Contacts of the helix formed by residues 435 - 452 (chain A) in PDB entry 4HXG
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 LEU 435 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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431A GLU 4.6 2.5 - - - +
432A ARG* 2.9 58.6 + - - +
433A THR 4.0 3.8 - - - +
434A GLY* 1.3 85.7 - - - +
436A GLU* 1.3 78.5 + - - +
437A ASP* 3.4 1.2 + - - -
438A PHE* 3.5 1.7 + - - +
439A GLN* 3.1 27.1 + - - +
474A TRP* 4.9 5.6 - - + -
521A ASN* 6.1 0.2 - - - +
525A LEU* 4.0 21.8 - - + -
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Residues in contact with GLU 436 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
359A ILE* 3.9 19.7 - - + -
416A ARG* 3.3 32.2 - - - +
428A ARG 4.6 2.6 - - - +
432A ARG* 2.9 60.1 + - + +
435A LEU* 1.3 80.4 - - - +
437A ASP* 1.3 56.3 + - - +
439A GLN* 2.8 12.4 + - - +
440A ASP* 2.7 35.5 + - - +
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Residues in contact with ASP 437 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
388A PRO* 5.4 0.2 - - - +
415A PRO* 3.5 10.7 - - + +
416A ARG* 3.6 25.7 - - + +
429A VAL* 3.6 14.8 - - + +
432A ARG* 4.8 2.0 - - - +
434A GLY* 3.1 22.0 + - - -
435A LEU 3.4 2.9 + - - -
436A GLU* 1.3 79.4 - - - +
438A PHE* 1.3 77.5 + - - +
440A ASP* 3.3 14.3 - - - +
441A ILE* 3.2 26.5 + - - +
467A TYR* 2.6 36.1 + - - -
471A MET* 3.8 7.6 - - - -
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Residues in contact with PHE 438 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
434A GLY 3.2 22.7 - - - +
435A LEU 3.5 1.5 + - - +
436A GLU 3.1 0.4 - - - -
437A ASP* 1.3 84.6 + - - +
439A GLN* 1.3 72.5 + - - +
441A ILE* 3.1 11.9 + - + +
442A LEU* 3.0 54.9 + - + +
462A ILE* 5.9 0.9 - - + -
471A MET* 3.8 26.0 - - + -
474A TRP* 3.7 15.3 - + + -
475A ALA* 4.1 33.0 - - + -
478A GLN* 3.8 23.8 - - + -
479A SER* 4.2 11.4 - - - -
482A PHE* 5.0 2.0 - + - -
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Residues in contact with GLN 439 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
359A ILE* 4.3 18.8 - - + -
435A LEU 3.1 16.0 + - - +
436A GLU* 2.8 13.9 + - - +
438A PHE* 1.3 85.4 - - - +
440A ASP* 1.3 50.7 + - - +
442A LEU* 3.1 28.0 + - - +
443A ASN* 2.8 52.2 + - - +
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Residues in contact with ASP 440 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
356A PHE* 3.2 12.0 - - - -
358A SER* 2.7 29.9 + - - -
363A LEU* 3.5 18.2 - - + +
413A VAL* 4.8 0.7 - - - -
415A PRO* 3.5 11.2 - - + +
416A ARG* 2.7 60.4 + - - +
436A GLU 2.7 18.2 + - - +
437A ASP* 3.3 9.0 - - - +
439A GLN* 1.3 73.5 - - - +
441A ILE* 1.3 56.5 + - - +
443A ASN 3.4 0.2 + - - -
444A GLY 2.8 25.5 + - - -
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Residues in contact with ILE 441 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
382A VAL* 4.2 16.6 - - + -
384A VAL* 3.9 21.5 - - + -
413A VAL* 4.0 25.4 - - + +
415A PRO* 4.1 13.9 - - + -
437A ASP 3.2 15.2 + - - +
438A PHE* 3.1 13.0 + - + +
440A ASP* 1.3 72.6 - - - +
442A LEU* 1.3 63.3 + - + +
444A GLY* 3.9 0.3 - - - -
445A ILE* 2.9 47.1 + - + +
462A ILE* 5.1 5.2 - - + -
471A MET* 3.8 35.9 - - + -
482A PHE* 6.0 0.4 - - + -
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Residues in contact with LEU 442 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
438A PHE* 3.0 47.2 + - + +
439A GLN* 3.5 35.2 - - - +
441A ILE* 1.3 75.8 - - + +
443A ASN* 1.3 61.2 + - - +
445A ILE* 3.1 8.3 + - + +
446A GLU* 2.9 27.3 + - - +
479A SER* 4.6 7.9 - - - +
481A LEU* 4.5 14.0 - - + +
482A PHE* 4.3 22.2 - - + -
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Residues in contact with ASN 443 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
356A PHE* 3.8 3.6 - - + +
357A LYS 3.8 17.0 - - - +
358A SER* 2.9 33.0 + - - +
359A ILE* 4.1 8.1 - - - +
439A GLN* 2.8 34.1 + - - +
440A ASP 3.8 3.1 - - - +
442A LEU* 1.3 71.1 - - - +
444A GLY* 1.3 65.2 + - - +
446A GLU* 3.3 9.1 + - - +
447A GLU* 3.1 23.6 + - - +
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Residues in contact with GLY 444 (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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354A PHE* 3.5 16.0 - - - -
356A PHE* 3.2 34.0 - - - -
411A VAL* 5.5 1.3 - - - -
413A VAL* 4.4 8.3 - - - -
440A ASP 2.8 12.7 + - - -
441A ILE 3.9 1.6 - - - -
442A LEU 3.3 0.2 - - - -
443A ASN* 1.3 76.0 - - - +
445A ILE* 1.3 57.8 + - - +
447A GLU 3.5 1.0 + - - -
448A PHE* 3.1 21.5 + - - +
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Residues in contact with ILE 445 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
380A VAL* 6.1 1.1 - - + -
382A VAL* 3.6 33.4 - - + -
411A VAL* 4.8 8.1 - - + -
413A VAL* 6.3 0.9 - - + -
441A ILE* 2.9 35.9 + - + +
442A LEU* 3.1 10.7 + - - +
444A GLY* 1.3 72.8 - - - +
446A GLU* 1.3 66.9 + - - +
448A PHE* 3.2 10.8 + - + +
449A LEU* 3.0 42.2 + - + +
460A ILE* 4.7 7.2 - - + -
481A LEU* 4.4 15.5 - - + -
482A PHE* 4.0 24.5 - - + -
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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
----------------------------------------------------------
442A LEU 2.9 12.9 + - - +
443A ASN* 3.5 14.8 - - - +
444A GLY 3.3 0.4 - - - -
445A ILE* 1.3 77.6 - - - +
447A GLU* 1.3 63.5 + - - +
449A LEU* 3.1 19.0 + - - +
450A ARG* 3.2 13.7 + - + +
457A ARG* 3.7 22.0 + - - -
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Residues in contact with GLU 447 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
354A PHE* 3.8 14.6 - - + -
355A ARG 4.2 8.0 - - - +
356A PHE* 3.7 33.7 - - + -
443A ASN 3.1 9.4 + - - +
444A GLY 3.8 3.1 - - - +
446A GLU* 1.3 79.4 - - - +
448A PHE* 1.3 63.4 + - - +
450A ARG* 2.8 44.8 + - - +
451A LEU* 3.0 29.8 + - + +
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Residues in contact with PHE 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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354A PHE* 4.1 13.4 - - + -
367A TYR* 3.6 51.4 - + + -
380A VAL* 3.9 18.2 - - + -
409A TYR* 3.5 33.7 - + + -
411A VAL* 4.0 17.5 - - + -
444A GLY 3.1 14.7 + - - +
445A ILE* 3.4 11.2 - - + +
446A GLU 3.1 0.2 - - - -
447A GLU* 1.3 79.1 - - - +
449A LEU* 1.3 82.4 + - + +
451A LEU* 3.2 8.3 + - - +
452A GLU* 3.0 29.2 + - + +
455A ALA* 3.6 12.6 - - + -
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Residues in contact with LEU 449 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
380A VAL* 4.9 0.9 - - + -
445A ILE* 3.0 25.3 + - + +
446A GLU* 3.1 14.3 + - - +
448A PHE* 1.3 97.9 - - + +
450A ARG* 1.3 65.0 + - - +
452A GLU 3.3 20.7 - - - +
453A PRO* 3.7 5.2 - - - +
455A ALA* 4.0 14.8 - - + +
457A ARG* 3.4 52.4 + - + +
460A ILE* 4.0 31.0 - - + -
481A LEU* 5.4 6.5 - - + -
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Residues in contact with ARG 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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446A GLU* 3.2 11.9 + - + +
447A GLU* 2.8 46.5 + - - +
449A LEU* 1.3 78.7 - - - +
451A LEU* 1.3 82.8 + - - +
452A GLU 3.4 0.5 + - - -
453A PRO* 4.0 8.5 - - - +
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Residues in contact with LEU 451 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
354A PHE* 3.7 43.7 - - + -
367A TYR* 4.4 14.2 + - + +
447A GLU* 3.0 24.6 + - + +
448A PHE* 3.2 8.7 + - - +
450A ARG* 1.3 105.6 - - - +
452A GLU* 1.3 71.5 + - + +
453A PRO* 3.7 5.6 - - - +
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Residues in contact with GLU 452 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
367A TYR* 2.7 46.4 + - + -
369A LYS* 3.7 20.9 + - - +
409A TYR* 2.8 36.2 + - + +
448A PHE* 3.0 20.4 + - + +
449A LEU* 3.3 10.4 - - - +
450A ARG 3.2 0.6 - - - -
451A LEU* 1.3 86.2 - - - +
453A PRO* 1.3 64.0 - - - +
454A GLN* 3.0 10.4 + - - +
455A ALA* 3.0 15.8 + - - +
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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