Contacts of the helix formed by residues 573 - 595 (chain B) in PDB entry 4OL0
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 PRO 573 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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535B ALA* 5.9 2.0 - - + -
571B ARG 4.4 1.6 - - - +
572B LEU* 1.3 96.7 - - + +
574B LEU* 1.3 66.3 + - + +
575B ASP* 3.1 17.0 - - - +
576B LYS* 3.0 36.8 + - + +
577B ILE* 3.2 8.3 + - - +
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Residues in contact with LEU 574 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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572B LEU 4.4 3.4 - - - +
573B PRO* 1.3 72.7 - - + +
575B ASP* 1.3 61.0 + - - +
576B LYS 3.2 1.1 + - - -
577B ILE* 3.7 27.4 + - + +
578B THR* 4.4 4.0 + - - -
624B PRO* 5.6 2.0 - - + -
625B ILE* 4.3 24.2 - - + +
626B VAL* 4.6 21.3 - - + -
627B GLU 5.9 0.2 - - - +
633B PRO* 4.3 25.1 - - + +
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Residues in contact with ASP 575 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
573B PRO* 3.2 25.6 - - - +
574B LEU* 1.3 74.4 + - - +
576B LYS* 1.3 76.5 + - - +
578B THR* 4.9 4.8 + - - -
579B GLU* 5.1 6.4 + - - +
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Residues in contact with LYS 576 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
572B LEU* 5.1 6.5 - - + -
573B PRO* 3.0 26.5 + - + +
575B ASP* 1.3 101.8 + - - +
577B ILE* 1.3 61.7 + - - +
578B THR 3.2 2.7 - - - -
579B GLU* 3.2 18.1 + - - +
580B CYS* 2.9 43.6 + - - -
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Residues in contact with ILE 577 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
569B LEU* 3.8 33.7 - - + +
570B ALA* 4.4 2.7 - - - +
572B LEU* 3.4 23.3 - - + +
573B PRO 3.2 10.6 + - - +
574B LEU* 3.7 25.0 + - + +
576B LYS* 1.3 76.5 - - - +
578B THR* 1.3 57.8 + - - +
581B LEU* 2.8 35.9 + - + +
622B THR* 5.0 2.9 - - + -
624B PRO* 3.7 30.1 - - + -
633B PRO* 4.0 17.9 - - + -
634B CYS* 4.4 17.3 - - - -
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Residues in contact with THR 578 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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574B LEU 4.4 4.6 + - - -
575B ASP 5.3 4.9 - - - -
576B LYS* 3.2 0.6 - - - +
577B ILE* 1.3 75.3 - - - +
579B GLU* 1.3 60.9 + - - +
581B LEU* 3.8 3.6 - - - +
582B SER* 2.8 32.6 + - - -
633B PRO* 2.7 33.4 + - - +
636B LYS* 3.4 53.2 - - + -
637B VAL* 4.4 2.6 - - + +
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Residues in contact with GLU 579 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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575B ASP 5.1 3.8 + - - +
576B LYS* 3.2 25.3 + - - +
578B THR* 1.3 79.0 - - - +
580B CYS* 1.3 64.1 + - - +
582B SER* 3.2 7.1 + - - -
583B GLU* 2.9 45.5 + - - +
636B LYS* 5.9 1.6 - - - +
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Residues in contact with CYS 580 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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538B PHE* 3.5 29.3 - - + -
542B LEU* 4.5 5.4 - - - +
569B LEU* 3.5 20.4 - - + -
572B LEU* 3.8 15.5 - - - -
576B LYS* 2.9 30.3 + - - +
579B GLU* 1.3 81.1 - - - +
581B LEU* 1.3 53.0 + - - +
583B GLU* 3.3 7.3 + - - +
584B LEU* 2.7 36.0 + - - +
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Residues in contact with LEU 581 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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569B LEU* 3.8 21.4 - - + +
577B ILE* 2.8 23.8 + - + +
578B THR 3.8 2.2 - - - +
580B CYS* 1.3 73.4 - - - +
582B SER* 1.3 57.6 + - - +
584B LEU* 3.1 3.5 + - + +
585B CYS* 2.8 38.1 + - - -
618B ILE* 3.4 33.9 - - + -
619B PHE* 4.6 10.3 - - + -
622B THR* 4.5 6.1 - - + +
633B PRO 5.3 0.4 - - - +
634B CYS* 3.5 39.7 - - + -
637B VAL* 3.7 24.0 - - + -
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Residues in contact with SER 582 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
578B THR 2.8 19.7 + - - -
579B GLU* 3.3 7.0 - - - -
581B LEU* 1.3 77.4 - - - +
583B GLU* 1.3 58.2 + - - +
585B CYS* 3.2 1.6 + - - +
586B SER* 2.8 30.6 + - - -
636B LYS* 4.6 7.9 + - - -
637B VAL* 4.0 14.3 - - - +
640B GLU* 3.0 30.8 + - - +
641B ILE* 5.9 0.2 - - - +
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Residues in contact with GLU 583 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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542B LEU* 3.9 29.3 - - + +
546B ARG* 3.3 28.2 + - - +
579B GLU* 2.9 33.5 + - + +
580B CYS* 3.8 4.5 - - - +
582B SER* 1.3 76.5 + - - +
584B LEU* 1.3 60.5 + - - +
586B SER* 3.6 18.0 - - - -
587B VAL* 4.0 7.1 - - - +
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Residues in contact with LEU 584 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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538B PHE* 5.2 3.6 - - + -
542B LEU* 4.4 15.2 - - + +
545B ALA* 3.8 25.1 - - + -
562B LEU* 4.4 4.3 - - + -
565B THR* 3.8 32.5 - - + -
566B ALA 5.0 3.8 - - - +
569B LEU* 4.0 18.6 - - + -
580B CYS 2.7 20.5 + - - +
581B LEU 3.3 6.3 - - - +
583B GLU* 1.3 76.1 - - - +
585B CYS* 1.3 62.2 + - - +
586B SER 3.5 0.2 + - - -
587B VAL* 3.6 15.2 + - - +
588B GLN* 3.6 10.7 + - - -
618B ILE* 3.7 39.0 - - + -
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Residues in contact with CYS 585 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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581B LEU* 2.8 38.2 + - - +
582B SER 4.0 2.2 - - - +
584B LEU* 1.3 68.9 - - - +
586B SER* 1.3 65.3 + - - +
587B VAL 3.0 3.6 + - - -
588B GLN* 3.0 7.8 + - - +
589B VAL* 2.9 24.5 + - - +
615B LEU* 3.7 26.7 - - + -
618B ILE* 4.1 11.4 - - - -
619B PHE* 4.1 8.7 - - - -
637B VAL* 3.7 17.9 - - + -
641B ILE* 3.8 16.2 - - + -
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Residues in contact with SER 586 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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546B ARG* 5.6 3.4 + - - -
582B SER* 2.8 18.6 + - - -
583B GLU* 3.6 16.4 - - - -
585B CYS* 1.3 74.5 - - - +
587B VAL* 1.3 57.3 + - - +
589B VAL* 3.4 9.8 - - - +
590B MET* 2.9 49.5 + - - +
641B ILE* 5.3 0.6 - - - +
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Residues in contact with VAL 587 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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542B LEU* 5.0 0.7 - - + -
545B ALA* 3.7 24.5 - - + +
546B ARG* 4.1 39.0 - - + +
583B GLU 4.0 10.5 - - - +
584B LEU 3.6 10.8 - - - +
585B CYS 3.0 0.2 + - - -
586B SER* 1.3 77.7 - - - +
588B GLN* 1.3 76.2 + - - +
590B MET* 3.8 13.4 - - + +
591B ALA* 2.9 32.1 + - + +
611B PHE* 6.3 0.7 - - + -
614B ARG* 6.2 1.6 - - - +
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Residues in contact with GLN 588 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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545B ALA* 5.0 3.0 + - - +
548B LEU* 5.6 0.6 - - - +
562B LEU* 4.1 21.0 - - - +
584B LEU 3.6 8.5 + - - -
585B CYS* 3.7 7.4 - - - +
587B VAL* 1.3 95.6 - - - +
589B VAL* 1.3 58.0 + - - +
591B ALA* 3.3 7.2 + - - +
592B LEU* 2.8 37.4 + - - +
611B PHE* 3.9 16.6 - - + +
614B ARG* 3.4 32.2 + - - +
615B LEU* 3.5 41.3 - - + +
618B ILE* 4.1 9.3 - - + +
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Residues in contact with VAL 589 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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585B CYS 2.9 14.1 + - - +
586B SER* 3.4 12.6 - - - +
588B GLN* 1.3 76.8 - - - +
590B MET* 1.3 62.7 + - + +
592B LEU* 3.2 8.6 + - + +
593B LYS* 2.9 40.7 + - + +
615B LEU* 5.1 3.4 - - + -
640B GLU* 4.3 8.7 - - + +
641B ILE* 3.3 41.1 - - + -
644B VAL* 4.0 23.8 - - + +
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Residues in contact with MET 590 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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546B ARG* 5.2 11.4 - - - +
586B SER* 2.9 36.5 + - - +
587B VAL* 3.8 13.0 - - + +
589B VAL* 1.3 77.9 - - + +
591B ALA* 1.3 58.6 + - - +
593B LYS* 3.3 11.7 + - - +
594B LYS* 2.8 32.7 + - - +
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Residues in contact with ALA 591 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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549B ASP* 5.5 0.9 - - - +
587B VAL* 2.9 19.9 + - + +
588B GLN* 3.5 2.5 - - - +
590B MET* 1.3 78.5 - - - +
592B LEU* 1.3 61.3 + - - +
594B LYS* 3.5 14.6 - - + +
595B LEU* 3.3 26.7 + - - +
611B PHE* 3.4 42.1 - - + -
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Residues in contact with LEU 592 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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588B GLN 2.8 24.2 + - - +
589B VAL* 3.5 4.3 - - - +
591B ALA* 1.3 71.8 - - - +
593B LYS* 1.3 64.8 + - - +
595B LEU* 3.1 19.5 + - + +
596B LEU* 3.8 11.7 - - - +
608B PRO* 3.6 21.8 - - + -
611B PHE* 3.7 21.1 - - + -
612B LEU* 3.4 35.2 - - + -
615B LEU* 3.9 22.9 - - + -
644B VAL* 3.6 23.8 - - + -
645B LEU* 4.2 6.1 - - + -
648B THR* 4.6 7.9 + - - +
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Residues in contact with LYS 593 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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589B VAL* 2.9 37.2 + - + +
590B MET* 3.7 11.4 - - - +
592B LEU* 1.3 73.4 - - - +
594B LYS* 1.3 62.7 + - - +
595B LEU 3.3 0.3 + - - -
596B LEU* 3.4 26.2 + - + +
644B VAL* 4.3 19.3 - - + +
647B GLU* 5.5 6.5 - - - +
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Residues in contact with LYS 594 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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549B ASP* 6.0 0.4 + - - -
590B MET 2.8 17.1 + - - +
591B ALA* 3.5 15.4 + - - +
593B LYS* 1.3 78.6 - - - +
595B LEU* 1.3 69.3 + - - +
596B LEU* 2.8 12.0 + - - -
597B SER 4.0 9.4 + - - +
611B PHE* 5.4 8.7 - - - -
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Residues in contact with LEU 595 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
591B ALA 3.3 11.4 + - - +
592B LEU* 3.1 13.8 + - + +
594B LYS* 1.3 91.1 - - - +
596B LEU* 1.3 67.9 + - + +
597B SER* 3.4 16.2 + - - +
606B SER* 4.1 34.9 - - - +
607B ASP 3.9 4.9 - - - +
608B PRO* 3.8 28.3 - - + -
611B PHE* 3.6 35.4 - - + -
651B LYS* 4.0 4.7 + - - -
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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
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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