Contacts of the helix formed by residues 546 - 575 (chain C) in PDB entry 2CEA
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 546 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
543C ARG* 4.1 1.1 - - - -
545C TYR* 1.3 80.9 - - - +
547C GLU* 1.3 60.3 + - - +
548C GLU* 3.6 10.0 + - - +
549C VAL* 3.1 28.3 + - - +
550C ALA* 2.8 24.4 + - - +
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Residues in contact with GLU 547 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
543B ARG* 4.6 2.8 + - - -
546B SER* 3.1 17.8 - - - -
547B GLU* 2.6 44.3 + - + +
548B GLU* 3.8 2.8 + - - +
543C ARG* 3.1 25.7 + - - +
546C SER* 1.3 73.8 - - - +
548C GLU* 1.3 57.6 + - - +
550C ALA* 3.1 1.0 + - - -
551C SER* 2.9 29.9 + - - -
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Residues in contact with GLU 548 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
546C SER* 3.1 10.2 - - - +
547C GLU* 1.3 81.2 - - - +
549C VAL* 1.3 60.0 + - + +
551C SER* 3.7 7.0 - - - -
552C LYS* 3.5 35.8 + - - +
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Residues in contact with VAL 549 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
521C LEU* 4.2 9.9 - - + -
526C TRP* 3.8 45.5 - - + -
545C TYR* 3.9 7.6 - - + -
546C SER* 3.1 25.4 + - - +
548C GLU* 1.3 75.7 - - + +
550C ALA* 1.3 67.7 + - - +
551C SER 2.9 1.8 - - - -
552C LYS* 2.8 24.3 + - + +
553C ILE* 2.9 30.0 + - + +
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Residues in contact with ALA 550 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
545B TYR* 5.0 0.7 - - - -
546B SER* 3.7 10.7 + - - +
543C ARG* 3.8 26.9 - - - +
545C TYR* 3.7 17.7 - - + +
546C SER 2.8 13.5 + - - +
547C GLU* 3.1 16.1 + - - +
549C VAL* 1.3 76.0 - - - +
551C SER* 1.3 57.0 + - - +
553C ILE* 3.6 5.8 - - - +
554C ASP* 3.1 31.7 + - - +
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Residues in contact with SER 551 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
546B SER* 3.5 11.5 + - - -
548B GLU* 2.9 43.1 + - - +
547C GLU* 2.9 16.5 + - - -
548C GLU* 3.7 8.7 - - - -
549C VAL 2.9 0.2 - - - -
550C ALA* 1.3 77.0 - - - +
552C LYS* 1.3 60.6 + - - +
554C ASP* 3.3 3.3 + - - +
555C GLU* 2.9 32.4 + - - +
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Residues in contact with LYS 552 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
520C GLU* 5.8 12.4 + - + +
521C LEU* 4.4 21.3 - - + -
548C GLU* 3.5 28.2 + - - +
549C VAL* 2.8 15.0 + - + +
551C SER* 1.3 75.8 - - - +
553C ILE* 1.3 60.9 + - - +
555C GLU* 3.2 18.3 + - - +
556C GLU* 2.8 35.7 + - + +
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Residues in contact with ILE 553 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
509C ARG* 3.9 17.0 - - - +
512C VAL* 4.3 2.7 - - + -
513C CYS* 3.8 31.4 - - - -
521C LEU* 3.7 25.3 - - + +
526C TRP* 4.0 8.7 - - + -
545C TYR* 3.6 39.3 - - + +
549C VAL* 2.9 23.4 + - + +
550C ALA* 3.6 7.2 - - - +
552C LYS* 1.3 76.3 - - - +
554C ASP* 1.3 66.5 + - - +
556C GLU* 3.0 2.8 + - - +
557C VAL* 2.8 36.4 + - + +
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Residues in contact with ASP 554 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
526B TRP* 3.8 20.5 - - + -
544B ASN 4.1 0.2 - - - +
545B TYR* 3.1 12.2 - - - +
546B SER* 2.6 37.1 + - - +
548B GLU* 5.8 0.9 - - - +
549B VAL* 3.6 18.3 - - + +
509C ARG* 3.5 23.6 + - - -
550C ALA 3.1 11.4 + - - +
551C SER 3.7 7.4 - - - +
552C LYS 3.3 0.2 - - - -
553C ILE* 1.3 76.5 - - - +
555C GLU* 1.3 63.3 + - - +
557C VAL* 3.8 4.6 - - - +
558C LYS* 2.9 27.2 + - - +
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Residues in contact with GLU 555 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
548B GLU* 3.6 26.1 - - - +
552B LYS* 5.7 1.3 - - - +
551C SER* 2.9 17.1 + - - +
552C LYS* 3.2 23.1 + - - +
554C ASP* 1.3 77.7 - - - +
556C GLU* 1.3 57.7 + - + +
558C LYS* 3.7 7.4 - - - +
559C LYS* 3.0 47.2 + - - +
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Residues in contact with GLU 556 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
512C VAL* 4.2 17.3 - - + +
518C SER* 3.5 20.9 - - - +
519C GLU* 3.4 30.0 - - - +
520C GLU* 4.4 21.1 - - + +
521C LEU* 4.4 7.9 - - + -
552C LYS* 2.8 23.5 + - + +
553C ILE 3.6 4.0 - - - +
555C GLU* 1.3 74.0 - - + +
557C VAL* 1.3 63.8 + - - +
559C LYS* 3.0 44.7 + - - +
560C ILE* 3.0 23.6 + - - +
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Residues in contact with VAL 557 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
524B LEU* 3.9 17.3 - - + -
526B TRP* 5.7 2.7 - - + -
505C THR* 4.4 13.0 - - + -
508C ALA* 3.6 25.4 - - + +
509C ARG* 3.9 36.8 - - + +
512C VAL* 4.4 8.1 - - + -
553C ILE* 2.8 34.6 + - + +
554C ASP* 3.8 5.8 - - - +
556C GLU* 1.3 72.0 - - - +
558C LYS* 1.3 62.7 + - - +
560C ILE* 3.3 4.4 + - - +
561C VAL* 3.2 22.6 + - + +
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Residues in contact with LYS 558 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
520B GLU* 2.7 31.6 + - - +
521B LEU* 4.0 22.7 - - + +
522B GLY* 4.7 1.6 - - - +
524B LEU* 3.6 24.0 - - + +
526B TRP* 4.5 11.2 - - + -
552B LYS* 4.9 14.5 - - - +
554C ASP 2.9 17.9 + - - +
555C GLU* 3.7 6.5 - - - +
557C VAL* 1.3 77.3 - - - +
559C LYS* 1.3 63.3 + - - +
561C VAL* 4.2 0.3 - - - +
562C THR* 2.9 40.7 + - - +
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Residues in contact with LYS 559 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
519C GLU* 6.1 1.6 - - + -
520C GLU* 5.9 0.4 + - - -
555C GLU* 3.0 31.9 + - - +
556C GLU* 3.0 36.2 + - - +
558C LYS* 1.3 76.1 - - - +
560C ILE* 1.3 66.0 + - + +
562C THR* 3.9 2.8 - - - -
563C ASN* 3.0 41.7 + - - +
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Residues in contact with ILE 560 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
469C ARG* 5.0 10.5 - - - +
473C LEU* 3.7 27.1 - - + -
476C LEU* 4.0 20.2 - - + -
508C ALA* 4.5 10.5 - - + +
511C MET* 4.3 22.9 - - + -
512C VAL* 3.9 28.0 - - + -
517C MET 5.2 2.0 - - - +
518C SER* 5.7 0.7 - - - -
556C GLU* 3.0 17.2 + - - +
557C VAL 3.8 5.2 - - - +
558C LYS 3.2 0.2 - - - -
559C LYS* 1.3 79.4 - - + +
561C VAL* 1.3 65.0 + - - +
563C ASN* 3.3 4.8 + - - +
564C CYS* 3.0 24.1 + - - +
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Residues in contact with VAL 561 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
523B PRO* 3.5 28.0 - - + +
524B LEU* 3.7 23.3 - - + -
476C LEU* 4.4 8.1 - - + -
480C LEU* 3.7 16.9 - - + +
504C ALA* 4.4 14.4 - - + +
505C THR* 4.6 5.6 - - - +
508C ALA* 3.7 21.8 - - + -
557C VAL* 3.2 16.9 + - + +
560C ILE* 1.3 76.8 - - - +
562C THR* 1.3 58.9 + - - +
564C CYS* 3.4 6.2 + - - +
565C TYR* 2.8 27.5 + - - +
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Residues in contact with THR 562 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
522B GLY* 5.1 1.2 - - - -
523B PRO* 4.4 15.9 - - + +
524B LEU* 4.5 0.9 - - - +
558C LYS* 2.9 33.3 + - - +
559C LYS* 3.9 4.3 - - - -
561C VAL* 1.3 79.1 - - - +
563C ASN* 1.3 69.1 + - - +
565C TYR* 3.1 7.9 + - + +
566C GLU* 2.9 37.4 + - + +
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Residues in contact with ASN 563 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
559C LYS* 3.0 32.8 + - - +
560C ILE* 3.7 5.1 - - - +
562C THR* 1.3 82.2 - - - +
564C CYS* 1.3 59.6 + - - +
566C GLU* 3.3 7.8 + - - +
567C ARG* 2.9 28.1 + - - +
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Residues in contact with CYS 564 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
473C LEU* 3.7 37.9 - - - -
476C LEU* 4.0 10.3 - - + -
477C THR* 3.6 28.9 + - - +
480C LEU* 4.1 11.9 - - + -
560C ILE* 3.0 21.3 + - - +
561C VAL* 3.6 5.4 - - - +
563C ASN* 1.3 76.0 - - - +
565C TYR* 1.3 63.9 + - - +
567C ARG* 3.3 8.9 + - - +
568C ALA* 3.1 21.5 + - - +
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Residues in contact with TYR 565 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
523B PRO* 3.9 27.1 - - + -
480C LEU* 3.6 30.4 - - + +
483C ARG* 4.0 29.1 + - + +
484C ALA* 3.9 23.1 - - - -
487C GLU* 2.0 41.2 + - - +
493C VAL* 4.6 0.3 - - - +
561C VAL 2.8 18.6 + - - +
562C THR* 3.4 6.3 - - + +
564C CYS* 1.3 77.8 - - - +
566C GLU* 1.3 64.7 + - - +
568C ALA* 3.1 6.1 + - - +
569C LYS* 3.1 46.1 + - + +
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Residues in contact with GLU 566 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
562C THR* 2.9 33.8 + - + +
563C ASN* 3.7 7.2 - - - +
565C TYR* 1.3 79.3 - - + +
567C ARG* 1.3 62.7 + - - +
569C LYS* 2.9 35.9 + - - +
570C GLU* 3.1 31.7 + - + +
573C ARG* 4.8 7.6 + - - -
566F GLU* 5.8 0.7 - - - +
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Residues in contact with ARG 567 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
434C VAL* 2.9 27.8 - - - +
435C PRO* 3.8 10.5 - - - +
473C LEU* 3.9 16.0 + - - +
474C ASP* 2.6 30.7 + - - -
477C THR* 3.6 18.7 + - + +
563C ASN 2.9 13.7 + - - +
564C CYS* 3.4 13.2 - - - +
565C TYR 3.2 0.4 - - - -
566C GLU* 1.3 75.4 - - - +
568C ALA* 1.3 64.9 + - - +
570C GLU* 3.2 17.9 + - - +
571C ILE* 3.1 38.7 + - + +
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Residues in contact with ALA 568 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
430C VAL* 4.2 11.3 - - + +
477C THR* 3.8 26.9 - - + +
480C LEU* 4.2 7.0 - - + +
484C ALA* 3.6 18.4 - - + -
564C CYS 3.1 13.4 + - - +
565C TYR* 3.4 10.5 - - - +
567C ARG* 1.3 76.6 - - - +
569C LYS* 1.3 57.8 + - - +
571C ILE* 3.2 5.0 + - - +
572C ILE* 2.9 31.2 + - - +
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Residues in contact with LYS 569 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
484C ALA* 3.7 21.1 - - + +
487C GLU* 3.6 33.3 + - + +
488C VAL* 3.9 18.4 - - + -
565C TYR* 3.1 33.9 + - + +
566C GLU* 2.9 43.6 + - - +
567C ARG 3.2 0.4 - - - -
568C ALA* 1.3 74.6 - - - +
570C GLU* 1.3 64.8 + - - +
572C ILE* 3.3 1.5 + - - +
573C ARG* 3.0 46.9 + - - +
----------------------------------------------------------
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Residues in contact with GLU 570 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
566C GLU* 3.1 24.8 + - - +
567C ARG* 3.2 20.0 + - + +
569C LYS* 1.3 75.8 - - - +
571C ILE* 1.3 59.1 + - + +
573C ARG* 3.5 15.7 + - - +
574C LYS* 3.0 31.2 + - - +
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Residues in contact with ILE 571 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
429C VAL* 4.3 5.2 - - + -
430C VAL* 4.2 33.0 - - + -
433C VAL* 3.9 32.8 - - + -
434C VAL* 4.3 12.6 - - + -
477C THR* 4.5 0.2 - - + -
567C ARG* 3.1 31.4 + - + +
568C ALA* 3.5 7.2 - - - +
569C LYS 3.1 0.4 - - - -
570C GLU* 1.3 77.4 - - + +
572C ILE* 1.3 66.2 + - - +
574C LYS* 3.2 6.1 + - + -
575C TYR* 2.8 45.7 + - + +
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Residues in contact with ILE 572 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
426C GLY* 4.2 20.6 - - - -
429C VAL* 4.4 13.9 - - + -
430C VAL* 4.2 18.4 - - + -
481C GLY 4.5 0.2 - - - +
484C ALA* 4.1 5.8 - - + -
485C ALA* 4.0 21.1 - - + +
488C VAL* 3.8 30.1 - - + -
489C VAL* 5.0 0.2 - - + -
568C ALA 2.9 19.6 + - - +
569C LYS 3.8 4.3 - - - +
571C ILE* 1.3 75.4 - - - +
573C ARG* 1.3 59.1 + - - +
575C TYR 3.1 4.0 + - - -
576C ARG* 2.9 29.7 + - - -
579C LEU* 3.7 28.4 - - + +
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Residues in contact with ARG 573 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
488C VAL* 3.5 34.7 - - + +
566C GLU* 4.8 8.5 + - - -
569C LYS* 3.0 42.1 + - - +
570C GLU* 3.9 16.2 - - - +
572C ILE* 1.3 81.3 - - - +
574C LYS* 1.3 62.2 + - - +
575C TYR 3.3 0.5 + - - -
576C ARG* 3.4 17.7 + - - +
573F ARG* 3.3 60.2 - - - +
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Residues in contact with LYS 574 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
570C GLU 3.0 19.6 + - - +
571C ILE* 3.6 5.8 - - + +
573C ARG* 1.3 78.6 - - - +
575C TYR* 1.3 93.3 + - + +
576C ARG 3.5 0.7 + - - -
577C LYS* 6.2 0.3 - - - +
578C GLN* 5.1 1.6 + - - +
----------------------------------------------------------
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Residues in contact with TYR 575 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
429C VAL* 3.9 15.8 - - + +
433C VAL* 3.6 34.5 - - + +
571C ILE* 2.8 31.2 + - + +
572C ILE 3.2 4.3 - - - -
574C LYS* 1.3 115.8 + - + +
576C ARG* 1.3 63.8 - - - +
577C LYS 3.2 2.7 - - - -
578C GLN* 3.2 24.5 + - + +
579C LEU* 3.0 20.7 + - - +
605C PHE* 3.4 33.9 - + + -
----------------------------------------------------------
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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