Contacts of the helix formed by residues 22 - 40 (chain A) in PDB entry 2EHO
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 22 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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21A LEU* 1.3 79.2 - - - +
23A PRO* 1.3 74.8 - - - -
24A ALA* 3.6 8.0 + - - +
25A GLU* 2.9 40.6 + - - +
26A LEU* 2.7 24.4 + - - +
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Residues in contact with PRO 23 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21A LEU 3.9 3.6 - - - +
22A THR* 1.3 85.3 - - - +
24A ALA* 1.3 64.7 + - - +
26A LEU* 3.4 7.1 - - + +
27A ILE* 3.0 29.0 + - - +
57A GLN* 2.8 34.7 - - - +
29C ILE* 3.2 29.6 - - + +
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Residues in contact with ALA 24 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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22A THR* 3.2 7.8 + - - +
23A PRO* 1.3 82.5 - - - +
25A GLU* 1.3 62.9 + - + +
27A ILE* 4.0 2.8 - - - +
28A GLU* 3.2 20.3 + - - +
29C ILE 3.2 12.2 + - - +
30C GLY* 4.3 8.6 - - - -
31C GLY* 4.5 12.8 - - - +
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Residues in contact with GLU 25 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21A LEU* 3.2 29.8 - - + +
22A THR* 2.8 52.7 + - + +
24A ALA* 1.3 70.4 - - + +
26A LEU* 1.3 70.6 + - - +
28A GLU* 2.9 21.6 + - - +
29A ARG* 2.9 19.5 + - - +
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Residues in contact with LEU 26 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21A LEU* 4.0 24.1 - - + +
22A THR 2.7 17.2 + - - +
23A PRO* 3.4 14.4 - - + +
25A GLU* 1.3 70.8 - - - +
27A ILE* 1.3 57.9 + - + +
29A ARG* 2.6 37.5 + - + +
30A LEU* 3.0 4.6 + - - -
50A ILE* 4.0 26.9 - - + +
53A CYS* 3.7 28.0 - - + +
54A VAL* 3.6 31.6 - - + +
57A GLN* 4.7 13.9 - - + +
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Residues in contact with ILE 27 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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23A PRO 3.0 16.3 + - - +
24A ALA* 4.0 4.0 - - - +
26A LEU* 1.3 79.3 - - + +
28A GLU* 1.3 65.0 + - - +
30A LEU* 2.9 25.0 + - + +
31A GLU* 3.0 31.2 + - + +
54A VAL* 4.3 15.7 - - + -
57A GLN* 5.9 2.5 - - + -
85A ILE* 3.4 46.4 - - + -
29C ILE* 3.6 25.1 - - + +
30C GLY* 5.2 6.3 - - - +
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Residues in contact with GLU 28 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24A ALA 3.2 12.9 + - - +
25A GLU* 2.9 21.3 + - - +
27A ILE* 1.3 80.5 - - - +
29A ARG* 1.3 77.1 + - - +
31A GLU* 3.4 18.1 + - - +
32A GLN* 3.5 13.0 + - + +
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Residues in contact with ARG 29 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21A LEU* 3.2 39.3 - - - +
25A GLU* 2.9 9.2 + - - +
26A LEU* 2.6 21.5 + - + +
28A GLU* 1.3 84.8 + - - +
30A LEU* 1.3 53.7 + - - +
32A GLN* 2.6 33.0 + - + +
33A ALA* 2.9 11.6 + - - +
50A ILE* 3.2 33.2 - - + -
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Residues in contact with LEU 30 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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26A LEU 3.0 5.7 + - - +
27A ILE* 2.9 21.2 + - + +
29A ARG* 1.3 76.3 - - - +
31A GLU* 1.3 53.8 + - + +
33A ALA* 4.5 1.8 - - + +
34A TRP* 2.7 37.7 + - - +
50A ILE* 3.3 34.9 - - + +
54A VAL* 3.7 24.2 - - + -
85A ILE* 4.3 8.3 - - + +
88A VAL* 4.2 12.6 - - + -
89A LEU* 4.1 37.2 - - + +
92A TYR* 4.4 18.2 - - + -
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Residues in contact with GLU 31 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27A ILE* 3.0 30.1 + - + +
28A GLU* 3.7 12.5 - - - +
29A ARG 3.1 0.2 - - - -
30A LEU* 1.3 75.9 - - + +
32A GLN* 1.3 58.8 + - - +
34A TRP* 3.9 15.3 - - + -
35A MSE 3.4 32.4 + - - +
84A ARG* 5.7 0.2 + - - -
88A VAL* 4.4 16.1 - - + +
8C PHE* 4.9 7.3 - - - -
9C LEU* 4.4 10.3 - - + +
12C LYS* 3.2 42.5 + - - +
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Residues in contact with GLN 32 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28A GLU* 3.5 10.0 + - + +
29A ARG* 2.6 29.0 + - + +
31A GLU* 1.3 72.9 - - - +
33A ALA* 1.3 51.2 + - - +
34A TRP 2.9 3.5 + - - -
35A MSE 3.1 7.1 + - - +
36A ASN* 2.7 61.4 + - - +
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Residues in contact with ALA 33 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29A ARG 2.9 7.0 + - - +
30A LEU* 4.0 4.9 - - - +
32A GLN* 1.3 75.9 - - - +
34A TRP* 1.3 60.0 + - - +
36A ASN* 4.0 8.9 - - - +
37A GLU* 3.3 14.0 + - - +
44A LEU* 5.7 0.2 - - - +
47A LYS* 4.3 13.0 - - + +
50A ILE* 4.0 27.8 - - + -
92A TYR* 2.9 37.9 - - + +
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Residues in contact with TRP 34 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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30A LEU 2.7 18.8 + - - +
31A GLU* 3.9 11.4 - - + -
33A ALA* 1.3 77.1 - - - +
35A MSE 1.3 90.4 + - + +
37A GLU* 3.5 5.9 + - - +
38A LYS* 3.3 30.5 + - + +
87A TYR* 4.0 22.2 - + - -
88A VAL* 3.3 31.4 - - + -
91A SER* 2.9 32.5 + - - -
92A TYR* 3.4 37.8 - - + -
95A CYS* 5.7 1.1 - - + +
1C MSE 3.4 27.8 - - + -
5C GLU* 4.2 13.5 - - + -
8C PHE* 4.8 2.9 - + - -
9C LEU* 4.3 16.8 - - + -
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Residues in contact with MSE 35 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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31A GLU* 3.4 21.4 + - - +
32A GLN* 3.1 9.2 + - - +
34A TRP* 1.3 97.0 - - + +
36A ASN* 1.3 68.7 + - - +
38A LYS* 3.1 15.0 + - + -
39A PHE* 3.2 32.7 + - + +
172A PHE* 5.8 2.7 - - + -
174A ARG* 6.0 4.0 - - - +
1C MSE 3.3 29.4 - - + -
9C LEU* 3.9 20.0 - - - -
150C LEU* 4.2 20.0 - - + -
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Residues in contact with ASN 36 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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32A GLN* 2.7 49.5 + - - +
33A ALA* 4.2 7.3 + - - +
35A MSE 1.3 74.0 - - - +
37A GLU* 1.3 57.9 + - - +
38A LYS 2.9 5.5 + - - -
39A PHE* 3.1 3.9 + - - +
40A ALA* 3.1 26.3 + - - +
44A LEU* 3.5 15.7 - - + -
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Residues in contact with GLU 37 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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33A ALA 3.3 16.6 + - - +
34A TRP 3.8 4.3 - - - +
35A MSE 3.3 0.4 - - - -
36A ASN* 1.3 77.2 - - - +
38A LYS* 1.3 57.0 + - - +
43A LEU* 3.6 3.8 - - - +
44A LEU* 2.8 44.8 + - + +
45A GLU 4.6 1.6 - - - +
92A TYR* 3.3 16.8 + - + -
95A CYS* 3.2 13.3 - - + -
96A ARG* 2.5 52.2 + - + +
99A LYS* 2.7 44.2 + - + +
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Residues in contact with LYS 38 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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34A TRP* 3.3 40.0 + - + +
35A MSE 3.1 9.4 + - - +
36A ASN 2.9 1.6 + - - -
37A GLU* 1.3 80.2 - - - +
39A PHE* 1.3 62.4 + - + +
40A ALA 3.6 1.1 - - - -
91A SER* 3.8 10.7 + - - -
95A CYS* 4.0 21.1 - - - +
0C MSE 3.0 41.9 + - - +
1C MSE 3.7 20.2 - - + -
5C GLU* 3.2 26.5 + - - +
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Residues in contact with PHE 39 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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35A MSE 3.2 28.9 + - + +
36A ASN* 3.1 5.1 + - - +
38A LYS* 1.3 84.0 - - + +
40A ALA* 1.3 60.8 + - - +
41A PRO* 3.3 8.0 - - - +
171A VAL* 2.9 34.8 - - + +
172A PHE* 3.2 52.7 - + + +
208A TYR* 5.0 0.2 - - - -
0C MSE 4.1 26.0 - - - +
1C MSE 3.5 42.8 - - + -
150C LEU* 6.2 1.3 - - + -
154C ASN* 4.0 13.0 - - - -
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Residues in contact with ALA 40 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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36A ASN 3.1 15.1 + - - +
37A GLU 4.1 0.5 - - - +
38A LYS 5.0 0.9 - - - -
39A PHE* 1.3 77.3 - - - +
41A PRO* 1.3 61.0 - - - +
42A GLU 2.9 3.0 + - - +
44A LEU* 3.2 35.4 - - + -
99A LYS* 2.8 31.8 + - - +
208A TYR* 3.9 16.2 - - + -
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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