Contacts of the helix formed by residues 435 - 456 (chain C) in PDB entry 1FPY
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 THR 435 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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101C ASP* 3.1 36.1 + - + +
110C ARG* 3.5 19.3 - - - +
429C LYS* 4.8 1.6 - - - -
432C GLY* 4.8 3.4 - - - +
434C PHE* 1.3 78.2 - - - +
436C ASP* 1.3 64.3 + - - +
437C GLU* 2.7 19.5 + - - -
438C ALA* 3.1 19.3 + - + +
439C ILE* 3.0 26.9 + - - +
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Residues in contact with ASP 436 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
425C ARG* 3.1 21.9 + - - +
429C LYS* 3.0 39.2 + - - +
435C THR* 1.3 72.7 - - - +
437C GLU* 1.3 56.5 + - + +
439C ILE* 3.0 7.1 + - - +
440C ASP* 2.6 47.0 + - - +
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Residues in contact with GLU 437 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101C ASP* 3.4 20.5 - - - +
102C ARG* 3.6 25.9 + - - +
435C THR* 2.7 26.3 + - - -
436C ASP* 1.3 75.2 + - + +
438C ALA* 1.3 59.5 + - - +
440C ASP* 3.7 11.2 + - + +
441C ALA* 2.7 35.5 + - - +
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Residues in contact with ALA 438 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C THR* 6.0 0.3 - - - +
101C ASP 3.4 24.7 - - - +
102C ARG* 3.7 19.7 - - + +
107C ILE* 4.7 9.6 - - + -
434C PHE* 5.1 3.1 - - + -
435C THR* 3.1 29.5 + - - +
437C GLU* 1.3 79.1 + - - +
439C ILE* 1.3 63.5 + - + +
441C ALA* 3.5 2.8 + - - +
442C TYR* 3.2 20.1 + - - +
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Residues in contact with ILE 439 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
421C LEU* 4.1 21.1 - - + +
425C ARG* 4.0 25.1 - - + +
428C LEU* 4.2 16.4 - - + -
429C LYS* 4.2 14.6 - - + -
434C PHE* 3.6 41.5 - - + -
435C THR 3.0 11.2 + - - +
436C ASP 3.0 6.9 + - - +
438C ALA* 1.3 75.8 - - - +
440C ASP* 1.3 64.4 + - - +
442C TYR* 3.5 5.9 + - - +
443C ILE* 3.1 39.9 + - + +
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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
----------------------------------------------------------
425C ARG* 3.0 32.2 + - - -
436C ASP* 2.6 34.8 + - - +
437C GLU* 3.2 9.5 + - + +
439C ILE* 1.3 73.6 - - - +
441C ALA* 1.3 57.8 + - - +
443C ILE* 3.6 9.5 + - - +
444C ALA* 3.1 25.8 + - - +
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Residues in contact with ALA 441 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C THR* 6.1 1.8 - - + +
56C GLY* 4.1 23.1 - - - +
102C ARG* 4.3 17.5 - - + +
437C GLU 2.7 21.8 + - - +
438C ALA 3.6 4.3 - - - +
440C ASP* 1.3 70.7 - - - +
442C TYR* 1.3 66.2 + - - +
444C ALA* 3.1 17.0 + - - +
445C LEU* 3.1 19.7 + - + +
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Residues in contact with TYR 442 (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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24C THR* 3.7 32.9 - - + +
310C ALA* 2.8 30.8 + - + -
311C LEU* 3.6 21.6 + - + -
314C PRO* 3.3 19.8 - - - +
366C ASN* 5.3 3.7 - - + +
369C LEU* 3.5 33.9 - - + -
418C LEU* 4.5 6.5 - - + -
421C LEU* 4.4 10.3 - - + -
438C ALA 3.2 11.1 + - - +
439C ILE* 3.7 10.5 - - - +
440C ASP 3.4 0.2 - - - -
441C ALA* 1.3 77.5 - - - +
443C ILE* 1.3 68.7 + - - +
445C LEU* 3.1 15.4 + - + +
446C ARG* 3.1 46.2 + - + +
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Residues in contact with ILE 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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418C LEU* 4.0 17.2 - - + +
421C LEU* 3.8 18.8 - - + -
422C ASP* 4.0 31.0 - - + +
425C ARG* 4.4 6.5 - - - +
439C ILE* 3.1 34.4 + - + +
440C ASP* 3.8 8.5 - - - +
441C ALA 3.3 0.2 - - - -
442C TYR* 1.3 81.3 - - - +
444C ALA* 1.3 58.6 + - - +
446C ARG* 3.5 1.6 + - - +
447C ARG* 2.9 68.3 + - + +
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Residues in contact with ALA 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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440C ASP 3.1 14.3 + - - +
441C ALA* 3.1 14.0 + - - +
443C ILE* 1.3 77.4 - - - +
445C LEU* 1.3 62.8 + - + +
447C ARG* 3.3 8.6 + - - +
448C GLU* 3.2 22.9 + - - +
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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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24C THR* 3.6 35.9 - - + -
25C LYS* 4.2 27.3 + - + +
55C GLY* 4.1 16.2 - - - -
56C GLY* 3.8 23.3 - - - +
441C ALA* 3.1 13.3 + - + +
442C TYR* 3.1 7.3 + - + +
444C ALA* 1.3 76.1 - - + +
446C ARG* 1.3 70.5 + - + +
448C GLU* 2.9 40.9 - - - +
449C GLU* 3.2 11.3 + - - +
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Residues in contact with ARG 446 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C LYS* 3.1 46.7 + - - +
314C PRO* 3.3 37.5 + - + +
315C THR* 5.3 1.0 - - - +
364C ALA 4.6 2.4 + - - -
366C ASN 5.3 0.4 - - - +
414C LEU* 4.2 8.4 - - + +
418C LEU* 3.9 23.3 - - + -
442C TYR* 3.1 52.6 + - + +
443C ILE 3.9 0.2 - - - +
445C LEU* 1.3 83.2 - - + +
447C ARG* 1.3 60.6 + - - +
449C GLU* 3.0 38.2 + - - +
450C ASP* 2.8 31.9 + - - +
465I TYR* 4.6 6.5 - - - -
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Residues in contact with ARG 447 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
415C GLU* 3.7 20.3 + - - +
418C LEU* 3.7 16.6 - - + +
419C ASN* 3.5 39.4 - - - +
422C ASP* 5.7 4.0 + - - +
443C ILE* 2.9 46.4 + - + +
444C ALA* 3.4 9.0 - - - +
445C LEU 3.1 0.4 - - - -
446C ARG* 1.3 76.7 - - - +
448C GLU* 1.3 56.6 + - - +
450C ASP* 3.5 11.2 + - - +
451C ASP* 3.0 35.6 + - - +
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Residues in contact with GLU 448 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C LYS* 5.0 3.6 + - - +
444C ALA 3.2 9.4 + - - +
445C LEU* 2.9 43.6 - - - +
447C ARG* 1.3 74.7 - - - +
449C GLU* 1.3 68.2 + - + +
451C ASP* 3.3 25.1 - - + +
452C ARG* 3.3 14.6 + - - +
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Residues in contact with GLU 449 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C LYS* 2.7 32.3 + - - +
314C PRO 4.0 1.4 - - - +
414C LEU* 5.4 0.2 - - - +
445C LEU 3.2 10.4 + - - +
446C ARG* 3.0 45.8 + - - +
448C GLU* 1.3 75.9 - - + +
450C ASP* 1.3 67.4 + - - +
452C ARG* 3.0 22.1 + - - +
453C VAL* 3.4 5.7 + - - +
464I LEU* 3.7 27.1 - - + +
465I TYR* 3.4 31.4 + - - +
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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
----------------------------------------------------------
316C THR* 3.6 24.4 - - - +
413C SER* 6.0 0.2 - - - -
414C LEU* 3.8 23.8 + - + +
415C GLU* 4.3 20.9 + - - +
418C LEU* 5.4 2.2 - - + -
446C ARG 2.8 17.5 + - - +
447C ARG* 3.8 12.5 - - - +
449C GLU* 1.3 74.8 - - - +
451C ASP* 1.3 57.7 + - - +
453C VAL* 3.2 3.1 + - - +
454C ARG* 2.8 66.6 + - - +
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Residues in contact with ASP 451 (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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447C ARG* 3.0 26.4 + - - +
448C GLU* 3.3 18.8 - - - +
449C GLU 3.1 0.4 - - - -
450C ASP* 1.3 75.9 - - - +
452C ARG* 1.3 53.8 + - + +
454C ARG* 2.8 28.3 + - - +
455C MET* 2.7 56.3 + - - +
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Residues in contact with ARG 452 (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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142C ALA* 4.6 6.5 + - - +
448C GLU 3.5 15.0 - - - +
449C GLU* 3.0 10.5 + - - +
451C ASP* 1.3 76.4 - - + +
453C VAL* 1.3 64.1 + - - +
455C MET* 3.8 3.1 - - - -
456C THR* 2.9 39.3 + - - -
261I PHE* 5.8 10.5 - - - -
460I VAL* 4.0 21.6 - - + +
463I GLU* 2.6 38.4 + - - -
464I LEU* 3.7 28.0 - - + +
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Residues in contact with VAL 453 (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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316C THR* 3.5 35.4 - - + +
320C LYS* 4.4 7.4 - - - +
449C GLU 3.4 4.7 + - - +
450C ASP 3.2 5.7 + - - +
452C ARG* 1.3 75.7 - - - +
454C ARG* 1.3 65.4 + - + +
455C MET 3.3 0.7 + - - -
456C THR* 3.6 15.5 - - - +
320I LYS* 4.0 5.9 + - - -
458I HIS* 4.2 22.1 - - + +
460I VAL* 4.1 12.6 - - + -
461I GLU* 4.1 16.2 - - + +
464I LEU* 3.8 25.1 - - + -
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Residues in contact with ARG 454 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
316C THR* 6.2 0.2 - - + -
415C GLU* 4.2 19.2 + - - -
450C ASP* 2.8 44.9 + - - +
451C ASP* 2.8 30.2 + - - +
453C VAL* 1.3 79.1 - - + +
455C MET* 1.3 68.2 + - - +
319I TYR 4.8 7.8 + - - +
320I LYS* 3.3 27.7 - - - +
323I VAL* 5.3 5.3 - - - +
412I GLY 5.1 10.2 + - - -
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Residues in contact with MET 455 (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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451C ASP* 2.7 42.1 + - - +
452C ARG* 4.1 2.9 - - - +
454C ARG* 1.3 87.7 - - - +
456C THR* 1.3 58.5 - - - +
457C PRO* 3.7 5.2 - - - +
258I LYS* 5.2 1.6 - - - +
261I PHE* 3.7 32.5 - - + +
320I LYS* 3.4 24.0 - - - +
323I VAL* 4.2 39.3 - - + -
324I PRO* 5.7 2.2 - - + +
326I TYR* 4.9 10.3 - - + +
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Residues in contact with THR 456 (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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142C ALA* 4.8 8.1 - - + +
147C SER* 4.7 7.6 - - - +
452C ARG* 2.9 29.6 + - - -
453C VAL 3.6 0.9 + - - +
454C ARG 3.7 0.2 - - - -
455C MET* 1.3 76.3 - - - +
457C PRO* 1.3 79.0 - - + +
261I PHE* 4.4 20.3 - - + -
320I LYS* 3.2 12.8 - - - -
458I HIS* 2.9 38.2 - - - +
460I VAL* 3.8 17.0 - - + +
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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) + - + + + + + -
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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