Contacts of the helix formed by residues 31 - 54 (chain A) in PDB entry 4TZJ
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 ILE 31 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28A ASP* 3.2 19.3 + - + +
29A LEU 3.3 4.9 - - - +
30A GLU* 1.3 79.6 - - + +
32A GLU* 1.3 61.3 + - - +
33A LYS* 3.7 24.7 - - + +
34A ASN* 3.4 24.9 - - - +
35A SER* 2.9 23.7 + - - -
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Residues in contact with GLU 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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30A GLU 3.4 3.0 + - - -
31A ILE* 1.3 74.2 - - - +
33A LYS* 1.3 53.8 + - - +
35A SER* 3.1 3.2 + - - -
36A GLU* 2.8 50.7 + - - +
97A GLN 5.1 4.5 - - - +
232A HIS* 3.5 45.1 + - + +
233A HIS* 4.5 6.6 + - + +
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Residues in contact with LYS 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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31A ILE* 3.3 14.1 - - + +
32A GLU* 1.3 78.6 - - - +
34A ASN* 1.3 63.7 + - - +
36A GLU* 3.2 30.6 - - - +
37A MET* 3.3 34.0 + - + +
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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
----------------------------------------------------------
26A PRO* 3.6 21.9 - - + +
27A VAL 3.1 24.1 + - - +
28A ASP* 3.4 26.5 + - - +
29A LEU* 3.8 3.6 - - + +
31A ILE* 3.3 26.0 + - + +
32A GLU 3.3 0.4 - - - -
33A LYS* 1.3 79.2 - - - +
35A SER* 1.3 65.6 + - - +
37A MET* 3.6 15.3 + - - +
38A PHE* 3.2 23.9 + - - +
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Residues in contact with SER 35 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29A LEU* 3.6 17.6 + - - -
31A ILE 2.9 15.2 + - - -
32A GLU* 3.3 9.6 - - - -
34A ASN* 1.3 76.3 - - - +
36A GLU* 1.3 64.4 + - - +
38A PHE* 3.6 7.4 + - - +
39A ALA* 3.2 16.1 + - - +
230A GLY* 3.5 5.9 - - - -
231A GLY 3.4 4.9 + - - -
232A HIS 3.1 21.1 + - - -
233A HIS* 2.6 34.5 + - - +
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Residues in contact with GLU 36 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A GLU* 2.8 29.7 + - - +
33A LYS* 3.2 19.0 - - - +
35A SER* 1.3 72.6 - - - +
37A MET* 1.3 69.5 + - + +
39A ALA* 2.9 17.2 + - - +
40A LEU* 3.3 11.1 + - - +
96A ILE* 4.9 9.3 - - + +
97A GLN* 3.1 55.4 + - + +
233A HIS* 3.3 25.0 - - + +
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Residues in contact with MET 37 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A PRO* 4.1 13.9 - - + -
33A LYS* 3.3 42.3 + - + +
34A ASN* 4.1 14.8 - - - +
35A SER 3.6 0.2 - - - -
36A GLU* 1.3 80.2 - - + +
38A PHE* 1.3 61.9 + - - +
40A LEU* 3.5 6.1 + - - +
41A ARG* 3.1 61.1 + - - +
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Residues in contact with PHE 38 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21A TRP* 3.6 30.7 - + - -
25A PHE* 3.7 30.1 - + + -
26A PRO* 4.1 8.6 - - + +
29A LEU* 3.9 21.3 - - + -
34A ASN 3.2 16.3 + - - +
35A SER 3.7 6.3 - - - +
36A GLU 3.1 0.6 - - - -
37A MET* 1.3 80.4 - - - +
39A ALA* 1.3 60.3 + - - +
41A ARG* 3.4 0.7 + - - +
42A TYR* 2.9 39.8 + + + +
161A THR* 3.9 27.8 - - + -
165A PHE* 4.9 3.6 - + - -
228A VAL* 4.2 25.4 - - + -
229A CYS 4.7 5.2 - - - -
230A GLY* 4.7 8.1 - - - -
235A ILE* 4.5 8.7 - - + -
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Residues in contact with ALA 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 SER 3.2 10.3 + - - +
36A GLU* 2.9 11.3 + - - +
38A PHE* 1.3 82.7 - - - +
40A LEU* 1.3 63.2 + - - +
42A TYR* 3.5 2.1 + - - +
43A ILE* 3.4 25.1 + - - +
96A ILE* 4.7 8.3 - - + -
125A PHE* 4.2 15.0 - - + -
233A HIS* 4.2 12.8 - - + -
235A ILE* 3.6 28.9 - - + +
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Residues in contact with LEU 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 GLU 3.3 8.1 + - - +
37A MET* 3.9 9.0 - - - +
38A PHE 3.3 0.2 - - - -
39A ALA* 1.3 77.3 - - - +
41A ARG* 1.3 65.6 + - + +
43A ILE* 3.1 18.2 + - + +
44A LYS* 2.9 36.5 + - + +
89A PHE* 3.8 30.5 - - + +
92A LEU* 4.2 9.9 - - + -
93A ARG* 3.3 61.2 - - + +
96A ILE* 4.2 15.2 - - + +
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Residues in contact with ARG 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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22A LYS 5.4 1.2 + - - -
23A ALA 5.5 1.0 + - - -
24A THR* 2.9 31.7 + - + +
25A PHE* 3.8 18.0 - - + +
26A PRO* 4.0 21.2 - - - +
37A MET* 3.1 47.3 + - - +
38A PHE 4.1 0.2 - - - +
40A LEU* 1.3 81.5 - - + +
42A TYR* 1.3 57.4 + - - +
44A LYS* 3.7 11.2 - - + +
45A CYS* 2.8 36.5 + - - +
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Residues in contact with TYR 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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25A PHE* 3.8 8.9 - - + -
38A PHE* 2.9 28.7 + + + +
39A ALA* 3.6 5.2 - - - +
40A LEU 3.1 0.2 - - - -
41A ARG* 1.3 78.0 - - - +
43A ILE* 1.3 60.4 + - + +
45A CYS* 3.7 1.9 - - - +
46A ALA* 3.0 25.0 + - + +
123A PHE* 4.5 9.9 - + - -
165A PHE* 3.6 38.4 - + - -
168A THR* 3.5 19.5 - - + +
169A ILE* 4.0 12.1 - - + -
226A GLY 4.5 1.9 + - - -
228A VAL* 3.5 30.5 - - + +
235A ILE* 3.7 33.7 - - + -
237A MET* 3.4 27.6 - - + +
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Residues in contact with ILE 43 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A ALA 3.5 12.3 - - - +
40A LEU* 3.1 22.4 + - + +
42A TYR* 1.3 75.1 - - + +
44A LYS* 1.3 61.5 + - - +
46A ALA* 4.1 0.3 - - - +
47A SER* 2.7 36.9 + - - -
89A PHE* 4.4 5.6 - - + -
92A LEU* 4.2 15.9 - - + -
96A ILE* 4.9 0.4 - - + -
101A LEU* 4.9 2.9 - - + -
104A PHE* 3.8 28.7 - - + -
123A PHE* 3.8 36.2 - - + -
125A PHE* 3.9 28.5 - - + -
235A ILE* 4.0 9.2 - - + -
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Residues in contact with LYS 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 LEU* 2.9 23.8 + - + +
41A ARG* 3.7 11.7 - - + +
43A ILE* 1.3 79.0 - - - +
45A CYS* 1.3 58.0 + - - +
47A SER* 3.7 2.1 - - - -
48A ALA* 3.1 27.5 + - - +
75A PHE* 3.9 17.5 - - + +
86A SER* 3.1 42.9 + - - -
89A PHE* 3.9 30.1 - - + -
90A ASP* 4.6 9.3 + - - -
93A ARG* 5.3 5.2 - - - +
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Residues in contact with CYS 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 THR* 4.2 25.4 - - - -
25A PHE* 4.2 11.2 - - + -
41A ARG* 2.8 22.8 + - - +
42A TYR 3.7 3.6 - - - +
44A LYS* 1.3 75.6 - - - +
46A ALA* 1.3 65.2 + - - +
48A ALA* 3.2 5.1 + - - +
49A PHE* 3.0 22.3 + - - +
72A VAL* 5.0 11.9 - - + -
73A THR* 3.6 24.7 + - - +
74A ALA* 5.5 5.2 - - - +
165A PHE* 5.6 4.9 - - + -
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Residues in contact with ALA 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 TYR* 3.0 18.1 + - + +
43A ILE 4.1 0.4 - - - +
45A CYS* 1.3 75.3 - - - +
47A SER* 1.3 52.5 + - - +
49A PHE* 3.1 8.5 + - - +
50A ILE* 2.8 41.4 + - - +
123A PHE* 3.6 29.8 - - + -
169A ILE* 4.9 10.0 - - + +
172A LEU* 4.5 8.5 - - + -
237A MET* 4.0 14.1 - - + -
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Residues in contact with SER 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 ILE 2.7 22.8 + - - -
44A LYS 3.7 1.6 - - - -
46A ALA* 1.3 77.1 - - - +
48A ALA* 1.3 54.3 + - - +
50A ILE* 3.0 2.7 + - - +
51A LEU* 2.8 41.6 + - - +
75A PHE* 4.9 1.8 - - - -
89A PHE* 3.6 21.2 - - - -
104A PHE* 3.4 16.5 - - - -
106A ILE* 3.3 30.6 - - - +
123A PHE* 4.5 2.1 - - - -
190A PHE* 5.1 2.2 - - - -
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Residues in contact with ALA 48 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A LYS 3.1 12.8 + - - +
45A CYS 3.5 8.3 - - - +
47A SER* 1.3 78.1 - - - +
49A PHE* 1.3 62.5 + - - +
51A LEU* 4.7 0.2 - - - -
52A ASP* 3.2 10.0 + - - +
62A PHE* 3.0 31.3 - - + -
73A THR* 4.0 21.3 - - - +
74A ALA* 4.2 5.4 - - - -
75A PHE* 3.9 28.4 - - + -
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Residues in contact with PHE 49 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A CYS 3.0 11.9 + - - +
46A ALA* 3.1 10.7 + - - +
48A ALA* 1.3 74.5 - - - +
50A ILE* 1.3 62.0 + - - +
52A ASP* 3.1 5.2 + - + +
53A ARG* 2.9 72.2 + - + +
71A LEU* 4.8 5.4 - - + -
72A VAL* 5.7 0.4 - - - -
73A THR* 3.2 28.8 - - - +
172A LEU* 4.1 18.2 - - + -
173A HIS* 3.3 55.4 - + + -
176A ILE* 3.9 19.1 - - + -
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Residues in contact with ILE 50 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A ALA* 2.8 30.7 + - + +
47A SER* 3.5 4.9 - - - +
49A PHE* 1.3 74.5 - - - +
51A LEU* 1.3 62.4 + - + +
54A ARG* 3.2 27.8 + - + +
106A ILE* 4.2 15.3 - - + -
108A PHE* 4.3 12.6 - - + -
121A PHE* 3.5 66.9 - - + -
123A PHE* 4.1 15.3 - - + -
172A LEU* 4.5 11.0 - - + -
176A ILE* 4.5 12.1 - - + -
237A MET* 5.3 0.2 - - - -
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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
----------------------------------------------------------
47A SER* 2.8 22.1 + - - +
48A ALA 4.1 0.2 - - - +
50A ILE* 1.3 73.4 - - - +
52A ASP* 1.3 61.0 + - - +
55A GLY* 3.2 1.6 + - - -
56A ILE* 2.9 57.0 + - + -
57A LEU* 3.6 11.2 + - + -
62A PHE* 4.0 14.1 - - + -
75A PHE* 3.9 31.0 - - + -
85A VAL* 4.1 13.5 - - + -
106A ILE* 4.4 19.5 - - + -
108A PHE* 4.8 1.3 - - + -
190A PHE* 4.3 13.0 - - + -
657A ILE* 4.0 21.8 - - + -
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Residues in contact with ASP 52 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A ALA 3.2 19.0 + - - +
49A PHE* 3.1 8.6 + - + +
51A LEU* 1.3 76.9 - - - +
53A ARG* 1.3 69.1 + - + +
55A GLY* 2.8 21.7 + - - -
57A LEU 4.4 3.0 - - - +
59A GLU* 2.8 40.2 - - - +
62A PHE* 3.2 38.0 - - + +
64A THR* 5.5 0.7 + - - -
73A THR* 4.2 7.8 + - + +
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Residues in contact with ARG 53 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A PHE* 2.9 65.9 + - + +
50A ILE 4.6 0.2 - - - +
52A ASP* 1.3 83.0 + - + +
54A ARG* 1.3 65.9 + - - +
55A GLY 3.2 1.3 + - - -
59A GLU* 5.3 6.6 + - - -
71A LEU* 4.8 16.2 - - - +
173A HIS* 5.9 1.4 + - - -
176A ILE* 3.8 25.2 - - + +
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Residues in contact with ARG 54 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50A ILE* 3.2 23.1 + - + +
51A LEU 4.7 0.4 - - - +
52A ASP 3.1 0.6 - - - -
53A ARG* 1.3 82.8 + - - +
55A GLY* 1.3 63.3 + - - +
56A ILE* 3.3 2.7 + - + -
108A PHE* 4.0 25.5 - - + -
119A GLU* 3.0 36.6 + - - +
121A PHE* 4.8 2.5 - - + -
176A ILE* 4.1 22.2 + - + +
179A MET* 3.7 20.2 + - - +
180A GLU 3.0 24.9 + - - -
181A PRO* 4.2 1.8 - - - +
182A LEU* 3.5 45.8 - - + +
243A TYR* 3.1 24.2 - - - +
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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