Contacts of the helix formed by residues 584 - 598 (chain C) in PDB entry 2FH2
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 584 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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543C ALA* 4.5 3.3 + - - +
582C GLY 3.6 3.3 + - - -
583C ALA* 1.3 75.9 - - - +
585C GLU* 1.3 64.3 + - - +
586C ALA* 3.5 9.0 + - - +
587C GLU* 3.1 44.9 + - - +
588C LYS* 3.3 16.4 + - - +
633C LYS* 6.3 0.2 - - - -
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Residues in contact with GLU 585 (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 SER* 1.3 72.3 - - - +
586C ALA* 1.3 60.6 + - - +
588C LYS* 2.8 41.2 + - - +
589C THR* 3.0 38.1 + - - +
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Residues in contact with ALA 586 (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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543C ALA* 4.1 9.4 - - + -
547C GLY* 4.2 15.3 - - - +
549C THR* 3.6 23.1 + - - +
584C SER* 3.3 8.4 + - - +
585C GLU* 1.3 78.4 - - - +
587C GLU* 1.3 57.6 + - - +
589C THR* 3.9 7.0 - - - -
590C GLY* 2.9 24.8 + - - -
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Residues in contact with GLU 587 (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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541C VAL* 3.4 27.7 - - - +
542C ARG* 3.6 1.5 - - - -
543C ALA* 3.0 37.7 + - + +
549C THR* 4.6 0.4 - - - -
564C ASN 2.9 10.6 - - - +
565C ASP* 3.4 10.3 - - - +
566C ALA* 3.7 10.9 - - + +
583C ALA* 3.4 3.2 - - + -
584C SER* 3.1 32.4 + - - +
585C GLU 3.1 0.6 - - - -
586C ALA* 1.3 76.4 - - - +
588C LYS* 1.3 58.7 + - - +
591C ALA* 3.0 28.4 + - - +
3002C CA 2.4 31.3 - - - -
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Residues in contact with LYS 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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566C ALA* 4.6 5.8 - - + -
577C LEU* 4.3 8.4 - - + +
579C VAL* 4.2 40.8 - - + +
583C ALA* 4.7 4.7 - - + +
584C SER 3.3 17.3 + - - +
585C GLU* 2.8 37.3 + - - +
587C GLU* 1.3 74.1 - - - +
589C THR* 1.3 65.6 + - - +
591C ALA* 3.2 7.3 + - - +
592C GLN* 3.0 27.3 + - - +
604C GLN* 5.8 1.1 - - - -
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Residues in contact with THR 589 (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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585C GLU* 3.0 23.7 + - - +
586C ALA* 3.9 7.4 - - - -
588C LYS* 1.3 75.7 - - - +
590C GLY* 1.3 61.1 + - - +
592C GLN* 3.4 16.7 + - - +
593C GLU* 3.1 42.1 + - + +
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Residues in contact with GLY 590 (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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516C PRO* 3.7 24.8 - - - +
541C VAL* 4.1 6.8 - - - +
549C THR* 4.3 9.2 - - - -
551C ALA* 5.3 0.3 - - - +
586C ALA 2.9 19.5 + - - -
587C GLU 3.8 1.3 - - - -
589C THR* 1.3 74.2 - - - +
591C ALA* 1.3 64.7 + - - +
593C GLU* 3.3 5.6 + - - +
594C LEU* 3.2 20.4 + - - +
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Residues in contact with ALA 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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541C VAL* 3.9 17.4 - - + +
566C ALA* 4.3 4.0 - - + -
568C VAL* 3.6 19.5 - - + +
577C LEU* 3.8 21.1 - - + -
587C GLU 3.0 19.0 + - - +
588C LYS 3.2 5.3 + - - +
590C GLY* 1.3 76.5 - - - +
592C GLN* 1.3 61.3 + - - +
594C LEU* 3.4 5.4 + - - +
595C LEU* 3.2 28.3 + - - +
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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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577C LEU* 4.3 10.4 - - + +
588C LYS* 3.0 15.3 + - - +
589C THR* 3.5 20.0 + - - +
590C GLY 3.2 0.2 - - - -
591C ALA* 1.3 77.2 - - - +
593C GLU* 1.3 63.0 + - + +
595C LEU* 3.2 12.9 + - + +
596C ARG* 3.1 38.7 + - - +
602C PRO* 5.6 5.4 - - + -
604C GLN* 3.9 18.2 + - - +
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Residues in contact with GLU 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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514C GLY 5.9 1.0 - - - +
515C LYS* 3.9 30.1 + - + +
516C PRO* 3.9 23.6 - - + -
518C ILE* 5.1 1.3 - - - -
589C THR* 3.1 29.2 + - + +
590C GLY* 3.3 6.7 + - - +
592C GLN* 1.3 74.5 - - - +
594C LEU* 1.3 64.3 + - - +
596C ARG* 3.2 38.4 + - - +
597C VAL* 3.2 26.5 + - - +
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Residues in contact with LEU 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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516C PRO* 5.0 0.2 - - - +
518C ILE* 3.9 40.1 - - + +
520C TYR* 5.2 2.5 - - + -
539C PHE* 3.5 42.8 - - + -
541C VAL* 4.6 2.5 - - + -
551C ALA* 4.0 15.3 - - + -
568C VAL* 3.9 17.9 - - + -
590C GLY 3.2 13.2 + - - +
591C ALA 3.5 7.2 - - - +
592C GLN 3.2 0.2 - - - -
593C GLU* 1.3 78.9 - - - +
595C LEU* 1.3 55.8 + - - +
597C VAL* 3.3 4.7 + - + +
598C LEU* 3.1 45.6 + - + +
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Residues in contact with LEU 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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568C VAL* 3.5 29.2 - - + -
570C LYS* 5.9 0.7 - - + -
575C ALA* 4.3 23.3 - - + -
576C TYR 4.8 0.7 - - - +
577C LEU* 3.9 25.4 - - + -
591C ALA 3.2 17.5 + - - +
592C GLN* 3.2 9.6 + - + +
594C LEU* 1.3 75.3 - - - +
596C ARG* 1.3 63.6 + - - +
598C LEU* 3.4 7.0 + - + +
599C ARG 3.3 3.5 + - - -
600C ALA* 3.2 48.0 + - + +
602C PRO* 3.7 30.3 - - + -
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Residues in contact with ARG 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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515C LYS* 5.4 3.2 - - - +
592C GLN* 3.1 30.8 + - - +
593C GLU* 3.2 40.6 + - - +
595C LEU* 1.3 77.1 - - - +
597C VAL* 1.3 61.6 + - + +
599C ARG* 3.2 16.6 + - - +
600C ALA 5.1 0.7 - - - -
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Residues in contact with VAL 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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440C GLN* 3.3 38.6 - - - +
518C ILE* 4.2 14.1 - - + -
520C TYR* 3.8 16.8 - - - +
593C GLU 3.2 13.8 + - - +
594C LEU* 3.3 8.7 + - + +
596C ARG* 1.3 77.2 - - + +
598C LEU* 1.3 60.7 + - + +
599C ARG* 3.2 10.4 + - - +
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Residues in contact with LEU 598 (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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520C TYR* 5.3 7.4 - - + +
537C ARG* 3.9 30.3 - - - +
539C PHE* 4.2 15.3 - - + -
568C VAL* 4.4 14.6 - - + -
570C LYS* 3.8 34.5 + - + -
594C LEU* 3.1 40.7 + - + +
595C LEU* 3.9 7.6 - - + +
596C ARG 3.3 0.4 - - - -
597C VAL* 1.3 75.3 - - + +
599C ARG* 1.3 70.4 + - - +
600C ALA* 3.2 11.6 + - + +
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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