Contacts of the helix formed by residues 522 - 554 (chain A) in PDB entry 4JWE
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 ASN 522 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
445A ARG* 3.3 33.4 + - - +
518A ASP 2.9 24.8 + - - +
519A ALA 3.4 3.6 - - - +
521A ALA* 1.3 77.7 - - - +
523A ALA* 1.4 52.0 + - - +
524A GLU 3.4 2.0 - - - -
525A ALA* 3.3 17.3 + - + +
526A ASP* 2.8 34.5 + - - +
14C ARG* 3.2 38.1 + - - +
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Residues in contact with ALA 523 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
519A ALA 3.0 10.7 + - - +
520A GLU* 3.4 18.2 + - - +
521A ALA 3.5 1.4 + - - -
522A ASN* 1.4 76.2 - - - +
524A GLU* 1.3 60.2 + - + +
526A ASP* 3.4 4.7 + - - +
527A ARG* 3.0 35.1 + - - +
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Residues in contact with GLU 524 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
521A ALA 5.4 0.2 + - - -
522A ASN 3.4 0.4 - - - -
523A ALA* 1.3 76.5 - - + +
525A ALA* 1.4 56.5 + - - +
527A ARG* 3.2 38.0 + - - +
528A LYS* 2.9 30.8 + - - +
577B LYS* 3.2 39.6 + - - +
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Residues in contact with ALA 525 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
445A ARG* 6.0 0.2 - - - +
447A ARG* 5.5 1.4 + - - -
522A ASN* 3.3 23.8 + - + +
524A GLU* 1.4 78.0 - - - +
526A ASP* 1.4 59.2 + - - +
528A LYS* 3.4 10.2 + - - +
529A PHE* 2.9 27.9 + - - +
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Residues in contact with ASP 526 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
444A GLU 4.4 2.1 - - - +
445A ARG* 2.9 46.2 + - - -
446A LYS* 3.2 41.1 + - + +
447A ARG* 5.0 8.9 + - - +
450A ASP* 4.9 2.3 - - - +
519A ALA* 4.8 4.2 - - - +
522A ASN* 2.8 23.7 + - - +
523A ALA* 3.9 5.4 - - - +
525A ALA* 1.4 70.0 - - - +
527A ARG* 1.4 59.0 + - - +
529A PHE* 3.3 6.8 + - - +
530A GLU* 3.0 28.9 + - - +
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Residues in contact with ARG 527 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
446A LYS* 4.8 1.3 - - - +
523A ALA* 3.0 19.7 + - - +
524A GLU* 3.4 44.6 + - - +
526A ASP* 1.4 74.9 - - - +
528A LYS* 1.3 56.0 + - - +
530A GLU* 3.2 9.9 + - + +
531A GLU* 2.9 54.3 + - + +
577B LYS* 6.0 0.4 - - - +
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Residues in contact with LYS 528 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
524A GLU 2.9 13.4 + - - +
525A ALA* 3.5 12.8 - - - +
527A ARG* 1.3 74.4 - - - +
529A PHE* 1.4 57.1 + - - +
531A GLU* 3.3 16.0 + - - +
532A LEU* 2.9 30.8 + - - +
579A GLU 5.4 7.8 + - - -
577B LYS 5.6 0.4 + - - -
579B GLU* 5.0 2.8 + - - +
703B SO4 3.3 35.0 + - - +
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Residues in contact with PHE 529 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
405A GLY 3.9 6.5 - - - -
406A GLY* 3.7 19.7 - - - -
407A VAL* 4.4 4.7 - - + -
446A LYS* 3.8 11.9 - - + -
447A ARG* 3.5 76.9 - - + +
525A ALA 2.9 14.6 + - - +
526A ASP* 3.6 9.6 - - - +
527A ARG 3.3 0.2 - - - -
528A LYS* 1.4 75.1 - - - +
530A GLU* 1.3 58.5 + - - +
532A LEU* 3.2 16.2 + - + +
533A VAL* 3.0 54.4 + - + +
536A ARG* 4.9 9.4 - - - -
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Residues in contact with GLU 530 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
407A VAL* 4.0 22.6 - - + +
408A MET 5.2 1.0 - - - +
446A LYS* 3.5 33.4 + - + +
526A ASP 3.0 12.9 + - - +
527A ARG* 3.5 11.6 - - + +
529A PHE* 1.3 79.5 - - - +
531A GLU* 1.3 57.3 + - + +
533A VAL* 3.5 5.6 + - - +
534A GLN* 3.1 51.4 + - + +
----------------------------------------------------------
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Residues in contact with GLU 531 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
527A ARG* 2.9 44.1 + - + +
528A LYS* 3.6 18.7 - - - +
530A GLU* 1.3 73.7 - - + +
532A LEU* 1.4 60.6 + - - +
534A GLN* 3.5 16.5 + - - +
535A THR* 2.9 33.5 + - - -
581A LYS* 4.0 28.9 + - + +
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Residues in contact with LEU 532 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
447A ARG* 6.3 0.2 - - - +
528A LYS 2.9 14.5 + - - +
529A PHE* 3.2 21.7 + - + +
531A GLU* 1.4 73.4 - - - +
533A VAL* 1.3 55.8 + - - +
535A THR* 3.2 6.2 + - - -
536A ARG* 2.7 59.8 + - - +
579A GLU* 3.7 57.4 - - + +
581A LYS* 4.0 17.2 - - + +
584A ILE* 3.8 23.8 - - + -
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Residues in contact with VAL 533 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
404A MET 3.7 13.9 - - - +
405A GLY* 3.6 16.6 - - - +
407A VAL* 3.9 14.6 - - + -
529A PHE* 3.0 50.6 + - + +
530A GLU* 3.9 6.1 - - - +
532A LEU* 1.3 70.9 - - + +
534A GLN* 1.3 61.2 + - + +
536A ARG* 3.5 16.7 - - + +
537A ASN* 2.8 54.8 + - - +
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Residues in contact with GLN 534 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
530A GLU* 3.1 44.6 + - + +
531A GLU* 3.7 18.0 - - - +
533A VAL* 1.3 75.1 - - + +
535A THR* 1.4 53.2 + - - +
537A ASN* 3.3 8.7 + - - +
538A GLN* 2.8 49.5 + - + +
6D ARG* 5.9 5.1 + - - +
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Residues in contact with THR 535 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
531A GLU 2.9 18.5 + - - -
532A LEU* 3.6 4.5 - - - -
534A GLN* 1.4 73.4 - - - +
536A ARG* 1.4 53.5 + - - +
538A GLN* 3.6 14.8 + - + +
539A GLY* 2.7 34.0 + - - -
581A LYS* 3.4 31.9 - - + +
584A ILE* 3.7 19.5 - - + +
585A GLU* 3.6 32.0 + - + +
588A MET* 4.5 4.4 - - - +
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Residues in contact with ARG 536 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
405A GLY* 5.3 3.4 + - - -
529A PHE* 4.9 6.9 - - - -
532A LEU* 2.7 43.9 + - + +
533A VAL* 3.3 21.2 + - + +
535A THR* 1.4 72.0 - - - +
537A ASN* 1.3 61.0 + - - +
539A GLY 3.4 0.2 + - - -
540A ASP* 2.9 27.2 + - - +
576A LEU* 3.1 38.5 + - + +
577A LYS* 3.5 14.6 + - - +
578A GLY 2.8 24.1 + - - -
579A GLU* 3.6 16.8 + - - +
584A ILE* 3.9 12.8 - - + -
518B ASP* 4.9 4.2 + - - -
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Residues in contact with ASN 537 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
404A MET* 3.5 62.2 + - + +
405A GLY* 4.6 2.8 - - - -
407A VAL* 5.5 0.2 - - - +
467A ARG* 4.9 1.7 + - - -
533A VAL* 2.8 33.5 + - - +
534A GLN* 3.8 6.9 - - - +
536A ARG* 1.3 74.1 - - - +
538A GLN* 1.4 58.0 + - - +
540A ASP* 3.3 9.6 + - - +
541A HIS* 2.9 25.2 + - - +
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Residues in contact with GLN 538 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
534A GLN* 2.8 38.2 + - - +
535A THR* 3.6 13.6 + - - +
537A ASN* 1.4 69.9 - - + +
539A GLY* 1.3 60.5 + - - +
541A HIS* 3.2 14.7 + - + +
542A LEU* 2.9 28.8 + - - +
588A MET* 3.9 14.9 - - + +
6D ARG* 4.7 25.0 + - - +
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Residues in contact with GLY 539 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
535A THR 2.7 20.6 + - - -
536A ARG 3.7 2.7 - - - -
537A ASN 3.3 0.2 - - - -
538A GLN* 1.3 72.2 - - - +
540A ASP* 1.3 55.5 + - - +
542A LEU* 3.3 2.1 + - - +
543A LEU* 2.9 27.8 + - - +
572A LEU* 3.6 8.5 - - - +
576A LEU* 3.9 17.3 - - - -
588A MET* 3.8 22.2 - - - -
----------------------------------------------------------
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Residues in contact with ASP 540 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
404A MET* 6.0 3.1 - - - +
467A ARG* 2.8 37.8 + - - +
536A ARG 2.9 14.5 + - - +
537A ASN* 3.4 12.6 - - - +
538A GLN 3.3 0.2 - - - -
539A GLY* 1.3 72.8 - - - +
541A HIS* 1.4 53.2 + - - +
543A LEU* 3.3 17.9 + - - +
544A HIS* 2.8 36.3 + - - +
576A LEU* 4.3 6.9 - - + +
----------------------------------------------------------
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Residues in contact with HIS 541 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
467A ARG* 3.5 10.3 - - - +
537A ASN 2.9 13.7 + - - +
538A GLN* 3.2 17.0 + - + +
540A ASP* 1.4 73.3 - - - +
542A LEU* 1.3 62.5 + - + +
544A HIS* 3.4 1.4 + - - +
545A SER* 2.8 50.2 + - - -
701A SO4 2.7 39.1 + - - +
----------------------------------------------------------
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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
----------------------------------------------------------
538A GLN 2.9 13.3 + - - +
539A GLY* 3.3 7.6 + - - +
541A HIS* 1.3 79.4 - - + +
543A LEU* 1.3 57.9 + - - +
545A SER* 3.4 8.6 + - - +
546A THR* 2.7 43.7 + - - +
572A LEU* 4.6 0.4 - - + -
588A MET* 3.7 55.9 - - + +
591A LEU* 3.8 17.3 - - + -
592A ALA* 5.3 6.7 - - + +
599A MET* 5.7 9.0 - - + -
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Residues in contact with LEU 543 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
539A GLY 2.9 17.6 + - - +
540A ASP* 3.5 18.4 - - - +
542A LEU* 1.3 76.3 - - - +
544A HIS* 1.4 55.3 + - - +
546A THR* 3.9 1.4 - - - -
547A ARG* 3.1 61.0 + - - +
569A LEU* 3.5 46.6 - - + +
572A LEU* 4.0 17.9 - - + +
573A GLU* 4.5 10.8 - - + +
576A LEU* 4.5 12.6 - - + -
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Residues in contact with HIS 544 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
431A ASP* 2.8 36.8 + - - -
467A ARG* 3.3 33.7 - - + +
540A ASP* 2.8 21.6 + - - +
541A HIS 3.7 2.9 - - - +
543A LEU* 1.4 69.4 - - - +
545A SER* 1.4 60.0 + - - +
547A ARG* 3.5 6.2 + - - +
548A LYS* 3.1 61.8 + - + +
701A SO4 3.8 19.9 + - - -
----------------------------------------------------------
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Residues in contact with SER 545 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
541A HIS* 2.8 44.1 + - - -
542A LEU* 3.4 15.6 + - - +
544A HIS* 1.4 73.7 + - - +
546A THR* 1.4 60.6 + - - +
548A LYS* 3.5 11.9 + - - +
549A GLN* 3.0 42.1 + - - +
701A SO4 5.5 1.6 - - - -
----------------------------------------------------------
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Residues in contact with THR 546 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
542A LEU* 2.7 31.0 + - - +
543A LEU 3.9 3.6 - - - -
545A SER* 1.4 74.5 + - - +
547A ARG* 1.3 56.1 + - - +
549A GLN* 3.1 13.4 + - - +
550A VAL* 2.9 32.1 + - - +
565A ILE* 3.9 23.3 - - + -
569A LEU* 3.7 23.3 - - + -
591A LEU* 3.7 17.5 - - + +
595A SER* 4.3 4.6 + - - +
598A LEU* 4.0 11.4 - - + +
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Residues in contact with ARG 547 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
543A LEU* 3.1 56.3 + - - +
544A HIS* 3.9 5.2 - - - +
546A THR* 1.3 74.8 - - - +
548A LYS* 1.4 61.1 + - - +
550A VAL* 3.5 8.1 + - + +
551A GLU* 3.2 24.6 + - - +
569A LEU* 4.2 36.6 + - + +
570A THR* 5.5 3.2 + - - +
573A GLU* 5.3 8.1 + - - +
----------------------------------------------------------
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Residues in contact with LYS 548 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
431A ASP* 4.8 4.9 - - - -
466A PRO* 6.2 4.3 - - - -
544A HIS* 3.1 51.1 + - + +
545A SER* 3.7 11.5 - - - +
547A ARG* 1.4 73.5 - - - +
549A GLN* 1.4 58.8 + - + +
551A GLU* 3.5 4.0 + - - +
552A GLU* 3.0 46.2 + - - +
701A SO4 5.2 4.2 + - - -
----------------------------------------------------------
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Residues in contact with GLN 549 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
545A SER* 3.0 25.1 + - - +
546A THR* 3.4 11.6 + - - +
548A LYS* 1.4 77.7 - - + +
550A VAL* 1.4 55.8 + - - +
552A GLU* 3.6 5.7 + - - +
553A ALA* 3.0 29.5 + - - +
595A SER* 5.9 0.2 - - - -
598A LEU* 3.5 34.5 - - + +
599A MET* 4.4 21.0 - - - +
601A ILE* 5.6 0.7 - - - +
----------------------------------------------------------
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Residues in contact with VAL 550 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
546A THR* 2.9 20.4 + - + +
547A ARG* 3.9 8.5 - - - +
548A LYS 3.3 0.2 - - - -
549A GLN* 1.4 73.3 - - - +
551A GLU* 1.3 62.8 + - - +
553A ALA* 3.3 3.2 + - - +
554A GLY* 3.0 27.0 + - - +
557A LEU* 4.3 15.3 - - + +
562A LYS* 4.8 12.1 - - + -
565A ILE* 3.9 22.4 - - + -
566A GLU* 6.2 2.9 - - + -
569A LEU* 5.3 3.1 - - + -
598A LEU* 3.8 25.8 - - + -
----------------------------------------------------------
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Residues in contact with GLU 551 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
547A ARG 3.2 16.4 + - - +
548A LYS* 4.0 5.6 - - - +
550A VAL* 1.3 78.0 - - - +
552A GLU* 1.3 67.0 + - - +
554A GLY* 3.7 10.9 + - - +
----------------------------------------------------------
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Residues in contact with GLU 552 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
548A LYS* 3.0 40.2 + - - +
549A GLN* 3.8 6.7 - - - +
551A GLU* 1.3 79.5 - - - +
553A ALA* 1.4 64.5 + - - +
554A GLY* 4.6 0.3 - - - -
556A LYS* 5.1 5.4 - - - -
601A ILE* 5.6 0.7 - - - -
----------------------------------------------------------
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Residues in contact with ALA 553 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
549A GLN 3.0 18.8 + - - +
550A VAL 3.3 5.4 + - - +
552A GLU* 1.4 77.5 - - - +
554A GLY* 1.3 64.0 + - - +
555A ASP 3.6 0.3 + - - -
556A LYS* 3.3 27.8 + - - +
557A LEU* 3.9 21.5 - - + -
598A LEU* 4.0 9.4 - - + -
601A ILE* 3.9 29.8 - - + -
----------------------------------------------------------
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Residues in contact with GLY 554 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
550A VAL 3.0 14.1 + - - +
551A GLU* 3.7 9.4 + - - -
552A GLU 3.4 2.4 - - - -
553A ALA* 1.3 74.6 - - - +
555A ASP* 1.3 63.1 + - - -
556A LYS 3.3 1.0 + - - -
557A LEU* 3.3 18.4 + - - +
----------------------------------------------------------
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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).
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