Contacts of the helix formed by residues 451 - 469 (chain A) in PDB entry 5FLZ
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 ARG 451 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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448A LYS* 3.9 45.8 - - - +
449A HIS* 3.2 33.3 + - - +
450A TYR* 1.3 90.2 - - - +
452A ASN* 1.3 63.9 + - - +
453A ASP* 3.3 21.1 - - - +
454A ASN* 3.1 32.8 + - - +
455A ASN 3.6 2.1 + - - -
490A THR* 4.1 13.5 - - + -
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Residues in contact with ASN 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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450A TYR* 3.6 15.2 + - - -
451A ARG* 1.3 72.1 - - - +
453A ASP* 1.4 62.6 + - - +
455A ASN* 3.4 17.8 - - - +
456A ALA* 3.6 5.9 + - - +
490A THR* 3.4 32.0 + - - +
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Residues in contact with ASP 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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445A GLU* 4.9 2.3 - - - +
451A ARG* 3.5 23.6 - - - +
452A ASN* 1.4 76.4 + - - +
454A ASN* 1.4 67.0 + - - +
456A ALA* 3.0 27.0 + - - +
457A ASN* 2.9 28.5 + - - +
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Residues in contact with ASN 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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442A ASN* 4.3 0.2 - - - +
445A GLU* 3.2 52.2 - - + +
448A LYS* 4.5 5.4 - - - +
449A HIS 2.8 27.5 - - - +
450A TYR* 4.0 0.2 - - - -
451A ARG* 3.1 30.3 + - - +
453A ASP* 1.4 85.9 + - - +
455A ASN* 1.4 52.7 + - - +
457A ASN 3.4 1.0 + - - -
458A TYR* 2.9 33.2 + - - +
486A PHE* 3.8 15.8 - - + -
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Residues in contact with ASN 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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450A TYR* 3.4 34.1 + - + +
451A ARG 3.6 0.4 + - - -
452A ASN 3.4 11.7 - - - +
454A ASN* 1.4 76.0 - - - +
456A ALA* 1.4 54.3 + - - +
458A TYR* 3.5 2.4 - - - +
459A ASP* 2.6 62.7 + - - +
486A PHE* 3.8 32.0 + - - +
488A THR* 5.9 0.6 - - - +
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Residues in contact with ALA 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 ASN 3.6 5.6 + - - +
453A ASP* 3.0 16.4 + - - +
455A ASN* 1.4 76.9 - - - +
457A ASN* 1.3 71.1 + - - +
459A ASP* 3.5 8.6 + - - +
460A LYS* 3.1 21.2 + - - +
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Residues in contact with ASN 457 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
442A ASN* 3.4 19.3 - - - +
445A GLU* 3.1 33.6 - - - +
453A ASP* 2.9 27.4 + - - +
454A ASN 3.6 0.2 - - - +
456A ALA* 1.3 79.7 - - - +
458A TYR* 1.3 64.0 + - - +
460A LYS* 3.1 9.5 + - - +
461A LEU* 3.1 22.1 + - + +
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Residues in contact with TYR 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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438A PHE* 4.0 27.4 - + - -
442A ASN* 3.4 10.3 + - - +
446A LEU* 4.8 13.9 - - + -
454A ASN 2.9 18.5 + - - +
455A ASN* 3.5 9.2 - - - +
457A ASN* 1.3 75.4 - - - +
459A ASP* 1.3 68.6 + - - +
461A LEU* 3.3 7.7 + - - +
462A LEU* 3.1 35.6 + - + +
484A ILE* 3.0 44.3 - - + +
485A GLN 3.0 22.5 + - - -
486A PHE* 3.8 31.0 - + + -
560A LEU* 3.9 18.9 - - + +
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Residues in contact with ASP 459 (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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455A ASN* 2.6 51.4 + - - +
456A ALA* 3.7 8.6 - - - +
458A TYR* 1.3 87.7 - - - +
460A LYS* 1.4 54.1 + - - +
462A LEU* 3.2 16.4 - - + +
463A GLN* 3.0 38.1 + - - +
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Residues in contact with LYS 460 (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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456A ALA 3.1 13.2 + - - +
457A ASN* 3.1 14.6 + - - +
459A ASP* 1.4 68.9 - - - +
461A LEU* 1.4 64.3 + - + +
463A GLN* 3.2 19.5 + - + +
464A ASN* 2.8 59.9 + - - +
832B ASN 5.2 3.8 + - - +
833B ASP* 4.2 19.7 + - - +
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Residues in contact with LEU 461 (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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438A PHE* 3.6 29.2 - - + +
441A LYS* 3.4 59.2 - - + +
442A ASN* 3.4 21.3 - - + +
446A LEU* 6.3 0.4 - - + -
457A ASN* 3.1 20.6 + - + +
458A TYR* 3.3 6.7 + - - +
460A LYS* 1.4 79.2 - - + +
462A LEU* 1.4 63.8 + - - +
464A ASN* 3.4 11.6 + - - +
465A PHE* 3.1 41.9 + - + -
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Residues in contact with LEU 462 (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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438A PHE* 4.6 11.2 - - + -
458A TYR* 3.1 28.7 + - + +
459A ASP* 3.2 19.3 - - + +
460A LYS 3.2 0.2 - - - -
461A LEU* 1.4 77.9 - - - +
463A GLN* 1.4 62.2 + - + +
465A PHE* 3.4 7.0 + - + -
466A GLU* 3.2 36.2 + - - +
479A ARG* 3.9 8.9 + - - +
483A MET* 4.8 8.1 - - + -
484A ILE* 3.3 64.2 - - + +
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Residues in contact with GLN 463 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
459A ASP* 3.0 27.4 + - - +
460A LYS* 3.2 21.1 + - + +
462A LEU* 1.4 70.1 - - + +
464A ASN* 1.3 68.2 + - - +
466A GLU* 3.3 23.2 + - - +
467A LEU* 3.4 19.0 + - + +
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Residues in contact with ASN 464 (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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441A LYS* 4.6 8.6 - - - +
460A LYS* 2.8 52.8 + - - +
461A LEU* 3.7 14.5 - - - +
463A GLN* 1.3 76.2 - - - +
465A PHE* 1.4 60.1 + - - +
467A LEU* 3.1 33.0 + - - +
468A GLU* 3.3 24.0 + - - +
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Residues in contact with PHE 465 (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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434A ASN* 3.3 29.8 - - - +
437A LYS* 4.1 10.3 - - + -
438A PHE* 3.7 40.2 - + + -
441A LYS* 3.3 34.8 - - - -
461A LEU 3.1 28.5 + - - +
462A LEU* 4.0 5.8 - - + +
463A GLN 3.4 0.4 - - - -
464A ASN* 1.4 74.2 - - - +
466A GLU* 1.3 57.3 + - - +
468A GLU* 3.0 40.2 + - + +
469A ARG* 3.6 10.8 + - - +
479A ARG* 3.5 30.6 + - - +
484A ILE* 6.5 0.4 - - + -
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Residues in contact with GLU 466 (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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462A LEU* 3.2 24.4 + - - +
463A GLN* 3.6 17.3 - - - +
464A ASN 3.3 0.4 - - - -
465A PHE* 1.3 74.6 - - - +
467A LEU* 1.3 61.7 + - + +
476A ASN* 4.1 15.2 - - - +
479A ARG* 2.9 60.3 - - + +
480A GLN* 4.2 6.1 - - - +
483A MET* 4.2 18.8 - - - +
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Residues in contact with LEU 467 (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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463A GLN* 3.5 17.3 - - + +
464A ASN* 3.1 23.6 + - - +
466A GLU* 1.3 81.5 - - + +
468A GLU* 1.4 58.8 + - + +
469A ARG 3.8 3.0 - - - +
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Residues in contact with GLU 468 (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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441A LYS* 4.5 3.1 + - - -
464A ASN* 3.3 29.5 - - - +
465A PHE* 3.0 37.5 + - + +
467A LEU* 1.4 78.8 - - + +
469A ARG* 1.4 58.8 + - + +
471A SER* 5.5 1.4 + - - -
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Residues in contact with ARG 469 (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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424A GLN* 3.1 27.4 + - - -
425A ILE* 5.1 8.5 - - - +
430A GLN 5.3 1.4 + - - -
431A SER* 3.9 18.9 + - - +
434A ASN* 3.4 27.3 - - - +
465A PHE* 3.6 4.1 + - - +
466A GLU 4.6 2.9 - - - +
467A LEU 4.7 1.6 - - - -
468A GLU* 1.4 78.2 + - + +
470A GLN* 1.4 78.0 + - + +
471A SER* 4.8 2.2 - - - -
476A ASN* 3.3 9.7 - - - +
478A MET* 4.4 14.8 - - - +
479A ARG* 3.4 47.1 - - + +
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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