Contacts of the helix formed by residues 19 - 34 (chain E) in PDB entry 2AAZ
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 19 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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17E ASP 3.1 6.6 + - - +
18E HIS* 1.3 73.7 + - - +
20E GLU* 1.3 62.4 + - - +
21E TYR 3.1 0.2 - - - -
22E GLN* 3.0 39.8 + - - +
23E TYR 4.3 0.2 + - - -
55E ARG 4.0 7.8 - - - +
56E PHE* 3.4 29.1 - - + +
57E SER* 2.9 44.8 + - - +
62E THR* 5.6 0.5 - - - +
64E PRO* 5.0 0.2 - - - +
277E PHE* 3.6 19.0 - - + -
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Residues in contact with GLU 20 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18E HIS* 2.9 21.0 + - + +
19E GLU* 1.3 76.8 - - - +
21E TYR* 1.3 62.3 + - - +
23E TYR* 3.1 17.6 + - + +
24E LEU* 3.1 15.5 + - + +
56E PHE* 5.0 2.2 - - - -
66E LEU* 3.6 21.2 - - + +
67E THR* 2.8 37.4 + - - -
68E THR* 2.6 43.3 + - - +
274E PRO* 3.8 13.2 - - + +
277E PHE* 3.7 16.8 - - + -
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Residues in contact with TYR 21 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13E ARG* 3.4 66.2 - - + +
14E SER 4.9 0.2 + - - -
15E ASN 3.2 27.1 + - - -
16E PRO 3.9 12.1 - - - +
18E HIS* 3.0 29.9 + - + +
20E GLU* 1.3 75.6 - - - +
22E GLN* 1.3 58.0 + - - +
24E LEU* 4.0 18.6 - - + -
25E ASP* 2.7 42.0 + - - +
272E ARG 5.1 1.8 - - - -
273E GLU* 3.9 15.0 - - - +
274E PRO* 3.4 29.3 - - + +
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Residues in contact with GLN 22 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18E HIS 4.6 0.4 + - - +
19E GLU* 3.0 26.1 + - - +
20E GLU 3.1 0.2 - - - -
21E TYR* 1.3 77.2 - - - +
23E TYR* 1.3 62.4 + - - +
25E ASP* 4.1 3.7 - - - +
26E LEU* 3.2 17.7 + - - +
53E SER 4.2 4.8 + - - -
54E PHE* 3.4 37.3 - - + +
55E ARG* 2.9 50.9 + - - +
56E PHE* 3.6 10.9 - - + -
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Residues in contact with TYR 23 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19E GLU 4.3 0.4 + - - -
20E GLU* 3.1 12.8 + - + +
22E GLN* 1.3 78.5 - - - +
24E LEU* 1.3 78.5 + - + +
26E LEU* 3.4 3.1 + - - +
27E ILE* 3.2 48.8 + - + +
54E PHE* 3.7 16.6 - + + -
56E PHE* 5.4 2.2 - - + -
66E LEU* 3.7 39.3 - - + -
68E THR* 5.0 0.4 - - - -
69E LYS* 5.0 0.3 + - - -
220E LEU* 2.6 36.7 + - + -
221E GLY* 3.8 6.2 + - - -
224E VAL* 3.9 26.9 - - + -
225E PRO* 3.6 9.5 - - + +
228E ILE* 4.6 4.0 - - + -
266E LEU* 4.4 4.3 - - - +
269E GLN* 3.9 18.7 + - - -
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Residues in contact with LEU 24 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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20E GLU* 3.1 12.6 + - + +
21E TYR* 4.0 22.2 - - + +
23E TYR* 1.3 91.2 - - + +
25E ASP* 1.3 63.5 + - - +
27E ILE* 3.3 3.0 + - + -
28E ARG* 3.0 27.9 + - - +
68E THR* 3.9 38.1 - - + +
269E GLN* 4.3 13.2 - - + +
270E LEU* 3.4 36.0 - - + +
272E ARG 4.0 9.2 - - - +
274E PRO* 4.0 16.8 - - + -
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Residues in contact with ASP 25 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13E ARG* 2.7 42.1 + - - -
21E TYR* 2.7 31.7 + - - +
22E GLN* 4.1 4.1 - - - +
24E LEU* 1.3 73.7 - - - +
26E LEU* 1.3 57.4 + - - +
28E ARG* 3.3 14.6 + - - +
29E ARG* 2.9 29.2 + - - +
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Residues in contact with LEU 26 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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22E GLN 3.2 18.3 + - - +
23E TYR 3.8 2.2 - - - +
24E LEU 3.3 0.4 - - - -
25E ASP* 1.3 73.4 - - - +
27E ILE* 1.3 61.6 + - - +
29E ARG* 3.2 11.0 + - - +
30E ILE* 2.8 56.1 + - + +
48E LEU* 4.6 8.3 - - + -
51E PRO* 3.9 32.3 - - + -
52E PRO* 5.9 0.2 - - + -
54E PHE* 3.4 30.1 - - + -
220E LEU* 3.8 15.0 - - + -
253E MET* 3.9 17.7 - - - -
256E ALA* 4.6 0.4 - - + -
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Residues in contact with ILE 27 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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23E TYR* 3.2 53.5 + - + +
24E LEU* 3.6 9.2 - - + +
25E ASP 3.3 0.2 - - - -
26E LEU* 1.3 76.8 - - - +
28E ARG* 1.3 64.0 + - - +
30E ILE* 3.3 7.8 + - - +
31E ILE* 3.0 43.2 + - + +
220E LEU* 3.7 22.0 - - + -
258E VAL* 4.5 3.6 - - + -
266E LEU* 3.9 34.1 - - + -
269E GLN* 5.8 0.4 - - - -
270E LEU* 4.2 14.4 - - + -
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Residues in contact with ARG 28 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13E ARG* 3.9 10.5 - - - +
24E LEU* 3.0 20.3 + - - +
25E ASP* 3.4 30.2 + - - +
27E ILE* 1.3 77.8 - - - +
29E ARG* 1.3 57.4 + - - +
31E ILE* 3.4 3.5 + - - +
32E ASN* 2.9 50.8 + - - +
270E LEU* 3.6 51.3 + - + +
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Residues in contact with ARG 29 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25E ASP 2.9 17.4 + - - +
26E LEU* 3.2 12.4 + - - +
28E ARG* 1.3 77.9 - - - +
30E ILE* 1.3 56.5 + - - +
32E ASN* 3.2 4.8 + - - -
33E VAL* 2.8 53.2 + - + +
48E LEU* 3.6 22.8 - - + +
51E PRO* 4.2 12.5 - - - +
52E PRO* 3.7 27.5 - - - +
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Residues in contact with ILE 30 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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26E LEU* 2.8 39.1 + - + +
27E ILE 3.7 3.6 - - - +
29E ARG* 1.3 72.6 - - - +
31E ILE* 1.3 60.2 + - - +
34E GLY* 2.8 24.7 + - - +
46E VAL* 3.0 53.3 - - + +
47E ALA* 4.1 4.7 - - - -
48E LEU* 3.9 22.2 - - + -
220E LEU* 3.6 32.5 - - + -
256E ALA* 3.8 14.1 - - + +
258E VAL* 3.8 14.1 - - + -
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Residues in contact with ILE 31 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27E ILE* 3.0 34.3 + - + +
28E ARG* 3.8 4.0 - - - +
30E ILE* 1.3 76.5 - - - +
32E ASN* 1.3 72.2 + - - +
34E GLY 4.5 1.0 + - - +
46E VAL* 4.6 10.6 - - + +
258E VAL* 4.7 14.8 - - + -
263E VAL* 4.2 43.3 - - + +
266E LEU* 4.8 3.1 - - + -
267E LYS* 4.7 13.0 - - + -
270E LEU* 4.3 15.0 - - + -
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Residues in contact with ASN 32 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28E ARG* 2.9 37.2 + - - +
29E ARG* 3.7 4.8 - - - +
31E ILE* 1.3 88.3 - - - +
33E VAL* 1.3 70.1 + - + +
34E GLY 3.7 0.7 - - - +
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Residues in contact with VAL 33 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29E ARG* 2.8 46.9 + - + +
32E ASN* 1.3 83.1 - - + +
34E GLY* 1.3 65.0 + - - +
35E GLU* 3.8 0.5 + - - +
48E LEU* 4.1 13.6 - - + +
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Residues in contact with GLY 34 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29E ARG 3.6 2.4 + - - -
30E ILE 2.8 28.9 + - - -
31E ILE 5.3 0.3 - - - +
32E ASN 3.7 1.5 - - - +
33E VAL* 1.3 78.1 - - - +
35E GLU* 1.3 62.6 + - - -
36E VAL* 3.8 4.0 + - - +
46E VAL* 3.4 12.7 - - - +
47E ALA 3.6 9.9 - - - -
48E LEU* 3.9 10.1 - - - -
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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
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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