Contacts of the helix formed by residues 22 - 37 (chain C) in PDB entry 1WZN
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 ARG 22 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18C ARG* 3.1 15.7 + - + +
19C ARG* 3.0 35.0 - - - +
20C ILE 3.0 0.2 - - - -
21C GLU* 1.3 80.5 - - + +
23C VAL* 1.3 62.1 + - - +
24C LYS 3.2 3.1 - - - +
25C ALA* 3.3 15.5 + - + +
26C GLU* 2.6 52.9 + - - +
232C LEU* 5.1 5.4 - - - +
242C ARG* 2.7 29.7 - - - +
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Residues in contact with VAL 23 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19C ARG* 4.2 10.3 - - - +
20C ILE* 3.0 20.8 + - + +
21C GLU 3.5 0.2 - - - -
22C ARG* 1.3 79.1 - - - +
24C LYS* 1.3 68.1 + - + +
26C GLU* 3.2 7.3 + - + +
27C ILE* 2.9 30.2 + - + +
54C ILE* 3.6 39.0 - - + +
55C PRO* 3.8 17.0 - - + -
58C GLU* 3.9 23.6 - - + +
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Residues in contact with LYS 24 (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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21C GLU 5.1 4.9 + - - +
22C ARG* 3.2 1.0 - - - -
23C VAL* 1.3 81.7 - - + +
25C ALA* 1.3 64.0 + - - +
27C ILE 3.4 0.2 + - - -
28C ASP* 3.0 33.2 + - - +
58C GLU* 3.3 30.9 + - - +
61C GLU* 4.0 14.1 + - - -
62C ARG* 3.2 14.9 + - - +
86C ARG* 5.7 1.6 - - - +
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Residues in contact with ALA 25 (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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22C ARG* 3.3 20.4 + - + +
23C VAL 3.3 0.6 - - - -
24C LYS* 1.3 78.0 - - - +
26C GLU* 1.3 62.5 + - - +
28C ASP* 3.3 12.7 + - - +
29C PHE* 3.3 19.2 + - - +
232C LEU* 4.2 19.3 - - + +
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Residues in contact with GLU 26 (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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19C ARG* 3.3 33.2 + - - +
22C ARG* 2.6 52.8 + - - +
23C VAL* 3.5 9.3 - - + +
24C LYS 3.2 0.2 - - - -
25C ALA* 1.3 75.7 - - - +
27C ILE* 1.3 65.1 + - + +
29C PHE* 3.2 6.8 + - - +
30C VAL* 3.0 29.4 + - + +
55C PRO* 5.6 0.9 - - - +
112C PHE* 4.8 4.4 - - + -
113C PHE* 6.0 1.4 - - - -
144C ASP* 5.2 1.7 - - - +
232C LEU* 4.2 13.0 - - + -
242C ARG* 3.2 20.7 + - - +
244C TRP* 4.1 13.3 - - + -
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Residues in contact with ILE 27 (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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23C VAL* 2.9 17.1 + - + +
26C GLU* 1.3 76.6 - - + +
28C ASP* 1.3 65.8 + - - +
30C VAL* 3.9 14.6 - - + -
31C GLU* 2.9 26.5 + - + +
55C PRO* 4.1 19.7 - - + +
58C GLU* 3.2 32.1 - - + +
59C LEU* 3.7 37.7 - - + -
62C ARG* 3.3 33.4 - - - +
112C PHE* 4.3 6.3 - - + -
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Residues in contact with ASP 28 (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 LYS* 3.0 19.9 + - - +
25C ALA* 3.4 14.2 - - - +
26C GLU 3.2 0.4 - - - -
27C ILE* 1.3 78.3 - - - +
29C PHE* 1.3 62.3 + - - +
31C GLU* 3.3 5.8 + - - +
32C GLU* 3.1 21.9 + - - +
62C ARG* 2.8 29.2 + - - +
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Residues in contact with PHE 29 (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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25C ALA 3.3 4.5 + - - +
26C GLU 3.2 9.3 + - - +
27C ILE 3.2 0.2 - - - -
28C ASP* 1.3 76.8 - - - +
30C VAL* 1.3 65.2 + - - +
32C GLU* 3.0 29.4 + - + +
33C ILE* 3.0 37.8 + - + +
229C TYR* 4.0 12.8 - + + -
232C LEU* 3.5 43.7 - - + +
233C LYS* 3.3 38.8 - - - -
234C ARG* 3.6 14.6 - - + -
244C TRP* 3.6 36.8 - + - -
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Residues in contact with VAL 30 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26C GLU 3.0 19.8 + - - +
27C ILE* 3.2 15.2 + - + +
29C PHE* 1.3 78.1 - - + +
31C GLU* 1.3 61.4 + - - +
33C ILE* 3.1 12.6 + - - +
34C PHE* 3.0 52.7 + - + -
59C LEU* 4.5 10.8 - - + -
110C THR* 5.1 0.7 - - + -
112C PHE* 3.7 34.8 - - + -
142C ILE* 4.1 10.5 - - + -
244C TRP* 4.5 11.7 - - + -
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Residues in contact with GLU 31 (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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27C ILE* 2.9 25.9 + - + +
28C ASP* 3.6 5.9 - - - +
29C PHE 3.2 0.2 - - - -
30C VAL* 1.3 72.8 - - - +
32C GLU* 1.3 61.1 + - - +
34C PHE* 3.1 11.8 + - + +
35C LYS* 2.9 32.1 + - - +
59C LEU* 5.6 0.2 - - + -
62C ARG* 3.0 37.0 + - - +
64C TYR* 2.6 36.6 + - + +
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Residues in contact with GLU 32 (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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28C ASP 3.1 10.8 + - - +
29C PHE* 3.0 26.2 + - + +
31C GLU* 1.3 76.4 - - - +
33C ILE* 1.3 58.0 + - - +
35C LYS* 3.5 8.4 + - + +
36C GLU* 2.9 43.0 + - + +
232C LEU 5.0 2.9 - - - +
233C LYS* 5.6 1.3 - - - -
234C ARG* 4.0 29.0 + - - +
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Residues in contact with ILE 33 (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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29C PHE* 3.0 51.3 + - + +
30C VAL* 3.4 9.4 - - - +
31C GLU 3.1 0.2 - - - -
32C GLU* 1.3 75.6 - - - +
34C PHE* 1.3 59.0 + - - +
37C ASP* 2.8 46.9 + - + +
38C ALA* 3.2 5.4 + - - +
140C VAL* 5.0 3.8 - - + +
142C ILE* 3.6 33.4 - - + -
229C TYR* 4.5 1.6 - - + -
234C ARG* 4.5 4.0 - - + +
244C TRP* 5.1 0.7 - - + -
246C VAL* 3.9 36.1 - - + -
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Residues in contact with PHE 34 (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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30C VAL* 3.0 36.2 + - + -
31C GLU* 3.1 10.7 + - + +
33C ILE* 1.3 76.5 - - - +
35C LYS* 1.3 61.8 + - - +
38C ALA* 3.0 28.0 + - - +
40C ARG 4.5 3.1 - - - +
42C VAL* 3.7 38.2 - - + +
45C VAL* 4.3 8.5 - - + -
59C LEU* 4.5 10.1 - - + -
64C TYR* 3.7 32.8 - + - +
108C ALA* 3.5 25.4 - - + -
110C THR* 4.8 7.2 - - + -
140C VAL* 3.8 9.0 - - + -
142C ILE* 3.7 18.8 - - + -
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Residues in contact with LYS 35 (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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31C GLU 2.9 15.8 + - - +
32C GLU* 3.7 8.1 - - + +
34C PHE* 1.3 80.8 - - - +
36C GLU* 1.3 81.9 + - + +
38C ALA 4.7 4.0 - - - +
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Residues in contact with GLU 36 (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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32C GLU* 2.9 29.0 + - + +
35C LYS* 1.3 109.5 - - + +
37C ASP* 1.3 59.4 + - - +
38C ALA 3.8 2.1 - - - +
39C LYS* 5.1 7.6 + - - +
234C ARG* 3.3 39.7 + - - +
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Residues in contact with ASP 37 (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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33C ILE* 2.8 35.8 + - + +
36C GLU* 1.3 73.4 - - - +
38C ALA* 1.3 61.3 + - - +
39C LYS* 3.6 8.4 + - - +
140C VAL* 4.1 1.3 - - + -
227C LYS* 3.4 18.4 - - - +
229C TYR* 3.0 32.5 + - - -
234C ARG* 2.8 33.0 + - - -
246C VAL* 4.3 6.1 - - + -
248C ILE* 3.2 37.5 - - + +
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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
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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