 1.3 77.1 - - - +
473A ALA* 1.4 64.7 + - - +
475A ILE* 3.0 6.7 + - + +
476A VAL* 2.9 42.3 + - + +
605A OLC 4.0 20.4 - - + -
606A OLC 4.5 2.9 - - + -
610A OLC 4.1 16.6 - - + -
611A OLC 3.7 59.9 - - + +
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Residues in contact with ALA 473 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A ALA* 4.6 0.2 - - - -
431A GLY 3.6 8.5 - - - +
434A ILE* 3.9 5.1 - - + +
435A MET* 3.4 43.7 - - + +
469A PHE 2.7 22.4 + - - +
470A ASN 3.6 5.2 - - - +
472A LEU* 1.4 72.4 - - - +
474A GLY* 1.3 52.4 + - - +
476A VAL* 4.5 4.5 - - - -
477A LEU* 2.8 43.2 + - + +
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Residues in contact with GLY 474 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A PRO* 3.5 14.6 - - - +
43A ALA* 3.5 22.4 - - - +
44A LEU* 3.9 12.6 - - - -
470A ASN 2.8 14.7 + - - -
471A VAL 3.0 4.4 + - - -
473A ALA* 1.3 72.9 - - - +
475A ILE* 1.3 58.4 + - - +
477A LEU* 4.0 2.4 - - - -
478A LEU* 3.0 28.6 + - - +
602A HEM 5.1 0.2 - - - -
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Residues in contact with ILE 475 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A LEU* 4.4 11.0 - - + -
471A VAL* 3.0 30.1 + - + +
472A LEU* 3.8 7.6 - - + +
474A GLY* 1.3 76.8 - - - +
476A VAL* 1.3 67.4 + - - +
478A LEU* 3.2 10.3 + - + +
479A VAL* 3.0 29.9 + - + +
605A OLC 3.7 48.5 - - + -
611A OLC 6.1 0.9 - - + -
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Residues in contact with VAL 476 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
427A LEU* 3.4 40.7 - - + +
430A LEU* 4.8 1.1 - - + -
431A GLY* 3.8 15.9 - - - +
434A ILE* 4.6 4.3 - - + -
472A LEU* 2.9 43.2 + - + +
473A ALA* 3.8 3.8 - - - +
475A ILE* 1.3 70.8 - - - +
477A LEU* 1.3 59.6 + - - +
479A VAL* 3.3 4.7 + - - +
480A ALA* 2.9 24.8 + - - +
605A OLC 4.0 22.6 - - + +
606A OLC 4.1 16.8 - - + -
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Residues in contact with LEU 477 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A PRO* 4.5 2.5 - - + -
427A LEU 4.1 0.7 - - - +
428A TRP* 3.5 53.6 - - + +
431A GLY* 3.6 28.9 - - - +
432A MET* 3.9 19.5 - - + +
435A MET* 4.4 7.6 - - - -
473A ALA 2.8 21.5 + - - +
474A GLY 4.4 1.1 - - - +
476A VAL* 1.3 70.3 - - - +
478A LEU* 1.3 60.2 + - - +
480A ALA* 3.8 1.8 - - - +
481A LEU* 2.8 31.4 + - - +
602A HEM 3.6 40.7 - - + +
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Residues in contact with LEU 478 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A LEU 6.1 0.4 - - - +
40A PRO* 3.9 24.0 - - + +
41A PHE* 5.8 7.2 - - + -
474A GLY 3.0 20.5 + - - +
475A ILE* 3.2 10.7 + - + +
477A LEU* 1.3 75.4 - - - +
479A VAL* 1.3 62.0 + - + +
481A LEU* 3.3 8.1 + - + +
482A LEU* 2.9 61.0 + - + +
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Residues in contact with VAL 479 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
427A LEU* 4.3 4.7 - - + -
475A ILE* 3.0 23.6 + - + +
476A VAL 3.5 7.4 - - - +
478A LEU* 1.3 79.4 - - + +
480A ALA* 1.4 65.8 + - - +
482A LEU* 3.3 9.0 + - + +
483A LEU* 3.0 46.7 + - + +
605A OLC 3.8 29.6 - - + -
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Residues in contact with ALA 480 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
424A VAL* 4.1 10.1 - - - +
427A LEU* 3.7 13.1 - - + +
428A TRP* 3.6 44.2 - - + +
476A VAL 2.9 19.6 + - - +
477A LEU* 3.8 6.1 - - - +
478A LEU 3.5 0.2 - - - -
479A VAL* 1.4 73.7 - - - +
481A LEU* 1.3 56.9 + - - +
483A LEU* 3.4 6.4 + - - +
484A PHE* 2.9 29.2 + - - +
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Residues in contact with LEU 481 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A LEU* 6.0 1.1 - - + -
33A ILE* 4.4 13.0 - - - +
36A SER* 3.4 50.0 - - - +
37A LEU* 3.8 15.0 - - + +
40A PRO* 4.8 6.3 - - + -
428A TRP* 4.3 16.7 - - + -
477A LEU 2.8 21.6 + - - +
478A LEU* 3.6 9.4 - - + +
480A ALA* 1.3 72.9 - - - +
482A LEU* 1.3 66.7 + - + +
484A PHE* 3.0 16.3 + - + +
485A ILE* 2.9 44.5 + - + +
602A HEM 4.8 3.4 - - + -
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Residues in contact with LEU 482 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A LEU* 6.2 2.0 - - + -
478A LEU* 2.9 47.6 + - + +
479A VAL* 3.9 7.6 - - + +
481A LEU* 1.3 79.3 - - + +
483A LEU* 1.3 65.0 + - + +
485A ILE* 3.2 19.2 + - + +
486A TYR* 3.0 24.1 + - - +
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Residues in contact with LEU 483 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
420A LEU* 4.0 25.0 - - + +
423A ALA* 4.7 9.9 - - + -
424A VAL* 3.5 19.8 - - + +
427A LEU* 3.9 25.8 - - + -
479A VAL* 3.0 27.1 + - + +
480A ALA* 3.7 2.5 - - - +
482A LEU* 1.3 77.7 - - + +
484A PHE* 1.3 58.0 + - - +
486A TYR* 3.8 9.9 - - + +
487A GLY* 2.9 26.0 + - - -
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Residues in contact with PHE 484 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29A PHE* 3.7 34.3 - + - -
32A LEU* 4.2 9.9 - - + -
33A ILE* 4.1 30.1 - - + -
398A MET* 3.9 29.6 - - + -
401A LEU* 3.5 28.9 - - + -
402A TYR* 5.6 4.0 - - - -
424A VAL* 3.7 24.2 - - + +
428A TRP* 5.5 0.2 - - + -
480A ALA 2.9 14.9 + - - +
481A LEU* 3.0 19.5 + - + +
483A LEU* 1.3 76.5 - - - +
485A ILE* 1.3 54.8 + - - +
487A GLY* 3.3 1.5 + - - -
488A LEU* 2.7 45.1 + - + +
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Residues in contact with ILE 485 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A ILE* 3.9 40.4 - - + -
37A LEU* 4.5 11.0 - - + -
481A LEU* 2.9 35.8 + - + +
482A LEU* 3.6 20.2 - - + +
484A PHE* 1.3 77.9 - - - +
486A TYR* 1.3 65.0 + - - +
488A LEU* 4.0 0.6 - - - -
489A PHE* 3.0 52.1 + - + +
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Residues in contact with TYR 486 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
420A LEU* 3.6 24.5 - - + -
482A LEU 3.0 16.9 + - - +
483A LEU* 3.8 10.3 - - + +
485A ILE* 1.3 79.9 - - - +
487A GLY* 1.3 58.7 + - - +
489A PHE* 3.8 3.1 - - - +
490A SER* 2.9 46.3 + - - -
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Residues in contact with GLY 487 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
401A LEU* 6.0 0.9 - - - -
402A TYR* 5.6 7.0 - - - -
417A GLN* 6.2 0.9 - - - -
420A LEU* 3.6 22.9 - - - -
424A VAL* 6.1 0.2 - - - -
483A LEU 2.9 16.3 + - - -
484A PHE* 3.6 3.4 - - - -
486A TYR* 1.3 71.7 - - - +
488A LEU* 1.3 64.0 + - - +
490A SER* 3.3 6.4 + - - -
491A VAL* 3.2 27.2 + - - +
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Residues in contact with LEU 488 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A VAL* 5.9 1.8 - - + +
29A PHE* 4.0 26.5 - - + -
30A LEU* 4.9 4.0 - - + -
33A ILE* 3.6 28.5 - - + -
401A LEU* 4.1 33.4 - - + +
405A LEU* 4.8 5.6 - - + -
484A PHE* 2.7 35.0 + - + +
485A ILE* 4.2 2.5 - - - +
487A GLY* 1.3 70.3 - - - +
489A PHE* 1.3 63.8 + - + +
491A VAL* 3.5 3.3 + - - +
492A LEU* 2.9 64.8 + - + +
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Residues in contact with PHE 489 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A LEU* 3.9 22.4 - - + -
33A ILE* 4.2 21.8 - - + -
485A ILE* 3.0 41.7 + - + +
486A TYR* 4.1 2.5 - - - +
488A LEU* 1.3 85.2 - - + +
490A SER* 1.3 52.2 + - - +
492A LEU* 4.3 13.2 - - + -
493A LEU* 2.7 70.4 + - + +
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Residues in contact with SER 490 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
417A GLN* 3.3 21.5 + - - -
420A LEU* 5.8 1.3 - - - -
486A TYR* 2.9 37.6 + - - -
487A GLY* 3.4 11.9 - - - -
489A PHE* 1.3 70.5 - - - +
491A VAL* 1.3 61.2 + - - +
493A LEU* 4.2 1.7 - - - -
494A SER* 3.1 26.3 + - - -
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Residues in contact with VAL 491 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
402A TYR* 5.3 5.6 - - + -
405A LEU* 3.8 28.9 - - + -
411A LYS* 3.5 23.2 - - + +
412A PRO 4.6 8.1 - - - +
413A ILE* 3.9 26.9 - - + -
417A GLN* 3.5 34.3 - - + +
487A GLY 3.2 15.1 + - - +
488A LEU* 4.2 2.9 - - - +
490A SER* 1.3 77.2 - - - +
492A LEU* 1.3 68.6 + - - +
494A SER* 3.4 8.9 + - - -
----------------------------------------------------------
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Residues in contact with LEU 492 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A LEU* 5.2 3.1 - - + -
26A VAL* 4.3 36.3 - - + -
30A LEU* 5.6 0.9 - - + -
405A LEU* 4.4 25.4 - - + -
409A THR* 6.0 2.2 - - + -
411A LYS* 2.9 31.3 + - - +
488A LEU* 2.9 48.6 + - + +
489A PHE* 3.8 18.8 - - + +
491A VAL* 1.3 77.4 - - - +
493A LEU* 1.3 69.5 + - + +
494A SER 3.1 1.6 + - - -
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Residues in contact with LEU 493 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
411A LYS* 5.2 0.2 - - - -
489A PHE* 2.7 52.3 + - + +
490A SER* 4.2 1.8 - - - -
492A LEU* 1.3 84.8 - - + +
494A SER* 1.3 63.9 + - - +
495A ARG* 3.6 9.7 + - - -
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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).
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