Contacts of the helix formed by residues 36 - 58 (chain B) 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 B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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30B GLY* 5.3 1.3 - - - -
31B ASN 5.2 4.5 - - - -
34B SER* 3.4 22.2 + - - -
35B ALA* 1.3 80.4 - - - +
37B GLY* 1.3 62.1 + - - +
38B MET* 3.4 19.0 + - + +
39B GLY* 2.9 33.9 + - - -
40B ILE* 2.8 27.2 + - - +
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Residues in contact with GLY 37 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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36B HIS* 1.3 74.4 - - - +
38B MET* 1.3 57.3 + - - +
40B ILE* 3.4 11.4 + - - +
41B GLU* 2.9 28.6 + - - +
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Residues in contact with MET 38 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27B GLU 3.5 25.1 - - - +
28B LYS* 4.8 3.1 - - - -
29B TYR* 3.7 37.0 - - + +
30B GLY* 4.0 18.6 + - - +
36B HIS* 3.3 16.1 + - + +
37B GLY* 1.3 71.7 - - - +
39B GLY* 1.3 65.4 + - - +
41B GLU* 3.6 16.5 - - - +
42B ALA* 3.0 24.6 + - - +
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Residues in contact with GLY 39 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31B ASN 3.4 23.1 - - - -
32B PRO* 3.7 5.5 - - - +
34B SER* 3.4 22.7 - - - -
36B HIS* 2.9 13.7 + - - -
38B MET* 1.3 78.3 - - - +
40B ILE* 1.3 61.8 + - - +
41B GLU 3.2 0.2 + - - -
42B ALA 3.3 0.2 + - - -
43B ASN* 3.0 24.4 + - - +
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Residues in contact with ILE 40 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34B SER 3.6 3.3 + - - +
35B ALA* 3.3 28.7 - - - +
36B HIS 2.8 11.4 + - - +
37B GLY* 3.6 9.0 - - - +
39B GLY* 1.3 77.3 - - - +
41B GLU* 1.3 62.6 + - - +
43B ASN* 3.5 7.1 + - - +
44B LEU* 3.2 21.4 + - + +
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Residues in contact with GLU 41 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28B LYS* 2.9 50.3 + - + +
37B GLY 2.9 18.4 + - - +
38B MET* 3.6 19.1 - - - +
39B GLY 3.1 0.2 - - - -
40B ILE* 1.3 77.2 - - + +
42B ALA* 1.3 67.5 + - - +
44B LEU* 3.1 23.3 + - + +
45B HIS* 3.3 23.3 + - + +
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Residues in contact with ALA 42 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24B PHE* 5.3 2.0 - - - -
28B LYS* 4.5 13.0 - - - +
30B GLY* 3.3 29.2 - - - +
32B PRO* 4.0 11.4 - - + -
38B MET 3.0 16.6 + - - +
39B GLY 3.9 2.9 - - - +
41B GLU* 1.3 75.8 - - - +
43B ASN* 1.3 62.7 + - - +
44B LEU 3.2 0.2 + - - -
45B HIS* 3.3 8.5 + - - +
46B MET* 3.0 22.7 + - - +
241B VAL* 4.5 11.9 - - + +
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Residues in contact with ASN 43 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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32B PRO* 3.3 31.1 - - - +
39B GLY 3.0 13.1 + - - +
40B ILE* 3.7 8.5 + - - +
41B GLU 3.2 0.2 - - - -
42B ALA* 1.3 77.8 - - - +
44B LEU* 1.3 63.7 + - - +
46B MET* 3.3 19.3 + - - +
47B GLU* 3.0 34.4 + - - +
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Residues in contact with LEU 44 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40B ILE* 3.2 13.2 + - + +
41B GLU* 3.1 13.6 + - + +
43B ASN* 1.3 77.9 - - - +
45B HIS* 1.3 70.7 + - + +
47B GLU* 3.1 8.5 + - + +
48B LYS* 2.8 47.4 + - + +
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Residues in contact with HIS 45 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24B PHE* 3.4 43.0 - + + -
28B LYS* 4.1 22.6 + - + +
41B GLU* 3.3 26.7 + - + +
42B ALA 3.3 5.6 + - - +
44B LEU* 1.3 87.8 - - + +
46B MET* 1.3 65.7 + - - +
48B LYS* 3.8 30.8 + - + +
49B ALA* 3.1 21.8 + - - +
241B VAL* 5.3 0.4 - - + -
245B VAL* 4.1 9.5 - - + +
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Residues in contact with MET 46 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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32B PRO* 4.2 10.5 - - + -
42B ALA 3.0 16.5 + - - +
43B ASN* 3.6 26.2 - - - +
44B LEU 3.2 0.2 - - - -
45B HIS* 1.3 75.8 - - - +
47B GLU* 1.3 75.8 + - - +
49B ALA* 3.1 9.4 - - - +
50B ARG* 3.0 39.0 + - - +
66B PHE* 4.6 0.6 - - + -
231B GLU* 4.7 0.4 - - - +
239B GLN* 3.6 50.5 - - - +
241B VAL* 4.8 14.1 - - + +
244B ILE* 4.3 22.6 - - + +
245B VAL* 5.2 1.1 - - - -
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Residues in contact with GLU 47 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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43B ASN* 3.0 35.5 + - - +
44B LEU* 3.6 6.5 - - + +
46B MET* 1.3 83.4 - - + +
48B LYS* 1.3 64.9 + - - +
50B ARG* 3.0 49.4 + - - +
51B GLU* 3.0 39.7 + - - +
61B PRO* 5.6 1.2 - - - +
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Residues in contact with LYS 48 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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44B LEU* 2.8 42.9 + - + +
45B HIS* 3.8 30.1 - - - +
47B GLU* 1.3 73.3 - - - +
49B ALA* 1.3 52.2 + - - +
51B GLU* 3.0 18.6 + - - +
52B LYS* 2.8 36.4 + - - +
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Residues in contact with ALA 49 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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45B HIS 3.1 12.9 + - - +
46B MET* 3.1 10.1 - - - +
48B LYS* 1.3 73.5 - - - +
50B ARG* 1.3 66.9 + - - +
52B LYS* 2.9 15.7 + - - +
53B VAL* 2.9 17.0 + - - +
66B PHE* 4.4 1.6 - - - -
244B ILE* 3.7 26.9 - - + +
245B VAL* 4.3 7.6 - - - -
248B ALA* 3.6 21.3 - - + +
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Residues in contact with ARG 50 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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46B MET* 3.0 25.5 + - - +
47B GLU* 3.0 43.1 + - - +
49B ALA* 1.3 75.6 - - - +
51B GLU* 1.3 57.7 + - - +
53B VAL* 3.4 3.3 + - - +
54B ALA* 2.9 27.8 + - - +
61B PRO* 3.1 34.8 - - + +
62B SER* 5.1 2.0 - - - +
64B ILE* 2.9 31.6 + - + +
65B PHE* 5.6 0.4 - - - -
66B PHE* 3.6 28.9 - - + -
231B GLU* 2.8 39.4 + - - +
232B ARG* 5.8 7.4 - - - +
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Residues in contact with GLU 51 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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47B GLU* 3.0 28.1 + - - +
48B LYS* 3.2 21.9 - - - +
50B ARG* 1.3 76.3 - - + +
52B LYS* 1.3 65.8 + - - +
54B ALA* 3.7 1.2 - - - +
55B LYS* 2.9 26.0 + - - +
61B PRO* 4.0 28.1 - - + +
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Residues in contact with LYS 52 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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20B GLU* 6.1 0.4 - - - -
48B LYS 2.8 16.5 + - - +
49B ALA* 2.9 8.7 + - - +
51B GLU* 1.3 73.5 - - - +
53B VAL* 1.3 63.0 - - - +
55B LYS* 3.5 6.9 + - - +
56B VAL* 3.1 24.5 + - + +
248B ALA* 3.4 34.1 - - + +
249B ARG* 3.9 11.4 - - - +
252B GLU* 2.8 52.9 + - + +
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Residues in contact with VAL 53 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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49B ALA 2.9 15.1 + - - +
50B ARG 3.6 7.6 - - - +
52B LYS* 1.3 74.1 - - - +
54B ALA* 1.3 68.4 + - - +
56B VAL* 3.0 4.2 + - - +
57B LEU* 2.9 27.1 + - + +
64B ILE* 3.8 30.7 - - + -
66B PHE* 4.4 10.1 - - + -
212B ILE* 4.0 23.3 - - + -
248B ALA* 3.8 24.9 - - + -
251B MET* 3.9 23.1 - - - -
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Residues in contact with ALA 54 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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50B ARG 2.9 18.6 + - - +
51B GLU 3.7 4.0 - - - +
53B VAL* 1.3 75.0 - - - +
55B LYS* 1.3 56.8 + - - +
57B LEU 3.4 0.3 + - - -
58B GLY 2.8 9.4 + - - -
59B VAL* 2.8 48.6 + - + +
60B SER 3.7 2.9 - - - -
61B PRO* 3.4 37.0 - - + -
64B ILE* 3.9 5.2 - - + -
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Residues in contact with LYS 55 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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51B GLU 2.9 17.7 + - - +
52B LYS* 3.6 7.0 - - - +
54B ALA* 1.3 78.0 - - - +
56B VAL* 1.3 64.8 + - + +
58B GLY* 3.0 14.1 + - - +
59B VAL 4.9 1.6 - - - -
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Residues in contact with VAL 56 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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52B LYS* 3.1 17.5 + - + +
53B VAL 3.0 7.4 + - - +
55B LYS* 1.3 79.0 - - + +
57B LEU* 1.3 66.2 + - + +
58B GLY 3.4 0.3 + - - -
182B ILE* 5.4 0.2 - - + -
187B PHE 4.8 5.4 - - - +
188B SER* 5.0 3.8 + - - -
251B MET* 3.7 20.9 - - + -
252B GLU* 3.8 35.2 - - + +
255B VAL* 3.5 38.4 - - + +
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Residues in contact with LEU 57 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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53B VAL* 2.9 35.4 + - + +
54B ALA 4.1 2.5 - - - +
56B VAL* 1.3 78.4 - - + +
58B GLY* 1.3 60.1 + - - +
59B VAL* 4.2 8.5 - - + -
64B ILE* 4.0 15.3 - - + -
182B ILE* 4.2 6.7 - - + -
187B PHE* 4.2 18.6 - - + +
188B SER* 3.3 5.0 + - - -
189B LEU* 3.0 42.7 + - + +
190B GLU 3.7 0.2 + - - -
199B PHE* 3.8 44.9 - - + -
212B ILE* 4.7 0.9 - - + -
214B TYR* 5.2 0.4 - - + -
251B MET* 4.1 18.6 - - + -
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Residues in contact with GLY 58 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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54B ALA 2.8 7.9 + - - -
55B LYS* 3.0 12.6 + - - -
56B VAL 3.2 0.8 + - - -
57B LEU* 1.3 79.9 - - - +
59B VAL* 1.3 61.3 + - - +
188B SER* 4.4 6.7 - - - -
190B GLU* 3.5 30.6 - - - +
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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
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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