Contacts of the helix formed by residues 432 - 457 (chain A) in PDB entry 4Z2C
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 432 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
430A THR* 3.3 2.7 + - - +
431A GLY* 1.3 74.6 - - - +
433A GLU* 1.3 62.7 + - - +
434A ARG 3.5 0.4 - - - -
435A ASP* 4.2 7.8 + - - +
436A LYS* 4.0 15.4 + - - +
398B GLU* 3.4 27.2 + - + +
399B THR* 5.8 1.8 - - + -
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Residues in contact with GLU 433 (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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384A LEU* 4.2 7.2 - - + -
427A ARG 4.6 2.4 - - - +
428A ARG* 3.0 73.6 + - + +
430A THR* 3.4 21.7 + - - +
431A GLY 3.3 1.2 - - - -
432A LEU* 1.3 77.7 - - - +
434A ARG* 1.3 67.9 + - - +
436A LYS* 3.3 14.4 + - - +
437A ILE* 3.2 30.4 + - + +
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Residues in contact with ARG 434 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
381A LEU* 3.6 20.4 + - - +
384A LEU* 4.6 27.7 - - + +
385A ASP* 2.4 45.2 + - - +
430A THR 4.4 2.9 + - - +
431A GLY 4.2 9.1 + - - +
432A LEU 3.5 0.2 - - - -
433A GLU* 1.3 79.3 - - - +
435A ASP* 1.3 59.2 + - + +
437A ILE* 3.2 6.0 + - - +
438A GLN* 2.9 67.4 + - - +
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Residues in contact with ASP 435 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
431A GLY 4.9 0.8 + - - -
432A LEU* 4.2 10.6 + - - +
433A GLU 3.4 0.4 - - - -
434A ARG* 1.3 82.7 - - + +
436A LYS* 1.3 56.8 + - - +
438A GLN* 3.2 10.2 + - - +
439A SER* 2.9 28.6 + - - -
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Residues in contact with LYS 436 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
432A LEU 4.0 10.5 + - - +
433A GLU* 3.3 18.8 + - - +
434A ARG 3.3 0.2 - - - -
435A ASP* 1.3 79.3 - - - +
437A ILE* 1.3 57.3 + - + +
439A SER* 2.5 26.9 + - - +
440A GLU* 2.9 19.8 + - + +
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Residues in contact with ILE 437 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
377A LEU* 3.6 31.6 - - + +
380A LEU* 4.4 12.6 - - + -
381A LEU* 3.6 20.9 - - + -
384A LEU* 3.7 30.5 - - + -
424A MET* 5.6 0.2 - - + -
428A ARG* 3.7 19.1 - - - +
433A GLU* 3.3 30.1 - - + +
434A ARG 3.2 7.4 + - - +
436A LYS* 1.3 77.0 - - + +
438A GLN* 1.3 56.2 + - - +
440A GLU* 3.5 9.8 + - - +
441A TYR* 2.9 28.3 + - - +
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Residues in contact with GLN 438 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
381A LEU* 4.0 16.1 - - + +
434A ARG* 2.9 53.8 + - - +
435A ASP* 3.3 13.2 - - - +
437A ILE* 1.3 76.7 - - - +
439A SER* 1.3 62.9 + - - +
441A TYR* 3.1 12.1 + - - +
442A ASP* 2.9 46.9 + - - +
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Residues in contact with SER 439 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
435A ASP 2.9 11.7 + - - -
436A LYS* 2.5 28.3 + - - +
438A GLN* 1.3 74.5 - - - +
440A GLU* 1.3 65.9 + - - +
442A ASP* 3.2 10.5 + - - +
443A ASP* 2.9 34.9 + - - +
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Residues in contact with GLU 440 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
373A ARG* 3.1 39.8 + - - +
377A LEU* 3.7 17.1 - - + +
428A ARG* 5.7 0.5 + - - -
436A LYS* 2.9 15.0 + - + +
437A ILE* 3.7 10.7 - - - +
439A SER* 1.3 82.7 + - - +
441A TYR* 1.3 56.9 + - - +
443A ASP* 3.4 9.8 + - + +
444A LEU* 2.9 39.0 + - + +
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Residues in contact with TYR 441 (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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374A ALA* 3.5 26.9 - - + -
377A LEU* 3.5 16.3 - - + +
378A GLU* 2.7 45.6 + - + -
381A LEU* 4.4 15.3 - - + -
437A ILE 2.9 18.3 + - - +
438A GLN* 3.1 12.8 + - - +
440A GLU* 1.3 77.4 - - - +
442A ASP* 1.3 67.9 + - - +
444A LEU* 3.1 6.2 + - - +
445A LEU* 2.9 58.8 + - + +
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Residues in contact with ASP 442 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
438A GLN* 2.9 41.6 + - - +
439A SER* 3.6 9.9 - - - +
441A TYR* 1.3 81.2 - - - +
443A ASP* 1.3 69.1 + - - +
445A LEU* 2.9 20.1 + - - +
446A ALA* 3.0 13.5 + - - +
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Residues in contact with ASP 443 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
439A SER* 2.9 25.4 + - - +
440A GLU* 3.6 8.5 - - - +
442A ASP* 1.3 76.6 - - - +
444A LEU* 1.3 57.8 + - + +
446A ALA* 3.3 9.3 + - - +
447A LEU* 2.9 29.5 + - - +
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Residues in contact with LEU 444 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
370A ALA* 4.0 27.8 - - + +
373A ARG* 3.6 30.3 - - + -
374A ALA* 3.7 27.4 - - + +
377A LEU* 3.7 21.3 - - + -
440A GLU* 2.9 18.8 + - + +
441A TYR* 3.1 9.2 + - - +
443A ASP* 1.3 77.4 - - + +
445A LEU* 1.3 57.3 + - - +
447A LEU* 3.4 12.1 + - + +
448A ILE* 2.9 37.6 + - - +
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Residues in contact with LEU 445 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
374A ALA* 5.1 3.6 - - + -
441A TYR* 2.9 63.7 + - + +
442A ASP* 2.9 12.8 + - - +
444A LEU* 1.3 77.9 - - + +
446A ALA* 1.3 62.8 + - - +
448A ILE* 3.3 13.0 + - + +
449A ALA* 2.9 24.3 + - - +
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Residues in contact with ALA 446 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
442A ASP 3.0 10.5 + - - +
443A ASP* 3.5 11.4 - - - +
445A LEU* 1.3 75.4 - - - +
447A LEU* 1.3 64.4 + - - +
449A ALA* 3.1 8.6 + - - +
450A ASP* 2.9 22.4 + - - +
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Residues in contact with LEU 447 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
366A ASP* 5.4 3.6 - - + +
370A ALA* 4.3 17.7 - - + -
443A ASP 2.9 17.2 + - - +
444A LEU* 3.7 13.7 - - + +
446A ALA* 1.3 75.9 - - - +
448A ILE* 1.3 58.6 + - - +
450A ASP* 3.2 11.9 + - + +
451A LEU* 2.9 61.2 + - + +
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Residues in contact with ILE 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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367A LYS* 4.7 7.5 - - + +
370A ALA* 3.7 24.0 - - + +
371A GLU* 3.6 53.8 - - + +
374A ALA* 4.1 9.9 - - + -
444A LEU 2.9 25.5 + - - +
445A LEU* 3.7 15.3 - - + +
447A LEU* 1.3 76.3 - - - +
449A ALA* 1.3 64.1 + - - +
451A LEU* 4.0 6.1 - - - +
452A ALA* 2.9 25.6 + - + +
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Residues in contact with ALA 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 LEU 2.9 12.9 + - - +
446A ALA* 3.1 12.1 + - - +
448A ILE* 1.3 77.6 - - - +
450A ASP* 1.3 62.3 + - - +
452A ALA* 3.3 5.8 + - - +
453A ASP* 2.9 23.8 + - - +
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Residues in contact with ASP 450 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
446A ALA 2.9 12.7 + - - +
447A LEU* 3.2 16.0 + - + +
449A ALA* 1.3 76.5 - - - +
451A LEU* 1.3 61.1 + - - +
453A ASP* 3.1 8.9 + - - +
454A ILE* 2.9 42.2 + - - +
460A ARG* 2.8 33.5 + - - -
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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
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363A THR* 3.6 23.1 - - + +
366A ASP* 3.6 23.8 - - + +
367A LYS* 3.5 38.8 - - + +
370A ALA* 4.9 0.4 - - + -
447A LEU* 2.9 51.1 + - + +
448A ILE* 4.0 4.7 - - - +
450A ASP* 1.3 74.1 - - - +
452A ALA* 1.3 56.7 + - - +
454A ILE* 3.2 15.8 + - + +
455A LEU* 2.9 35.3 + - - +
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Residues in contact with ALA 452 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
367A LYS* 4.2 23.0 - - - +
448A ILE* 2.9 21.7 + - + +
449A ALA* 3.6 6.5 - - - +
451A LEU* 1.3 75.6 - - - +
453A ASP* 1.3 57.3 + - - +
455A LEU* 3.3 6.4 + - - +
456A ALA* 2.9 29.2 + - - +
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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
----------------------------------------------------------
449A ALA 2.9 13.7 + - - +
450A ASP* 3.3 10.5 - - - +
452A ALA* 1.3 77.0 - - - +
454A ILE* 1.3 61.8 + - - +
456A ALA* 3.1 7.6 + - - +
457A LYS* 3.0 53.7 + - - +
460A ARG* 2.7 27.3 + - - +
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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
----------------------------------------------------------
359A VAL* 5.5 0.2 - - + -
363A THR* 4.0 20.4 - - + +
450A ASP* 2.9 36.2 + - - +
451A LEU* 3.5 22.9 - - + +
453A ASP* 1.3 74.7 - - - +
455A LEU* 1.3 59.4 + - + +
457A LYS 2.8 24.1 - - - +
460A ARG* 3.4 33.2 - - + +
461A VAL* 3.7 19.1 - - + +
464A ILE* 3.8 32.8 - - + -
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Residues in contact with LEU 455 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
360A VAL* 3.8 23.3 - - + +
363A THR* 3.6 19.3 - - + -
364A ARG* 3.7 44.4 - - + +
367A LYS* 3.8 29.6 - - + -
451A LEU 2.9 15.3 + - - +
452A ALA* 3.8 4.7 - - - +
453A ASP 3.3 0.2 - - - -
454A ILE* 1.3 77.9 - - + +
456A ALA* 1.3 61.7 + - - +
457A LYS 4.9 1.0 - - - -
458A PRO* 5.7 0.2 - - - +
461A VAL* 5.5 0.9 - - + -
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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
----------------------------------------------------------
452A ALA 2.9 17.2 + - - +
453A ASP* 3.1 10.5 + - - +
455A LEU* 1.3 79.0 - - - +
457A LYS* 1.3 67.3 + - + +
458A PRO* 3.8 7.0 - - - +
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Residues in contact with LYS 457 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
453A ASP* 3.0 41.1 + - - +
454A ILE 2.8 19.6 - - - +
455A LEU 3.3 1.3 - - - -
456A ALA* 1.3 85.8 + - + +
458A PRO* 1.3 67.7 - - + +
459A GLU* 4.4 7.6 - - + +
460A ARG* 3.4 25.6 + - + +
461A VAL* 3.7 3.7 + - - +
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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
------------------------------------------------------------
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) + - + + + + + -
------------------------------------------------------------
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