Contacts of the helix formed by residues 461 - 492 (chain U) in PDB entry 6FF7
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 THR 461 (chain U).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
312U GLU 5.4 3.1 - - - -
313U ILE* 5.8 3.4 - - - -
318U GLY 6.0 0.2 - - - -
320U ALA* 4.2 27.8 - - - -
459U PHE* 4.1 2.8 - - - +
460U LEU* 1.3 79.9 - - - +
462U LEU* 1.3 66.8 + - - +
463U HIS* 3.2 11.0 - - - -
464U ASP* 3.2 6.4 + - - +
465U TYR* 3.0 22.8 + - - +
692U LEU* 5.6 7.0 - - - -
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Residues in contact with LEU 462 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
461U THR* 1.3 75.0 - - - +
463U HIS* 1.3 57.9 + - - +
465U TYR* 3.4 7.8 + - - +
466U LEU* 2.8 32.3 + - - +
681U CYS* 5.1 15.7 - - + -
692U LEU* 5.9 0.4 - - - +
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Residues in contact with HIS 463 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
417U GLN* 5.6 10.5 - - + -
461U THR* 3.2 7.8 - - - -
462U LEU* 1.3 75.9 - - - +
464U ASP* 1.3 59.8 + - - +
466U LEU* 3.8 4.1 - - - +
467U LEU* 2.9 34.6 + - - +
677U MET* 5.9 6.7 - - + +
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Residues in contact with ASP 464 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
459U PHE* 4.6 2.5 - - + -
460U LEU* 3.9 19.1 - - + +
461U THR* 3.2 24.2 + - - +
463U HIS* 1.3 79.2 - - - +
465U TYR* 1.3 61.7 + - - +
467U LEU* 3.8 3.4 - - - +
468U ARG* 3.0 26.9 + - - +
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Residues in contact with TYR 465 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
459U PHE* 3.8 20.1 - - + +
461U THR 3.0 13.2 + - - +
462U LEU* 3.6 11.7 - - - +
464U ASP* 1.3 78.0 - - - +
466U LEU* 1.3 61.1 + - - +
468U ARG* 3.6 4.8 + - - +
469U ASN* 3.4 20.6 + - - +
691U ILE 5.9 3.4 - - - +
692U LEU* 6.0 2.7 - - + -
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Residues in contact with LEU 466 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
462U LEU 2.8 20.7 + - - +
463U HIS* 4.0 4.7 - - - +
465U TYR* 1.3 73.3 - - - +
467U LEU* 1.3 59.1 + - - +
469U ASN* 3.5 6.2 + - - +
470U PHE* 2.9 28.3 + - - +
673U ILE* 5.0 12.8 - - + +
676U LEU* 5.9 3.8 - - + -
677U MET* 4.9 18.4 - - + +
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Residues in contact with LEU 467 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
463U HIS 2.9 19.9 + - - +
464U ASP* 3.9 4.0 - - - +
466U LEU* 1.3 75.6 - - - +
468U ARG* 1.3 58.8 + - - +
470U PHE* 3.4 7.8 - - - +
471U ASN* 2.9 31.9 + - - +
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Residues in contact with ARG 468 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
453U PRO* 3.9 28.6 - - + +
454U LYS 5.1 8.5 - - - +
464U ASP 3.0 17.4 + - - +
465U TYR* 4.0 5.8 - - - +
466U LEU 3.4 0.2 - - - -
467U LEU* 1.3 74.8 - - - +
469U ASN* 1.3 57.9 + - - +
471U ASN* 4.0 0.8 - - - -
472U LEU* 3.0 30.7 + - - +
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Residues in contact with ASN 469 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
465U TYR 3.4 11.1 + - - +
466U LEU* 3.8 8.5 - - - +
467U LEU 3.3 0.4 - - - -
468U ARG* 1.3 77.1 - - - +
470U PHE* 1.3 66.1 + - - +
472U LEU* 4.1 4.0 - - - +
473U PHE* 3.0 27.9 + - - +
1069U GLU* 6.0 2.5 - - + -
1070U ILE* 3.7 32.1 - - + +
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Residues in contact with PHE 470 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
466U LEU 2.9 18.5 + - - +
467U LEU* 3.4 11.0 - - - +
469U ASN* 1.3 77.3 - - - +
471U ASN* 1.3 57.4 + - - +
473U PHE* 3.7 3.9 - - - +
474U ARG* 2.8 30.2 + - - +
670U LEU* 5.8 7.0 - - + +
673U ILE* 4.7 19.0 - - + +
674U ARG 6.1 0.4 - - - +
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Residues in contact with ASN 471 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
453U PRO* 5.2 8.3 - - + -
467U LEU 2.9 16.0 + - - +
468U ARG* 4.0 4.3 - - - +
470U PHE* 1.3 74.3 - - - +
472U LEU* 1.3 60.5 + - - +
474U ARG* 3.5 6.5 - - - +
475U LEU* 2.8 33.4 + - - +
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Residues in contact with LEU 472 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
453U PRO* 5.4 10.0 - - + +
468U ARG 3.0 19.8 + - - +
469U ASN* 4.1 4.5 - - - +
471U ASN* 1.3 76.1 - - - +
473U PHE* 1.3 58.0 + - - +
475U LEU* 4.3 2.8 - - - +
476U GLU* 3.0 34.0 + - - +
1109U PHE* 6.5 0.7 - - + -
1113U SER* 5.8 4.7 - - - -
1115U MET* 5.0 15.7 - - + -
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Residues in contact with PHE 473 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
469U ASN 3.0 20.0 + - - +
470U PHE* 3.7 4.5 - - - +
472U LEU* 1.3 75.3 - - - +
474U ARG* 1.3 63.0 + - - +
476U GLU* 4.2 3.0 - - - +
477U SER* 3.1 27.5 + - - -
666U PHE* 5.3 0.8 - - - +
669U VAL* 6.1 5.8 - - + -
670U LEU* 6.3 3.8 - - + +
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Residues in contact with ARG 474 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
470U PHE 2.8 19.3 + - - +
471U ASN* 3.5 8.7 - - - +
473U PHE* 1.3 78.1 - - - +
475U LEU* 1.3 61.8 + - - +
477U SER* 3.9 4.1 - - - -
478U THR* 3.2 21.0 + - - -
666U PHE* 6.2 0.9 - - - -
670U LEU* 5.9 7.0 - - + -
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Residues in contact with LEU 475 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
438U ILE* 3.5 26.6 - - + +
439U VAL* 4.6 8.5 - - + +
471U ASN 2.8 19.0 + - - +
472U LEU* 4.3 2.7 - - - +
474U ARG* 1.3 71.9 - - - +
476U GLU* 1.3 65.0 + - - +
478U THR* 3.3 20.4 + - - -
479U TYR* 3.5 6.9 + - - +
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Residues in contact with GLU 476 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
472U LEU 3.0 20.0 + - - +
473U PHE* 4.2 3.6 - - - +
475U LEU* 1.3 78.2 - - - +
477U SER* 1.3 62.7 + - - +
479U TYR* 3.2 20.5 + - - +
480U GLU* 3.9 3.6 + - - +
1105U LYS* 6.0 2.3 - - - +
1106U ASN* 5.4 7.0 - - + +
1109U PHE* 4.8 18.6 - - + -
1115U MET* 6.4 1.1 - - + -
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Residues in contact with SER 477 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
473U PHE 3.1 19.8 + - - -
474U ARG* 3.9 4.3 - - - -
476U GLU* 1.3 78.4 - - - +
478U THR* 1.3 62.6 + - - +
479U TYR 3.3 0.2 + - - -
480U GLU* 3.3 8.5 + - - +
481U ILE* 3.3 19.3 + - - +
666U PHE* 3.6 31.0 - - - -
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Residues in contact with THR 478 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
428U PRO* 4.3 22.4 - - - -
432U ILE* 5.8 2.0 - - - -
433U ILE* 4.9 12.0 - - - +
439U VAL* 5.0 11.0 - - - -
474U ARG 3.2 13.9 + - - -
475U LEU* 3.3 15.3 - - - -
476U GLU 3.2 0.2 - - - -
477U SER* 1.3 77.8 - - - +
479U TYR* 1.3 55.6 + - - +
481U ILE* 3.2 10.8 + - - +
482U ARG* 2.9 27.0 + - - +
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Residues in contact with TYR 479 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
439U VAL* 5.1 9.8 - - + +
440U PRO 4.7 11.9 - - - +
475U LEU 3.5 5.5 + - - +
476U GLU* 3.2 14.0 + - - +
477U SER 3.2 0.8 - - - -
478U THR* 1.3 79.2 - - - +
480U GLU* 1.3 61.7 + - - +
482U ARG* 3.1 10.2 + - - +
483U GLN* 3.1 20.6 + - - +
1106U ASN* 4.5 20.2 - - + -
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Residues in contact with GLU 480 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
476U GLU 3.9 3.8 + - - +
477U SER* 3.3 12.4 + - - +
479U TYR* 1.3 78.9 - - - +
481U ILE* 1.3 51.5 + - - +
483U GLN* 3.4 8.5 + - - +
484U ASP* 3.0 17.8 + - - +
563U PHE* 4.6 2.8 - - - +
592U VAL* 2.7 16.5 - - - +
593U ARG* 4.8 2.3 - - - -
1105U LYS* 5.7 9.6 - - + -
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Residues in contact with ILE 481 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
428U PRO* 6.1 2.9 - - + -
433U ILE* 6.2 1.1 - - + -
477U SER 3.3 10.0 + - - +
478U THR* 3.2 13.9 + - - +
479U TYR 3.1 0.4 - - - -
480U GLU* 1.3 72.1 - - - +
482U ARG 1.3 37.7 - - - +
591U TYR 2.6 0.5 - - - -
592U VAL* 0.9 225.8 + - - +
593U ARG* 3.2 2.2 - - - +
594U GLY 5.2 0.2 - - - +
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Residues in contact with ARG 482 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
433U ILE* 4.0 24.1 - - + +
478U THR 2.9 12.6 + - - +
479U TYR* 3.1 12.8 + - - +
481U ILE* 1.3 70.6 - - - +
483U GLN* 1.3 56.8 - - - +
485U ILE* 3.2 1.4 + - - +
486U GLU* 2.9 33.0 + - - +
589U LEU* 4.6 12.2 - - + +
590U VAL 5.5 0.2 - - - -
591U TYR* 3.5 5.3 - - - +
592U VAL* 1.9 10.6 - - - +
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Residues in contact with GLN 483 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
479U TYR 3.1 9.1 + - - +
480U GLU* 3.6 10.8 - - - +
482U ARG* 1.3 79.7 - - - +
484U ASP* 1.3 63.9 + - - +
486U GLU* 4.0 4.8 - - - +
487U ASP* 3.1 26.0 + - - +
563U PHE* 4.7 3.1 - - + -
592U VAL* 2.9 0.4 - - - +
657U MET* 6.1 0.2 - - - -
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Residues in contact with ASP 484 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
480U GLU 3.0 5.8 + - - +
483U GLN* 1.3 70.9 - - - +
485U ILE 1.3 46.2 - - - +
487U ASP* 4.9 0.7 - - - -
488U SER* 3.1 3.1 + - - -
563U PHE* 2.8 30.6 - - + +
564U LEU* 2.5 17.6 - - - +
565U ILE* 1.4 50.7 + - - +
592U VAL* 2.9 4.4 - - + +
593U ARG 2.7 33.0 - - - +
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Residues in contact with ILE 485 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
481U ILE 2.9 3.0 + - - -
482U ARG 3.7 1.6 - - - +
484U ASP* 1.3 66.3 - - - +
486U GLU* 1.3 58.9 + - - +
489U VAL 3.0 2.9 + - - -
564U LEU 2.8 3.4 + - - +
565U ILE* 1.7 52.8 - - - +
566U THR* 2.1 27.4 + - - +
590U VAL 4.6 0.2 - - - +
591U TYR* 0.7 65.6 + - + +
----------------------------------------------------------
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Residues in contact with GLU 486 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
482U ARG 2.9 17.3 + - - +
483U GLN* 4.0 5.2 - - - +
485U ILE* 1.3 76.4 - - - +
487U ASP* 1.3 56.5 + - - +
490U SER* 3.0 30.3 + - - -
565U ILE* 2.6 1.8 - - - +
566U THR 4.4 5.2 - - - -
567U VAL* 4.1 8.6 - - + +
587U VAL* 5.3 9.8 - - + +
589U LEU* 3.9 20.4 - - + +
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Residues in contact with ASP 487 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
483U GLN 3.1 15.7 + - - +
484U ASP 4.1 0.4 - - - +
486U GLU* 1.3 71.6 - - - +
488U SER* 1.3 48.0 - - - +
490U SER* 3.8 3.1 - - - -
491U ARG* 3.1 20.4 + - - +
511U ALA* 4.2 13.8 - - + +
565U ILE* 2.7 8.4 - - + +
655U ILE* 1.8 21.3 - - - +
656U ILE 4.1 0.7 - - - -
657U MET* 3.4 32.3 - - + -
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Residues in contact with SER 488 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
484U ASP 3.1 0.4 + - - -
487U ASP* 1.3 63.9 - - - +
489U VAL* 1.3 22.5 - - - -
492U MET 3.3 2.1 + - - -
514U ILE* 5.1 0.9 - - - -
564U LEU* 3.8 2.9 - - - -
565U ILE* 2.7 36.4 - - - +
653U PHE* 4.9 2.7 - - - -
654U ASN 1.5 22.6 - - - +
655U ILE* 0.5 307.7 + - - +
656U ILE* 2.4 3.1 - - - +
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Residues in contact with VAL 489 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
485U ILE 3.0 2.1 + - - +
488U SER 1.3 64.8 - - - +
490U SER* 1.3 63.2 + - - +
492U MET* 3.1 12.8 + - - +
502U VAL* 4.5 10.0 - - - +
565U ILE 2.4 11.7 + - - +
566U THR* 2.9 14.6 - - - -
567U VAL* 2.1 47.7 - - - +
652U THR 4.8 0.9 - - - +
654U ASN* 2.7 26.8 - - + +
655U ILE* 2.0 8.5 - - - +
----------------------------------------------------------
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Residues in contact with SER 490 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
486U GLU 3.0 23.3 + - - -
487U ASP* 3.8 3.6 - - - -
489U VAL* 1.3 78.7 - - - +
491U ARG* 1.3 61.4 + - - +
492U MET 3.1 3.1 + - - -
493U LYS 5.5 3.6 - - - -
494U PRO* 3.8 33.1 - - - +
502U VAL* 5.6 1.3 - - - +
503U VAL 5.1 0.7 - - - -
504U PHE* 3.3 22.8 + - - +
567U VAL* 3.8 3.6 - - - +
587U VAL* 5.6 3.1 - - - -
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Residues in contact with ARG 491 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
487U ASP 3.1 15.8 + - - +
488U SER 3.6 1.1 - - - +
490U SER* 1.3 76.5 - - - +
492U MET* 1.3 52.4 - - - +
504U PHE* 4.2 10.5 - - - +
511U ALA* 4.1 4.5 - - + +
512U GLN* 2.3 55.4 - - - +
513U PRO* 1.8 36.0 - - + +
----------------------------------------------------------
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Residues in contact with MET 492 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
489U VAL 3.4 5.8 - - - +
490U SER 3.1 6.1 - - - -
491U ARG* 1.3 79.1 - - - +
502U VAL* 3.9 24.8 - - + +
503U VAL* 5.2 0.5 - - - -
504U PHE* 4.9 7.9 - - - -
513U PRO* 2.8 10.8 - - - +
514U ILE 3.8 13.9 - - - +
654U ASN* 2.4 55.9 + - + +
----------------------------------------------------------
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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