Contacts of the helix formed by residues 9 - 44 (chain B) in PDB entry 1ZXA
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 ALA 9 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10B LYS* 1.3 71.3 + - + +
11B ILE* 3.3 3.0 - - - +
12B LEU* 3.0 19.4 + - + +
13B MET* 2.8 34.9 + - + +
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Residues in contact with LYS 10 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9B ALA* 1.3 80.8 - - + +
11B ILE* 1.3 68.1 + - + +
13B MET* 3.4 4.7 + - - +
14B LEU* 3.2 20.8 + - - +
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Residues in contact with ILE 11 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9B ALA 3.3 1.2 - - - +
10B LYS* 1.3 80.1 - - + +
12B LEU* 1.3 61.7 + - - +
14B LEU* 3.4 9.8 + - + +
15B LYS* 3.0 43.0 + - + +
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Residues in contact with LEU 12 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12A LEU* 4.8 22.4 - - + -
15A LYS* 3.2 32.0 + - + +
9B ALA* 3.0 22.2 + - + +
11B ILE* 1.3 80.4 - - - +
13B MET* 1.3 70.4 + - + +
15B LYS* 4.6 5.4 - - + -
16B GLU* 3.1 18.6 + - - +
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Residues in contact with MET 13 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9B ALA* 2.8 27.0 + - + +
10B LYS* 3.9 4.9 - - - +
12B LEU* 1.3 82.4 - - + +
14B LEU* 1.3 68.0 + - - +
16B GLU* 2.7 34.4 + - - +
17B GLU* 2.8 14.1 + - - +
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Residues in contact with LEU 14 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10B LYS 3.2 14.4 + - - +
11B ILE* 3.4 10.3 + - + +
13B MET* 1.3 78.5 - - - +
15B LYS* 1.3 64.5 + - + +
17B GLU* 3.1 10.0 + - + +
18B ARG* 2.9 45.4 + - + +
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Residues in contact with LYS 15 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12A LEU* 4.2 23.0 + - - +
15A LYS* 3.2 27.4 - - - +
16A GLU* 4.9 15.6 + - - +
19A ILE* 4.2 21.8 - - + +
11B ILE* 3.0 40.0 + - + +
12B LEU* 4.8 4.7 - - + -
14B LEU* 1.3 77.4 - - + +
16B GLU* 1.3 63.8 + - - +
18B ARG* 3.2 14.7 + - - +
19B ILE* 3.1 26.7 + - - +
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Residues in contact with GLU 16 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15A LYS* 3.3 12.3 - - - +
12B LEU* 3.1 12.7 + - + +
13B MET* 2.7 37.3 + - - +
15B LYS* 1.3 73.7 - - - +
17B GLU* 1.3 61.1 + - - +
19B ILE* 3.4 6.0 + - + +
20B LYS* 3.0 30.2 + - + +
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Residues in contact with GLU 17 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13B MET 2.8 10.8 + - - +
14B LEU* 3.5 14.4 - - + +
16B GLU* 1.3 78.4 - - - +
18B ARG* 1.3 63.7 + - - +
20B LYS* 4.7 14.9 - - - +
21B GLU* 3.0 38.8 + - - +
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Residues in contact with ARG 18 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14B LEU* 2.9 37.8 + - + +
15B LYS* 3.2 16.1 + - - +
17B GLU* 1.3 78.1 - - + +
19B ILE* 1.3 65.9 + - + +
21B GLU* 3.6 8.9 - - - +
22B LEU* 3.1 19.9 + - - +
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Residues in contact with ILE 19 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15A LYS* 3.5 34.1 - - + -
18A ARG* 5.4 22.2 - - + +
19A ILE* 3.9 31.0 - - + -
22A LEU* 5.3 14.1 - - + -
15B LYS 3.1 10.4 + - - +
16B GLU* 3.7 7.2 - - + +
17B GLU 3.3 0.2 - - - -
18B ARG* 1.3 74.3 - - + +
20B LYS* 1.3 61.2 + - - +
22B LEU* 2.6 32.3 + - + +
23B GLU* 2.8 13.7 + - + +
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Residues in contact with LYS 20 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16B GLU* 3.0 20.3 + - + +
17B GLU* 4.2 13.7 - - - +
19B ILE* 1.3 80.2 - - - +
21B GLU* 1.3 63.7 + - - +
23B GLU* 3.0 32.2 + - - +
24B LYS* 3.1 12.5 + - - +
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Residues in contact with GLU 21 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17B GLU* 3.0 34.7 + - - +
18B ARG* 3.6 8.1 - - - +
19B ILE 2.8 1.4 + - - -
20B LYS* 1.3 75.3 - - - +
22B LEU* 1.3 64.6 + - + +
24B LYS* 3.1 17.7 + - + +
25B ARG* 3.2 12.9 + - + +
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Residues in contact with LEU 22 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A LEU* 4.4 23.8 - - + -
26A LEU* 4.2 27.4 - - + -
18B ARG 3.1 13.5 + - - +
19B ILE* 2.6 17.9 + - + +
21B GLU* 1.3 74.3 - - - +
23B GLU* 1.3 55.6 + - - +
25B ARG* 3.2 20.7 + - + +
26B LEU* 2.8 39.8 + - + +
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Residues in contact with GLU 23 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19B ILE* 2.8 11.7 + - + +
20B LYS* 3.0 28.9 + - - +
22B LEU* 1.3 77.7 - - - +
24B LYS* 1.3 61.5 + - - +
26B LEU* 3.4 11.0 + - + +
27B SER* 3.1 23.1 + - - -
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Residues in contact with LYS 24 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20B LYS 3.1 8.0 + - - +
21B GLU* 3.1 13.0 + - + +
23B GLU* 1.3 78.5 - - - +
25B ARG* 1.3 61.5 + - - +
27B SER* 2.6 26.0 + - - +
28B GLU* 2.7 39.6 + - - +
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Residues in contact with ARG 25 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A LEU* 6.1 2.6 - - - +
30A GLU* 5.9 0.8 + - - -
21B GLU* 3.2 9.1 + - + +
22B LEU* 3.2 25.1 + - + +
24B LYS* 1.3 79.6 - - - +
26B LEU* 1.3 63.9 + - - +
28B GLU* 3.2 14.9 + - + +
29B LYS* 3.1 53.3 + - - +
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Residues in contact with LEU 26 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A LEU* 5.5 11.4 - - + -
26A LEU* 3.8 32.8 - - + -
29A LYS* 6.1 4.5 - - + -
22B LEU* 2.8 28.1 + - + +
23B GLU* 3.6 11.0 - - + +
24B LYS 3.2 0.2 - - - -
25B ARG* 1.3 78.2 - - - +
27B SER* 1.3 63.3 + - - +
29B LYS* 3.3 8.3 + - + +
30B GLU* 3.2 20.4 + - - +
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Residues in contact with SER 27 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23B GLU* 3.1 13.3 + - - -
24B LYS* 2.6 25.9 + - - +
26B LEU* 1.3 78.4 - - - +
28B GLU* 1.3 65.2 + - - +
30B GLU* 3.3 15.4 + - - +
31B GLU* 3.2 21.1 + - - +
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Residues in contact with GLU 28 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24B LYS* 2.7 43.7 + - - +
25B ARG* 3.2 16.8 + - + +
27B SER* 1.3 85.4 + - - +
29B LYS* 1.3 62.9 + - - +
31B GLU* 3.3 10.6 + - - +
32B GLU* 3.1 34.0 + - - +
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Residues in contact with LYS 29 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A LEU* 6.1 4.9 - - - -
29A LYS* 5.9 2.0 - - + -
30A GLU* 4.5 17.7 - - - -
33A ILE* 3.8 26.2 - - + -
25B ARG* 3.1 51.8 + - - +
26B LEU* 3.7 12.3 - - + +
28B GLU* 1.3 76.8 - - - +
30B GLU* 1.3 65.6 + - - +
32B GLU* 3.0 23.4 + - + +
33B ILE* 2.9 33.2 + - + +
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Residues in contact with GLU 30 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29A LYS* 6.1 0.9 - - - +
26B LEU 3.2 9.5 + - - +
27B SER* 3.3 16.0 + - - +
29B LYS* 1.3 79.5 - - - +
31B GLU* 1.3 64.4 + - - +
33B ILE* 3.3 13.2 + - + +
34B GLN* 3.1 21.4 + - + +
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Residues in contact with GLU 31 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27B SER 3.2 9.6 + - - +
28B GLU* 3.7 11.4 - - - +
30B GLU* 1.3 80.3 - - - +
32B GLU* 1.3 63.8 + - + +
34B GLN* 3.3 17.2 + - - +
35B GLU* 3.1 19.6 + - - +
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Residues in contact with GLU 32 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28B GLU* 3.1 21.6 + - - +
29B LYS* 3.0 29.6 + - + +
31B GLU* 1.3 76.2 - - + +
33B ILE* 1.3 67.8 + - + +
35B GLU* 2.9 23.6 + - - +
36B LEU* 3.0 13.0 + - - +
----------------------------------------------------------
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Residues in contact with ILE 33 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29A LYS* 3.3 37.2 - - + +
33A ILE* 4.2 30.3 - - + -
29B LYS* 2.9 28.4 + - + +
30B GLU* 3.7 10.3 - - + +
32B GLU* 1.3 76.0 - - + +
34B GLN* 1.3 62.2 + - - +
36B LEU* 3.4 11.6 + - + +
37B LYS* 3.0 27.2 + - + +
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Residues in contact with GLN 34 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30B GLU* 3.1 12.2 + - + +
31B GLU* 3.4 20.3 - - - +
32B GLU 3.0 0.8 - - - -
33B ILE* 1.3 79.0 - - - +
35B GLU* 1.3 62.4 + - - +
37B LYS* 3.3 7.5 + - + +
38B ARG* 3.1 24.3 + - + +
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Residues in contact with GLU 35 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31B GLU* 3.1 8.9 + - + +
32B GLU* 2.9 15.3 + - - +
34B GLN* 1.3 80.1 - - - +
36B LEU* 1.3 63.8 + - - +
38B ARG* 3.4 9.9 + - + +
39B LYS* 3.1 21.8 + - + +
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Residues in contact with LEU 36 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A ILE* 6.0 5.8 - - + +
36A LEU* 4.5 28.3 - - + -
37A LYS* 5.5 7.4 - - + +
40A LEU* 5.0 16.6 - - + -
32B GLU 3.0 11.0 + - - +
33B ILE* 3.7 14.8 - - + +
35B GLU* 1.3 78.3 - - - +
37B LYS* 1.3 63.6 + - - +
39B LYS* 3.2 16.9 + - + +
40B LEU* 3.2 21.6 + - + +
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Residues in contact with LYS 37 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A LEU* 5.8 9.6 - - - -
33B ILE* 3.0 21.9 + - + +
34B GLN* 3.7 7.6 - - + +
36B LEU* 1.3 78.0 - - - +
38B ARG* 1.3 63.5 + - - +
40B LEU* 3.2 19.5 + - + +
41B HIS* 3.0 24.0 + - + +
----------------------------------------------------------
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Residues in contact with ARG 38 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34B GLN* 3.1 15.1 + - + +
35B GLU* 3.7 13.2 - - + +
36B LEU 3.3 0.4 - - - -
37B LYS* 1.3 79.4 - - - +
39B LYS* 1.3 63.0 + - - +
41B HIS* 3.1 16.3 + - + +
42B LYS* 3.1 45.4 + - + +
----------------------------------------------------------
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Residues in contact with LYS 39 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A LEU* 6.0 3.8 - - - +
44A GLN* 5.2 8.1 + - - -
35B GLU 3.1 10.8 + - - +
36B LEU* 3.5 21.5 - - + +
37B LYS 3.2 0.2 - - - -
38B ARG* 1.3 80.3 - - - +
40B LEU* 1.3 64.3 + - - +
42B LYS* 3.3 6.2 + - - +
43B CYS* 2.9 31.8 + - + +
----------------------------------------------------------
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Residues in contact with LEU 40 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A LEU* 4.8 10.1 - - + -
39A LYS* 6.2 1.1 - - + -
40A LEU* 4.0 37.9 - - + -
36B LEU* 3.2 11.7 + - + +
37B LYS* 3.6 23.1 - - + +
39B LYS* 1.3 79.4 - - - +
41B HIS* 1.3 64.2 + - - +
43B CYS* 2.7 38.0 - - - -
44B GLN* 3.2 11.1 + - + +
----------------------------------------------------------
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Residues in contact with HIS 41 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37B LYS* 3.0 17.8 + - + +
38B ARG* 3.1 14.6 + - + +
40B LEU* 1.3 80.3 - - - +
42B LYS* 1.3 79.0 + - + +
44B GLN* 3.5 16.6 + - - +
----------------------------------------------------------
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Residues in contact with LYS 42 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38B ARG* 3.1 53.9 + - + +
39B LYS* 3.9 6.5 - - - +
41B HIS* 1.3 89.5 - - + +
43B CYS* 1.3 70.0 + - - +
44B GLN 3.0 6.8 + - - -
----------------------------------------------------------
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Residues in contact with CYS 43 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A LEU* 5.7 4.3 - - - -
39B LYS* 2.9 22.4 + - + +
40B LEU* 2.7 49.1 - - - -
42B LYS* 1.3 76.6 - - - +
44B GLN* 1.3 73.6 + - - +
----------------------------------------------------------
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Residues in contact with GLN 44 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B LEU* 3.2 13.2 + - + +
41B HIS* 3.5 17.5 - - - +
42B LYS 3.0 7.7 + - - -
43B CYS* 1.3 94.0 - - - +
----------------------------------------------------------
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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