Contacts of the helix formed by residues 563 - 594 (chain A) in PDB entry 7CR3
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 ASP 563 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
322A GLU* 4.5 16.7 - - - +
325A ARG* 3.6 41.2 + - + +
326A GLN* 4.9 5.9 - - - +
329A PHE* 4.6 16.6 - - + -
562A TYR* 1.3 80.6 - - - +
564A VAL* 1.3 82.3 + - - +
566A ASP* 3.5 14.6 + - - +
567A VAL* 3.7 8.7 + - - +
325B ARG* 3.8 18.6 + - - -
564G VAL* 4.7 11.6 - - + +
568G ILE* 4.0 7.6 - - - +
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Residues in contact with VAL 564 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
562A TYR* 5.1 3.6 - - + -
563A ASP* 1.3 90.1 + - - +
565A MET* 1.3 67.6 + - + +
566A ASP 3.1 0.4 - - - -
567A VAL* 3.2 10.8 - - + +
568A ILE* 2.9 41.9 + - + +
325B ARG* 4.1 31.4 - - + +
329B PHE* 3.8 30.3 - - + -
563B ASP* 4.7 16.6 - - + +
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Residues in contact with MET 565 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
560A ARG 5.5 3.6 - - - +
561A PRO* 5.8 0.2 - - + -
562A TYR* 3.5 42.5 - - + +
563A ASP 3.4 0.6 - - - -
564A VAL* 1.3 80.7 - - + +
566A ASP* 1.3 57.5 + - - +
569A GLU* 2.7 53.0 + - - +
328B HIS* 3.9 30.7 - - + +
329B PHE* 3.5 34.5 - - + -
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Residues in contact with ASP 566 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
329A PHE* 4.9 9.6 - - + +
331A LYS* 5.2 8.1 - - - +
561A PRO* 4.8 11.7 - - - +
562A TYR 3.2 24.9 + - - +
563A ASP 3.5 6.5 - - - +
564A VAL 3.1 0.8 - - - -
565A MET* 1.3 78.3 - - - +
567A VAL* 1.3 58.0 + - - +
569A GLU* 4.5 0.2 - - - +
570A GLN* 2.9 52.3 + - - +
568G ILE* 3.7 27.1 - - + +
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Residues in contact with VAL 567 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
563A ASP 3.7 9.1 + - - +
564A VAL* 3.2 23.3 - - + +
566A ASP* 1.3 77.0 - - - +
568A ILE* 1.3 63.7 + - + +
570A GLN* 4.8 2.5 - - - -
571A TYR* 2.9 40.6 + - + +
567B VAL* 4.1 28.0 - - + -
567G VAL* 4.1 25.1 - - + -
568G ILE* 4.2 12.9 - - + +
571G TYR* 4.4 11.1 - - + -
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Residues in contact with ILE 568 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
564A VAL* 2.9 36.1 + - + +
565A MET* 4.3 1.3 - - - -
567A VAL* 1.3 79.6 - - + +
569A GLU* 1.3 78.9 + - - +
571A TYR* 3.8 2.5 - - - +
572A SER* 3.0 25.3 + - - +
329B PHE* 4.1 23.8 - - + -
331B LYS* 5.3 9.6 - - + -
563B ASP 4.0 10.8 - - - +
566B ASP* 3.7 40.4 - - + +
567B VAL* 4.2 16.2 - - + +
570B GLN* 5.0 2.7 - - - +
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Residues in contact with GLU 569 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
565A MET* 2.7 62.0 + - - +
566A ASP* 4.5 0.4 - - - +
568A ILE* 1.3 84.2 - - - +
570A GLN* 1.3 56.8 + - - +
572A SER* 2.6 20.6 + - - +
573A ALA* 2.9 18.4 + - - +
329B PHE* 4.4 7.8 - - - -
331B LYS* 4.9 15.8 + - - +
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Residues in contact with GLN 570 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
566A ASP* 2.9 34.3 + - - +
567A VAL* 5.4 0.2 - - - -
569A GLU* 1.3 77.1 - - - +
571A TYR* 1.3 57.5 + - - +
573A ALA* 4.2 7.0 - - + -
574A GLY* 2.7 21.4 + - - -
568G ILE* 5.0 2.9 - - - +
571G TYR* 2.9 41.6 + - + +
572G SER* 3.9 28.7 + - - +
575G HIS* 4.1 19.2 + - + +
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Residues in contact with TYR 571 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
567A VAL* 2.9 24.8 + - + +
568A ILE* 3.9 2.5 - - - +
569A GLU 3.2 0.2 - - - -
570A GLN* 1.3 75.8 - - - +
572A SER* 1.3 60.6 + - - +
573A ALA 3.3 0.2 - - - -
575A HIS* 2.8 39.5 + - + +
578A MET* 4.5 12.1 - - + -
567B VAL* 4.7 15.0 - - + -
570B GLN* 2.9 62.0 + - + +
571B TYR* 3.1 37.1 - + + -
574B GLY* 3.3 14.2 - - - -
578B MET* 4.9 1.5 - - + +
571G TYR* 3.1 26.2 - + + -
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Residues in contact with SER 572 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
568A ILE* 3.0 16.9 + - - +
569A GLU* 2.6 28.1 + - - +
571A TYR* 1.3 74.4 - - - +
573A ALA* 1.3 60.6 + - - -
575A HIS* 4.2 0.7 - - - +
576A LEU* 3.0 33.4 + - - +
331B LYS* 4.6 17.5 + - - -
570B GLN* 3.9 18.5 + - - +
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Residues in contact with ALA 573 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
569A GLU 2.9 19.0 + - - +
570A GLN* 4.0 8.3 - - + +
572A SER* 1.3 76.9 + - - +
574A GLY* 1.3 53.1 + - - +
576A LEU* 3.2 15.5 - - + +
577A ASP* 2.6 45.5 + - - +
575G HIS* 5.5 1.8 - - + -
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Residues in contact with GLY 574 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
570A GLN 2.7 16.8 + - - -
572A SER 3.4 0.2 - - - -
573A ALA* 1.3 73.3 - - - +
575A HIS* 1.3 56.5 + - - +
577A ASP* 3.5 3.1 + - - +
578A MET* 2.9 35.6 + - - +
571G TYR* 3.3 17.0 - - - -
575G HIS* 3.4 25.0 + - - -
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Residues in contact with HIS 575 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
571A TYR* 2.8 29.5 + + + +
572A SER 4.2 0.7 - - - +
574A GLY* 1.3 69.9 - - - +
576A LEU* 1.3 61.1 + - - +
578A MET* 3.1 18.3 + - + +
579A LEU* 2.8 41.3 + - + +
570B GLN* 4.1 23.6 + - + +
573B ALA* 5.5 1.8 - - + -
574B GLY* 3.4 29.2 + - - -
577B ASP* 3.4 28.3 + - - +
581B ARG* 3.6 23.0 + - - -
571G TYR* 4.3 0.2 + - - -
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Residues in contact with LEU 576 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
572A SER* 3.0 26.2 + - - +
573A ALA* 3.2 23.6 - - + +
575A HIS* 1.3 74.2 - - - +
577A ASP* 1.3 89.8 + - - +
579A LEU* 3.0 21.3 + - + +
580A SER* 3.0 19.9 + - - -
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Residues in contact with ASP 577 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
573A ALA* 2.6 32.1 + - - +
574A GLY 3.7 4.3 - - - +
576A LEU* 1.3 87.4 - - - +
578A MET* 1.3 57.8 + - - +
580A SER* 2.3 27.9 + - - +
581A ARG* 2.8 25.6 + - + +
575G HIS* 3.4 24.2 - - - +
579G LEU* 6.1 1.1 - - + -
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Residues in contact with MET 578 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
571A TYR* 4.5 11.9 - - + -
574A GLY* 2.9 25.6 + - - +
575A HIS* 3.1 31.2 + - + +
577A ASP* 1.3 76.6 - - - +
579A LEU* 1.3 53.7 + - - +
581A ARG* 3.0 16.0 + - - +
582A ILE 2.9 16.8 + - - -
578B MET* 3.8 43.3 - - + +
581B ARG* 2.3 37.0 + - - +
571G TYR* 4.9 1.8 - - + +
578G MET* 3.8 36.8 - - + +
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Residues in contact with LEU 579 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
575A HIS* 2.8 41.1 + - + +
576A LEU* 3.0 19.0 + - + +
578A MET* 1.3 73.0 - - - +
580A SER* 1.3 61.7 + - - +
582A ILE* 3.1 8.8 - - + +
583A LYS* 3.0 26.4 + - - +
577B ASP* 6.1 1.8 - - + -
581B ARG* 3.2 20.8 - - - +
----------------------------------------------------------
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Residues in contact with SER 580 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
576A LEU 3.0 7.3 + - - -
577A ASP* 2.3 37.4 + - - +
579A LEU* 1.3 74.9 - - - +
581A ARG* 1.3 49.4 + - - +
583A LYS* 3.2 23.4 - - - +
584A SER* 2.5 38.2 + - - -
----------------------------------------------------------
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Residues in contact with ARG 581 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
577A ASP* 2.8 27.8 + - - +
578A MET* 3.0 25.0 + - - +
580A SER* 1.3 77.2 - - - +
582A ILE* 1.3 57.1 + - - +
584A SER* 2.6 19.6 + - - -
585A LEU* 2.8 19.0 + - - +
581B ARG* 4.4 2.7 - - - +
575G HIS* 3.6 9.0 + - - -
578G MET* 2.3 65.1 + - - +
579G LEU* 3.2 25.9 - - - +
581G ARG* 4.4 3.4 - - - +
582G ILE* 3.5 42.5 - - + +
585G LEU* 5.1 2.3 - - + +
----------------------------------------------------------
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Residues in contact with ILE 582 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
578A MET 2.9 17.6 + - - +
579A LEU* 3.1 23.6 - - + +
581A ARG* 1.3 73.3 - - - +
583A LYS* 1.3 57.4 + - - +
585A LEU* 3.2 19.8 + - + +
586A GLN* 2.9 60.7 + - + +
581B ARG* 3.5 57.2 - - + +
584B SER* 4.1 2.2 - - - +
----------------------------------------------------------
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Residues in contact with LYS 583 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
579A LEU 3.0 22.4 + - - +
580A SER* 3.2 28.9 - - - +
582A ILE* 1.3 77.1 - - + +
584A SER* 1.3 67.7 + - - +
586A GLN* 3.4 6.3 + - - +
587A SER* 2.6 38.2 + - - +
----------------------------------------------------------
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Residues in contact with SER 584 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
580A SER 2.5 26.1 + - - -
581A ARG* 2.6 19.2 + - - -
583A LYS* 1.3 81.0 - - - +
585A LEU* 1.3 58.6 + - - +
587A SER* 2.9 7.5 + - - -
588A ARG* 2.9 38.8 + - - +
582G ILE* 4.1 1.6 - - - +
585G LEU* 5.3 0.4 - - - -
586G GLN* 3.5 31.8 + - - -
----------------------------------------------------------
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Residues in contact with LEU 585 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
581A ARG 2.8 19.1 + - - +
582A ILE* 3.3 24.2 - - + +
583A LYS 3.2 0.2 - - - -
584A SER* 1.3 72.5 + - - +
586A GLN* 1.3 79.0 + - - +
588A ARG* 3.9 1.0 - - - +
589A VAL* 2.9 50.6 + - + +
581B ARG* 5.1 2.2 - - + +
584B SER 5.3 0.4 - - - +
585B LEU* 3.9 42.6 - - + -
588B ARG* 5.7 0.9 - - + -
589B VAL* 6.4 0.4 - - + -
585G LEU* 3.9 33.1 - - + +
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Residues in contact with GLN 586 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
582A ILE* 2.9 29.5 + - + +
583A LYS* 4.0 4.9 - - - +
585A LEU* 1.3 88.3 - - - +
587A SER* 1.3 57.2 + - - +
589A VAL* 3.2 3.2 - - - +
590A ASP* 2.9 36.5 + - - +
584B SER* 3.5 29.8 + - - -
588B ARG* 3.2 38.2 - - - +
----------------------------------------------------------
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Residues in contact with SER 587 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
583A LYS* 2.6 26.2 + - - +
584A SER* 2.9 17.7 + - - -
586A GLN* 1.3 75.9 - - - +
588A ARG* 1.3 58.3 + - - +
590A ASP* 3.2 8.3 + - - +
591A GLN* 2.9 32.0 + - - +
----------------------------------------------------------
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Residues in contact with ARG 588 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
584A SER* 2.9 25.1 + - - +
585A LEU* 4.1 2.2 - - - +
587A SER* 1.3 76.2 - - - +
589A VAL* 1.3 62.6 + - + +
591A GLN* 3.1 22.7 + - - +
592A ILE* 2.9 30.7 + - + +
585G LEU* 5.7 1.1 - - + -
586G GLN* 3.2 40.8 + - - +
589G VAL* 3.8 20.0 - - + -
590G ASP* 2.4 41.6 + - - -
593G VAL* 5.5 2.5 - - - +
----------------------------------------------------------
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Residues in contact with VAL 589 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
585A LEU* 2.9 39.3 + - + +
586A GLN* 3.2 18.4 - - - +
588A ARG* 1.3 76.9 - - + +
590A ASP* 1.3 57.2 + - - +
592A ILE* 3.2 14.7 + - + +
593A VAL* 2.9 29.1 + - + +
588B ARG* 3.8 31.9 - - + -
589B VAL* 5.2 13.7 - - + -
592B ILE* 4.0 9.3 - - + +
585G LEU* 6.4 0.4 - - + -
589G VAL* 5.2 12.1 - - + -
----------------------------------------------------------
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Residues in contact with ASP 590 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
586A GLN* 2.9 15.8 + - - +
587A SER* 3.4 8.5 - - - +
588A ARG 3.2 0.2 - - - -
589A VAL* 1.3 76.9 - - - +
591A GLN* 1.3 53.9 + - - +
592A ILE 3.1 0.2 - - - -
593A VAL* 2.9 13.6 + - + +
594A GLY* 2.4 34.7 + - - -
588B ARG* 2.4 39.4 + - - -
----------------------------------------------------------
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Residues in contact with GLN 591 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
587A SER* 2.9 18.8 + - - +
588A ARG* 3.1 27.6 + - - +
590A ASP* 1.3 75.3 - - - +
592A ILE* 1.3 63.9 + - + +
594A GLY* 3.5 4.4 + - - +
595A ARG* 3.5 24.3 + - - +
593G VAL* 5.1 11.9 - - + +
----------------------------------------------------------
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Residues in contact with ILE 592 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
588A ARG 2.9 15.9 + - - +
589A VAL* 3.3 15.0 - - + +
590A ASP 3.1 0.2 - - - -
591A GLN* 1.3 79.0 - - - +
593A VAL* 1.3 62.1 + - - +
595A ARG* 3.6 17.3 + - + +
592B ILE* 3.9 30.5 - - + +
595B ARG* 3.2 11.8 + - - -
589G VAL* 4.0 11.9 - - + +
592G ILE* 3.9 33.0 - - + +
593G VAL* 3.7 31.0 - - + +
----------------------------------------------------------
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Residues in contact with VAL 593 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
589A VAL* 2.9 21.0 + - + +
590A ASP* 2.9 18.8 + - - +
592A ILE* 1.3 75.2 - - - +
594A GLY* 1.3 62.8 + - - +
595A ARG 3.1 0.4 - - - -
588B ARG* 5.5 3.6 - - + +
591B GLN* 5.1 14.1 - - + +
592B ILE* 3.7 18.4 - - + -
595B ARG* 2.6 45.9 + - - +
----------------------------------------------------------
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Residues in contact with GLY 594 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
590A ASP 2.4 23.8 + - - -
591A GLN* 3.5 7.1 + - - -
592A ILE 3.3 0.4 - - - -
593A VAL* 1.3 70.9 - - - +
595A ARG* 1.3 57.7 + - - +
----------------------------------------------------------
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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