Contacts of the helix formed by residues 435 - 456 (chain H) 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 H).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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101H ASP* 3.1 36.5 + - + +
110H ARG* 3.5 18.2 - - - +
429H LYS* 4.8 1.6 - - - +
432H GLY* 4.8 3.6 - - - +
434H PHE* 1.3 78.1 - - - +
436H ASP* 1.3 64.5 + - - +
437H GLU* 2.7 19.2 + - - -
438H ALA* 3.1 20.3 + - + +
439H ILE* 3.0 26.0 + - - +
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Residues in contact with ASP 436 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
425H ARG* 3.1 22.2 + - - +
429H LYS* 3.0 38.8 + - - +
435H THR* 1.3 72.7 - - - +
437H GLU* 1.3 57.7 + - + +
439H ILE* 3.0 7.0 + - - +
440H ASP* 2.6 47.4 + - - +
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Residues in contact with GLU 437 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101H ASP* 3.4 20.3 - - - +
102H ARG* 3.6 24.9 + - - +
435H THR* 2.7 25.7 + - - -
436H ASP* 1.3 76.5 + - + +
438H ALA* 1.3 58.7 + - - +
440H ASP* 3.7 11.2 + - + +
441H ALA* 2.7 36.4 + - - +
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Residues in contact with ALA 438 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24H THR* 6.0 0.5 - - - +
101H ASP 3.4 25.1 - - - +
102H ARG* 3.7 21.4 - - + +
107H ILE* 4.7 9.0 - - + -
434H PHE* 5.1 2.7 - - + -
435H THR* 3.1 30.1 + - - +
437H GLU* 1.3 80.1 + - - +
439H ILE* 1.3 63.2 + - + +
441H ALA* 3.6 2.9 - - - +
442H TYR* 3.2 20.6 + - - +
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Residues in contact with ILE 439 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
421H LEU* 4.1 20.9 - - + +
425H ARG* 4.0 25.6 - - + +
428H LEU* 4.2 16.4 - - + -
429H LYS* 4.2 14.8 - - + -
434H PHE* 3.6 40.4 - - + -
435H THR 3.2 10.5 - - - +
436H ASP 3.0 7.3 + - - +
438H ALA* 1.3 76.4 - - - +
440H ASP* 1.3 64.4 + - - +
442H TYR* 3.5 6.6 + - - +
443H ILE* 3.1 40.0 + - + +
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Residues in contact with ASP 440 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
425H ARG* 3.0 32.0 + - - -
436H ASP* 2.6 35.0 + - - +
437H GLU* 3.7 9.3 + - + -
439H ILE* 1.3 73.2 - - - +
441H ALA* 1.3 57.5 + - - +
443H ILE* 3.6 8.4 + - - +
444H ALA* 3.1 25.5 + - - +
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Residues in contact with ALA 441 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24H THR* 6.1 2.0 - - + +
56H GLY* 4.1 23.3 - - - +
102H ARG* 4.3 17.0 - - + +
437H GLU 2.7 22.0 + - - +
438H ALA 3.6 4.7 - - - +
440H ASP* 1.3 70.7 - - - +
442H TYR* 1.3 65.6 + - - +
444H ALA* 3.1 16.7 + - - +
445H LEU* 3.1 19.6 + - + +
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Residues in contact with TYR 442 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24H THR* 3.7 32.5 - - + +
310H ALA* 2.8 29.8 + - + -
311H LEU* 3.6 21.6 + - + -
314H PRO* 3.3 20.3 - - - +
366H ASN* 5.3 3.1 - - + +
369H LEU* 3.5 33.4 - - + -
418H LEU* 4.5 5.8 - - + -
421H LEU* 4.4 11.0 - - + -
438H ALA 3.2 10.8 + - - +
439H ILE* 3.7 10.3 - - - +
441H ALA* 1.3 78.4 - - - +
443H ILE* 1.3 68.9 + - - +
445H LEU* 3.1 15.6 + - + +
446H ARG* 3.1 45.9 + - + +
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Residues in contact with ILE 443 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
418H LEU* 4.0 17.4 - - + +
421H LEU* 3.8 19.5 - - + -
422H ASP* 4.0 31.0 - - + +
425H ARG* 4.4 6.3 - - - +
439H ILE* 3.1 34.6 + - + +
440H ASP* 3.8 7.6 - - - +
441H ALA 3.3 0.2 - - - -
442H TYR* 1.3 80.8 - - - +
444H ALA* 1.3 58.2 + - - +
446H ARG* 3.5 1.6 + - - +
447H ARG* 2.9 68.5 + - + +
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Residues in contact with ALA 444 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
440H ASP 3.1 13.9 + - - +
441H ALA* 3.1 14.0 + - - +
443H ILE* 1.3 77.8 - - - +
445H LEU* 1.3 62.3 + - + +
447H ARG* 3.3 9.1 + - - +
448H GLU* 3.2 22.0 + - - +
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Residues in contact with LEU 445 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24H THR* 3.6 36.8 - - + -
25H LYS* 4.2 26.5 + - + +
55H GLY* 4.1 15.7 - - - -
56H GLY* 3.8 23.6 - - - +
441H ALA 3.1 14.0 + - - +
442H TYR* 3.1 7.3 + - + +
444H ALA* 1.3 75.9 - - + +
446H ARG* 1.3 69.4 + - + +
448H GLU* 2.9 42.4 - - - +
449H GLU* 3.2 11.9 + - - +
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Residues in contact with ARG 446 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
465B TYR* 4.5 6.1 - - - -
25H LYS* 3.1 48.0 + - - +
314H PRO* 3.3 37.6 + - + +
315H THR* 5.3 1.4 - - - +
364H ALA 4.6 2.6 + - - -
366H ASN 5.3 0.4 - - - +
414H LEU* 4.2 7.7 - - + +
418H LEU* 3.9 23.6 - - + -
442H TYR* 3.1 52.2 + - + +
443H ILE 3.9 0.4 - - - +
445H LEU* 1.3 82.6 - - + +
447H ARG* 1.3 60.4 + - - +
449H GLU* 3.0 38.2 + - - +
450H ASP* 2.8 31.7 + - - +
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Residues in contact with ARG 447 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
415H GLU* 3.7 20.1 + - - +
418H LEU* 3.7 15.3 - - + +
419H ASN* 3.5 39.6 - - - +
422H ASP* 5.7 4.0 + - - +
443H ILE* 2.9 44.8 + - + +
444H ALA* 3.4 9.6 - - - +
445H LEU 3.1 0.2 - - - -
446H ARG* 1.3 78.0 - - - +
448H GLU* 1.3 57.1 + - - +
450H ASP* 3.5 10.6 + - - +
451H ASP* 3.0 36.2 + - - +
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Residues in contact with GLU 448 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25H LYS* 5.0 2.9 + - - -
444H ALA 3.2 8.9 + - - +
445H LEU* 2.9 43.9 - - - +
447H ARG* 1.3 75.1 - - - +
449H GLU* 1.3 66.9 + - + +
451H ASP* 3.3 25.8 + - + +
452H ARG* 3.3 14.9 + - - +
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Residues in contact with GLU 449 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
464B LEU* 3.7 26.7 - - + +
465B TYR* 3.3 33.1 + - - +
25H LYS* 2.7 32.6 + - - +
314H PRO 4.0 1.0 - - - +
414H LEU* 5.4 0.3 - - - +
445H LEU 3.2 11.0 + - - +
446H ARG* 3.0 45.1 + - - +
448H GLU* 1.3 75.5 - - + +
450H ASP* 1.3 66.6 + - - +
452H ARG* 3.0 17.3 + - - +
453H VAL* 3.4 9.2 + - - +
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Residues in contact with ASP 450 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
465B TYR* 4.6 0.6 + - - -
316H THR* 3.6 25.1 - - - +
413H SER* 6.0 0.2 - - - -
414H LEU* 3.8 23.2 + - + +
415H GLU* 4.3 20.1 + - - +
418H LEU* 5.4 2.0 - - + -
446H ARG 2.8 16.9 + - - +
447H ARG* 3.8 11.9 - - - +
449H GLU* 1.3 75.7 - - - +
451H ASP* 1.3 57.1 + - - +
453H VAL* 3.2 3.3 + - - +
454H ARG* 2.8 66.8 + - - +
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Residues in contact with ASP 451 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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447H ARG* 3.0 27.2 + - - +
448H GLU* 3.3 18.6 - - - +
449H GLU 3.1 0.4 - - - -
450H ASP* 1.3 75.8 - - - +
452H ARG* 1.3 53.8 + - + +
454H ARG* 2.8 29.6 + - - +
455H MET* 2.7 55.5 + - - +
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Residues in contact with ARG 452 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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261B PHE* 5.9 7.9 - - - -
460B VAL* 4.0 21.9 - - + +
463B GLU* 2.6 39.8 + - - -
464B LEU* 3.6 29.3 - - + +
142H ALA* 4.6 6.9 + - - +
448H GLU 3.5 14.8 - - - +
449H GLU* 3.0 10.2 + - - +
451H ASP* 1.3 76.2 - - + +
453H VAL* 1.3 64.4 + - - +
455H MET* 3.8 3.0 - - - -
456H THR* 2.9 39.3 + - - -
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Residues in contact with VAL 453 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
320B LYS* 4.0 6.1 + - - -
458B HIS* 4.2 21.9 + - + +
460B VAL* 4.1 12.6 - - + -
461B GLU* 4.0 22.7 - - + +
464B LEU* 3.9 23.6 - - + -
316H THR* 3.5 29.6 - - + +
320H LYS* 4.4 7.2 - - - +
449H GLU 3.4 4.7 + - - +
450H ASP 3.2 5.2 + - - +
452H ARG* 1.3 76.9 - - - +
454H ARG* 1.3 65.4 + - + +
455H MET 3.3 0.7 + - - -
456H THR* 3.6 15.3 - - - +
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Residues in contact with ARG 454 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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319B TYR 4.9 7.3 + - - +
320B LYS* 3.3 28.3 + - - +
323B VAL* 5.5 4.9 - - - +
412B GLY 5.1 9.1 + - - -
413B SER* 6.6 0.4 - - - -
415H GLU* 4.2 18.9 + - - -
450H ASP* 2.8 44.1 + - - +
451H ASP* 2.8 31.1 + - - +
453H VAL* 1.3 79.4 - - + +
455H MET* 1.3 69.3 + - - +
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Residues in contact with MET 455 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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258B LYS* 5.2 1.6 - - - +
261B PHE* 3.8 33.4 - - + -
320B LYS* 3.3 24.1 - - - +
323B VAL* 4.2 38.4 - - + -
324B PRO* 5.9 1.8 - - + +
326B TYR* 5.0 9.6 - - + +
451H ASP* 2.7 41.0 + - - +
452H ARG* 4.1 3.1 - - - +
454H ARG* 1.3 89.2 - - - +
456H THR* 1.3 60.4 + - - +
457H PRO* 3.7 5.7 - - - +
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Residues in contact with THR 456 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
261B PHE* 4.5 19.8 - - + -
320B LYS* 3.3 11.2 - - - -
458B HIS* 2.8 38.7 - - - +
460B VAL* 3.7 16.5 - - + +
142H ALA* 4.8 7.8 - - + +
147H SER* 4.7 7.0 - - - +
452H ARG* 2.9 29.2 + - - -
453H VAL 3.6 0.7 - - - +
454H ARG 3.7 0.2 - - - -
455H MET* 1.3 76.3 - - - +
457H PRO* 1.3 80.7 - - + +
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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) + - + + + + + -
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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