Contacts of the helix formed by residues 36 - 58 (chain A) in PDB entry 1ECX
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 HIS 36 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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30A GLY* 5.3 0.9 - - - -
31A ASN 5.2 4.5 - - - -
34A SER* 3.5 23.1 + - - -
35A ALA* 1.3 82.2 - - - +
37A GLY* 1.3 66.2 + - - +
38A MET* 3.3 18.1 + - + +
39A GLY* 3.0 34.8 + - - -
40A ILE* 2.9 21.6 + - - +
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Residues in contact with GLY 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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36A HIS* 1.3 75.0 - - - +
38A MET* 1.3 56.4 + - - +
40A ILE* 3.2 12.0 + - - +
41A GLU* 2.9 29.3 + - - +
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Residues in contact with MET 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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27A GLU 3.6 24.0 - - - +
28A LYS* 4.9 2.5 - - - -
29A TYR* 3.6 35.2 - - + +
30A GLY* 3.8 22.7 + - - +
36A HIS* 3.3 15.6 + - + +
37A GLY* 1.3 70.7 - - - +
39A GLY* 1.3 66.0 + - - +
41A GLU* 3.7 16.8 - - - +
42A ALA* 3.1 23.7 + - - +
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Residues in contact with GLY 39 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A ASN 3.2 22.9 - - - -
32A PRO* 3.6 4.2 - - - +
34A SER* 3.5 23.8 - - - -
36A HIS* 3.0 13.6 + - - -
38A MET* 1.3 79.4 - - - +
40A ILE* 1.3 60.8 + - - +
42A ALA* 3.2 3.1 + - - +
43A ASN* 2.9 22.9 + - - +
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Residues in contact with ILE 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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34A SER 3.7 3.3 + - - +
35A ALA* 3.4 23.6 - - - +
36A HIS 2.9 16.6 + - - +
37A GLY* 3.4 10.5 - - - +
39A GLY* 1.3 75.9 - - - +
41A GLU* 1.3 58.2 + - - +
43A ASN* 3.2 8.5 + - - +
44A LEU* 2.9 36.0 + - + +
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Residues in contact with GLU 41 (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 GLU 5.0 0.2 - - - +
28A LYS* 3.0 52.4 + - + +
30A GLY 5.6 0.2 + - - -
37A GLY 2.9 16.2 + - - +
38A MET* 3.7 21.4 - - - +
40A ILE* 1.3 77.7 - - - +
42A ALA* 1.3 62.9 + - - +
44A LEU* 3.3 6.5 + - - +
45A HIS* 3.2 40.3 + - + +
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Residues in contact with ALA 42 (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 PHE* 5.3 2.2 - - - -
28A LYS* 4.7 9.4 - - - +
30A GLY* 3.3 29.8 - - - +
32A PRO* 3.9 13.9 - - + -
38A MET 3.1 8.4 + - - +
39A GLY 3.6 7.4 - - - +
41A GLU* 1.3 79.8 + - - +
43A ASN* 1.3 63.9 + - - +
45A HIS* 3.2 8.3 + - - +
46A MET* 2.9 23.0 + - - +
241A VAL* 4.5 12.9 - - + +
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Residues in contact with ASN 43 (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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32A PRO* 3.5 31.6 - - - +
39A GLY 2.9 9.1 + - - +
40A ILE* 3.6 11.4 - - - +
42A ALA* 1.3 78.0 - - - +
44A LEU* 1.3 62.5 + - - +
46A MET* 3.3 23.9 - - - +
47A GLU* 2.9 35.1 + - - +
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Residues in contact with LEU 44 (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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40A ILE* 2.9 19.0 + - + +
41A GLU* 3.5 11.2 - - - +
42A ALA 3.2 0.2 - - - -
43A ASN* 1.3 78.5 - - - +
45A HIS* 1.3 74.1 + - + +
47A GLU* 3.2 8.0 + - - +
48A LYS* 3.0 52.1 + - + +
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Residues in contact with HIS 45 (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 PHE* 3.4 43.6 - + + -
28A LYS* 3.8 26.9 + - + +
41A GLU* 3.2 24.6 + - + +
42A ALA 3.2 6.8 + - - +
44A LEU* 1.3 91.9 - - + +
46A MET* 1.3 65.0 + - - +
48A LYS* 3.2 23.8 + - - +
49A ALA* 3.0 21.7 + - - +
241A VAL* 5.3 0.2 - - + -
245A VAL* 4.4 9.2 - - + +
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Residues in contact with MET 46 (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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32A PRO* 4.3 9.0 - - + -
42A ALA 2.9 17.5 + - - +
43A ASN* 3.3 26.9 - - - +
45A HIS* 1.3 74.4 - - - +
47A GLU* 1.3 76.6 + - - +
49A ALA* 3.1 9.8 + - - +
50A ARG* 3.0 40.3 + - - +
66A PHE* 5.2 0.2 - - + -
231A GLU* 4.6 0.7 - - - +
239A GLN* 3.6 47.6 - - - +
241A VAL* 4.9 9.9 - - + -
244A ILE* 4.1 22.7 - - + +
245A VAL* 5.0 5.3 - - - +
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Residues in contact with GLU 47 (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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43A ASN* 2.9 35.0 + - - +
44A LEU* 3.7 5.6 - - - +
46A MET* 1.3 83.1 - - + +
48A LYS* 1.3 64.7 + - - +
50A ARG* 2.8 49.3 + - - +
51A GLU* 2.9 38.8 + - - +
61A PRO* 5.6 0.7 - - - +
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Residues in contact with LYS 48 (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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44A LEU* 3.0 40.4 + - + +
45A HIS* 3.2 26.4 + - - +
47A GLU* 1.3 75.7 - - - +
49A ALA* 1.3 54.6 + - - +
51A GLU* 3.0 16.2 + - - +
52A LYS* 2.7 43.0 + - - +
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Residues in contact with ALA 49 (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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45A HIS 3.0 12.8 + - - +
46A MET* 3.1 11.2 - - - +
48A LYS* 1.3 76.8 - - - +
50A ARG* 1.3 62.3 + - - +
52A LYS* 3.0 13.1 + - - +
53A VAL* 3.1 12.0 + - - +
66A PHE* 4.2 1.8 - - - -
244A ILE* 3.5 28.9 - - + +
245A VAL* 4.1 9.0 - - + -
248A ALA* 3.4 26.4 - - + +
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Residues in contact with ARG 50 (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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46A MET* 3.0 25.8 + - - +
47A GLU* 2.8 43.2 + - - +
48A LYS 3.3 0.2 - - - -
49A ALA* 1.3 76.3 - - - +
51A GLU* 1.3 57.9 + - - +
53A VAL* 3.6 2.8 + - - +
54A ALA* 3.1 25.5 + - - +
61A PRO* 3.2 34.9 - - + +
62A SER* 5.1 1.8 - - - +
64A ILE* 2.8 40.3 + - + +
65A PHE* 5.4 1.0 - - - -
66A PHE* 3.7 25.5 - - + -
231A GLU* 2.8 39.5 + - - +
232A ARG* 6.0 7.1 - - - +
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Residues in contact with GLU 51 (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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47A GLU* 2.9 29.3 + - - +
48A LYS* 3.4 15.7 - - - +
50A ARG* 1.3 77.2 - - - +
52A LYS* 1.3 63.6 + - - +
54A ALA* 3.8 1.6 - - - +
55A LYS* 3.0 24.4 + - - +
61A PRO* 3.8 29.2 - - + +
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Residues in contact with LYS 52 (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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20A GLU* 6.1 0.7 - - - -
48A LYS* 2.7 24.6 + - - +
49A ALA* 3.0 7.2 + - - +
51A GLU* 1.3 73.6 - - - +
53A VAL* 1.3 58.2 + - - +
55A LYS* 3.6 8.0 + - + +
56A VAL* 3.1 33.5 + - + +
248A ALA* 3.5 31.0 - - + +
249A ARG* 4.2 9.6 - - - +
252A GLU* 2.7 53.1 + - + +
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Residues in contact with VAL 53 (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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49A ALA 3.1 15.0 + - - +
50A ARG 3.8 7.6 - - - +
52A LYS* 1.3 73.9 - - - +
54A ALA* 1.3 56.8 + - - +
56A VAL* 3.0 7.3 + - - +
57A LEU* 2.8 56.3 + - + +
64A ILE* 3.9 21.8 - - + -
66A PHE* 4.4 8.7 - - + -
212A ILE* 4.1 22.9 - - + -
248A ALA* 3.8 23.6 - - + -
251A MET* 3.9 13.0 - - + -
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Residues in contact with ALA 54 (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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50A ARG 3.1 13.9 + - - +
51A GLU 3.8 4.5 - - - +
53A VAL* 1.3 78.4 - - - +
55A LYS* 1.3 53.3 + - - +
58A GLY* 2.7 31.0 + - - -
59A VAL* 2.9 40.0 + - - +
60A SER 3.7 2.7 - - - -
61A PRO* 3.4 29.8 - - + -
64A ILE* 4.0 5.2 - - + -
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Residues in contact with LYS 55 (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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51A GLU 3.0 17.7 + - - +
52A LYS* 3.6 9.0 - - + +
54A ALA* 1.3 80.7 - - - +
56A VAL* 1.3 65.0 + - + +
58A GLY* 3.2 9.9 + - - -
59A VAL 5.0 0.9 - - - -
252A GLU* 6.1 0.9 - - - +
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Residues in contact with VAL 56 (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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52A LYS* 3.1 22.4 + - + +
53A VAL 3.0 5.5 + - - +
55A LYS* 1.3 80.2 - - + +
57A LEU* 1.3 65.2 + - + +
58A GLY* 3.5 0.3 + - - -
182A ILE* 5.4 0.2 - - + -
187A PHE 5.1 3.1 - - - +
188A SER* 5.3 2.6 + - - -
251A MET* 3.7 28.9 - - + -
252A GLU* 3.8 34.1 - - + +
255A VAL* 3.7 29.7 - - + +
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Residues in contact with LEU 57 (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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53A VAL* 2.8 37.4 + - + +
54A ALA 4.3 1.6 - - - +
56A VAL* 1.3 75.4 - - + +
58A GLY* 1.3 60.3 + - - +
59A VAL* 4.5 5.8 - - + -
64A ILE* 4.2 12.1 - - + -
182A ILE* 4.3 6.1 - - + -
187A PHE* 4.1 21.3 - - + +
188A SER* 3.4 6.6 + - - -
189A LEU* 3.0 44.6 + - + +
199A PHE* 3.8 42.6 - - + -
212A ILE* 4.9 2.0 - - + -
214A TYR* 5.1 1.1 - - + -
251A MET* 4.0 21.5 - - + -
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Residues in contact with GLY 58 (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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54A ALA 2.7 10.0 + - - -
55A LYS* 3.2 11.0 + - - -
56A VAL 3.2 0.6 + - - -
57A LEU* 1.3 79.6 - - - +
59A VAL* 1.3 62.0 + - - +
188A SER* 4.5 1.6 - - - -
190A GLU* 3.3 37.2 - - - +
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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