Contacts of the helix formed by residues 444 - 458 (chain A) in PDB entry 1Z57
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 444 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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442A SER* 3.0 16.9 + - - +
443A GLN* 1.3 80.7 - - - +
445A VAL* 1.3 69.8 + - - +
446A GLU* 2.9 32.7 + - - +
447A HIS* 2.9 30.3 + - + +
448A GLU 3.1 7.1 + - - -
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Residues in contact with VAL 445 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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443A GLN 3.5 1.8 + - - -
444A ASP* 1.3 85.0 + - - +
446A GLU* 1.3 63.7 + - + +
448A GLU* 3.2 14.4 + - + +
449A ARG* 2.9 63.8 + - + +
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Residues in contact with GLU 446 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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262A LEU* 3.8 15.2 - - + +
266A ARG* 2.9 38.6 + - - +
444A ASP* 2.9 16.0 + - - +
445A VAL* 1.3 80.7 - - + +
447A HIS* 1.3 56.9 + - - +
449A ARG* 2.4 45.4 + - - +
450A LEU* 3.1 25.1 + - - +
475A PRO 5.4 0.3 - - - +
476A PHE* 3.9 8.7 - - - +
479A LEU* 3.9 22.3 + - + +
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Residues in contact with HIS 447 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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262A LEU* 3.5 26.8 - - + +
373A TYR* 2.7 40.8 + + + +
440A MET* 3.6 5.8 - - + -
441A LEU* 4.7 5.2 - - + -
442A SER* 3.5 44.9 + - - +
444A ASP* 2.9 22.2 + - + +
446A GLU* 1.3 73.6 - - - +
448A GLU* 1.3 62.2 + - - +
450A LEU* 3.3 4.0 + - - +
451A PHE* 2.9 35.6 + - - +
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Residues in contact with GLU 448 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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437A LYS* 5.9 1.6 - - - +
440A MET* 3.6 16.1 - - + +
443A GLN* 3.0 40.0 + - - +
444A ASP 3.1 13.2 + - - +
445A VAL* 3.5 16.6 - - + +
447A HIS* 1.3 76.6 - - - +
449A ARG* 1.3 56.6 + - + +
451A PHE* 3.4 3.3 + - - +
452A ASP* 3.0 29.8 + - - +
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Residues in contact with ARG 449 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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445A VAL* 2.9 41.2 + - + +
446A GLU* 2.4 55.4 + - - +
447A HIS 3.3 0.4 - - - -
448A GLU* 1.3 73.3 - - + +
450A LEU* 1.3 64.9 + - - +
452A ASP* 3.3 3.6 + - - -
453A LEU* 3.2 17.2 + - - +
474A HIS* 3.2 15.8 - - - -
475A PRO* 3.9 32.3 + - + +
476A PHE* 3.9 17.3 - - - +
478A ASP* 6.1 2.5 - - - -
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Residues in contact with LEU 450 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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262A LEU* 3.7 14.6 - - + -
265A ILE* 4.5 10.5 - - + -
369A LEU* 4.4 15.3 - - + +
373A TYR* 3.5 41.3 - - + -
446A GLU 3.1 9.9 + - - +
447A HIS 3.3 6.9 + - - +
449A ARG* 1.3 75.2 - - - +
451A PHE* 1.3 62.5 + - + +
453A LEU* 3.1 6.0 + - + +
454A ILE* 2.9 49.8 + - + +
476A PHE* 3.6 40.9 - - + -
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Residues in contact with PHE 451 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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370A ILE* 5.7 4.3 - - + -
373A TYR* 3.4 50.0 - + + -
374A LEU* 5.5 1.3 - - + -
436A LEU* 3.5 50.5 - - + +
437A LYS* 4.3 11.2 - - + +
439A PHE* 4.3 6.5 - - + -
440A MET* 3.6 37.7 - - + -
447A HIS 2.9 22.4 + - - +
448A GLU* 4.2 4.0 - - - +
450A LEU* 1.3 84.3 - - + +
452A ASP* 1.3 58.9 + - - +
454A ILE* 3.9 13.9 - - + +
455A GLN* 3.0 30.5 + - - +
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Residues in contact with ASP 452 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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448A GLU 3.0 17.4 + - - +
449A ARG* 3.5 7.2 - - - +
450A LEU 3.2 0.2 - - - -
451A PHE* 1.3 75.6 - - - +
453A LEU* 1.3 64.1 + - - +
455A GLN* 3.5 6.5 + - - +
456A LYS* 2.9 53.0 + - - +
474A HIS* 2.8 25.0 + - + +
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Residues in contact with LEU 453 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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369A LEU* 4.7 9.0 - - + -
449A ARG 3.2 3.6 + - - +
450A LEU* 3.1 11.0 + - + +
452A ASP* 1.3 77.7 - - - +
454A ILE* 1.3 66.4 + - - +
456A LYS* 3.1 3.8 + - - -
457A MET* 2.9 48.3 + - + +
466A ILE* 4.1 11.0 - - + -
471A ALA* 4.0 24.0 - - + -
474A HIS* 3.5 34.0 + - + +
476A PHE* 4.2 14.8 - - + -
477A PHE* 3.8 33.2 - - + -
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Residues in contact with ILE 454 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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366A GLY* 4.1 5.8 - - - +
369A LEU* 4.2 23.1 - - + -
370A ILE* 3.7 37.5 - - + +
373A TYR* 5.6 0.2 - - + -
436A LEU* 4.0 11.0 - - + -
450A LEU* 2.9 50.3 + - + +
451A PHE* 3.9 18.2 - - + +
452A ASP 3.4 0.2 - - - -
453A LEU* 1.3 77.0 - - - +
455A GLN* 1.3 64.0 + - - +
457A MET* 3.1 8.4 + - - +
458A LEU* 2.9 38.4 + - + +
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Residues in contact with GLN 455 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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395A LEU* 5.6 5.1 - - + +
436A LEU* 4.0 20.4 - - + +
437A LYS* 6.4 2.0 - - + -
451A PHE 3.0 18.1 + - - +
452A ASP* 3.8 7.0 - - - +
454A ILE* 1.3 76.4 - - - +
456A LYS* 1.3 61.6 + - + +
458A LEU* 3.3 14.0 + - - +
459A GLU* 3.3 11.1 + - - +
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Residues in contact with LYS 456 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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452A ASP* 2.9 48.1 + - - +
453A LEU 3.1 7.9 + - - +
455A GLN* 1.3 77.0 - - + +
457A MET* 1.3 61.7 + - - +
459A GLU* 3.4 20.4 + - - +
465A ARG* 3.7 0.5 - - - +
466A ILE* 3.5 45.6 + - + +
474A HIS* 4.3 10.1 - - + -
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Residues in contact with MET 457 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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273A CYS* 3.7 29.4 - - - -
362A VAL* 3.8 17.3 - - + +
363A TRP* 3.6 11.4 - - - -
365A ILE* 3.9 12.3 - - + -
366A GLY* 3.9 28.3 - - - -
369A LEU* 4.1 11.4 - - + -
453A LEU* 2.9 44.1 + - + +
454A ILE* 3.1 7.4 + - - +
456A LYS* 1.3 76.3 - - - +
458A LEU* 1.3 59.6 + - - +
459A GLU 3.3 0.4 - - - -
465A ARG* 3.2 23.9 + - - -
466A ILE* 3.8 17.7 - - + -
468A LEU* 4.6 6.1 - - + -
471A ALA* 4.2 7.4 - - + -
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Residues in contact with LEU 458 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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363A TRP* 3.3 56.1 - - + +
366A GLY* 4.2 2.7 - - - -
367A CYS* 4.1 13.0 - - - +
370A ILE* 3.6 30.3 - - + -
378A VAL* 5.9 0.2 - - + -
379A PHE* 5.2 6.3 - - + -
394A ILE* 5.9 0.7 - - + -
395A LEU* 3.8 42.4 - - + +
436A LEU* 4.8 2.9 - - + -
454A ILE* 2.9 25.2 + - + +
455A GLN* 3.3 8.0 + - - +
456A LYS 3.2 0.2 - - - -
457A MET* 1.3 77.5 - - - +
459A GLU* 1.3 63.0 + - - +
460A TYR* 3.4 2.9 + - - -
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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