Contacts of the helix formed by residues 430 - 451 (chain A) in PDB entry 3FZ7
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 GLU 430 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
345A ALA* 4.4 2.4 - - - +
349A VAL* 4.1 6.8 - - - +
428A GLY* 3.0 24.9 + - - +
429A PHE* 1.3 78.1 + - - +
431A MET* 1.3 58.2 + - + +
432A ASP* 3.2 4.3 - - + +
433A PHE* 2.9 16.0 + - + +
434A ALA* 2.9 29.6 + - - +
14B LEU 4.4 2.9 - - - +
15B ASP* 3.5 17.2 - - - +
16B SER* 2.4 50.1 + - - -
17B ARG* 3.4 37.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 431 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
348A GLN* 3.9 37.2 - - + +
349A VAL* 3.9 17.8 - - + +
352A TYR* 3.7 37.4 - - + -
430A GLU* 1.3 75.7 + - + +
432A ASP* 1.3 63.5 + - - +
434A ALA* 3.0 7.6 + - - +
435A GLU* 2.9 25.1 + - + +
13B LEU* 4.2 33.2 - - + -
14B LEU 5.9 5.4 - - - +
22B SER* 4.8 13.7 - - - +
24B SER* 6.1 3.1 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 432 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
430A GLU* 3.2 3.1 - - + +
431A MET* 1.3 76.5 - - - +
433A PHE* 1.3 70.8 + - + +
435A GLU* 3.4 9.6 + - - +
436A LEU* 3.1 24.9 + - - +
17B ARG* 5.7 2.6 + - - -
23B ILE 4.2 4.0 - - - +
24B SER* 2.8 30.0 + - - -
25B THR* 3.0 38.5 + - - +
26B ILE* 3.3 21.4 - - + +
45B ILE* 5.5 1.7 - - - +
49B GLU* 4.6 4.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 433 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A ARG* 6.1 1.6 - - + -
404A TRP* 3.9 8.7 - + + -
428A GLY 3.9 13.0 - - - -
429A PHE* 3.6 23.3 - + + -
430A GLU* 2.9 29.2 + - + +
432A ASP* 1.3 81.5 - - + +
434A ALA* 1.3 61.2 + - - +
436A LEU* 3.0 8.5 + - + +
437A LEU* 2.8 28.6 + - - +
17B ARG* 4.1 18.2 - - - -
45B ILE 5.2 1.1 - - - -
48B ASP* 3.8 33.2 - - + -
49B GLU* 4.0 11.7 - - + -
52B LEU* 3.8 38.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 434 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
349A VAL* 3.9 27.4 - - + -
352A TYR* 4.4 11.2 - - + -
353A LEU* 3.8 17.8 - - + +
429A PHE* 3.8 11.1 - - + -
430A GLU 2.9 8.0 + - - +
431A MET* 3.0 10.7 + - - +
433A PHE* 1.3 75.9 - - - +
435A GLU* 1.4 60.8 + - - +
437A LEU* 3.2 5.6 + - - +
438A LEU* 3.0 27.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 435 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
352A TYR* 2.2 43.0 + - + -
431A MET* 2.9 15.4 + - + +
432A ASP* 3.6 13.7 - - - +
433A PHE 3.2 0.2 - - - -
434A ALA* 1.4 71.2 - - - +
436A LEU* 1.3 66.5 + - - +
438A LEU* 3.1 12.7 + - - +
439A GLU* 3.1 37.8 + - - +
442A LYS* 6.0 0.2 + - - -
26B ILE* 4.9 21.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 436 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A GLN* 5.1 1.1 - - - +
404A TRP* 4.0 18.6 - - + -
432A ASP 3.1 10.0 + - - +
433A PHE* 3.0 9.9 + - + +
435A GLU* 1.3 80.6 - - - +
437A LEU* 1.3 61.9 + - - +
438A LEU 3.2 0.2 + - - -
439A GLU* 3.2 25.0 + - - +
440A ASP* 3.0 35.9 + - - +
52B LEU* 3.7 34.5 - - + -
92C GLN* 4.7 6.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 437 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A LEU* 4.1 20.2 - - + -
353A LEU* 3.7 32.1 - - + -
357A ILE* 4.8 4.3 - - + -
399A LEU* 4.3 20.9 - - + -
404A TRP* 3.8 38.1 - - + +
406A VAL* 4.6 2.9 - - + -
423A ILE* 4.3 17.0 - - + -
429A PHE* 4.4 1.1 - - + -
433A PHE 2.8 12.4 + - - +
434A ALA* 3.2 11.2 + - - +
436A LEU* 1.3 76.3 - - - +
438A LEU* 1.3 53.1 + - + +
440A ASP* 3.1 2.3 + - - -
441A TYR* 2.7 37.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 438 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
352A TYR* 3.8 25.6 - - + +
353A LEU* 3.7 20.9 - - + -
356A GLU* 3.7 31.9 - - + +
357A ILE* 4.0 23.1 - - + +
360A LEU* 4.7 9.4 - - + -
434A ALA 3.0 11.3 + - - +
435A GLU* 3.1 18.1 + - - +
437A LEU* 1.3 75.8 - - + +
439A GLU* 1.3 55.2 + - - +
441A TYR* 3.1 6.6 + - + +
442A LYS* 2.8 52.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 439 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
402A ARG* 5.3 0.4 - - - +
435A GLU* 3.1 29.4 + - - +
436A LEU* 3.2 25.4 + - - +
438A LEU* 1.3 74.1 - - - +
440A ASP* 1.3 62.7 + - - +
442A LYS* 3.4 11.6 + - + +
443A ALA* 2.9 28.9 + - - +
26B ILE* 5.7 7.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 440 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
399A LEU* 3.9 6.1 - - + -
402A ARG* 2.9 49.7 + - - +
404A TRP* 2.9 33.4 + - + +
436A LEU* 3.0 31.3 + - - +
437A LEU 3.6 7.4 - - - +
439A GLU* 1.3 76.5 - - - +
441A TYR* 1.3 59.8 + - - +
443A ALA* 3.8 2.0 - - - +
444A SER* 3.0 34.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 441 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
357A ILE* 3.8 31.1 - - + +
360A LEU* 3.7 24.9 - - + -
363A TYR* 2.8 36.2 + - - -
380A PHE* 3.5 17.0 - + - -
395A LEU* 3.3 27.3 - - + +
399A LEU* 4.0 23.5 - - + +
406A VAL* 6.1 0.4 - - + -
421A MET* 4.5 6.7 - - - -
423A ILE* 5.3 2.2 - - + -
437A LEU* 2.7 21.6 + - + +
438A LEU* 3.3 13.5 - - + +
440A ASP* 1.3 77.3 - - - +
442A LYS* 1.3 61.2 + - - +
444A SER* 3.2 4.9 + - - -
445A LEU* 3.0 34.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 442 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
356A GLU* 5.0 10.6 + - - -
360A LEU* 3.9 37.5 - - + -
435A GLU* 6.0 0.2 + - - -
438A LEU* 2.8 36.9 + - - +
439A GLU* 3.8 8.9 - - + +
441A TYR* 1.3 73.2 - - - +
443A ALA* 1.3 62.9 + - - +
445A LEU* 3.0 20.4 + - + +
446A LYS* 3.1 14.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 443 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
402A ARG* 3.7 37.0 - - - +
439A GLU 2.9 17.1 + - - +
440A ASP 4.0 2.2 - - - +
441A TYR 3.3 0.2 - - - -
442A LYS* 1.3 77.3 - - - +
444A SER* 1.3 57.6 + - - +
446A LYS* 3.8 8.1 - - - +
447A TYR* 3.0 28.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 444 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
395A LEU* 3.9 14.6 - - - -
398A ARG* 3.3 39.5 + - - +
399A LEU* 3.8 6.2 - - - +
402A ARG* 5.0 4.2 + - - +
440A ASP 3.0 18.8 + - - -
441A TYR* 3.4 6.5 - - - -
443A ALA* 1.3 75.8 - - - +
445A LEU* 1.3 65.9 + - - +
447A TYR* 3.2 5.8 + - - +
448A LEU* 2.9 28.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 445 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
360A LEU* 3.6 45.3 - - + +
390A TYR* 3.6 39.7 - - + +
395A LEU* 4.0 18.8 - - + -
441A TYR* 3.0 29.2 + - + +
442A LYS* 3.0 11.9 + - + +
444A SER* 1.3 75.5 - - - +
446A LYS* 1.3 51.8 + - - +
448A LEU* 3.1 7.3 + - + +
449A SER* 2.8 35.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 446 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
442A LYS 3.1 12.3 + - - +
443A ALA* 3.8 10.3 - - - +
445A LEU* 1.3 74.9 - - - +
447A TYR* 1.3 58.4 + - - +
449A SER* 3.1 8.9 + - - -
450A ASP* 2.9 56.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 447 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
398A ARG* 3.3 41.6 + - + +
443A ALA 3.0 18.0 + - - +
444A SER* 3.5 7.2 - - - +
446A LYS* 1.3 77.7 - - - +
448A LEU* 1.3 57.3 + - - +
450A ASP* 3.0 4.3 + - + -
451A HIS* 2.9 72.0 + + - +
454A LEU* 3.8 14.1 - - + -
397B GLU* 4.4 3.7 + - - -
457B ILE* 4.2 6.0 + - + +
458B ALA* 4.2 20.4 - - - +
459B GLN 5.0 1.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 448 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
389A GLY 4.5 8.9 - - - +
390A TYR* 3.7 39.9 - - + -
394A ASP* 4.1 15.5 - - + -
395A LEU* 4.1 25.1 - - + -
398A ARG* 3.8 21.1 - - + -
444A SER 2.9 17.0 + - - +
445A LEU* 3.4 8.5 - - + +
447A TYR* 1.3 75.5 - - - +
449A SER* 1.3 61.4 + - - +
451A HIS 3.2 20.8 - - - +
452A PRO* 3.6 6.6 - - - +
454A LEU* 3.6 36.3 - - + -
455A GLN 5.3 0.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 449 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
445A LEU 2.8 16.4 + - - -
446A LYS* 3.1 13.0 + - - -
448A LEU* 1.3 74.0 - - - +
450A ASP* 1.3 66.0 + - - +
452A PRO* 3.9 13.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 450 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
446A LYS* 2.9 48.5 + - - +
447A TYR* 3.0 5.9 + - + +
449A SER* 1.3 85.0 + - - +
451A HIS* 1.3 79.7 + - + +
452A PRO* 3.3 9.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 451 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
447A TYR* 2.9 62.4 + + - +
448A LEU 3.2 9.6 - - - +
450A ASP* 1.3 95.7 + - + +
452A PRO* 1.4 65.7 - - - +
453A LYS* 3.1 4.3 - - + +
454A LEU* 3.1 24.6 + - + +
457B ILE* 3.8 40.6 + - + -
459B GLN* 4.9 11.9 + - - +
----------------------------------------------------------
Back to top of page
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