Contacts of the helix formed by residues 37 - 55 (chain K) 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 K).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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36K GLN* 1.3 78.0 - - - +
38K ILE* 1.3 67.8 + - + +
39K GLU* 4.1 9.6 - - - +
40K SER* 2.8 34.2 + - - -
41K GLN* 3.0 17.9 + - - +
111K LEU* 4.3 3.8 - - - -
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Residues in contact with ILE 38 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37K ASP* 1.3 73.4 - - + +
39K GLU* 1.3 66.8 + - + +
41K GLN* 3.1 4.3 + - + +
42K ILE* 2.9 48.9 + - + +
70K PHE* 4.7 3.8 - - + -
75K ASN* 3.7 44.4 - - + +
78K VAL* 4.2 14.4 - - + -
111K LEU* 3.9 40.4 - - + +
112K PHE* 4.0 14.8 - - + -
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Residues in contact with GLU 39 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37K ASP* 3.3 10.1 + - - +
38K ILE* 1.3 82.3 - - + +
40K SER* 1.3 57.4 + - - +
42K ILE* 3.3 4.5 + - - +
43K ASN* 3.0 36.2 + - - +
78K VAL* 3.9 22.1 - - + +
81K LYS* 4.4 20.6 + - - +
82K MSE 3.7 33.0 - - + +
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Residues in contact with SER 40 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33K ASN* 2.8 16.6 + - - +
36K GLN* 3.3 37.8 + - - +
37K ASP* 2.8 28.0 + - - -
39K GLU* 1.3 72.8 - - - +
41K GLN* 1.3 53.8 + - - +
43K ASN* 3.4 6.0 + - - -
44K GLY 2.8 29.8 + - - -
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Residues in contact with GLN 41 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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31K VAL* 5.6 0.2 - - - +
32K GLY 3.4 13.3 + - - +
33K ASN 3.6 14.4 - - - +
34K VAL* 4.4 4.4 - - - +
35K GLY 3.5 12.0 - - - +
36K GLN 2.9 19.4 + - - +
37K ASP 3.0 16.3 + - - +
38K ILE* 3.1 9.8 + - - +
40K SER* 1.3 75.4 - - - +
42K ILE* 1.3 58.1 + - - +
45K ALA* 3.0 28.8 + - - +
109K GLY 2.8 27.1 + - - -
110K LEU* 3.7 9.4 - - - +
111K LEU* 2.8 34.0 + - + +
112K PHE* 3.5 18.3 + - + +
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Residues in contact with ILE 42 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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38K ILE* 2.9 37.9 + - + +
39K GLU* 3.6 4.7 - - - +
41K GLN* 1.3 75.3 - - - +
43K ASN* 1.3 65.1 + - - +
45K ALA* 3.2 3.6 + - - +
46K PHE* 3.0 51.2 + - + -
70K PHE* 4.6 3.6 - - + -
78K VAL* 3.8 11.2 - - + -
79K MSE 3.8 33.4 - - + +
82K MSE 4.0 15.9 - - + -
112K PHE* 3.7 34.5 - - + -
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Residues in contact with ASN 43 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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33K ASN* 4.7 3.1 - - - +
39K GLU* 3.0 25.2 + - - +
40K SER* 3.7 6.8 - - - +
42K ILE* 1.3 77.7 - - - +
44K GLY* 1.3 55.9 - - - +
46K PHE* 3.4 0.6 + - - -
47K ASP* 2.9 21.5 + - - +
82K MSE 3.1 45.8 - - - +
86K ARG* 2.8 44.3 + - - +
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Residues in contact with GLY 44 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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32K GLY* 3.5 23.3 - - - -
33K ASN* 3.4 20.1 - - - +
40K SER 2.8 15.6 + - - -
43K ASN* 1.3 70.2 - - - +
45K ALA* 1.3 64.5 + - - +
47K ASP* 3.4 9.9 + - - +
48K GLU* 3.1 19.4 + - - +
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Residues in contact with ALA 45 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30K CYS* 3.5 31.2 - - - +
31K VAL* 3.9 15.0 - - - +
32K GLY 3.8 0.6 - - - +
41K GLN 3.0 18.8 + - - +
42K ILE 3.2 4.7 + - - +
44K GLY* 1.3 74.5 - - - +
46K PHE* 1.3 59.1 + - - +
48K GLU* 3.3 1.2 + - - +
49K MSE 3.0 24.4 + - - +
112K PHE* 3.8 23.3 - - + +
113K GLN* 4.8 0.4 - - - -
114K VAL* 3.8 6.9 - - + +
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Residues in contact with PHE 46 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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42K ILE* 3.0 40.9 + - + +
43K ASN* 4.7 0.2 - - - -
45K ALA* 1.3 74.1 - - - +
47K ASP* 1.3 58.5 + - - +
49K MSE 3.0 35.0 + - + +
50K GLU* 2.8 32.7 + - - +
60K LEU* 5.1 2.5 - - + -
66K MSE 4.0 16.2 - - + -
79K MSE 4.3 9.9 - - + -
82K MSE 4.3 8.5 - - + -
83K ILE* 3.9 30.7 - - + -
86K ARG* 3.6 37.5 - - - +
87K PHE* 4.1 11.7 - + - -
112K PHE* 4.8 1.3 - + - -
114K VAL* 4.2 16.8 - - + -
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Residues in contact with ASP 47 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33K ASN* 4.6 5.4 + - - +
43K ASN* 2.9 23.3 + - - +
44K GLY* 3.4 16.0 - - - +
46K PHE* 1.3 75.2 - - - +
48K GLU* 1.3 57.3 + - - +
50K GLU* 3.2 8.0 + - - +
51K ARG* 2.8 28.7 + - - +
86K ARG* 2.6 37.8 + - - +
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Residues in contact with GLU 48 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29K TYR* 4.0 1.7 - - - +
30K CYS* 3.5 20.5 - - + -
31K VAL* 3.4 41.3 + - - +
44K GLY 3.1 7.1 + - - +
45K ALA 3.6 5.8 - - - +
47K ASP* 1.3 72.7 - - - +
49K MSE 1.3 64.0 + - - +
51K ARG* 2.9 37.2 + - - +
52K ARG* 3.0 51.0 + - - +
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Residues in contact with MSE 49 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27K LEU* 4.2 18.7 - - + +
30K CYS* 3.8 16.5 - - + -
45K ALA 3.0 13.2 + - - +
46K PHE* 3.0 48.2 - - + +
48K GLU* 1.3 76.1 - - - +
50K GLU* 1.3 62.3 + - - +
52K ARG* 3.3 2.3 + - - +
53K LEU* 3.0 35.8 + - + +
60K LEU* 3.4 31.0 - - + -
63K VAL* 4.3 12.3 - - - -
66K MSE 3.7 15.3 - - - +
87K PHE* 3.7 9.0 - - + -
114K VAL* 4.8 8.1 - - + -
115K ASP 5.3 4.7 - - - +
116K GLY* 5.8 0.2 - - - -
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Residues in contact with GLU 50 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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46K PHE 2.8 17.1 + - - +
47K ASP* 3.6 9.1 - - - +
49K MSE 1.3 69.2 - - - +
51K ARG* 1.3 67.1 - - - +
53K LEU* 3.5 7.9 + - - +
54K ALA* 3.0 24.9 + - - +
58K LEU 4.8 1.0 - - - +
59K THR* 6.1 1.3 - - - +
60K LEU* 3.4 39.5 + - + +
86K ARG* 2.8 31.4 + - - +
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Residues in contact with ARG 51 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8K ASP* 3.1 39.3 + - - -
47K ASP 2.8 19.5 + - - +
48K GLU* 2.9 35.7 + - - +
50K GLU* 1.3 74.5 - - - +
52K ARG* 1.3 72.6 + - - +
54K ALA* 3.3 16.5 + - - +
55K LEU* 3.6 22.6 + - + +
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Residues in contact with ARG 52 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8K ASP* 2.8 33.8 + - + +
15K HIS* 4.2 17.2 - - - -
17K GLY* 3.3 30.1 - - - +
18K LEU* 3.4 17.5 - - + +
27K LEU* 3.7 22.2 - - + -
28K ASN* 3.4 14.5 + - - +
29K TYR 2.8 27.5 + - - -
30K CYS* 3.4 9.4 - - - -
48K GLU* 3.0 40.0 + - - +
51K ARG* 1.3 82.6 - - - +
53K LEU* 1.3 66.1 + - - +
55K LEU* 2.9 27.7 + - - +
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Residues in contact with LEU 53 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18K LEU* 4.6 9.0 - - + -
25K TYR* 5.2 0.9 - - + -
27K LEU* 3.9 19.5 - - + -
49K MSE 3.0 27.5 + - + +
50K GLU* 3.5 5.6 + - - +
52K ARG* 1.3 75.2 - - - +
54K ALA* 1.3 56.4 + - - +
55K LEU 3.1 0.2 - - - -
56K VAL* 3.1 15.1 + - - +
58K LEU* 2.8 50.0 + - + +
59K THR* 3.6 24.7 - - - +
60K LEU* 4.1 6.1 - - + +
63K VAL* 3.7 18.8 - - + -
118K ALA* 3.9 26.7 - - + -
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Residues in contact with ALA 54 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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50K GLU 3.0 18.4 + - - +
51K ARG* 3.4 9.9 - - - +
52K ARG 3.1 0.2 - - - -
53K LEU* 1.3 76.0 - - - +
55K LEU* 1.3 61.8 + - + +
56K VAL 3.2 0.4 - - - -
57K GLY* 3.3 13.0 + - - +
58K LEU 3.6 8.7 + - - +
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Residues in contact with LEU 55 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7K TYR* 4.0 32.2 - - + -
8K ASP* 3.8 32.8 - - + +
18K LEU* 4.8 1.1 - - + -
51K ARG* 3.8 19.1 - - + +
52K ARG* 2.9 24.5 + - + +
54K ALA* 1.3 79.0 - - + +
56K VAL* 1.3 62.0 + - + +
57K GLY 3.5 0.2 - - - -
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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
------------------------------------------------------------
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