Contacts of the helix formed by residues 37 - 55 (chain H) in PDB entry 2EWC
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 ASP 37 (chain H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36H GLN* 1.3 78.8 - - - +
38H ILE* 1.3 68.3 + - + +
39H GLU* 3.6 10.3 + - - +
40H SER* 2.7 37.9 + - - -
41H GLN* 3.0 19.9 + - - +
111H LEU* 4.2 2.9 - - - -
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Residues in contact with ILE 38 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107E PRO* 5.8 1.3 - - + -
37H ASP* 1.3 74.0 - - + +
39H GLU* 1.3 66.2 + - + +
41H GLN* 3.3 2.2 + - + -
42H ILE* 3.0 44.0 + - + +
70H PHE* 4.7 2.7 - - + -
75H ASN* 3.7 43.7 - - + +
78H VAL* 4.4 13.0 - - + -
111H LEU* 3.8 37.6 - - + +
112H PHE* 4.0 16.6 - - + -
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Residues in contact with GLU 39 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37H ASP* 3.3 9.4 + - - +
38H ILE* 1.3 82.5 - - + +
40H SER* 1.3 58.3 + - - +
42H ILE* 3.3 3.6 + - - +
43H ASN* 3.0 36.0 + - - +
78H VAL* 3.9 21.2 - - + +
81H LYS* 3.0 34.0 + - - +
82H MSE 3.7 26.6 - - + +
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Residues in contact with SER 40 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33H ASN* 2.9 16.9 + - - +
36H GLN* 3.5 34.1 + - - -
37H ASP* 2.7 25.9 + - - -
39H GLU* 1.3 75.3 - - - +
41H GLN* 1.3 53.9 + - - +
43H ASN* 3.4 5.5 + - - -
44H GLY 2.7 30.7 + - - -
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Residues in contact with GLN 41 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32H GLY 3.5 13.2 + - - +
33H ASN 3.6 14.8 - - - +
34H VAL* 4.5 3.8 - - - +
35H GLY 3.7 3.9 - - - +
36H GLN 2.8 27.4 + - - +
37H ASP 3.0 19.1 + - - +
38H ILE* 3.8 4.9 - - - +
40H SER* 1.3 75.3 - - - +
42H ILE* 1.3 56.7 + - - +
45H ALA* 2.9 29.8 + - - +
109H GLY 2.7 26.6 + - - -
110H LEU* 3.6 10.5 - - - +
111H LEU* 2.7 36.3 + - + +
112H PHE* 3.5 18.9 + - + +
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Residues in contact with ILE 42 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38H ILE* 3.0 39.6 + - + +
39H GLU 3.7 4.3 - - - +
41H GLN* 1.3 74.3 - - - +
43H ASN* 1.3 60.8 + - - +
45H ALA* 3.4 2.9 + - - +
46H PHE* 3.1 52.5 + - + -
70H PHE* 4.5 4.7 - - + -
78H VAL* 3.8 11.4 - - + -
79H MSE 3.7 37.7 - - + +
82H MSE 4.1 15.5 - - + -
112H PHE* 3.7 30.5 - - + -
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Residues in contact with ASN 43 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33H ASN* 4.8 2.9 - - - +
39H GLU* 3.0 25.9 + - - +
40H SER* 3.8 6.5 - - - +
42H ILE* 1.3 76.7 - - - +
44H GLY* 1.3 57.1 + - - +
46H PHE* 3.4 0.4 + - - -
47H ASP* 2.9 32.4 + - - +
82H MSE 3.1 46.2 - - - +
86H ARG* 3.0 35.4 + - - +
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Residues in contact with GLY 44 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32H GLY* 3.7 22.3 - - - -
33H ASN* 3.5 15.5 - - - +
40H SER 2.7 20.9 + - - -
43H ASN* 1.3 71.1 - - - +
45H ALA* 1.3 63.8 + - - +
47H ASP* 3.3 9.6 + - - +
48H GLU* 3.1 23.2 + - - +
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Residues in contact with ALA 45 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30H CYS* 3.4 31.4 - - - +
31H VAL* 4.0 13.0 - - - +
32H GLY 3.7 1.2 - - - +
41H GLN 2.9 21.2 + - - +
42H ILE 3.7 4.9 - - - +
43H ASN 3.4 0.2 - - - -
44H GLY* 1.3 72.3 - - - +
46H PHE* 1.3 58.9 + - - +
48H GLU* 3.3 2.3 + - - +
49H MSE 3.0 23.9 + - - +
112H PHE* 3.7 22.4 - - + +
114H VAL* 3.9 6.7 - - + +
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Residues in contact with PHE 46 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42H ILE* 3.1 40.9 + - + +
45H ALA* 1.3 73.0 - - - +
47H ASP* 1.3 59.8 - - - +
49H MSE 3.4 14.1 + - - +
50H GLU* 2.9 32.9 + - - +
60H LEU* 4.6 4.6 - - + +
66H MSE 3.6 32.5 - - + -
79H MSE 4.2 11.9 - - + -
82H MSE 4.5 11.9 - - + -
83H ILE* 3.8 31.6 - - + -
86H ARG* 3.6 30.5 - - - +
87H PHE* 4.0 15.5 - + - -
112H PHE* 4.9 2.5 - + - -
114H VAL* 4.1 18.8 - - + -
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Residues in contact with ASP 47 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33H ASN* 4.6 5.7 + - - +
43H ASN* 2.9 24.6 + - - +
44H GLY* 3.5 12.8 - - - +
45H ALA 3.3 0.2 - - - -
46H PHE* 1.3 77.2 - - - +
48H GLU* 1.3 56.0 + - - +
50H GLU* 3.3 6.5 + - - +
51H ARG* 2.9 27.7 + - - +
86H ARG* 2.6 33.9 + - - +
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Residues in contact with GLU 48 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29H TYR* 4.0 1.9 - - - +
30H CYS* 3.5 16.0 - - + -
31H VAL* 3.1 44.1 + - - +
44H GLY 3.1 7.8 + - - +
45H ALA 3.3 6.0 + - - +
47H ASP* 1.3 73.6 - - - +
49H MSE 1.3 59.7 + - - +
51H ARG* 2.9 33.2 + - - +
52H ARG* 3.0 57.2 + - - +
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Residues in contact with MSE 49 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27H LEU* 4.0 25.5 - - + +
30H CYS* 3.7 15.0 - - - -
45H ALA 3.0 14.4 + - - +
46H PHE* 3.6 16.4 - - + +
48H GLU* 1.3 73.2 - - - +
50H GLU* 1.3 56.8 + - - +
52H ARG* 3.3 2.8 + - - +
53H LEU* 2.9 48.6 + - + +
60H LEU* 3.9 19.7 - - + -
63H VAL* 4.1 10.3 - - + -
66H MSE 4.0 28.9 - - + +
87H PHE* 4.7 0.2 - - - -
114H VAL* 4.2 11.9 - - + +
115H ASP* 3.9 26.9 - - - +
116H GLY* 4.3 1.1 - - - +
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Residues in contact with GLU 50 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46H PHE 2.9 18.3 + - - +
47H ASP* 3.5 7.3 - - - +
49H MSE 1.3 74.1 - - - +
51H ARG* 1.3 58.9 + - - +
53H LEU* 3.5 8.0 + - - +
54H ALA* 2.9 29.6 + - - +
58H LEU 4.5 1.7 - - - +
59H THR* 5.5 4.9 - - - +
60H LEU* 3.6 38.9 + - + +
86H ARG* 2.5 30.3 + - - -
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Residues in contact with ARG 51 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8H ASP* 2.9 42.2 + - - +
47H ASP 2.9 16.3 + - - +
48H GLU* 2.9 36.3 + - - +
50H GLU* 1.3 74.5 - - - +
52H ARG* 1.3 74.4 + - - +
54H ALA* 3.3 16.1 + - + +
55H LEU* 3.4 26.2 + - + +
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Residues in contact with ARG 52 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8H ASP* 2.8 34.9 + - + +
15H HIS* 4.3 16.2 - - - -
17H GLY* 3.6 30.1 - - - +
18H LEU* 3.9 17.6 - - + +
27H LEU* 3.8 17.3 - - + -
28H ASN* 3.5 9.5 + - - +
29H TYR* 2.9 27.7 + - - -
30H CYS* 3.4 16.9 - - - -
48H GLU* 3.0 41.4 + - - +
49H MSE 3.7 4.0 - - - +
51H ARG* 1.3 81.6 - - - +
53H LEU* 1.3 65.0 + - - +
55H LEU* 3.0 29.0 + - - +
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Residues in contact with LEU 53 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18H LEU* 4.4 9.9 - - + -
27H LEU* 4.2 11.7 - - + -
49H MSE 2.9 33.5 + - + +
50H GLU* 3.9 5.2 - - - +
51H ARG 3.4 0.2 - - - -
52H ARG* 1.3 75.5 - - - +
54H ALA* 1.3 56.8 + - - +
56H VAL* 3.1 15.5 + - + +
58H LEU* 2.8 53.1 + - + +
59H THR* 3.6 23.8 - - - +
60H LEU* 4.1 5.6 - - + +
63H VAL* 3.6 20.4 - - + -
118H ALA* 3.5 30.7 - - + -
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Residues in contact with ALA 54 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50H GLU 2.9 18.3 + - - +
51H ARG* 3.5 10.1 - - - +
52H ARG 3.2 0.4 - - - -
53H LEU* 1.3 74.0 - - - +
55H LEU* 1.3 64.4 + - + +
57H GLY* 3.1 13.5 + - - +
58H LEU 3.5 8.7 + - - +
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Residues in contact with LEU 55 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7H TYR* 4.0 36.3 - - + -
8H ASP* 3.8 31.9 - - + +
18H LEU* 5.0 0.9 - - + -
51H ARG* 3.5 20.2 - - + +
52H ARG* 3.0 25.7 + - + +
54H ALA* 1.3 77.6 - - - +
56H VAL* 1.3 60.6 + - + +
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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