Contacts of the helix formed by residues 534 - 571 (chain A) in PDB entry 2OZS
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 534 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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506A PRO* 4.1 1.3 - - - -
507A ASN 3.5 12.1 - - - -
509A SER 3.4 20.7 + - - -
511A ASP* 2.6 31.5 + - - -
533A LEU* 1.3 75.0 - - - +
535A ALA* 1.3 54.0 + - - +
536A LYS* 3.5 14.4 + - - +
537A SER 3.0 13.2 + - - -
538A LEU* 2.7 36.7 + - - +
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Residues in contact with ALA 535 (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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503A LEU* 5.2 6.5 - - + -
506A PRO* 3.4 31.6 - - + +
534A SER* 1.3 71.4 - - - +
536A LYS* 1.3 65.3 + - + +
538A LEU* 3.9 5.6 - - - +
539A ASN* 2.8 48.9 + - - +
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Residues in contact with LYS 536 (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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509A SER 5.5 2.7 - - - +
534A SER* 3.2 13.8 - - - +
535A ALA* 1.3 87.0 - - + +
537A SER* 1.3 63.4 + - - +
539A ASN* 4.1 3.5 - - - +
540A GLU* 3.4 20.3 + - - +
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Residues in contact with SER 537 (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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511A ASP* 3.3 27.1 - - - -
512A GLU 3.0 35.5 + - - -
513A PRO* 3.1 13.9 - - - +
533A LEU* 3.6 11.9 - - - +
534A SER* 3.0 7.0 + - - -
536A LYS* 1.3 79.0 - - - +
538A LEU* 1.3 62.9 + - - +
540A GLU* 3.6 3.8 + - - +
541A MET* 3.2 26.1 + - - +
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Residues in contact with LEU 538 (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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499A ILE* 3.3 25.7 - - + +
502A ALA* 3.7 39.3 - - + +
503A LEU* 4.1 17.3 - - + +
506A PRO* 4.5 2.5 - - + -
530A ILE* 3.6 29.6 - - + +
531A LYS* 5.5 0.7 - - - -
533A LEU* 3.7 36.8 - - + +
534A SER 2.7 21.6 + - - +
535A ALA* 3.9 3.1 - - - +
537A SER* 1.3 71.7 - - - +
539A ASN* 1.3 60.4 + - - +
541A MET* 3.1 7.8 + - - +
542A LEU* 2.9 24.1 + - - +
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Residues in contact with ASN 539 (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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503A LEU* 3.4 23.4 - - - +
535A ALA* 2.8 31.9 + - - +
536A LYS* 4.1 4.2 - - - +
538A LEU* 1.3 69.1 - - - +
540A GLU* 1.3 61.4 + - - +
542A LEU* 3.1 19.1 + - - +
543A PHE* 2.8 30.8 + - - +
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Residues in contact with GLU 540 (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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513A PRO* 4.1 11.0 - - + -
536A LYS 3.4 11.0 + - - +
537A SER 3.6 9.4 - - - +
538A LEU 3.3 0.2 - - - -
539A ASN* 1.3 78.9 - - - +
541A MET* 1.3 56.9 + - - +
543A PHE* 3.4 18.0 + - - +
544A ARG* 3.0 78.5 + - - +
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Residues in contact with MET 541 (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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499A ILE* 3.6 11.7 - - + -
513A PRO* 4.1 12.3 - - + -
514A LEU* 3.8 28.7 - - + +
516A VAL* 3.9 14.8 - - + -
518A TYR* 3.3 37.0 + - + +
522A PHE* 4.3 4.3 - - + -
526A ILE* 4.9 0.4 - - + -
530A ILE* 3.8 24.9 - - + -
533A LEU* 3.7 26.5 - - - -
537A SER 3.2 15.2 + - - +
538A LEU* 3.1 12.4 + - - +
540A GLU* 1.3 74.7 - - - +
542A LEU* 1.3 60.7 + - - +
544A ARG* 3.3 1.4 + - - +
545A ALA* 2.9 28.8 + - - +
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Residues in contact with LEU 542 (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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496A GLY* 3.7 29.4 - - - +
499A ILE* 3.7 16.3 - - + +
500A LYS* 3.9 25.1 - - + +
503A LEU* 4.7 9.6 - - + -
538A LEU 2.9 12.7 + - - +
539A ASN* 3.1 26.7 + - - +
541A MET* 1.3 73.0 - - - +
543A PHE* 1.3 69.2 + - - +
545A ALA* 2.9 5.4 + - - +
546A GLN* 2.8 49.1 + - + +
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Residues in contact with PHE 543 (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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539A ASN 2.8 16.5 + - - +
540A GLU* 3.5 21.5 - - - +
542A LEU* 1.3 73.9 - - - +
544A ARG* 1.3 71.1 + - + +
546A GLN* 3.2 16.3 + - - +
547A ARG* 3.0 76.0 + - + +
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Residues in contact with ARG 544 (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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513A PRO* 3.8 25.5 + - - +
514A LEU 4.3 11.9 + - - -
515A ASP* 5.9 0.6 - - - +
518A TYR* 3.6 28.9 + - + -
540A GLU* 3.0 57.4 + - - +
541A MET 3.7 1.3 - - - +
542A LEU 3.1 0.2 - - - -
543A PHE* 1.3 81.7 - - + +
545A ALA* 1.3 66.1 + - - +
546A GLN 3.0 1.6 - - - -
547A ARG* 3.0 7.4 + - - +
548A THR* 2.8 27.0 + - - -
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Residues in contact with ALA 545 (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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492A ALA* 3.8 20.0 - - - +
495A ASN* 4.8 0.9 - - + -
496A GLY* 4.3 8.7 - - - +
499A ILE* 3.9 14.6 - - + -
518A TYR* 3.6 26.1 - - + -
541A MET 2.9 14.7 + - - +
542A LEU* 3.3 8.3 - - + +
544A ARG* 1.3 76.2 - - - +
546A GLN* 1.3 58.1 + - + +
548A THR* 3.3 4.0 + - - -
549A GLU* 2.9 28.2 + - - +
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Residues in contact with GLN 546 (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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500A LYS* 4.2 14.4 + - - -
542A LEU* 2.8 39.5 + - + +
543A PHE* 3.3 19.5 - - + +
545A ALA* 1.3 76.2 - - - +
547A ARG* 1.3 60.4 + - + +
549A GLU* 3.4 15.7 + - - +
550A VAL* 3.0 37.1 + - + +
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Residues in contact with ARG 547 (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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297A GLU 5.2 1.2 + - - -
298A LEU* 4.3 22.0 - - - +
333A GLN* 4.6 3.6 + - - +
336A ALA* 4.5 6.7 + - - +
337A LYS* 3.6 55.3 - - - +
339A GLN* 5.5 0.2 + - - -
543A PHE* 3.0 57.4 + - + +
544A ARG* 3.0 11.3 + - - +
546A GLN* 1.3 76.0 - - + +
548A THR* 1.3 60.3 + - - +
550A VAL* 3.6 4.2 + - - +
551A ALA* 3.0 29.0 + - - +
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Residues in contact with THR 548 (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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488A TYR* 5.4 1.8 - - + +
489A MET* 5.3 0.3 - - - -
492A ALA* 4.1 6.1 - - + -
518A TYR* 3.4 32.9 - - + +
519A ARG* 3.7 30.7 - - + +
544A ARG* 2.8 13.8 + - - +
545A ALA 3.3 7.4 - - - -
547A ARG* 1.3 74.2 - - - +
549A GLU* 1.3 60.7 + - - +
551A ALA* 3.0 7.3 + - + +
552A GLY* 2.8 28.2 + - - -
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Residues in contact with GLU 549 (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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489A MET* 3.3 42.5 - - + +
492A ALA* 3.6 13.0 - - + +
493A GLN* 4.0 32.9 + - + +
545A ALA 2.9 17.1 + - - +
546A GLN* 3.4 17.5 + - - +
548A THR* 1.3 76.3 - - - +
550A VAL* 1.3 54.0 + - - +
552A GLY 3.2 1.2 + - - -
553A MET* 2.7 39.3 + - - +
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Residues in contact with VAL 550 (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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337A LYS* 3.6 49.6 - - + +
338A ARG* 4.5 14.8 - - - +
546A GLN* 3.0 24.6 + - + +
547A ARG* 3.8 5.6 - - - +
549A GLU* 1.3 81.1 - - + +
551A ALA* 1.3 58.5 + - - +
553A MET* 2.9 27.9 - - + +
554A THR* 3.0 13.7 + - - +
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Residues in contact with ALA 551 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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337A LYS 4.6 1.3 - - - +
339A GLN* 3.8 37.2 - - + +
547A ARG 3.0 19.0 + - - +
548A THR* 3.5 7.0 - - + +
550A VAL* 1.3 77.5 - - - +
552A GLY* 1.3 63.5 + - - +
554A THR* 3.4 6.4 + - - -
555A ALA* 3.3 21.7 + - - +
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Residues in contact with GLY 552 (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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485A HIS* 4.0 11.1 - - - +
488A TYR* 5.4 4.7 - - - -
489A MET* 3.9 18.6 - - - -
548A THR 2.8 18.0 + - - -
549A GLU 3.5 3.6 - - - -
551A ALA* 1.3 68.9 - - - +
553A MET* 1.3 64.9 + - - +
555A ALA* 3.4 6.6 + - - +
556A GLN* 2.9 26.7 + - - +
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Residues in contact with MET 553 (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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489A MET* 3.5 28.1 - - + +
549A GLU* 2.7 22.4 + - - +
550A VAL* 2.9 22.4 - - + +
552A GLY* 1.3 72.3 - - - +
554A THR* 1.3 51.3 + - - +
556A GLN* 3.1 15.3 + - - +
557A ILE* 2.8 61.1 + - + +
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Residues in contact with THR 554 (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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280A PHE 5.7 0.4 - - - -
338A ARG* 2.8 36.2 + - - +
339A GLN* 4.2 11.0 - - + +
340A PHE* 3.6 20.1 - - + -
343A LEU* 4.3 9.2 - - + -
550A VAL* 3.0 12.3 + - - +
551A ALA* 3.6 8.7 - - - -
553A MET* 1.3 76.7 - - - +
555A ALA* 1.3 66.3 + - - +
557A ILE* 4.2 3.1 - - - -
558A ASN* 2.8 48.9 + - - +
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Residues in contact with ALA 555 (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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343A LEU* 5.4 2.0 - - - -
485A HIS* 3.6 32.8 - - + +
551A ALA 3.3 10.3 + - - +
552A GLY* 3.7 7.4 - - - +
554A THR* 1.3 82.1 - - - +
556A GLN* 1.3 61.8 + - - +
558A ASN* 4.7 0.6 - - - +
559A ARG* 3.0 46.6 + - - +
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Residues in contact with GLN 556 (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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482A ARG* 2.8 51.1 + - - +
485A HIS* 4.3 5.6 - - - -
486A LYS* 3.5 45.5 - - + +
489A MET* 3.8 20.7 - - - +
552A GLY 2.9 18.8 + - - +
553A MET* 3.4 15.1 + - - +
555A ALA* 1.3 75.7 - - - +
557A ILE* 1.3 84.3 + - - +
559A ARG 3.2 2.4 + - - -
560A LYS* 2.9 26.0 + - - +
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Residues in contact with ILE 557 (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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280A PHE 4.8 1.8 - - - +
282A PHE* 3.8 53.9 - - + -
553A MET* 2.8 47.4 + - + +
554A THR* 3.8 5.4 - - - +
556A GLN* 1.3 90.0 - - - +
558A ASN* 1.3 63.9 + - - +
560A LYS* 3.1 20.6 - - + +
561A LEU* 2.9 25.6 + - - +
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Residues in contact with ASN 558 (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 LYS 4.4 0.5 - - - +
280A PHE* 3.0 48.0 + - + +
282A PHE* 4.0 7.7 - - - -
343A LEU* 3.6 29.6 - - + +
347A MET* 5.3 4.7 - - - +
554A THR* 2.8 46.7 + - - +
557A ILE* 1.3 76.4 - - - +
559A ARG* 1.3 61.5 + - - +
561A LEU* 3.2 11.0 + - + +
562A LEU* 3.0 25.6 + - - +
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Residues in contact with ARG 559 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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343A LEU* 4.1 18.9 - - + +
346A ASP* 3.0 38.6 + - - +
347A MET* 5.4 6.2 - - + +
478A VAL* 4.2 13.6 - - + +
481A GLN* 3.1 46.8 + - - +
482A ARG* 4.0 18.4 - - + +
485A HIS* 4.2 14.5 + - - -
555A ALA* 3.0 44.1 + - - +
556A GLN 3.2 4.2 + - - +
558A ASN* 1.3 75.7 - - - +
560A LYS* 1.3 65.9 + - - +
562A LEU* 3.3 17.5 + - + +
563A ILE* 3.3 20.8 + - - +
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Residues in contact with LYS 560 (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 PHE* 6.3 1.1 - - + -
414A SER* 5.5 1.8 - - - +
482A ARG* 3.5 36.1 - - - +
556A GLN* 2.9 16.8 + - - +
557A ILE* 3.1 25.0 - - + +
558A ASN 3.3 0.2 - - - -
559A ARG* 1.3 76.7 - - - +
561A LEU* 1.3 62.8 + - - +
563A ILE* 3.2 12.0 - - + +
564A ASN* 3.1 32.0 + - - +
905A DTP 2.8 62.9 + - - +
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Residues in contact with LEU 561 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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279A LYS* 4.3 38.1 - - + +
280A PHE* 5.2 2.7 - - + -
282A PHE* 4.1 20.9 - - + -
557A ILE 2.9 13.2 + - - +
558A ASN* 3.4 23.1 - - - +
559A ARG 3.2 0.6 - - - -
560A LYS* 1.3 78.0 - - - +
562A LEU* 1.3 54.6 + - - +
564A ASN* 3.0 6.1 + - - +
565A SER* 2.7 43.8 + - - +
905A DTP 4.0 11.2 - - - +
3T T 3.3 30.3 - - + +
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Residues in contact with LEU 562 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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347A MET* 3.8 33.2 - - + -
350A TYR* 6.1 1.6 - - + -
361A PRO* 4.5 10.8 - - + -
364A THR* 3.7 30.7 - - + -
365A TRP* 2.7 53.0 + - + +
368A ILE* 4.8 6.7 - - + -
478A VAL* 4.2 21.1 - - + -
558A ASN 3.0 13.4 + - - +
559A ARG* 3.3 11.9 + - + +
561A LEU* 1.3 80.1 - - - +
563A ILE* 1.3 54.8 + - + +
565A SER* 3.2 6.7 - - - -
566A LEU 3.1 10.4 + - - -
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Residues in contact with ILE 563 (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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365A TRP* 4.0 13.7 - - + -
414A SER* 4.3 12.8 - - - +
417A PRO* 3.7 22.3 - - + +
475A ILE* 3.7 34.7 - - + +
478A VAL* 4.0 25.4 - - + -
479A PHE* 4.3 21.3 - - + -
482A ARG* 5.0 3.1 - - + -
559A ARG 3.3 14.3 + - - +
560A LYS* 3.2 17.7 - - + +
562A LEU* 1.3 72.1 - - - +
564A ASN* 1.3 71.0 + - - +
565A SER 3.0 1.8 - - - -
566A LEU* 2.9 18.2 + - - +
567A TYR* 3.3 5.9 + - - +
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Residues in contact with ASN 564 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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414A SER* 5.3 0.4 + - - -
416A TYR* 4.7 0.6 - - - +
417A PRO* 3.2 35.2 - - - +
560A LYS* 3.1 28.0 + - - +
561A LEU* 3.0 6.1 + - - +
563A ILE* 1.3 77.0 - - - +
565A SER* 1.3 58.0 + - - +
567A TYR* 3.2 17.3 + - - +
568A GLY 3.1 19.2 + - - -
905A DTP 3.1 66.7 + - + +
3T T 3.7 4.1 - - - +
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Residues in contact with SER 565 (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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361A PRO* 3.8 24.6 - - - +
365A TRP* 4.3 2.7 - - - -
561A LEU* 2.7 24.5 + - - +
562A LEU* 3.2 10.8 - - - -
564A ASN* 1.3 75.5 - - - +
566A LEU* 1.3 57.6 + - - +
568A GLY 3.6 1.0 - - - -
569A ALA* 2.8 28.4 + - - +
3T T 3.5 41.9 + - - +
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Residues in contact with LEU 566 (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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365A TRP* 3.6 57.7 - - + +
369A ILE* 4.3 8.1 - - + -
420A ILE* 5.5 0.9 - - + -
471A VAL* 3.7 29.8 - - + +
474A GLU* 5.5 0.4 - - + -
475A ILE* 3.7 24.0 - - + -
562A LEU 3.1 5.3 + - - -
563A ILE 2.9 12.5 + - - +
565A SER* 1.3 71.9 - - - +
567A TYR* 1.3 69.8 + - - +
569A ALA* 3.1 11.5 + - - +
570A LEU* 3.2 15.7 + - + +
575A PHE* 4.0 23.8 - - + -
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Residues in contact with TYR 567 (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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391A TYR* 2.9 26.9 + - - -
393A GLY* 5.2 0.5 - - - -
416A TYR* 3.6 39.0 - + + -
417A PRO 5.8 0.2 - - - -
420A ILE* 4.2 19.3 - - + +
563A ILE 3.3 4.1 + - - +
564A ASN 3.2 14.7 + - - +
566A LEU* 1.3 78.7 - - - +
568A GLY* 1.3 74.0 + - - +
570A LEU* 2.9 32.9 + - - +
571A GLY 3.7 2.1 + - - -
583A ALA* 3.8 13.9 - - - -
586A ILE* 3.6 20.2 - - + -
587A THR* 3.1 31.3 - - + +
905A DTP 4.0 8.1 - + + -
114P DDG 5.4 0.6 + - - -
4T C 3.9 25.3 + - - +
5T T 4.7 4.2 + - - -
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Residues in contact with GLY 568 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
391A TYR* 5.0 0.2 - - - -
564A ASN 3.1 7.7 + - - -
565A SER 3.4 0.8 + - - -
566A LEU 3.2 0.4 - - - -
567A TYR* 1.3 87.2 - - - +
569A ALA* 1.3 60.1 + - - +
570A LEU 3.3 0.2 - - - -
571A GLY 3.2 9.8 + - - -
572A ASN* 3.6 2.6 + - - +
3T T 3.2 36.9 - - - +
4T C 3.4 24.8 - - - +
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Residues in contact with ALA 569 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
361A PRO 5.5 0.4 - - - +
362A ILE* 4.3 13.7 - - + -
365A TRP* 5.3 2.9 - - + -
565A SER 2.8 17.2 + - - +
566A LEU* 3.2 12.1 - - + +
568A GLY* 1.3 74.7 - - - +
570A LEU* 1.3 63.1 + - - +
571A GLY 3.1 2.7 - - - -
572A ASN* 3.1 17.9 + - - +
575A PHE* 3.1 50.6 - - + +
578A TYR* 4.4 0.3 - - - -
3T T 4.1 1.5 - - - +
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Residues in contact with LEU 570 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
420A ILE* 4.9 5.6 - - + -
425A ILE* 5.1 5.2 - - + +
426A SER* 6.5 0.4 - - - -
427A PRO* 5.5 3.4 - - + -
471A VAL* 5.5 15.3 - - + -
566A LEU* 3.2 16.7 + - + +
567A TYR* 2.9 12.3 + - - +
569A ALA* 1.3 76.1 - - - +
571A GLY* 1.3 56.3 + - - +
572A ASN 3.3 0.4 - - - -
575A PHE* 4.0 15.0 - - + -
577A TYR* 3.7 21.8 - - + +
578A TYR* 3.5 4.3 - - - -
579A ASP 2.9 35.5 + - - +
582A ASN* 4.2 24.2 - - + +
583A ALA* 4.1 13.0 - - + +
586A ILE* 3.7 29.6 - - + -
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Residues in contact with GLY 571 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
389A GLN 5.6 1.2 - - - +
391A TYR* 3.9 29.8 + - - -
567A TYR 3.7 2.4 + - - -
568A GLY 3.2 9.6 + - - -
569A ALA 3.1 1.0 - - - -
570A LEU* 1.3 77.6 - - - +
572A ASN* 1.3 57.5 + - - +
573A VAL* 4.2 1.4 + - - +
578A TYR* 3.7 9.9 - - - -
580A LEU* 4.1 9.2 - - - +
583A ALA* 4.2 3.2 - - - +
4T C 3.7 12.6 + - - +
5T T 5.5 0.2 + - - -
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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) + - + + + + + -
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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