Contacts of the helix formed by residues 439 - 473 (chain A) in PDB entry 1UZF
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 SER 439 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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440A ASP* 1.3 66.2 + - - +
441A GLU* 3.1 4.0 - - - +
442A HIS* 3.0 19.1 + - - +
443A ASP* 2.9 21.1 + - - +
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Residues in contact with ASP 440 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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293A PHE* 5.4 0.4 - - - -
439A SER* 1.3 71.0 - - - +
441A GLU* 1.3 53.8 + - + +
443A ASP* 3.0 13.4 + - - +
444A ILE* 2.7 42.7 + - + +
549A LYS* 5.9 1.2 + - - -
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Residues in contact with GLU 441 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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293A PHE* 3.3 57.6 - - + +
295A SER* 4.9 7.4 - - - -
296A ALA* 4.1 16.7 + - + +
439A SER* 3.1 1.7 - - - -
440A ASP* 1.3 79.6 - - + +
442A HIS* 1.3 62.1 + - - +
444A ILE 3.4 0.3 + - - -
445A ASN* 3.1 30.0 + - - -
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Residues in contact with HIS 442 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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296A ALA* 3.6 30.6 - - + +
297A PRO* 3.6 21.5 + - + -
298A SER* 5.3 7.0 - - - -
424A PRO* 5.6 1.6 - - + +
439A SER* 3.0 17.3 + - - +
441A GLU* 1.3 80.4 - - - +
443A ASP* 1.3 57.7 + - - +
445A ASN* 3.5 7.7 + - + +
446A PHE* 3.0 28.6 + - - +
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Residues in contact with ASP 443 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
439A SER 2.9 13.4 + - - +
440A ASP* 3.1 21.8 - - - +
442A HIS* 1.3 78.3 - - - +
444A ILE* 1.3 57.6 + - + +
446A PHE* 3.4 7.2 + - - +
447A LEU* 3.0 37.1 + - - +
548A HIS* 2.7 42.7 + - - -
549A LYS* 3.7 19.9 - - - +
598A PRO* 5.1 3.5 - - - +
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Residues in contact with ILE 444 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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292A PRO* 3.9 17.0 - - + -
293A PHE* 3.8 17.3 - - + -
440A ASP* 2.7 26.6 + - + +
441A GLU 4.0 0.2 - - - +
443A ASP* 1.3 73.4 - - - +
445A ASN* 1.3 59.4 + - - +
447A LEU* 3.4 18.3 + - + +
448A MET* 2.9 26.7 + - - +
598A PRO* 4.1 25.4 - - + +
599A LEU* 4.2 8.9 - - + +
602A TRP* 3.9 38.8 - - + -
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Residues in contact with ASN 445 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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287A TYR* 3.1 29.8 + - - +
291A VAL* 3.9 2.5 - - - +
292A PRO* 3.0 15.4 - - - +
293A PHE* 2.8 49.0 + - - +
296A ALA* 3.1 21.2 + - - +
441A GLU 3.1 21.8 + - - +
442A HIS* 3.7 7.2 - - + +
443A ASP 3.3 0.2 - - - -
444A ILE* 1.3 78.3 - - - +
446A PHE* 1.3 61.9 + - - +
448A MET* 3.2 3.6 + - - +
449A LYS* 3.0 18.9 + - - +
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Residues in contact with PHE 446 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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419A LEU 5.2 0.2 - - - -
422A SER* 3.3 23.6 - - - -
423A THR* 4.0 16.6 - - + -
424A PRO* 3.7 29.6 - - + -
442A HIS 3.0 18.9 + - - +
443A ASP* 3.6 6.1 - - - +
444A ILE 3.3 0.2 - - - -
445A ASN* 1.3 77.4 - - - +
447A LEU* 1.3 65.4 + - + +
449A LYS* 3.0 12.5 + - + +
450A MET* 2.9 48.6 + - + +
548A HIS* 3.6 42.8 - + + -
595A TYR* 3.6 15.0 - + - -
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Residues in contact with LEU 447 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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443A ASP* 3.0 22.3 + - - +
444A ILE* 3.7 12.6 - - + +
446A PHE* 1.3 78.7 - - + +
448A MET* 1.3 57.9 + - - +
450A MET* 3.3 3.5 + - - +
451A ALA* 2.8 30.8 + - - +
548A HIS* 3.7 40.6 - - + +
595A TYR* 3.8 24.0 - - + +
596A PHE* 3.7 7.1 - - + -
598A PRO* 3.6 35.4 - - + -
599A LEU* 3.5 26.3 - - + +
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Residues in contact with MET 448 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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247A LEU* 3.8 21.3 - - + -
250A TYR* 3.4 36.3 - - + -
287A TYR* 4.4 3.4 - - + -
290A VAL* 4.3 14.6 - - + -
292A PRO* 3.6 28.0 - - + -
444A ILE 2.9 14.5 + - - +
445A ASN 3.4 8.7 - - - +
446A PHE 3.2 0.2 - - - -
447A LEU* 1.3 76.6 - - - +
449A LYS* 1.3 61.5 + - - +
451A ALA* 3.3 1.1 + - - -
452A LEU* 3.0 41.3 + - + +
599A LEU* 4.1 14.5 - - + +
602A TRP* 4.3 1.6 - - + -
603A LEU* 4.0 18.2 - - + -
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Residues in contact with LYS 449 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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284A SER* 2.9 41.0 + - - +
285A ASN* 5.0 1.6 + - - +
287A TYR* 3.8 37.7 - - + +
375A LEU* 5.0 17.5 - - + -
445A ASN 3.0 12.5 + - - +
446A PHE* 3.4 14.1 - - + +
448A MET* 1.3 79.0 - - - +
450A MET* 1.3 66.4 + - + +
452A LEU* 3.5 11.5 + - - +
453A ASP* 3.7 10.0 + - - +
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Residues in contact with MET 450 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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419A LEU* 3.5 33.4 - - + +
422A SER* 3.9 24.5 - - - +
446A PHE* 2.9 50.5 + - + +
447A LEU* 3.7 7.6 - - - +
449A LYS* 1.3 80.1 - - - +
451A ALA* 1.3 57.9 + - - +
453A ASP* 3.2 6.5 + - + +
454A LYS* 2.9 45.6 + - + +
595A TYR* 3.5 15.3 - - + +
596A PHE* 4.0 13.5 - - + -
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Residues in contact with ALA 451 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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247A LEU* 3.7 15.2 - - + +
447A LEU 2.8 18.8 + - - +
448A MET* 3.3 4.7 + - - +
450A MET* 1.3 72.0 - - - +
452A LEU* 1.3 65.1 + - - +
453A ASP 3.0 2.0 - - - -
455A ILE* 2.9 32.8 + - + +
456A ALA 3.3 6.9 + - - -
596A PHE* 3.5 15.9 - - + -
599A LEU* 3.3 22.9 - - + -
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Residues in contact with LEU 452 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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247A LEU* 4.2 8.1 - - + -
251A VAL* 4.1 24.0 - - + -
283A TRP* 2.7 53.4 + - + +
284A SER* 3.6 17.7 - - - +
286A ILE* 4.8 2.2 - - + -
287A TYR* 3.8 29.6 - - + -
290A VAL* 3.7 25.6 - - + -
448A MET* 3.0 32.9 + - + +
449A LYS* 3.8 4.7 - - - +
450A MET 3.3 0.4 - - - -
451A ALA* 1.3 75.6 - - - +
453A ASP* 1.3 54.6 + - - +
456A ALA* 3.3 12.0 - - - +
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Residues in contact with ASP 453 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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282A THR* 2.9 37.5 - - + +
284A SER* 4.5 12.6 - - - +
379A VAL* 5.5 5.5 - - - +
449A LYS 3.7 6.8 + - - +
450A MET* 3.2 9.1 + - - +
451A ALA 3.0 0.6 - - - -
452A LEU* 1.3 80.5 - - - +
454A LYS* 1.3 92.5 + - - +
457A PHE* 3.2 26.0 + - - +
527A PHE* 4.6 6.3 - - - -
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Residues in contact with LYS 454 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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379A VAL* 5.3 8.4 - - - +
415A ASP* 3.4 22.4 + - - +
418A ALA* 6.2 0.4 - - - +
419A LEU* 4.2 14.3 - - - +
450A MET* 2.9 32.9 + - + +
453A ASP* 1.3 90.1 + - - +
455A ILE* 1.3 64.1 + - - +
457A PHE 3.6 3.8 + - - -
458A ILE* 3.5 17.8 + - - +
527A PHE* 3.4 32.5 - - + -
530A GLN* 2.9 28.1 + - - +
531A PHE* 3.8 16.6 - - + -
592A MET* 3.8 17.2 - - + +
596A PHE* 4.1 6.3 - - + -
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Residues in contact with ILE 455 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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240A LEU* 3.9 20.0 - - + +
243A LEU* 3.4 36.3 - - + -
244A TYR* 3.7 35.4 - - + +
247A LEU* 3.9 13.9 - - + -
451A ALA* 2.9 32.4 + - + +
454A LYS* 1.3 68.5 - - - +
456A ALA* 1.3 66.4 + - - +
457A PHE 3.1 2.7 + - - -
458A ILE* 3.2 14.1 + - + +
459A PRO* 3.3 11.4 - - - +
592A MET* 4.1 5.8 - - + -
596A PHE* 3.8 21.5 - - + -
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Residues in contact with ALA 456 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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244A TYR* 3.9 12.8 - - - -
247A LEU* 4.1 2.9 - - + +
280A ALA 5.0 0.3 - - - +
281A GLN 3.6 7.3 - - - +
283A TRP* 3.6 39.6 + - + +
451A ALA 3.3 3.4 + - - +
452A LEU 3.3 24.9 - - - +
453A ASP 3.9 0.4 + - - -
454A LYS 3.5 0.2 - - - -
455A ILE* 1.3 79.7 - - - +
457A PHE* 1.3 60.2 + - - +
459A PRO* 3.3 17.0 - - - +
460A PHE* 4.1 4.9 + - - +
493A GLN* 4.5 5.0 + - - -
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Residues in contact with PHE 457 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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281A GLN* 3.2 38.8 + - + +
282A THR* 4.3 7.6 - - + -
453A ASP 3.2 18.6 + - - +
454A LYS 3.8 1.3 - - - +
455A ILE 3.1 0.8 - - - -
456A ALA* 1.3 79.1 - - - +
458A ILE* 1.3 59.7 + - - +
460A PHE* 3.2 11.8 + + - -
461A SER* 2.8 52.5 + - - -
520A TYR* 3.3 26.7 - - - -
523A TYR* 3.6 18.2 - - + -
527A PHE* 3.3 48.0 - + + -
702A MCO 3.7 15.5 - - + -
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Residues in contact with ILE 458 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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237A PHE* 4.3 12.8 - - + -
240A LEU* 4.2 26.2 - - + +
244A TYR* 5.9 2.0 - - + -
454A LYS 3.5 12.6 - - - +
455A ILE* 3.2 9.6 + - + +
457A PHE* 1.3 75.5 - - - +
459A PRO* 1.3 71.9 - - + +
461A SER* 2.9 17.6 + - - +
462A TYR* 3.1 11.8 + - - +
524A PHE* 3.6 21.0 - - + -
527A PHE* 4.1 20.4 - - + -
528A ILE* 4.1 27.4 - - + -
592A MET* 4.1 18.4 - - + -
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Residues in contact with PRO 459 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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237A PHE* 3.8 18.4 - - + -
244A TYR* 3.6 33.2 - - + -
455A ILE 3.3 7.2 - - - +
456A ALA 3.3 16.8 - - - +
458A ILE* 1.3 97.1 - - + +
460A PHE* 1.3 60.5 + - - +
462A TYR* 3.3 1.9 + - - +
463A LEU* 3.0 24.9 + - - +
492A TYR* 3.3 32.0 - - - +
493A GLN* 4.0 7.4 - - + -
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Residues in contact with PHE 460 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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279A TRP* 4.0 16.8 - + + -
281A GLN* 3.5 36.3 - - + -
456A ALA 4.4 2.5 - - - +
457A PHE* 3.2 9.9 + + - +
459A PRO* 1.3 80.9 - - - +
461A SER* 1.3 66.4 + - - +
463A LEU* 3.2 15.7 + - + +
464A VAL* 3.3 30.8 + - + +
485A TRP* 4.5 14.4 - + - -
489A ARG* 3.7 15.7 - - - -
493A GLN* 3.5 36.5 - - - +
511A LYS* 4.2 15.3 - - + -
520A TYR* 3.4 35.4 - + - -
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Residues in contact with SER 461 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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457A PHE* 2.8 45.8 + - - -
458A ILE* 2.9 19.4 + - - +
460A PHE* 1.3 73.7 - - - +
462A TYR* 1.3 61.5 + - - +
464A VAL* 4.3 2.8 + - - +
465A ASP 4.8 0.9 + - - -
520A TYR* 3.7 27.3 - - - +
521A ILE* 4.2 7.6 + - - +
524A PHE* 3.3 36.1 - - - +
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Residues in contact with TYR 462 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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230A GLU 4.5 2.4 + - - -
233A LEU* 3.8 27.8 - - + -
234A GLU* 2.6 40.3 + - - +
237A PHE* 3.8 21.3 - + + -
458A ILE 3.1 17.0 + - - +
459A PRO 3.6 4.0 - - - +
460A PHE 3.1 0.2 - - - -
461A SER* 1.3 81.3 + - - +
463A LEU* 1.3 60.0 + - - +
464A VAL 3.7 0.3 + - - -
465A ASP 4.0 1.0 + - - -
466A GLN* 3.1 54.4 + - - +
492A TYR* 3.7 40.8 + + - -
521A ILE* 4.5 7.9 - - + +
524A PHE* 3.8 28.7 - + + -
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Residues in contact with LEU 463 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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459A PRO 3.0 14.1 + - - +
460A PHE* 3.2 6.0 + - + +
462A TYR* 1.3 76.6 - - - +
464A VAL* 1.3 73.6 + - + +
466A GLN* 3.1 18.3 + - - +
467A TRP* 3.1 12.0 + - + +
485A TRP* 3.5 38.6 - - + -
488A LEU* 3.6 21.1 - - + +
489A ARG* 3.4 36.3 - - - -
492A TYR* 4.1 12.3 - - + -
493A GLN* 3.6 25.4 - - + +
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Residues in contact with VAL 464 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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460A PHE* 3.3 38.1 + - + +
461A SER 4.7 0.4 - - - +
462A TYR 3.6 1.0 - - - -
463A LEU* 1.3 86.8 - - + +
465A ASP* 1.3 62.6 + - - +
467A TRP* 3.3 6.8 + - - +
468A ARG* 3.1 29.8 + - - +
485A TRP* 4.4 9.4 - - + -
511A LYS* 5.5 4.3 - - + -
513A HIS* 5.5 1.1 - - + -
514A ILE* 4.1 19.5 - - + -
520A TYR* 3.6 43.1 - - + -
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Residues in contact with ASP 465 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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220A TRP* 4.6 4.1 - - - -
461A SER 4.8 1.0 + - - -
462A TYR 4.0 2.6 + - - -
463A LEU 3.4 0.4 - - - -
464A VAL* 1.3 75.3 - - - +
466A GLN* 1.3 61.6 + - - +
467A TRP 3.1 1.3 - - - -
468A ARG* 2.8 39.9 + - - +
469A TRP* 2.7 64.9 + - + +
519A PRO* 3.9 5.8 - - - +
520A TYR* 2.9 12.8 + - - +
521A ILE* 2.8 40.7 + - + +
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Residues in contact with GLN 466 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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230A GLU* 5.6 0.5 - - - +
233A LEU* 5.5 0.4 - - - +
462A TYR* 3.1 68.2 + - + +
463A LEU* 3.1 11.2 + - - +
465A ASP* 1.3 78.4 - - - +
467A TRP* 1.3 62.6 + - - +
469A TRP* 3.5 35.4 - - - +
470A ARG* 3.3 31.4 + - - +
488A LEU* 4.2 12.1 - - + -
492A TYR* 4.2 13.9 + - + +
521A ILE* 5.0 1.2 - - - +
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Residues in contact with TRP 467 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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197A TYR* 3.8 22.7 - + - -
463A LEU 3.1 8.2 + - - +
464A VAL 3.3 11.2 - - - +
466A GLN* 1.3 78.5 - - - +
468A ARG* 1.3 90.3 + - + +
470A ARG* 3.1 5.7 + - - +
471A VAL* 3.0 46.2 + - + +
476A ILE* 3.7 20.8 - - + +
481A TYR* 3.0 33.3 + + + +
484A GLU 4.0 2.2 - - - -
485A TRP* 3.6 40.6 - + + +
488A LEU* 3.6 15.8 - - + +
506A PHE* 3.7 26.7 - + - -
508A PRO* 3.9 23.6 - - + -
514A ILE* 4.4 6.5 - - + -
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Residues in contact with ARG 468 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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197A TYR* 3.6 20.6 - - - +
200A TYR* 4.9 0.6 + - - -
220A TRP* 3.4 30.3 - - + -
464A VAL* 3.1 12.9 + - - +
465A ASP* 2.8 33.7 + - - +
467A TRP* 1.3 98.3 - - + +
469A TRP* 1.3 61.2 + - + +
471A VAL* 3.1 4.0 + - + +
472A PHE* 2.8 48.1 + - + -
513A HIS* 3.0 30.9 + - - +
514A ILE* 3.9 15.9 + - + +
517A SER* 4.2 2.4 - - - +
518A VAL 2.8 23.8 + - - +
519A PRO* 3.5 0.8 - - - +
520A TYR* 3.1 19.2 - - - +
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Residues in contact with TRP 469 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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215A ASP* 4.9 1.0 - - - +
217A GLY* 3.9 13.5 + - - -
220A TRP* 5.0 8.2 - + - +
221A ARG* 3.3 51.5 + - + +
229A LEU* 5.0 2.0 - - + -
230A GLU* 3.7 34.3 - - + -
233A LEU* 4.0 23.8 - - + -
465A ASP* 2.7 50.1 + - + +
466A GLN* 3.5 37.9 - - - +
468A ARG* 1.3 74.1 - - + +
470A ARG* 1.3 59.7 + - + +
472A PHE* 3.5 7.6 + + - +
473A ASP* 2.9 32.1 + - - +
521A ILE* 4.3 19.3 - - + +
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Residues in contact with ARG 470 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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466A GLN* 3.3 19.5 + - - +
467A TRP* 3.1 3.3 + - - +
468A ARG 3.1 0.6 - - - -
469A TRP* 1.3 79.1 - - + +
471A VAL* 1.3 60.7 + - - +
473A ASP* 2.8 23.5 - - - +
475A SER* 2.9 35.1 + - - +
476A ILE* 3.0 33.0 + - + +
484A GLU* 3.3 29.1 + - - -
488A LEU* 4.1 26.1 - - - +
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Residues in contact with VAL 471 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197A TYR* 4.3 6.1 - - + -
201A VAL* 3.6 38.2 - - + +
205A ASN* 4.6 0.2 + - - -
467A TRP* 3.0 53.3 + - + +
468A ARG* 3.1 9.4 + - + +
470A ARG* 1.3 76.6 - - - +
472A PHE* 1.3 68.5 + - + +
474A GLY* 3.1 13.5 + - - -
476A ILE* 3.8 25.4 - - + +
481A TYR* 4.1 15.9 - - + -
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Residues in contact with PHE 472 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197A TYR* 5.0 1.8 - - - -
200A TYR* 3.7 29.8 - + - -
201A VAL* 4.3 13.2 - - + -
204A ILE* 3.7 19.5 - - + -
205A ASN* 2.9 35.4 + - - +
215A ASP* 3.5 11.5 - - - +
216A ALA* 3.6 13.9 - - + -
217A GLY* 3.2 32.8 - - - +
220A TRP* 3.6 35.0 - + - -
468A ARG* 2.8 32.4 + - + +
469A TRP* 3.8 3.6 - + - +
471A VAL* 1.3 81.9 - - + +
473A ASP* 1.3 57.7 + - - +
474A GLY* 3.1 3.7 + - - -
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Residues in contact with ASP 473 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215A ASP* 3.4 21.3 + - - +
221A ARG* 6.3 0.4 - - - +
469A TRP 2.9 19.6 + - - +
470A ARG* 2.8 13.6 - - - +
472A PHE* 1.3 74.8 - - - +
474A GLY* 1.3 57.6 + - - +
475A SER* 2.8 33.5 + - - -
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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