Contacts of the helix formed by residues 496 - 528 (chain C) in PDB entry 3OS8
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 496 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
494C GLY 3.6 3.8 + - - +
495C LEU* 1.3 75.1 - - - +
497C LEU* 1.3 66.2 + - - +
498C GLN* 3.6 8.6 + - - +
499C GLN* 2.9 38.9 + - - +
500C GLN* 2.8 21.5 + - - +
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Residues in contact with LEU 497 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
497A LEU* 3.7 39.0 - - + -
501A HIS* 4.6 14.5 - - + +
496C THR* 1.3 71.5 - - - +
498C GLN* 1.3 63.2 + - - +
500C GLN* 3.2 29.3 + - - +
501C HIS* 3.2 22.7 + - - +
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Residues in contact with GLN 498 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
484A ASP* 3.2 25.5 + - - +
496C THR* 3.1 8.0 + - - +
497C LEU* 1.3 78.4 - - - +
499C GLN* 1.3 63.0 + - + +
501C HIS* 2.7 47.1 + - + +
502C GLN* 3.1 20.1 + - - +
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Residues in contact with GLN 499 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
494C GLY 4.7 1.2 - - - +
495C LEU* 3.6 23.4 - - + +
496C THR* 2.9 40.1 + - - +
498C GLN* 1.3 79.0 - - + +
500C GLN* 1.3 56.6 + - - +
502C GLN* 3.9 16.7 - - - +
503C ARG* 3.0 31.7 + - - +
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Residues in contact with GLN 500 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
501A HIS* 4.8 2.0 + - - +
487C ILE* 3.3 35.3 - - + +
490C MET* 3.4 23.3 - - + +
491C ALA* 3.4 26.5 - - - +
495C LEU* 2.9 34.9 + - + -
496C THR 2.8 18.0 + - - +
497C LEU* 3.4 28.2 - - - +
498C GLN 3.1 0.2 - - - -
499C GLN* 1.3 77.6 - - - +
501C HIS* 1.3 56.4 + - - +
504C LEU* 3.0 30.0 + - - +
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Residues in contact with HIS 501 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
483A THR* 3.5 16.9 - - + +
484A ASP* 2.4 44.1 + - + -
487A ILE* 3.7 31.0 - - + +
501A HIS* 3.6 27.9 - - + +
504A LEU* 3.8 4.4 - - + +
487C ILE* 4.9 0.2 - - - -
497C LEU 3.2 5.2 + - - +
498C GLN* 2.7 35.8 + - + +
500C GLN* 1.3 79.7 - - - +
502C GLN* 1.3 98.0 + - + +
504C LEU* 3.7 6.4 - - - +
505C ALA* 3.1 17.2 + - - +
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Residues in contact with GLN 502 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
480A ASP* 3.7 41.4 + - + +
483A THR* 4.2 4.7 - - + -
484A ASP* 3.1 24.9 - - - +
498C GLN* 3.1 20.3 + - - +
499C GLN* 3.9 18.8 - - - +
500C GLN 3.2 0.2 - - - -
501C HIS* 1.3 100.9 - - + +
503C ARG* 1.3 58.5 + - - +
505C ALA* 3.3 4.2 + - - +
506C GLN* 3.0 37.7 + - - +
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Residues in contact with ARG 503 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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438C MET* 2.8 50.6 + - + +
439C ASN 3.2 12.7 + - - -
440C LEU* 3.5 8.7 - - - +
441C GLN* 4.8 1.2 - - - +
444C GLU* 2.7 42.1 + - - -
490C MET* 3.8 16.2 - - + -
495C LEU* 3.9 20.9 - - + -
499C GLN 3.0 18.6 + - - +
502C GLN* 1.3 75.4 - - - +
504C LEU* 1.3 67.3 + - - +
506C GLN* 3.2 14.5 + - - +
507C LEU* 2.9 35.9 + - + +
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Residues in contact with LEU 504 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
501A HIS* 3.7 26.5 - - + +
504A LEU* 4.3 15.3 - - + -
505A ALA* 4.5 4.5 - - + -
483C THR* 4.1 15.0 - - + +
486C LEU* 4.0 34.1 - - + -
487C ILE* 4.0 20.0 - - + -
490C MET* 3.8 9.7 - - + +
500C GLN 3.0 19.3 + - - +
501C HIS 3.7 4.5 - - - +
503C ARG* 1.3 77.3 - - - +
505C ALA* 1.3 62.1 + - - +
507C LEU* 3.3 3.3 + - + +
508C LEU* 3.1 46.2 + - + +
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Residues in contact with ALA 505 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
483A THR* 3.3 30.5 - - + +
504A LEU* 4.5 1.6 - - + -
508A LEU* 3.6 24.9 - - + -
501C HIS 3.1 11.1 + - - +
502C GLN 3.5 8.1 - - - +
504C LEU* 1.3 77.7 - - - +
506C GLN* 1.3 65.2 + - + +
508C LEU* 3.3 1.4 + - - +
509C LEU* 2.9 35.3 + - + +
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Residues in contact with GLN 506 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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459A TYR* 4.4 1.3 + - - -
476A HIS* 5.3 4.9 + - + +
479A LEU* 6.3 2.2 - - + -
480A ASP* 2.8 37.1 + - - +
434C ARG* 3.7 22.9 + - - +
438C MET* 3.4 24.9 - - + +
502C GLN* 3.0 32.5 + - - +
503C ARG* 3.5 13.8 + - - +
505C ALA* 1.3 76.4 - - + +
507C LEU* 1.3 63.4 + - - +
509C LEU* 3.5 8.8 + - + +
510C ILE* 3.3 29.2 + - - +
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Residues in contact with LEU 507 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
435C PHE* 5.9 0.9 - - + -
438C MET* 3.6 24.5 - - + -
440C LEU* 3.7 26.7 - - + -
444C GLU* 4.4 10.5 - - + +
448C LEU* 4.1 26.2 - - + +
486C LEU* 4.2 19.1 - - + -
490C MET* 3.6 30.5 - - + -
503C ARG* 2.9 21.7 + - + +
504C LEU* 3.6 5.2 - - + +
506C GLN* 1.3 79.5 - - - +
508C LEU* 1.3 63.4 + - + +
510C ILE* 3.3 22.9 + - + +
511C LEU* 3.8 9.0 + - - +
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Residues in contact with LEU 508 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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505A ALA* 3.5 44.9 - - + +
508A LEU* 4.2 23.4 - - + +
509A LEU* 4.0 20.0 - - + +
512A SER* 5.8 0.3 - - - -
448C LEU* 4.4 7.2 - - + -
451C ILE* 3.9 28.3 - - + -
483C THR* 5.5 0.2 - - - +
486C LEU* 4.9 1.3 - - + -
504C LEU* 3.1 32.0 + - + +
505C ALA 4.0 2.9 - - - +
507C LEU* 1.3 75.8 - - + +
509C LEU* 1.3 60.3 + - - +
511C LEU* 3.0 34.2 + - + +
512C SER* 3.9 2.9 + - - -
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Residues in contact with LEU 509 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
451A ILE* 3.6 35.7 - - + -
455A ASN* 3.4 41.5 - - - +
459A TYR* 3.6 7.5 + - - +
479A LEU* 4.3 20.0 - - + -
483A THR* 5.6 2.0 - - - +
508A LEU* 4.3 16.8 - - + +
511A LEU* 3.9 16.4 - - + -
505C ALA* 2.9 29.0 + - + +
506C GLN* 4.0 6.7 - - - +
508C LEU* 1.3 72.5 - - - +
510C ILE* 1.3 65.9 + - - +
512C SER* 3.1 18.4 + - - +
513C HIS 3.8 2.3 + - - -
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Residues in contact with ILE 510 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
459A TYR* 3.5 28.3 - - + +
431C THR* 3.9 18.4 - - + -
434C ARG* 3.7 14.6 - - + +
435C PHE* 3.9 30.5 - - + -
438C MET* 3.6 27.1 - - - -
448C LEU* 6.0 1.3 - - + -
506C GLN 3.3 18.6 + - - +
507C LEU* 3.3 14.1 + - + +
508C LEU 3.2 0.6 - - - -
509C LEU* 1.3 77.0 - - - +
511C LEU* 1.3 58.6 + - + +
513C HIS* 3.0 20.5 + - + +
514C ILE* 3.0 19.1 + - + +
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Residues in contact with LEU 511 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
509A LEU* 4.1 13.9 - - + -
512A SER* 4.3 10.9 - - - -
385C GLU* 4.2 3.2 - - - +
389C ILE* 4.7 0.9 - - + -
448C LEU* 4.2 20.2 - - + -
451C ILE* 3.6 32.5 - - + -
452C ILE* 4.0 24.2 - - + -
455C ASN* 5.9 0.7 - - + +
507C LEU 3.9 12.1 - - - +
508C LEU* 3.0 24.2 + - + +
510C ILE* 1.3 76.7 - - + +
512C SER* 1.3 64.3 + - - +
514C ILE* 3.2 23.7 + - + +
515C ARG* 3.0 23.6 + - - +
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Residues in contact with SER 512 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
385A GLU* 5.6 0.7 - - - -
455A ASN* 4.0 7.1 + - - -
508A LEU 4.7 1.7 + - - -
511A LEU* 3.6 14.1 + - - +
512A SER* 3.5 32.4 + - - +
515A ARG* 3.5 32.9 - - - +
508C LEU 3.9 0.9 + - - -
509C LEU* 3.1 17.8 + - - +
511C LEU* 1.3 78.1 - - - +
513C HIS* 1.3 58.4 + - - +
515C ARG* 3.4 4.0 + - - +
516C HIS 3.0 21.7 + - - -
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Residues in contact with HIS 513 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
456A SER 5.1 1.6 + - - -
459A TYR* 3.5 52.8 + + + +
460A THR* 3.8 23.1 - - + +
515A ARG* 4.2 9.7 + - - +
427C MET* 3.5 30.2 + - + +
431C THR* 2.9 33.4 + - + -
509C LEU 3.8 0.6 + - - -
510C ILE* 3.0 11.1 + - - +
512C SER* 1.3 78.4 - - - +
514C ILE* 1.3 59.1 + - - +
516C HIS* 3.1 12.3 + + - +
517C MET* 2.9 36.0 + - + +
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Residues in contact with ILE 514 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
385C GLU* 3.9 37.2 - - + +
388C MET* 4.7 3.2 - - + +
389C ILE* 3.5 42.8 - - + +
392C VAL* 6.1 0.4 - - + -
431C THR* 4.6 3.8 - - + -
435C PHE* 4.9 2.0 - - + -
452C ILE* 4.2 4.7 - - + -
510C ILE* 3.0 28.4 + - + +
511C LEU* 3.7 22.4 - - + +
513C HIS* 1.3 73.8 - - - +
515C ARG* 1.3 60.8 + - - +
517C MET* 3.3 23.7 + - + +
518C SER* 2.9 27.7 + - - -
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Residues in contact with ARG 515 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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512A SER* 3.7 38.1 + - - +
513A HIS* 3.5 16.0 + - - -
515A ARG* 4.8 0.4 - - + -
516A HIS* 3.5 43.3 + - + +
381C CYS* 5.5 2.0 + - - +
385C GLU* 3.4 29.3 + - - +
455C ASN* 4.9 0.8 + - - -
456C SER* 3.0 45.8 + - - +
511C LEU 3.0 12.5 + - - +
512C SER* 3.4 11.7 - - - +
514C ILE* 1.3 76.9 - - - +
516C HIS* 1.3 62.9 + - - +
518C SER* 3.3 4.2 + - - -
519C ASN* 2.9 35.7 + - - +
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Residues in contact with HIS 516 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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381A CYS* 6.0 4.0 - - + -
460A THR* 5.8 1.6 - - + -
515A ARG* 3.5 33.5 + - + +
519A ASN* 3.0 36.4 + - - +
427C MET* 3.8 26.5 - - - -
512C SER 3.0 10.8 + - - +
513C HIS* 3.1 15.4 + + - +
515C ARG* 1.3 74.8 - - - +
517C MET* 1.3 57.3 + - - +
519C ASN* 3.1 4.2 + - - +
520C LYS* 2.9 49.7 + - + +
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Residues in contact with MET 517 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
388C MET* 3.4 23.9 - - + +
392C VAL* 4.8 2.5 - - + -
424C ILE* 4.7 3.0 - - + +
427C MET* 3.6 59.5 - - + +
428C LEU* 3.6 26.2 - - + -
431C THR* 3.4 20.9 - - + +
513C HIS* 2.9 22.2 + - + +
514C ILE* 3.6 33.7 - - + +
516C HIS* 1.3 74.8 - - - +
518C SER* 1.3 57.7 + - - +
520C LYS* 3.4 2.4 + - - +
521C GLY 2.9 24.1 + - - -
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Residues in contact with SER 518 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
381C CYS 5.0 4.9 + - - -
384C LEU* 3.4 21.7 - - - +
385C GLU* 3.4 39.3 + - - +
388C MET* 3.7 10.0 - - - -
514C ILE 2.9 9.3 + - - -
515C ARG* 3.5 6.3 - - - -
517C MET* 1.3 76.4 - - - +
519C ASN* 1.3 60.5 + - - +
521C GLY 3.2 0.9 + - - -
522C MET* 2.9 36.4 + - - +
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Residues in contact with ASN 519 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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516A HIS* 3.0 44.3 + - - +
519A ASN* 2.7 49.7 - - + +
520A LYS* 4.3 8.8 - - + -
523A GLU* 5.2 1.0 - - - +
515C ARG* 2.9 17.5 + - - +
516C HIS 3.1 1.8 + - - +
518C SER* 1.3 77.3 + - - +
520C LYS* 1.3 60.6 + - + +
522C MET* 3.2 10.2 + - - +
523C GLU* 2.9 30.5 + - - +
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Residues in contact with LYS 520 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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519A ASN* 5.8 1.8 - - - +
526A TYR* 6.2 2.2 - - - -
423C GLU* 4.9 13.1 + - - -
424C ILE* 3.8 20.3 - - + +
427C MET* 4.0 16.4 - - + -
516C HIS* 2.9 40.8 + - + +
517C MET 3.8 6.3 - - - +
519C ASN* 1.3 76.2 - - + +
521C GLY* 1.3 52.5 + - - +
523C GLU* 3.1 33.8 + - - +
524C HIS* 2.8 36.0 + - - +
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Residues in contact with GLY 521 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1C KN0 3.3 24.1 - - - -
384C LEU* 4.1 6.1 - - - -
388C MET* 4.5 2.2 - - - -
424C ILE* 3.7 9.6 - - - +
517C MET 2.9 15.0 + - - -
518C SER 3.5 4.0 - - - -
519C ASN 3.2 0.2 - - - -
520C LYS* 1.3 76.7 - - - +
522C MET* 1.3 56.5 + - - +
524C HIS* 3.0 4.5 + - - +
525C LEU* 2.9 31.2 + - - +
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Residues in contact with MET 522 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
520A LYS* 6.6 0.4 - - - -
380C GLU 5.1 2.5 - - - +
381C CYS 5.9 2.2 - - - +
383C TRP* 3.0 42.2 - - + +
384C LEU* 3.9 12.7 - - + +
518C SER* 2.9 24.9 + - - +
519C ASN* 3.6 12.8 - - - +
521C GLY* 1.3 71.0 - - - +
523C GLU* 1.3 67.4 + - - +
525C LEU* 3.1 22.1 + - - +
526C TYR* 3.0 40.6 + - + -
534C VAL* 4.3 15.0 - - + -
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Residues in contact with GLU 523 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
523A GLU* 3.7 36.5 + - + +
526A TYR* 5.7 4.9 - - - +
519C ASN 2.9 11.7 + - - +
520C LYS* 3.2 46.1 + - - +
522C MET* 1.3 76.7 - - - +
524C HIS* 1.3 63.2 + - - +
526C TYR* 3.4 6.8 + - - +
527C SER* 3.2 22.8 + - - -
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Residues in contact with HIS 524 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1C KN0 3.9 18.2 - - - -
343C MET* 4.9 1.9 - - - -
420C GLY* 3.8 40.5 + - - -
421C MET* 3.5 31.9 - - + -
424C ILE* 4.2 9.9 - - + -
520C LYS 2.8 16.8 + - - +
521C GLY 3.4 7.6 - - - +
523C GLU* 1.3 72.4 - - - +
525C LEU* 1.3 66.0 + - - +
527C SER* 3.2 10.8 + - - -
528C MET* 3.0 63.7 + - + +
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Residues in contact with LEU 525 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1C KN0 3.8 54.1 - - + -
343C MET* 3.8 17.3 - - + -
383C TRP* 4.6 5.8 - - + -
384C LEU* 4.9 1.6 - - + -
521C GLY 2.9 16.1 + - - +
522C MET* 3.5 22.2 - - - +
524C HIS* 1.3 78.8 - - - +
526C TYR* 1.3 63.7 + - + +
528C MET* 3.2 5.3 + - - -
530C CYS* 2.8 47.8 + - + +
533C VAL* 5.2 3.4 - - + -
534C VAL* 4.1 22.4 - - + -
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Residues in contact with TYR 526 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
522C MET* 3.0 39.3 + - + +
523C GLU* 3.8 9.0 - - - +
525C LEU* 1.3 80.6 - - + +
527C SER* 1.3 56.4 + - - +
529C LYS* 3.1 18.0 + - - -
531C LYS* 3.3 58.1 + - + +
534C VAL* 4.6 25.3 - - + +
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Residues in contact with SER 527 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
523C GLU* 3.2 15.1 + - - -
524C HIS* 3.2 20.4 + - - -
526C TYR* 1.3 76.5 - - - +
528C MET* 1.3 64.5 + - - +
529C LYS* 3.1 2.3 + - - +
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Residues in contact with MET 528 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
343C MET* 4.9 15.3 - - + -
419C GLU* 4.4 20.0 - - + +
421C MET* 5.5 1.6 - - + -
524C HIS* 3.0 57.4 + - + +
525C LEU* 3.6 3.4 - - - +
526C TYR 3.1 0.6 - - - -
527C SER* 1.3 80.2 - - - +
529C LYS* 1.3 68.2 + - - +
530C CYS* 3.0 28.2 + - + -
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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
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Atomic class I II III IV V VI VII VIII
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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