Contacts of the helix formed by residues 587 - 597 (chain C) in PDB entry 2Z66
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 HIS 587 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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557C MET* 3.2 28.2 + - + +
558C THR* 4.0 11.4 - - + -
582C ALA* 3.6 38.3 - - + +
584C THR* 2.8 30.7 + - - +
586C GLU* 1.3 91.3 + - + +
588C GLN* 1.3 63.3 + - - +
589C SER 3.3 2.7 - - - -
590C PHE* 3.3 2.4 + - + -
591C LEU* 3.0 28.6 + - + +
2003C SO4 2.8 28.5 + - - +
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Residues in contact with GLN 588 (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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584C THR 3.4 4.3 + - - -
585C CYS 3.2 15.3 + - - +
586C GLU 3.6 0.6 - - - -
587C HIS* 1.3 76.4 - - - +
589C SER* 1.3 60.1 + - - +
591C LEU* 3.5 2.9 + - - +
592C GLN* 3.0 29.9 + - + +
625C ILE* 2.8 42.9 + - + +
626C THR* 3.6 13.9 - - - +
627C CYS* 3.7 19.3 - - - +
2003C SO4 3.9 0.2 + - - -
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Residues in contact with SER 589 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
562C GLN* 5.4 10.8 - - - -
587C HIS 3.3 0.6 - - - -
588C GLN* 1.3 78.9 + - - +
590C PHE* 1.3 64.9 + - - +
592C GLN* 3.3 7.9 + - - +
593C TRP* 3.0 22.6 + - - +
2003C SO4 3.4 14.9 + - - -
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Residues in contact with PHE 590 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
535C LEU* 4.3 8.5 - - + -
556C ILE* 3.5 28.5 - - + -
557C MET* 3.5 28.3 - - - +
558C THR* 3.5 25.4 - - - -
559C SER* 3.9 3.4 - - - -
564C LEU* 4.0 17.9 - - + -
581C PHE* 4.2 8.5 - + - -
587C HIS 3.3 3.8 + - - +
589C SER* 1.3 74.3 - - - +
591C LEU* 1.3 68.4 + - + +
593C TRP* 3.1 25.4 + + - +
594C ILE* 2.9 54.3 + - + +
2003C SO4 2.9 31.6 + - - +
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Residues in contact with LEU 591 (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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557C MET* 5.7 0.4 - - - +
581C PHE* 4.2 26.2 - - + -
582C ALA 3.6 21.1 - - - +
583C CYS* 3.7 7.0 - - + -
587C HIS* 3.0 19.5 + - + +
588C GLN 4.0 2.9 - - - +
590C PHE* 1.3 82.8 - - + +
592C GLN* 1.3 60.6 + - - +
594C ILE* 3.3 6.8 + - + +
595C LYS* 3.0 35.0 + - - +
620C VAL* 3.8 27.2 - - + +
625C ILE* 3.0 39.5 - - + -
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Residues in contact with GLN 592 (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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436A GLN* 3.5 28.6 + - - +
440A PHE* 4.8 4.9 - - - -
588C GLN* 3.0 21.1 + - + +
589C SER* 3.6 8.1 - - - +
590C PHE 3.3 0.2 - - - -
591C LEU* 1.3 75.8 - - - +
593C TRP* 1.3 61.9 + - - +
595C LYS* 3.3 24.2 + - - +
596C ASP* 3.1 34.9 + - - +
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Residues in contact with TRP 593 (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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535C LEU* 4.0 17.0 - - + -
537C THR* 3.7 17.7 - - + -
564C LEU* 3.4 45.1 - - + +
565C GLN 3.1 21.2 + - - -
566C HIS* 5.5 0.6 + + - -
567C PHE* 3.4 37.7 - + - -
574C LEU* 5.0 0.2 - - + -
576C LEU* 5.3 0.9 - - + -
589C SER 3.0 12.9 + - - +
590C PHE* 3.3 13.9 - + - +
592C GLN* 1.3 76.6 - - - +
594C ILE* 1.3 89.8 + - + +
596C ASP* 3.2 14.4 + - + +
597C GLN* 3.0 53.3 + - + +
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Residues in contact with ILE 594 (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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535C LEU* 4.9 0.2 - - + -
576C LEU* 3.6 25.8 - - + -
581C PHE* 4.2 8.7 - - + -
590C PHE* 2.9 55.2 + - + +
591C LEU* 3.4 12.1 - - + +
592C GLN 3.3 0.4 - - - -
593C TRP* 1.3 90.3 - - + +
595C LYS* 1.3 62.7 + - - +
597C GLN* 3.0 20.1 + - + +
601C LEU* 3.6 9.1 - - + +
607C MET* 3.7 27.6 - - + -
620C VAL* 4.5 10.8 - - + -
621C LEU* 4.3 9.2 - - + -
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Residues in contact with LYS 595 (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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439A GLU* 5.7 0.5 - - - +
591C LEU* 3.0 21.0 + - - +
592C GLN* 3.3 32.7 + - - +
594C ILE* 1.3 75.2 - - - +
596C ASP* 1.3 59.1 - - - +
598C ARG* 3.1 28.9 + - - +
620C VAL* 4.3 6.3 - - + +
621C LEU* 3.1 49.4 + - + +
622C SER 4.7 0.2 - - - -
623C LEU 2.6 31.5 + - - -
624C ASN* 3.8 15.8 + - - +
625C ILE 5.5 0.9 - - - +
1O NAG 5.7 0.4 - - - -
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Residues in contact with ASP 596 (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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436A GLN* 2.7 30.0 + - - +
439A GLU* 3.4 48.0 - - - +
440A PHE* 4.4 4.3 - - - -
592C GLN* 3.1 27.8 + - - +
593C TRP* 3.2 15.0 + - + +
595C LYS* 1.3 76.9 - - - +
597C GLN* 1.3 68.4 + - - +
598C ARG* 3.2 2.7 + - - -
599C GLN* 5.1 3.1 + - - +
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Residues in contact with GLN 597 (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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565C GLN 5.0 1.2 + - - +
566C HIS* 5.0 13.6 + - - -
567C PHE* 4.3 7.3 + - - -
574C LEU* 4.5 10.8 - - + -
576C LEU* 5.9 0.2 - - + -
593C TRP* 3.0 73.1 + - + +
594C ILE* 3.0 12.0 + - + +
596C ASP* 1.3 86.9 + - - +
598C ARG* 1.3 64.0 + - - +
599C GLN 3.2 2.7 - - - -
600C LEU* 2.8 35.3 + - + +
601C LEU* 3.3 22.9 + - + +
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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
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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