Contacts of the helix formed by residues 37 - 65 (chain B) in PDB entry 3E1J
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 LEU 37 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32B PHE* 2.8 26.0 + - + +
35B TRP* 3.8 35.7 - - + +
36B GLY* 1.3 75.7 - - - +
38B LYS* 1.3 63.6 + - - +
39B ARG 2.8 5.6 + - - -
40B LEU* 3.0 15.7 + - + +
41B ASN* 3.2 8.3 + - - +
83B VAL* 3.9 28.0 - - + -
150B LEU* 4.0 30.1 - - + +
153B GLN* 3.2 21.5 - - + -
154B ILE* 5.1 1.8 - - + -
140J LEU* 3.8 17.9 - - + -
143J LYS* 5.9 4.0 - - + +
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Residues in contact with LYS 38 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32B PHE 5.3 0.2 - - - -
33B LYS* 5.4 4.0 - - + +
36B GLY* 2.9 14.2 + - - +
37B LEU* 1.3 74.1 - - - +
39B ARG* 1.3 54.9 + - - +
41B ASN* 3.3 10.7 + - - +
42B ASP* 3.0 35.9 + - - +
153B GLN 3.0 2.4 + - - +
154B ILE* 3.3 27.8 + - - +
155B ARG* 4.5 0.4 - - - +
156B GLU* 3.9 28.3 + - - +
39J ARG* 5.5 2.8 - - - +
157J GLU* 2.8 40.2 + - - -
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Residues in contact with ARG 39 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37B LEU 2.8 2.6 + - - -
38B LYS* 1.3 73.1 - - - +
40B LEU* 1.3 62.2 + - - +
42B ASP* 3.4 9.4 + - + +
43B VAL* 3.1 34.2 + - - +
133B TRP* 4.2 14.6 - - - +
137B GLU* 3.3 34.4 + - - -
140B LEU* 5.5 1.0 - - - +
152B ALA 4.5 2.0 + - - -
153B GLN* 3.0 38.0 + - - +
155B ARG 3.6 18.8 - - - +
156B GLU* 4.6 0.7 - - - +
157B GLU* 4.1 29.5 + - + +
38G LYS* 5.4 3.6 - - - +
154G ILE* 3.2 37.6 + - - +
155G ARG* 3.6 14.2 - - - +
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Residues in contact with LEU 40 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32B PHE* 3.6 42.2 - - + -
37B LEU* 3.0 15.5 + - + +
39B ARG* 1.3 81.0 - - - +
41B ASN* 1.3 60.7 + - - +
43B VAL* 4.5 2.5 - - - +
44B GLU* 3.0 35.9 + - - +
83B VAL* 4.2 15.9 - - + -
87B LEU* 5.1 2.7 - - + -
133B TRP* 4.2 19.7 - - + -
137B GLU* 4.2 2.5 - - - +
149B TYR* 3.5 19.5 - - + +
153B GLN* 3.3 42.6 + - + +
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Residues in contact with ASN 41 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29B ALA* 3.0 33.5 - - - +
30B ARG* 3.4 31.3 + - - +
32B PHE* 3.8 0.8 - - - +
33B LYS* 3.5 35.3 - - + +
37B LEU 3.2 6.8 + - - +
38B LYS* 3.5 11.3 + - - +
39B ARG 3.2 0.2 - - - -
40B LEU* 1.3 74.7 - - - +
42B ASP* 1.3 81.0 + - - +
45B TYR* 2.9 28.5 + - - +
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Residues in contact with ASP 42 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38B LYS* 3.0 18.8 + - - +
39B ARG* 3.7 7.8 - - + +
40B LEU 3.3 0.4 - - - -
41B ASN* 1.3 89.3 + - - +
43B VAL* 1.3 65.9 + - + +
45B TYR* 3.7 3.3 - - - +
46B HIS* 2.8 40.4 + - + +
156B GLU* 3.0 43.6 - - - +
157B GLU 4.7 2.8 + - - +
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Residues in contact with VAL 43 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39B ARG* 3.1 27.4 + - - +
40B LEU 4.3 0.7 - - - +
41B ASN 3.3 0.4 - - - -
42B ASP* 1.3 77.0 - - + +
44B GLU* 1.3 59.3 + - - +
46B HIS* 3.0 9.9 + - - +
47B GLU* 2.9 37.0 + - - +
133B TRP* 3.5 54.3 - - + +
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Residues in contact with GLU 44 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25B TYR* 3.4 24.9 - - + +
28B HIS* 3.1 19.4 - - - +
29B ALA* 3.9 16.6 - - + -
32B PHE* 3.9 17.3 - - + -
40B LEU* 3.0 18.1 + - - +
43B VAL* 1.3 71.7 - - - +
45B TYR* 1.3 66.6 + - - +
47B GLU* 3.1 8.8 + - - +
48B SER* 2.9 22.3 + - - -
87B LEU* 3.8 6.4 - - - +
90B ASP* 2.9 28.1 - - - +
133B TRP* 3.7 26.7 - - + -
134B LEU* 4.0 1.6 - - - +
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Residues in contact with TYR 45 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26B PHE* 3.6 30.5 - + - -
29B ALA* 3.6 11.0 - - + +
30B ARG* 3.3 28.3 - - - +
41B ASN* 2.9 20.9 + - - +
42B ASP* 3.7 3.8 - - - +
44B GLU* 1.3 77.3 - - - +
46B HIS* 1.3 84.7 + + - +
48B SER* 3.0 17.4 + - - -
49B ILE* 3.1 31.7 + - + +
200B HEM 3.3 37.9 + - + +
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Residues in contact with HIS 46 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42B ASP* 2.8 34.6 + - + +
43B VAL* 3.0 10.5 + - - +
45B TYR* 1.3 97.0 - + - +
47B GLU* 1.3 59.1 + - + +
49B ILE* 3.6 10.8 + - - +
50B ASP* 3.1 25.3 + - - +
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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
----------------------------------------------------------
25B TYR* 3.6 32.2 - - + -
43B VAL* 2.9 29.5 + - - +
44B GLU* 3.6 16.7 - - - +
45B TYR 3.1 0.4 - - - -
46B HIS* 1.3 77.4 - - - +
48B SER* 1.3 64.5 + - - +
50B ASP* 3.1 6.3 + - + +
51B GLU* 3.0 26.0 + - - +
130B HIS* 3.2 49.8 - - + +
133B TRP* 4.1 18.8 - - - +
134B LEU* 5.0 0.6 - - - +
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Residues in contact with SER 48 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22B ILE* 2.8 28.8 + - - +
25B TYR* 3.8 13.5 - - - +
26B PHE* 3.6 22.7 - - - +
44B GLU 2.9 12.2 + - - -
45B TYR 3.3 9.9 - - - -
47B GLU* 1.3 72.8 - - - +
49B ILE* 1.3 65.7 + - - +
51B GLU* 3.2 3.8 + - - +
52B MET* 3.0 40.2 + - - +
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Residues in contact with ILE 49 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45B TYR* 3.1 43.1 + - + +
46B HIS* 3.8 12.8 - - - +
47B GLU 3.3 0.2 - - - -
48B SER* 1.3 74.8 - - - +
50B ASP* 1.3 63.6 + - - +
52B MET* 3.2 26.0 + - + +
53B LYS* 3.1 36.9 + - - +
200B HEM 3.8 57.0 - - + +
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Residues in contact with ASP 50 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46B HIS 3.1 15.0 + - - +
47B GLU* 3.2 11.4 - - - +
48B SER 3.1 0.2 - - - -
49B ILE* 1.3 78.8 - - - +
51B GLU* 1.3 64.1 + - - +
53B LYS* 3.1 29.2 + - - +
54B HIS* 3.1 35.0 + - - -
126B ASP* 3.8 11.1 - - - +
130B HIS* 3.3 30.0 + - + +
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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
----------------------------------------------------------
18B GLU* 2.9 23.0 - - - +
21B ALA* 3.8 20.8 - - + +
22B ILE* 3.6 22.5 - - + +
25B TYR* 3.9 10.3 - - + -
47B GLU 3.0 17.9 + - - +
48B SER 3.9 1.1 - - - +
50B ASP* 1.3 76.0 - - - +
52B MET* 1.3 57.4 + - - +
54B HIS* 2.8 26.6 + - - +
55B ALA* 2.9 28.2 + - - +
94B GLU* 3.6 9.2 - - - +
127B GLU* 2.8 26.8 - - - +
130B HIS* 3.5 12.4 - - - -
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Residues in contact with MET 52 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22B ILE* 3.6 15.3 - - + -
26B PHE* 4.6 0.4 - - + -
48B SER* 3.0 36.3 + - - +
49B ILE* 3.4 20.9 - - + +
50B ASP 3.1 0.4 - - - -
51B GLU* 1.3 74.7 - - - +
53B LYS* 1.3 64.0 + - - +
55B ALA* 3.2 3.4 + - - +
56B ASP* 2.9 24.5 + - - +
200B HEM 2.1 114.3 - - + +
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Residues in contact with LYS 53 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49B ILE* 3.1 32.8 + - + +
50B ASP* 3.1 21.0 + - - +
52B MET* 1.3 75.0 - - - +
54B HIS* 1.3 66.7 + - + +
56B ASP* 3.4 8.8 - - - +
57B ARG* 3.1 29.8 + - - +
200B HEM 5.1 18.8 + - + -
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Residues in contact with HIS 54 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18B GLU* 3.3 19.2 + - + +
50B ASP* 3.1 23.8 + - - -
51B GLU* 2.8 33.5 + - - +
52B MET 3.2 0.2 - - - -
53B LYS* 1.3 79.5 - - + +
55B ALA* 1.3 65.9 + - - +
57B ARG* 3.0 12.9 + - - +
58B TYR* 3.0 27.1 + - - -
123B ILE* 3.7 34.1 - - + +
126B ASP* 2.9 36.2 + - + +
127B GLU* 3.4 14.3 + - - -
130B HIS* 4.7 0.2 - + - -
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Residues in contact with ALA 55 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15B LEU* 3.7 24.0 - - + -
18B GLU* 4.3 6.6 - - + +
19B LEU* 4.7 3.6 - - + -
22B ILE* 4.1 16.4 - - + -
51B GLU 2.9 13.6 + - - +
52B MET 3.5 7.6 - - - +
54B HIS* 1.3 74.3 - - - +
56B ASP* 1.3 57.8 + - - +
58B TYR* 3.2 8.1 + - - +
59B ILE* 2.8 36.7 + - + +
200B HEM 4.2 11.4 - - + -
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Residues in contact with ASP 56 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A PHE* 3.3 24.4 - - + -
30A ARG* 2.7 48.8 + - - -
52B MET 2.9 13.1 + - - +
53B LYS* 3.4 13.8 - - - +
55B ALA* 1.3 76.0 - - - +
57B ARG* 1.3 64.1 + - + +
59B ILE* 3.2 2.6 + - - +
60B GLU* 2.9 29.9 + - - +
200B HEM 4.2 10.3 - - + +
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Residues in contact with ARG 57 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53B LYS* 3.1 21.4 + - - +
54B HIS* 3.0 17.9 + - - +
56B ASP* 1.3 76.3 - - + +
58B TYR* 1.3 62.8 + - - +
60B GLU* 3.4 9.7 + - - +
61B ARG* 3.0 24.9 + - - +
119B MET* 3.6 55.4 + - + +
122B GLU* 4.2 19.0 - - - +
123B ILE* 3.8 20.9 - - + +
126B ASP* 5.0 4.9 + - - -
125C ARG* 5.2 13.3 - - - +
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Residues in contact with TYR 58 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11B LEU* 4.1 29.6 - - + +
14B LEU* 3.6 29.5 - - + +
15B LEU* 3.8 29.2 - - + -
18B GLU* 3.7 26.6 + - + -
54B HIS 3.0 25.2 + - - -
55B ALA* 3.5 5.6 - - - +
57B ARG* 1.3 71.2 - - - +
59B ILE* 1.3 57.8 + - - +
61B ARG* 3.1 3.6 + - - +
62B ILE* 2.7 41.8 + - + +
101B LEU* 3.5 26.7 - - - +
119B MET* 4.4 7.4 - - - -
120B MET* 4.4 6.7 - - + -
123B ILE* 3.6 30.0 - - + +
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Residues in contact with ILE 59 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A PHE* 3.9 24.0 - - + -
27A LEU* 4.4 9.2 - - + +
30A ARG* 4.1 15.9 - - + -
15B LEU* 3.9 24.5 - - + -
55B ALA 2.8 26.1 + - - +
56B ASP* 3.6 4.0 - - - +
58B TYR* 1.3 75.8 - - - +
60B GLU* 1.3 64.3 + - + +
62B ILE* 3.4 2.3 + - - +
63B LEU* 3.0 40.6 + - + +
69B PRO* 4.0 15.9 - - + +
71B LEU* 4.1 26.2 - - + -
200B HEM 4.4 5.2 - - + -
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Residues in contact with GLU 60 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A ARG* 2.9 49.2 + - + +
33A LYS* 3.5 21.9 - - + -
34A ASN* 5.2 1.2 + - - -
56B ASP* 2.9 25.7 + - - +
57B ARG* 3.9 8.3 - - - +
59B ILE* 1.3 77.0 - - - +
61B ARG* 1.3 58.3 + - - +
63B LEU* 3.5 7.5 + - - +
64B PHE* 3.0 26.9 + - - +
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Residues in contact with ARG 61 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1B MET* 5.0 0.6 - - - +
11B LEU* 3.8 20.2 - - + -
57B ARG 3.0 18.1 + - - +
58B TYR* 3.1 3.6 + - - +
60B GLU* 1.3 76.4 - - - +
62B ILE* 1.3 66.4 + - - +
64B PHE* 3.0 24.2 + - - +
65B LEU* 2.8 44.8 + - + +
113B ASP* 2.8 28.5 + - - -
115B VAL* 3.2 19.5 - - - +
116B SER* 2.9 18.8 + - - +
119B MET* 3.6 28.9 - - + +
128C GLU* 2.8 32.1 + - - +
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Residues in contact with ILE 62 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8B ILE* 3.9 12.8 - - + +
11B LEU* 3.6 26.7 - - + +
12B ASN* 3.3 43.5 - - - +
15B LEU* 4.3 8.7 - - + -
58B TYR 2.7 24.7 + - - +
59B ILE 3.8 4.0 - - - +
61B ARG* 1.3 70.3 - - - +
63B LEU* 1.3 60.9 + - - +
65B LEU* 3.3 6.9 + - - +
66B GLU 3.0 4.9 + - - -
67B GLY* 2.8 53.5 + - - +
68B LEU 3.8 2.2 - - - +
69B PRO* 3.7 19.3 - - + -
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Residues in contact with LEU 63 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A LEU* 4.3 4.0 - - + -
30A ARG* 3.7 33.7 - - + +
31A MET* 4.0 18.8 - - + +
34A ASN* 4.1 25.1 + - + +
59B ILE* 3.0 37.2 + - + +
60B GLU* 3.7 6.3 - - - +
62B ILE* 1.3 76.0 - - - +
64B PHE* 1.3 64.5 + - - +
66B GLU* 2.9 16.1 + - - +
67B GLY 3.8 7.2 - - - +
68B LEU* 6.0 1.6 - - + -
69B PRO* 3.4 28.5 - - + -
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Residues in contact with PHE 64 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A ASN* 4.0 11.8 - - - +
1B MET* 3.3 47.7 + - + -
60B GLU 3.0 18.3 + - - +
61B ARG* 3.0 26.2 + - - +
63B LEU* 1.3 78.8 - - - +
65B LEU* 1.3 63.3 + - + +
66B GLU* 3.1 6.6 + - - +
128C GLU* 3.4 41.7 - - + -
131C ILE* 4.4 1.6 - - + -
132C ASP* 3.7 46.7 - - + +
135C GLU* 4.0 12.1 - - - +
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Residues in contact with LEU 65 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1B MET* 3.3 21.5 - - + +
2B LYS* 3.8 0.7 - - - +
3B GLY* 3.0 39.8 + - - -
7B VAL* 4.2 6.7 - - + -
8B ILE* 3.7 17.4 - - + +
11B LEU* 3.9 21.3 - - + -
61B ARG* 2.8 34.7 + - - +
62B ILE 3.7 4.0 - - - +
63B LEU 3.2 0.2 - - - -
64B PHE* 1.3 88.9 - - + +
66B GLU* 1.3 67.3 + - - +
67B GLY 3.4 0.6 + - - -
113B ASP* 3.7 21.1 - - - +
116B SER* 3.8 10.1 - - - +
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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