Contacts of the helix formed by residues 421 - 438 (chain I) in PDB entry 6ASX
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 SER 421 (chain I).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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390I PHE* 4.4 9.2 - - - -
420I LEU* 1.3 78.7 - - - +
422I LYS* 1.3 59.8 + - - +
423I ASP* 3.7 7.9 + - - +
424I ASP* 2.9 34.3 + - - +
425I ILE* 3.0 34.7 + - - +
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Residues in contact with LYS 422 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
213I LEU* 3.8 54.2 + - + +
214I ASN* 5.7 1.8 + - - +
215I TYR* 4.3 22.4 + - - +
390I PHE* 4.8 6.4 - - + -
421I SER* 1.3 74.4 - - - +
423I ASP* 1.3 61.6 + - - +
425I ILE* 3.4 1.9 + - - +
426I ILE* 3.0 36.3 + - + +
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Residues in contact with ASP 423 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215I TYR* 5.1 5.0 + - - -
411I ARG* 5.1 2.0 - - - +
421I SER* 3.3 7.8 + - - +
422I LYS* 1.3 80.0 - - - +
424I ASP* 1.3 59.6 + - - +
426I ILE* 3.8 7.2 - - - +
427I ASP* 2.9 42.2 + - - +
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Residues in contact with ASP 424 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
402I ARG* 3.3 25.6 + - - -
405I PHE* 3.6 27.7 - - + -
406I ASN* 4.8 0.2 - - - +
409I LEU* 4.6 0.2 - - - +
411I ARG* 3.1 31.4 + - - +
420I LEU* 4.9 4.0 - - + -
421I SER* 2.9 30.1 + - - +
423I ASP* 1.3 79.9 - - - +
425I ILE* 1.3 58.9 + - - +
427I ASP* 3.3 2.3 + - - +
428I VAL* 3.0 33.8 + - - +
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Residues in contact with ILE 425 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176I ILE* 5.4 2.9 - - + -
184I LEU* 4.9 11.4 - - + -
186I PHE* 3.9 26.0 - - + -
209I ILE* 5.5 13.0 - - + -
210I LEU* 5.7 1.1 - - + -
213I LEU* 4.4 24.7 - - + -
389I PHE* 5.4 6.3 - - + -
390I PHE* 4.8 12.3 - - + -
405I PHE* 6.4 0.2 - - + -
420I LEU* 4.4 28.3 - - + -
421I SER 3.0 19.4 + - - +
422I LYS 4.0 3.1 - - - +
424I ASP* 1.3 76.0 - - + +
426I ILE* 1.3 59.7 + - + +
428I VAL* 3.2 7.7 + - - +
429I MET* 3.0 35.0 + - - +
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Residues in contact with ILE 426 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210I LEU* 4.3 18.8 - - + -
213I LEU* 5.5 2.0 - - + -
215I TYR* 3.3 42.2 - - + +
223I LEU* 3.8 22.0 - - + -
224I PHE* 4.2 13.5 - - + -
422I LYS* 3.0 20.3 + - + +
423I ASP* 4.0 8.3 - - - +
425I ILE* 1.3 75.9 - - + +
427I ASP* 1.3 60.1 + - - +
429I MET* 3.3 7.6 + - - +
430I LYS* 2.9 45.2 + - + +
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Residues in contact with ASP 427 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
409I LEU* 4.1 14.2 - - + +
411I ARG* 2.5 35.7 + - - +
423I ASP* 2.9 26.8 + - - +
424I ASP 3.7 4.7 - - - +
426I ILE* 1.3 76.8 - - - +
428I VAL* 1.3 59.9 + - - +
430I LYS* 3.8 15.4 + - - +
431I LYS* 2.9 29.8 + - - +
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Residues in contact with VAL 428 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155I VAL* 4.3 18.4 - - + -
157I PHE* 4.5 2.9 - - + -
174I ALA* 4.4 12.3 - - + -
176I ILE* 4.3 13.9 - - + -
186I PHE* 4.1 22.4 - - + -
405I PHE* 3.6 29.2 - - + -
409I LEU* 4.4 10.3 - - + -
424I ASP 3.0 19.2 + - - +
425I ILE* 3.2 9.1 + - - +
427I ASP* 1.3 75.7 - - - +
429I MET* 1.3 58.4 + - - +
431I LYS* 3.3 6.5 + - - +
432I LEU* 2.9 27.7 + - - +
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Residues in contact with MET 429 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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186I PHE* 3.6 29.6 - - + -
194I LEU* 3.8 17.7 - - + +
206I ALA* 3.8 27.1 - - + +
209I ILE* 5.6 2.0 - - - -
210I LEU* 3.7 44.9 - - + -
224I PHE* 3.7 16.4 - - + -
347I ILE* 4.2 5.6 - - + -
425I ILE* 3.0 21.6 + - - +
426I ILE* 3.7 7.2 - - - +
427I ASP 3.3 0.2 - - - -
428I VAL* 1.3 76.2 - - - +
430I LYS* 1.3 62.1 + - - +
432I LEU* 3.3 6.6 + - - +
433I ILE* 3.0 31.9 + - + +
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Residues in contact with LYS 430 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
223I LEU* 3.7 37.9 + - - +
224I PHE* 4.0 15.9 - - + +
426I ILE* 2.9 33.0 + - + +
427I ASP* 3.8 15.8 + - - +
428I VAL 3.4 0.2 - - - -
429I MET* 1.3 75.9 - - - +
431I LYS* 1.3 56.6 + - - +
433I ILE* 3.4 5.8 + - - +
434I ASP* 2.9 41.6 + - - +
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Residues in contact with LYS 431 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157I PHE* 3.6 28.7 - - + -
408I SER* 3.1 24.5 + - - -
409I LEU* 4.4 14.3 - - + +
410I LEU* 5.2 11.7 - - - +
427I ASP 2.9 18.9 + - - +
428I VAL 3.7 4.9 - - - +
429I MET 3.3 0.2 - - - -
430I LYS* 1.3 75.7 - - - +
432I LEU* 1.3 58.0 + - - +
434I ASP* 3.3 9.5 + - + +
435I ILE* 2.9 46.4 + - + +
439I LYS 5.7 0.7 - - - -
440I GLY* 5.1 11.4 - - - -
441I GLU 5.9 2.0 + - - +
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Residues in contact with LEU 432 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157I PHE* 4.3 9.6 - - + -
172I TYR* 3.3 35.4 - - + +
173I ASN 4.1 1.8 - - - -
174I ALA* 4.0 19.7 - - + -
186I PHE* 3.7 39.7 - - + +
188I PHE* 3.8 8.3 - - + -
194I LEU* 4.0 19.5 - - + -
428I VAL* 2.9 16.8 + - + +
429I MET* 3.8 5.4 - - - +
431I LYS* 1.3 74.5 - - - +
433I ILE* 1.3 65.3 + - + +
435I ILE* 3.2 8.2 + - + +
436I ARG* 3.0 21.3 + - - +
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Residues in contact with ILE 433 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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188I PHE* 4.7 8.3 - - + -
194I LEU* 4.6 12.3 - - + -
224I PHE* 3.8 20.4 - - + +
343I HIS* 6.5 0.2 - - - -
344I GLY 5.2 2.9 - - - +
346I TYR* 4.1 22.9 - - + -
347I ILE* 3.8 35.4 - - + -
429I MET* 3.0 19.6 + - + +
430I LYS* 3.9 4.9 - - - +
432I LEU* 1.3 75.3 - - + +
434I ASP* 1.3 59.1 + - - +
436I ARG* 3.2 8.5 + - - +
437I ASN* 2.9 43.7 + - - +
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Residues in contact with ASP 434 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
343I HIS* 5.9 2.8 - - - -
430I LYS* 2.9 29.0 + - - +
431I LYS* 3.8 11.6 - - + +
433I ILE* 1.3 78.4 - - - +
435I ILE* 1.3 59.7 + - - +
437I ASN* 3.6 16.6 + - - +
438I GLY 2.9 23.4 + - - -
439I LYS* 3.0 46.1 + - + +
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Residues in contact with ILE 435 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157I PHE* 3.5 48.5 - - + -
172I TYR* 3.6 42.8 + - + -
431I LYS* 2.9 31.0 + - + +
432I LEU* 3.2 9.2 + - + +
434I ASP* 1.3 75.1 - - - +
436I ARG* 1.3 63.8 + - - +
438I GLY* 3.4 11.6 + - - -
439I LYS 3.6 13.0 - - - +
440I GLY 4.7 12.6 - - - +
441I GLU* 4.4 10.8 - - - +
442I VAL* 4.8 7.4 - - + -
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Residues in contact with ARG 436 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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169I LYS* 3.2 36.0 - - - +
170I VAL* 4.7 11.3 + - - +
172I TYR* 3.7 28.2 - - + +
188I PHE* 4.0 29.6 - - + +
192I ASP* 3.7 14.5 + - - -
346I TYR* 3.4 36.0 + - + +
432I LEU 3.0 12.4 + - - +
433I ILE* 3.2 9.6 + - - +
435I ILE* 1.3 79.3 - - - +
437I ASN* 1.3 60.0 + - - +
438I GLY* 4.6 0.3 - - - -
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Residues in contact with ASN 437 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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341I LEU 4.1 14.4 - - - +
342I ASP* 3.0 29.6 + - - +
343I HIS* 4.7 8.5 + - - +
344I GLY 3.7 14.7 + - - -
346I TYR* 4.2 9.9 + - - -
433I ILE* 2.9 34.2 + - - +
434I ASP* 3.6 21.5 + - - +
435I ILE 3.2 0.2 - - - -
436I ARG* 1.3 79.4 - - - +
438I GLY* 1.3 57.6 + - - +
439I LYS* 3.9 4.9 - - + +
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Residues in contact with GLY 438 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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434I ASP 2.9 5.2 + - - -
435I ILE 3.4 6.9 + - - -
436I ARG 3.4 2.6 - - - -
437I ASN* 1.3 80.4 - - - +
439I LYS* 1.3 67.1 + - - +
440I GLY 3.5 8.5 + - - +
441I GLU* 4.4 6.1 - - - +
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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