Contacts of the helix formed by residues 430 - 451 (chain C) 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 C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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345C ALA* 4.5 2.4 - - - +
349C VAL* 4.0 7.3 - - - +
428C GLY* 2.9 25.9 + - - +
429C PHE* 1.3 76.2 + - - +
431C MET* 1.3 68.6 + - + +
432C ASP* 3.2 4.7 - - + +
433C PHE* 2.9 25.0 + - + +
434C ALA* 3.0 9.7 + - - +
14D LEU 4.4 2.8 - - - +
15D ASP* 3.3 21.6 - - - +
16D SER* 2.5 45.4 + - - -
17D ARG* 3.4 36.6 + - - +
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Residues in contact with MET 431 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
348C GLN* 3.5 42.4 - - + +
349C VAL* 3.7 18.8 - - + +
352C TYR* 3.6 38.8 - - + -
430C GLU* 1.3 73.1 + - + +
432C ASP* 1.3 60.8 + - - +
434C ALA* 2.9 7.7 + - - +
435C GLU* 2.9 30.2 + - + +
13D LEU 5.3 12.1 - - - +
14D LEU 5.8 4.6 + - - +
22D SER* 5.0 12.3 - - - +
24D SER* 6.1 2.2 - - - -
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Residues in contact with ASP 432 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
430C GLU* 3.1 3.9 + - + +
431C MET* 1.3 77.5 - - - +
433C PHE* 1.3 71.0 + - + +
435C GLU* 3.5 4.5 + - - +
436C LEU* 3.3 18.5 + - - +
17D ARG* 6.0 0.2 + - - -
23D ILE 4.4 2.6 - - - +
24D SER* 2.8 31.8 + - - -
25D THR* 2.9 37.3 + - - +
26D ILE* 3.4 31.9 - - + +
45D ILE* 5.5 1.7 - - - +
49D GLU* 4.6 5.5 - - - +
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Residues in contact with PHE 433 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57C ARG* 6.1 2.0 - - + -
404C TRP* 3.5 15.3 - + + -
428C GLY 3.8 13.0 - - - -
429C PHE* 3.7 22.7 - + + -
430C GLU* 2.9 30.3 + - + +
432C ASP* 1.3 82.9 - - + +
434C ALA* 1.3 60.8 + - - +
436C LEU* 3.3 5.5 + - - +
437C LEU 3.1 21.5 + - - -
17D ARG* 4.1 17.0 - - - -
45D ILE 5.3 0.7 - - - -
48D ASP* 3.7 38.4 - - + -
49D GLU* 4.0 12.1 - - + -
52D LEU* 4.0 36.8 - - + -
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Residues in contact with ALA 434 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
349C VAL* 4.1 11.4 - - + -
352C TYR* 4.6 9.9 - - + -
353C LEU* 3.8 26.2 - - + +
429C PHE* 3.8 16.3 - - + -
430C GLU 3.0 8.9 + - - +
431C MET* 2.9 12.2 + - - +
433C PHE* 1.3 75.4 - - - +
435C GLU* 1.3 59.0 - - - +
437C LEU* 3.4 3.4 + - - +
438C LEU* 2.9 31.9 + - - +
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Residues in contact with GLU 435 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
352C TYR* 2.0 44.9 + - + +
431C MET* 2.9 15.6 + - + +
432C ASP* 3.8 9.4 - - - +
433C PHE 3.4 0.2 - - - -
434C ALA* 1.3 75.4 - - - +
436C LEU* 1.3 62.8 + - - +
438C LEU* 3.3 13.2 + - - +
439C GLU* 3.0 39.2 + - - +
442C LYS* 5.5 4.0 + - - -
26D ILE* 4.4 27.6 - - + +
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Residues in contact with LEU 436 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58C GLN* 5.1 2.0 - - - +
404C TRP* 3.9 18.6 - - + -
432C ASP 3.3 12.6 + - - +
433C PHE* 3.6 9.0 - - - +
434C ALA 3.2 0.8 - - - -
435C GLU* 1.3 77.3 - - - +
437C LEU* 1.3 51.3 + - - +
439C GLU* 3.1 23.4 + - + +
440C ASP* 2.8 48.0 + - - +
26D ILE* 5.1 5.3 - - + +
52D LEU* 3.6 34.5 - - + -
92E GLN* 4.8 5.4 - - - +
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Residues in contact with LEU 437 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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60C LEU* 4.0 24.9 - - + -
353C LEU* 4.1 26.0 - - + -
357C ILE* 5.0 5.6 - - + -
399C LEU* 4.3 15.3 - - + -
404C TRP* 3.5 40.8 - - + -
406C VAL* 4.3 8.3 - - + -
423C ILE* 4.5 15.3 - - + -
429C PHE* 4.4 2.0 - - + -
433C PHE 3.1 13.3 + - - +
434C ALA* 3.4 10.8 - - - +
436C LEU* 1.3 72.8 - - - +
438C LEU* 1.3 51.3 + - + +
440C ASP* 2.7 23.2 + - - +
441C TYR* 2.8 24.1 + - + +
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Residues in contact with LEU 438 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
352C TYR* 3.8 5.4 - - + +
353C LEU* 4.0 17.5 - - + -
356C GLU* 3.4 44.9 - - + +
357C ILE* 4.2 20.0 - - + +
360C LEU* 4.8 8.5 - - + -
434C ALA 2.9 18.1 + - - +
435C GLU* 3.5 32.3 - - - +
437C LEU* 1.3 72.2 - - + +
439C GLU* 1.3 61.7 + - + +
441C TYR* 3.1 7.3 + - + +
442C LYS* 2.9 45.1 + - - +
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Residues in contact with GLU 439 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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402C ARG* 4.7 0.8 + - - -
435C GLU* 3.0 34.0 + - - +
436C LEU* 3.5 23.5 - - + +
438C LEU* 1.3 72.2 - - + +
440C ASP* 1.3 64.6 + - - +
442C LYS* 3.5 14.8 + - + +
443C ALA* 3.1 24.6 + - - +
26D ILE* 5.6 6.8 - - - +
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Residues in contact with ASP 440 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
399C LEU* 3.9 5.6 - - + -
402C ARG* 2.5 55.0 + - - +
404C TRP* 2.5 38.6 + - + +
436C LEU* 2.8 29.2 + - - +
437C LEU 2.7 13.1 + - - +
439C GLU* 1.3 72.6 - - - +
441C TYR* 1.3 53.1 + - - +
443C ALA* 3.6 1.6 + - - +
444C SER* 2.8 36.9 + - - -
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Residues in contact with TYR 441 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
357C ILE* 3.6 29.8 - - + +
360C LEU* 3.7 23.3 - - + -
363C TYR* 2.9 39.0 + + - -
380C PHE* 3.3 21.4 - + - -
395C LEU* 3.4 25.7 - - + +
399C LEU* 3.9 23.9 - - + +
406C VAL* 6.3 0.2 - - + -
421C MET* 4.4 6.1 - - - -
423C ILE* 5.4 2.2 - - + -
437C LEU* 2.8 18.2 + - + +
438C LEU* 3.3 14.4 - - + +
440C ASP* 1.3 75.3 - - - +
442C LYS* 1.3 65.8 + - - +
444C SER* 3.1 5.1 + - - -
445C LEU* 3.0 37.7 + - + +
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Residues in contact with LYS 442 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
356C GLU* 5.4 4.6 + - - -
360C LEU* 3.9 35.4 - - + -
435C GLU* 5.5 3.8 + - - -
438C LEU* 2.9 42.5 + - - +
439C GLU* 4.0 11.1 - - + +
441C TYR* 1.3 75.7 - - - +
443C ALA* 1.3 62.2 + - - +
445C LEU* 3.1 12.0 + - + +
446C LYS* 3.0 22.2 + - - +
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Residues in contact with ALA 443 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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402C ARG* 3.7 34.8 - - - +
439C GLU 3.1 17.5 + - - +
440C ASP 3.9 2.0 - - - +
442C LYS* 1.3 75.7 - - - +
444C SER* 1.3 57.5 + - - +
446C LYS* 3.5 10.0 + - - +
447C TYR* 3.0 28.4 + - - +
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Residues in contact with SER 444 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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395C LEU* 3.9 15.5 - - - -
398C ARG* 3.6 32.3 + - - +
399C LEU* 3.7 9.6 - - - +
402C ARG* 4.4 6.2 - - - +
440C ASP 2.8 21.2 + - - -
441C TYR* 3.4 6.3 - - - -
443C ALA* 1.3 75.0 - - - +
445C LEU* 1.3 58.6 + - - +
447C TYR* 3.4 6.9 + - - +
448C LEU* 2.9 35.5 + - - +
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Residues in contact with LEU 445 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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360C LEU* 3.7 32.8 - - + +
363C TYR* 4.1 4.3 - - - +
390C TYR* 3.5 42.2 - - + +
395C LEU* 4.2 14.8 - - + -
441C TYR* 3.0 41.5 + - + +
442C LYS* 3.1 9.2 + - - +
444C SER* 1.3 72.4 - - - +
446C LYS* 1.3 55.6 + - - +
448C LEU* 3.0 5.7 + - + +
449C SER* 2.7 37.0 + - - -
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Residues in contact with LYS 446 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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442C LYS 3.0 12.6 + - - +
443C ALA* 3.7 12.1 - - - +
445C LEU* 1.3 73.8 - - - +
447C TYR* 1.3 54.3 + - - +
449C SER* 2.9 10.2 + - - -
450C ASP* 2.7 57.0 + - - +
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Residues in contact with TYR 447 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
398C ARG* 3.7 31.6 + - - -
443C ALA 3.0 18.3 + - - +
444C SER* 3.6 8.7 - - - +
445C LEU 3.3 0.2 - - - -
446C LYS* 1.3 75.8 - - - +
448C LEU* 1.3 57.3 + - - +
450C ASP* 3.2 3.9 + - - -
451C HIS* 3.0 72.0 + + - +
454C LEU* 3.8 22.7 - - + -
397D GLU* 4.7 3.0 + - - -
457D ILE* 4.1 3.8 + - + +
458D ALA* 4.1 21.8 - - - +
459D GLN* 4.8 1.7 + - - +
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Residues in contact with LEU 448 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
389C GLY 4.4 8.3 - - - +
390C TYR* 3.7 41.7 - - + -
394C ASP* 3.9 20.0 - - + -
395C LEU* 4.1 25.1 - - + -
398C ARG* 3.8 20.4 - - + +
444C SER 2.9 27.2 + - - +
445C LEU* 3.0 5.8 + - + +
447C TYR* 1.3 74.3 - - - +
449C SER* 1.3 61.6 + - - +
451C HIS* 3.3 20.6 + - - +
452C PRO* 3.6 7.3 - - - +
454C LEU* 4.0 24.9 - - + -
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Residues in contact with SER 449 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
445C LEU 2.7 17.1 + - - -
446C LYS* 3.2 12.6 - - - -
448C LEU* 1.3 73.0 - - - +
450C ASP* 1.3 67.5 + - - +
451C HIS 3.6 0.2 + - - -
452C PRO* 3.9 12.3 - - - +
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Residues in contact with ASP 450 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
446C LYS* 2.7 46.0 + - - +
447C TYR* 3.2 5.1 + - - +
449C SER* 1.3 79.1 + - - +
451C HIS* 1.3 77.6 + - + +
452C PRO* 3.4 10.1 - - - +
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Residues in contact with HIS 451 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
447C TYR* 3.0 58.5 + + - +
448C LEU 3.3 5.4 + - - +
450C ASP* 1.3 94.1 + - + +
452C PRO* 1.3 55.1 - - - +
453C LYS* 3.1 3.5 - - - +
454C LEU* 2.8 41.9 + - + +
457D ILE* 3.7 37.4 + - + +
459D GLN* 3.7 22.8 + - + +
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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