Contacts of the helix formed by residues 45 - 72 (chain E) in PDB entry 1IES
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 GLU 45 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174C ASP* 3.6 12.4 - - - +
37E PHE 5.0 0.4 - - - -
38E ASP* 6.3 0.4 - - - +
43E ALA 3.8 3.4 + - - +
44E LEU* 1.3 73.0 - - - +
46E GLY* 1.3 58.2 + - - +
48E CYS* 3.2 9.5 + - - +
49E HIS* 2.9 28.7 + - + +
167E GLU* 3.4 7.6 + - - +
168E ARG* 4.1 8.1 + - - +
172E LYS* 3.5 27.8 + - + -
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Residues in contact with GLY 46 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45E GLU* 1.3 73.8 - - - +
47E VAL* 1.3 58.7 + - - +
49E HIS* 3.3 7.8 + - - +
50E PHE* 3.1 22.5 + - - +
167E GLU* 2.7 26.1 + - - -
171E LEU* 3.8 28.2 - - - +
172E LYS* 4.8 4.9 - - - +
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Residues in contact with VAL 47 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37E PHE* 3.6 34.1 - - + -
44E LEU* 3.2 22.3 + - + +
45E GLU 3.2 0.2 - - - -
46E GLY* 1.3 72.6 - - - +
48E CYS* 1.3 66.3 + - - +
50E PHE* 3.1 4.8 + - + +
51E PHE* 3.1 41.6 + - + -
92E THR* 3.9 24.9 - - + +
96E MET* 5.6 1.3 - - + -
167E GLU* 4.1 9.4 - - + -
171E LEU* 3.5 24.9 - - + -
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Residues in contact with CYS 48 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34E GLY* 3.4 31.1 - - - +
35E PHE* 5.1 1.1 - - - -
37E PHE* 3.8 12.2 - - + +
38E ASP* 4.2 16.8 - - + +
44E LEU 3.0 13.9 + - - +
45E GLU* 3.2 12.1 + - - +
47E VAL* 1.3 76.2 - - - +
49E HIS* 1.3 64.7 + - - +
51E PHE 3.3 1.0 + - - -
52E ARG* 2.9 46.0 + - - +
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Residues in contact with HIS 49 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45E GLU* 2.9 14.2 + - + +
46E GLY* 3.6 10.8 - - - +
47E VAL 3.2 0.2 - - - -
48E CYS* 1.3 76.3 - - - +
50E PHE* 1.3 57.6 + - - +
52E ARG* 3.2 8.9 + - + -
53E GLU* 2.8 68.7 + - + +
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Residues in contact with PHE 50 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46E GLY 3.1 13.1 + - - +
47E VAL* 3.4 11.9 - - - +
49E HIS* 1.3 77.6 - - - +
51E PHE* 1.3 93.8 + + - +
53E GLU* 3.1 17.9 + - + +
54E LEU* 3.1 34.1 + - + +
96E MET* 3.5 29.6 - - + -
140E LEU* 5.0 1.3 - - + -
143E LYS* 4.0 24.0 - - + -
144E MET* 4.1 15.5 - - + -
147E HIS* 3.8 30.7 - + - -
171E LEU* 4.5 12.8 - - + -
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Residues in contact with PHE 51 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30E TYR* 3.5 37.8 - + - +
33E LEU* 3.9 15.7 - - + -
34E GLY* 3.6 20.9 - - - +
37E PHE* 4.1 7.0 - + - -
47E VAL* 3.1 39.6 + - + +
50E PHE* 1.3 103.0 - + - +
52E ARG* 1.3 61.7 + - - +
54E LEU* 3.4 5.0 + - + +
55E ALA* 3.0 18.2 + - - +
92E THR 5.8 0.2 - - - -
95E ALA* 3.8 37.5 - - + -
96E MET* 4.3 8.3 - - + -
99E ALA* 3.9 21.3 - - + -
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Residues in contact with ARG 52 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63B GLU* 2.9 36.2 + - - +
67B LYS* 5.8 4.8 - - - +
30E TYR 5.0 0.4 - - - -
31E LEU* 4.8 8.0 - - - +
34E GLY* 4.0 9.2 - - - -
35E PHE* 3.4 45.5 - - - -
48E CYS* 2.9 33.3 + - - +
49E HIS* 3.7 11.2 - - + +
51E PHE* 1.3 77.1 - - - +
53E GLU* 1.3 62.1 + - - +
55E ALA* 3.2 13.5 + - - +
56E GLU* 3.2 32.8 + - - +
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Residues in contact with GLU 53 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49E HIS* 2.8 62.6 + - + +
50E PHE* 3.1 8.7 + - - +
52E ARG* 1.3 69.6 - - - +
54E LEU* 1.3 64.1 + - + +
56E GLU* 3.1 14.5 + - - +
57E GLU* 3.0 29.5 + - - +
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Residues in contact with LEU 54 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30E TYR* 3.8 30.3 - - + -
50E PHE* 3.1 34.1 + - + +
51E PHE* 3.7 11.0 - - + +
52E ARG 3.3 0.2 - - - -
53E GLU* 1.3 73.1 - - + +
55E ALA* 1.3 64.3 + - - +
57E GLU* 3.2 18.9 + - + +
58E LYS* 2.9 30.5 + - - +
140E LEU* 3.7 34.3 - - + -
143E LYS* 5.6 1.8 - - - +
144E MET* 3.5 27.6 - - + -
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Residues in contact with ALA 55 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27E SER* 2.9 43.1 + - - +
30E TYR* 3.6 15.6 - - + +
31E LEU* 3.9 18.4 - - + +
51E PHE 3.0 10.2 + - - +
52E ARG* 3.2 11.6 + - - +
54E LEU* 1.3 74.1 - - - +
56E GLU* 1.3 68.0 + - - +
58E LYS* 3.2 0.7 + - - -
59E ARG* 2.9 11.1 + - - +
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Residues in contact with GLU 56 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B ARG* 5.0 10.5 - - - +
63B GLU* 4.4 9.6 - - - +
31E LEU* 6.0 0.7 - - - +
52E ARG* 3.2 41.3 + - - +
53E GLU* 3.1 13.7 + - - +
55E ALA* 1.3 81.0 - - - +
57E GLU* 1.3 57.9 - - - +
59E ARG* 3.3 29.9 + - - +
60E GLU* 2.9 38.9 + - - +
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Residues in contact with GLU 57 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23E TYR* 5.6 0.2 - - - -
53E GLU* 3.0 18.6 + - - +
54E LEU* 3.2 29.6 + - + +
56E GLU* 1.3 77.2 - - - +
58E LYS* 1.3 63.3 + - + +
60E GLU* 3.2 15.7 + - - +
61E GLY* 2.9 24.8 + - - -
136E GLU* 4.2 27.5 - - - +
140E LEU* 4.7 8.3 - - - +
143E LYS* 5.9 0.7 + - - -
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Residues in contact with LYS 58 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23E TYR* 3.7 36.9 - - + +
26E ALA* 4.2 4.0 - - + -
27E SER* 3.8 9.0 - - - +
30E TYR* 3.9 17.9 - - + -
54E LEU* 2.9 23.7 + - - +
55E ALA 3.7 3.1 - - - +
57E GLU* 1.3 76.0 + - - +
59E ARG* 1.3 66.2 + - - +
61E GLY* 3.2 1.7 + - - -
62E ALA* 3.1 21.1 + - - +
103E GLU* 2.9 40.3 + - - -
106E LEU* 3.9 18.9 - - + +
136E GLU* 4.7 10.1 + - - -
137E GLU* 3.4 15.6 + - - -
140E LEU* 4.1 12.1 - - - +
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Residues in contact with ARG 59 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31B LEU* 6.4 1.1 - - + -
56B GLU* 5.5 6.4 + - - +
59B ARG* 3.5 44.9 - - - +
24E LEU* 4.7 9.4 - - + -
27E SER* 3.5 14.2 + - - +
55E ALA 2.9 12.9 + - - +
56E GLU* 3.6 31.1 + - - +
58E LYS* 1.3 75.8 - - - +
60E GLU* 1.3 94.2 + - - +
62E ALA* 3.2 6.9 + - - +
63E GLU* 3.0 53.6 + - + +
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Residues in contact with GLU 60 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56E GLU* 2.9 23.9 + - - +
57E GLU* 3.5 18.0 - - - +
59E ARG* 1.3 100.8 + - - +
61E GLY* 1.3 62.6 + - - +
63E GLU* 3.1 11.9 + - - +
64E ARG* 2.9 26.0 + - - +
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Residues in contact with GLY 61 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23E TYR* 4.1 9.9 - - - -
57E GLU 2.9 14.4 + - - -
58E LYS 3.2 3.7 + - - -
60E GLU* 1.3 72.3 - - - +
62E ALA* 1.3 62.0 + - - +
64E ARG* 3.1 9.6 + - - +
65E LEU* 3.0 20.8 + - - +
133E PHE* 3.6 27.7 - - - -
136E GLU* 6.0 1.6 - - - -
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Residues in contact with ALA 62 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20E VAL* 4.0 11.2 - - + +
23E TYR* 3.8 19.4 - - + +
24E LEU* 3.3 34.8 - - + -
58E LYS 3.1 10.9 + - - +
59E ARG 3.4 6.1 - - - +
61E GLY* 1.3 75.4 - - - +
63E GLU* 1.3 60.1 + - + +
65E LEU* 3.4 9.5 + - - +
66E LEU* 3.0 28.3 + - + +
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Residues in contact with GLU 63 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31B LEU* 4.1 24.6 - - + +
35B PHE* 3.8 9.4 - - + -
52B ARG* 2.8 30.9 + - - +
24E LEU* 6.2 0.4 - - + -
59E ARG* 3.0 51.6 + - + +
60E GLU* 3.1 10.6 + - - +
62E ALA* 1.3 76.0 - - + +
64E ARG* 1.3 56.8 + - - +
66E LEU* 3.3 9.4 + - + +
67E LYS* 2.9 29.6 + - - +
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Residues in contact with ARG 64 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60E GLU* 2.9 14.4 + - - +
61E GLY* 3.3 12.3 - - - +
63E GLU* 1.3 71.6 - - - +
65E LEU* 1.3 65.1 + - - +
67E LYS* 3.3 8.3 + - + +
68E MET* 3.0 23.2 + - - +
128E PHE* 3.7 14.3 - - + -
132E HIS* 3.7 53.9 + - - +
133E PHE* 3.9 9.6 - - + -
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Residues in contact with LEU 65 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16E VAL* 4.1 13.6 - - + +
19E LEU* 3.7 43.1 - - + -
20E VAL* 3.7 20.4 - - + +
23E TYR* 4.1 14.8 - - + -
61E GLY 3.0 17.0 + - - +
62E ALA* 3.6 8.1 - - - +
64E ARG* 1.3 76.6 - - - +
66E LEU* 1.3 56.6 + - - +
68E MET* 3.1 14.8 + - + +
69E GLN* 2.9 28.6 + - - +
128E PHE* 3.7 25.4 - - + -
129E LEU* 4.7 5.4 - - + -
133E PHE* 3.7 13.2 - - + -
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Residues in contact with LEU 66 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31B LEU* 4.3 11.7 - - + -
35B PHE* 3.9 37.3 - - + +
17E ASN* 5.1 4.0 - - - +
20E VAL* 3.6 37.5 - - + -
62E ALA* 3.0 21.7 + - + +
63E GLU* 3.3 10.3 + - - +
65E LEU* 1.3 74.4 - - - +
67E LYS* 1.3 61.0 - - - +
69E GLN* 3.4 8.4 - - + +
70E ASN* 3.3 25.5 + - - +
76E ALA* 4.1 17.2 - - + +
77E LEU 6.2 0.2 - - - +
78E PHE* 4.0 27.6 - - + -
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Residues in contact with LYS 67 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35B PHE* 3.7 18.0 - - + -
38B ASP* 3.4 36.1 + - - +
48B CYS* 4.5 11.7 - - - -
52B ARG* 4.5 11.5 - - - +
63E GLU 2.9 12.9 + - - +
64E ARG* 3.5 12.3 - - + +
66E LEU* 1.3 74.7 - - - +
68E MET* 1.3 58.9 + - - +
70E ASN* 3.3 5.2 + - - +
71E GLN* 3.0 41.5 + - + +
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Residues in contact with MET 68 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8E TYR* 4.1 10.5 - - - -
16E VAL* 3.8 20.2 - - + -
64E ARG 3.0 13.9 + - - +
65E LEU* 3.1 13.4 + - + +
67E LYS* 1.3 73.0 - - - +
69E GLN* 1.3 65.4 + - - +
71E GLN* 3.0 23.2 + - - +
72E ARG* 3.0 36.8 + - + +
124E HIS* 4.5 12.1 - - + -
125E LEU* 3.6 28.9 - - + -
128E PHE* 3.6 46.9 - - + -
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Residues in contact with GLN 69 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8E TYR* 2.7 45.1 + - - -
13E GLU* 3.2 22.5 + - - +
16E VAL* 3.6 13.0 - - + +
17E ASN* 3.0 30.8 + - - +
65E LEU 2.9 13.0 + - - +
66E LEU* 3.4 15.2 - - + +
68E MET* 1.3 75.5 - - - +
70E ASN* 1.3 57.1 + - - +
72E ARG* 3.4 1.2 + - - +
73E GLY 3.2 3.5 + - - -
74E GLY* 2.7 48.8 + - - +
75E ARG 4.0 3.6 - - - +
76E ALA* 4.0 15.0 - - + +
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Residues in contact with ASN 70 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35B PHE* 3.0 35.8 + - - +
38B ASP* 2.9 42.2 + - - +
39B ARG* 3.6 21.5 - - - +
4E ILE* 3.7 5.4 - - - +
66E LEU 3.3 6.6 + - - +
67E LYS 3.5 8.7 - - - +
68E MET 3.2 0.6 - - - -
69E GLN* 1.3 78.7 - - - +
71E GLN* 1.3 63.0 + - - +
73E GLY* 3.5 8.3 + - - -
74E GLY 3.9 10.5 - - - +
75E ARG* 4.1 5.0 + - - +
76E ALA* 5.3 7.1 + - - +
142F LYS* 3.4 17.1 - - - +
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Residues in contact with GLN 71 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4E ILE* 3.4 14.7 - - - +
67E LYS* 3.0 24.7 + - + +
68E MET* 3.0 17.2 + - + +
70E ASN* 1.3 76.0 - - + +
72E ARG* 1.3 60.4 + - + +
124E HIS* 5.0 4.2 - - - -
128E PHE* 6.2 0.8 - - - -
135F ASP* 4.6 5.9 + - - -
138F VAL* 3.9 35.4 - - + +
139F LYS* 4.0 34.9 + - - +
142F LYS* 3.6 22.0 + - + +
----------------------------------------------------------
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Residues in contact with ARG 72 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4E ILE* 4.3 3.2 - - - +
5E ARG* 3.4 26.2 - - - +
6E GLN* 2.7 28.3 + - - +
7E ASN* 3.1 16.6 + - - +
8E TYR* 3.6 41.0 - - + +
68E MET* 3.0 32.9 + - - +
69E GLN 4.0 0.2 - - - +
71E GLN* 1.3 76.2 - - + +
73E GLY* 1.3 58.4 + - - +
74E GLY 3.4 0.2 - - - -
122E ASP* 2.7 39.2 + - - -
124E HIS* 3.5 35.7 + - + +
125E LEU* 5.2 1.8 - - - +
107F ASN* 5.9 0.6 + - - -
138F VAL* 4.0 18.1 - - - +
----------------------------------------------------------
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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