Contacts of the helix formed by residues 22 - 52 (chain A) in PDB entry 1ZLL
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 GLN 22 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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20A MET* 2.7 16.9 + - - +
21A PRO* 1.3 71.0 + - - +
23A GLN* 1.3 70.0 + - - +
24A ALA 2.9 0.7 - - - -
25A ARG* 2.5 44.8 + - + +
26A GLN* 3.4 13.1 + - + +
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Residues in contact with GLN 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 PRO* 2.3 51.0 + - + +
22A GLN* 1.3 83.4 - - - +
24A ALA* 1.3 80.2 + - - +
26A GLN* 3.6 3.8 + - - +
27A LYS* 3.0 51.7 + - + +
14B ARG* 5.7 3.6 + - - -
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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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20A MET* 4.9 5.2 - - + -
21A PRO* 3.9 26.0 + - + -
22A GLN 2.6 5.3 + - - -
23A GLN* 1.3 87.0 - - - +
25A ARG* 1.3 65.8 + - - +
27A LYS* 4.5 3.4 - - - -
28A LEU* 2.8 45.9 + - + +
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Residues in contact with ARG 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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18A ILE* 3.7 31.7 - - - +
20A MET* 3.3 33.3 - - + +
22A GLN* 2.5 27.9 + - + +
24A ALA* 1.3 76.0 - - - +
26A GLN* 1.3 65.2 + - - +
28A LEU* 3.8 3.5 - - - +
29A GLN* 3.2 32.8 + - - +
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Residues in contact with GLN 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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22A GLN* 3.4 14.2 + - + +
23A GLN* 4.2 7.0 - - - +
24A ALA 3.4 0.2 - - - -
25A ARG* 1.3 80.7 - - - +
27A LYS* 1.3 68.6 + - + +
29A GLN* 2.9 35.1 + - - +
30A ASN* 3.0 19.8 - - - +
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Residues in contact with LYS 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 GLN* 3.0 43.3 + - - +
24A ALA* 4.1 3.1 - - - +
26A GLN* 1.3 80.3 - - + +
28A LEU* 1.3 59.0 + - + +
30A ASN* 5.0 1.1 - - - -
31A LEU* 2.8 59.1 + - + +
14B ARG* 5.4 10.2 - - - +
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Residues in contact with LEU 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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20A MET* 5.5 7.0 - - + -
24A ALA* 2.8 47.3 + - + +
25A ARG* 3.8 5.4 - - - +
27A LYS* 1.3 73.0 - - + +
29A GLN* 1.3 58.7 + - - +
31A LEU* 4.5 4.0 - - + -
32A PHE* 2.6 44.3 + - + +
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Residues in contact with GLN 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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25A ARG* 3.2 22.9 + - - +
26A GLN* 2.9 37.5 + - - +
28A LEU* 1.3 77.6 - - - +
30A ASN* 1.3 78.5 + - - +
32A PHE* 3.7 3.6 - - - +
33A ILE* 3.2 29.5 + - + +
34E ASN* 4.6 14.6 - - - +
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Residues in contact with ASN 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 GLN* 3.0 33.6 + - - +
27A LYS* 4.3 1.3 - - - +
29A GLN* 1.3 87.4 + - - +
31A LEU* 1.3 74.9 + - + +
32A PHE 3.0 0.7 + - - -
33A ILE* 3.2 19.0 + - - +
34A ASN* 3.2 13.6 + - - +
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Residues in contact with LEU 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 LYS* 2.8 51.2 + - + +
28A LEU* 4.3 5.2 - - + +
30A ASN* 1.3 81.2 - - + +
32A PHE* 1.3 61.1 + - - +
34A ASN* 2.3 34.4 + - - +
35A PHE* 2.9 9.4 + - - +
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Residues in contact with PHE 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 LEU* 2.6 34.0 + - + +
29A GLN* 3.7 4.0 - - - +
31A LEU* 1.3 73.9 - - - +
33A ILE* 1.3 71.6 + - + +
35A PHE* 2.6 29.0 + + + +
36A CYS* 2.7 45.2 + - - -
34E ASN* 5.2 3.1 - - + -
37E LEU* 4.7 6.5 - - + -
38E ILE* 3.6 44.0 - - + -
41E CYS* 5.4 4.0 - - - -
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Residues in contact with ILE 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 GLN* 3.2 18.1 + - + +
30A ASN* 3.2 12.8 + - - +
32A PHE* 1.3 80.2 - - + +
34A ASN* 1.3 68.1 + - - +
36A CYS* 2.8 22.8 + - - +
37A LEU* 3.1 25.2 + - + +
33B ILE* 6.1 0.4 - - + -
33E ILE* 6.4 0.7 - - + -
34E ASN* 4.7 18.4 - - - +
37E LEU* 3.7 26.9 - - + -
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Residues in contact with ASN 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 ASN 3.2 7.1 + - - +
31A LEU* 2.3 44.5 + - - +
32A PHE 3.2 0.8 - - - -
33A ILE* 1.3 81.7 - - - +
35A PHE* 1.3 67.7 + - - +
36A CYS 3.3 0.3 + - - -
37A LEU* 3.3 13.5 + - - +
38A ILE* 3.3 36.9 + - - +
29B GLN* 6.0 5.4 - - + -
33B ILE* 4.4 16.1 - - + +
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Residues in contact with PHE 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 LEU 2.9 10.5 + - - +
32A PHE* 2.6 32.2 + + - +
34A ASN* 1.3 85.3 - - - +
36A CYS* 1.3 55.3 + - - -
38A ILE* 3.4 13.6 + - + +
39A LEU* 2.8 55.8 + - + +
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Residues in contact with CYS 36 (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 PHE* 2.7 76.8 + - - -
33A ILE* 2.8 10.9 + - - +
35A PHE* 1.3 72.2 - - - +
37A LEU* 1.3 69.6 + - + +
39A LEU* 2.8 9.6 + - - +
40A ILE* 2.8 39.2 + - + +
37E LEU* 4.6 16.4 - - + -
41E CYS* 4.8 6.3 - - - -
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Residues in contact with LEU 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 ILE* 3.1 23.3 + - + +
34A ASN* 3.3 7.2 + - - +
36A CYS* 1.3 80.4 - - + +
38A ILE* 1.3 58.7 + - + +
40A ILE* 3.4 11.6 + - + +
41A CYS* 2.5 36.3 + - - -
33B ILE* 3.4 45.1 - - + -
36B CYS* 4.8 13.9 - - + -
37B LEU* 5.1 11.7 - - + -
40B ILE* 4.8 7.1 - - + +
37E LEU* 6.0 6.5 - - + -
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Residues in contact with ILE 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 ASN* 3.3 28.2 + - - +
35A PHE* 3.8 14.1 - - + +
36A CYS 3.2 0.2 - - - -
37A LEU* 1.3 79.2 - - + +
39A LEU* 1.3 63.1 + - - +
41A CYS* 3.2 8.8 + - + +
42A LEU* 3.1 39.1 + - + +
32B PHE* 4.1 34.5 - - + -
36B CYS* 5.4 0.4 - - - -
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Residues in contact with LEU 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 PHE* 2.8 44.5 + - + +
36A CYS* 2.8 7.7 + - - +
38A ILE* 1.3 78.4 - - - +
40A ILE* 1.3 63.8 + - + +
42A LEU* 3.5 4.8 + - - +
43A LEU* 3.0 48.0 + - + +
41E CYS* 4.2 28.3 - - + -
45E ILE* 5.6 6.3 - - + -
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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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36A CYS* 2.8 39.8 + - + +
37A LEU* 3.9 12.8 - - + +
39A LEU* 1.3 73.0 - - + +
41A CYS* 1.3 66.9 + - - +
43A LEU* 3.2 10.0 - - + +
44A LEU* 3.1 27.8 + - + +
40B ILE* 5.5 12.8 - - + -
37E LEU* 5.3 7.0 - - + +
40E ILE* 5.2 9.2 - - + -
41E CYS* 4.4 18.4 - - - -
44E LEU* 4.1 26.7 - - + -
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Residues in contact with CYS 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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37A LEU 2.5 33.0 - - - -
38A ILE* 3.5 10.8 - - + +
39A LEU 3.1 0.4 - - - -
40A ILE* 1.3 75.7 - - - +
42A LEU* 1.3 68.4 + - + +
43A LEU 2.7 5.3 + - - -
44A LEU* 3.0 13.1 + - - +
45A ILE* 3.1 16.9 + - + +
32B PHE* 6.4 0.4 - - - -
36B CYS* 4.7 9.6 - - - -
39B LEU* 4.3 21.8 - - + -
40B ILE* 3.8 31.2 - - - -
43B LEU* 4.9 3.3 - - + +
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Residues in contact with LEU 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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38A ILE* 3.1 30.5 + - + +
39A LEU* 4.1 4.5 - - - +
41A CYS* 1.3 80.0 - - + +
43A LEU* 1.3 63.0 + - - +
45A ILE* 3.6 17.1 + - + +
46A CYS* 3.1 29.5 + - - -
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Residues in contact with LEU 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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39A LEU* 3.0 43.8 + - + +
40A ILE* 3.2 16.2 - - + +
41A CYS 2.7 5.7 + - - -
42A LEU* 1.3 70.8 - - + +
44A LEU* 1.3 71.8 + - + +
46A CYS* 2.7 27.8 + - + +
47A ILE* 3.2 10.2 + - + +
41E CYS* 5.1 2.2 - - - +
44E LEU* 4.2 23.8 - - + -
45E ILE* 4.7 18.2 - - + -
48E ILE* 3.4 30.1 - - + -
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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* 3.1 26.6 + - + +
41A CYS* 3.0 9.8 + - - +
43A LEU* 1.3 78.4 - - + +
45A ILE* 1.3 63.6 + - - +
47A ILE* 3.4 22.8 + - + +
48A ILE* 3.0 28.4 + - + +
40B ILE* 5.7 8.5 - - + -
43B LEU* 4.7 17.3 - - + -
44B LEU* 5.0 15.0 - - + +
47B ILE* 3.6 29.6 - - + -
44E LEU* 4.4 16.4 - - + -
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Residues in contact with ILE 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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41A CYS* 3.1 19.0 + - + +
42A LEU* 3.6 21.1 - - + +
43A LEU 2.9 1.0 + - - -
44A LEU* 1.3 77.8 - - - +
46A CYS* 1.3 66.3 + - - +
48A ILE* 3.1 10.1 + - + +
49A VAL* 2.9 34.3 + - + +
39B LEU* 5.3 6.3 - - + -
43B LEU* 4.4 24.5 - - + -
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Residues in contact with CYS 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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42A LEU* 3.1 22.1 + - - -
43A LEU* 2.7 20.0 + - + +
45A ILE* 1.3 75.9 - - - +
47A ILE* 1.3 67.9 + - + +
49A VAL* 2.9 20.2 + - - +
50A MET* 3.1 12.2 + - - +
48E ILE* 5.0 9.2 - - + -
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Residues in contact with ILE 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 LEU* 3.2 15.2 + - + +
44A LEU* 3.6 32.1 - - + +
46A CYS* 1.3 73.3 - - - +
48A ILE* 1.3 66.1 + - + +
50A MET* 2.9 23.1 + - + +
51A LEU* 3.1 25.2 + - + +
47B ILE* 6.1 1.3 - - + -
44E LEU* 5.2 11.7 - - + +
47E ILE* 6.3 4.0 - - + -
48E ILE* 4.2 28.7 - - + +
51E LEU* 4.4 22.4 - - + -
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Residues in contact with ILE 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 21.0 + - + +
45A ILE* 3.4 9.4 - - + +
47A ILE* 1.3 76.9 - - + +
49A VAL* 1.3 67.9 + - + +
50A MET 2.8 1.6 + - - -
51A LEU* 2.8 22.1 + - + +
52A LEU* 3.2 27.2 + - + +
43B LEU* 3.7 22.0 - - + -
46B CYS* 3.4 30.5 - - - -
47B ILE* 3.8 27.4 - - + -
50B MET* 5.5 6.1 - - + -
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Residues in contact with VAL 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 ILE* 2.9 33.2 + - + +
46A CYS* 2.9 10.5 + - - +
48A ILE* 1.3 77.8 - - + +
50A MET* 1.3 59.7 + - - +
52A LEU* 3.7 29.7 - - + +
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Residues in contact with MET 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 CYS 3.1 8.4 + - - +
47A ILE* 2.9 17.4 + - + +
48A ILE 2.8 2.0 + - - -
49A VAL* 1.3 78.9 - - - +
51A LEU* 1.3 63.9 + - + +
52A LEU 3.4 3.5 + - - -
48E ILE* 5.0 9.9 - - + +
51E LEU* 3.9 38.8 - - + +
52E LEU* 4.1 24.5 - - + -
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Residues in contact with LEU 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 ILE* 3.1 32.6 + - + +
48A ILE* 2.8 21.0 + - + +
50A MET* 1.3 72.5 - - + +
52A LEU* 1.3 69.9 + - + +
47B ILE* 4.5 19.7 - - + -
50B MET* 6.2 4.9 - - + -
51B LEU* 4.7 19.1 - - + -
51E LEU* 6.0 6.5 - - + -
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Residues in contact with LEU 52 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A ILE* 3.2 26.8 + - + +
49A VAL* 3.7 30.7 - - + +
50A MET 3.3 4.6 - - - -
51A LEU* 1.3 85.6 - - + +
50B MET* 4.2 26.2 - - + -
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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) + - + + + + + -
------------------------------------------------------------
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