Contacts of the helix formed by residues 37 - 70 (chain A) in PDB entry 2SPC
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 VAL 37 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35A GLY 3.8 4.1 + - - +
36A ASN* 1.3 72.6 + - - +
38A GLU* 1.3 70.0 + - - +
39A ALA 3.1 0.5 + - - -
40A LEU* 3.9 8.0 - - + +
41A ILE* 3.2 37.3 + - + +
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Residues in contact with GLU 38 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A ASN* 2.4 23.1 + - - +
37A VAL* 1.3 78.5 - - - +
39A ALA* 1.3 56.7 + - + +
41A ILE* 3.5 8.3 - - - +
42A LYS* 3.0 24.8 + - + +
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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
----------------------------------------------------------
33A ALA* 4.6 6.9 - - + +
34A GLY 4.7 4.5 - - - +
36A ASN* 2.6 24.0 + - + +
38A GLU* 1.3 71.7 - - + +
40A LEU* 1.3 61.6 + - - +
41A ILE 3.1 0.7 - - - -
42A LYS* 3.6 13.4 - - + +
43A LYS* 3.3 21.0 + - - +
104B LEU* 4.3 0.7 - - - +
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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
----------------------------------------------------------
33A ALA* 4.6 3.6 - - + -
34A GLY 3.3 20.0 - - - +
35A GLY* 3.8 22.2 - - - +
36A ASN 2.9 24.0 + - - +
37A VAL* 3.9 8.1 - - + +
39A ALA* 1.3 76.4 - - - +
41A ILE* 1.3 62.4 + - + +
44A HIS* 3.0 6.6 + - - +
103B ARG 5.6 1.1 - - - +
104B LEU* 2.9 66.2 - - + +
105B GLY 6.0 0.9 - - - +
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Residues in contact with ILE 41 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A VAL* 3.2 28.9 + - + +
38A GLU* 3.5 6.5 - - - +
40A LEU* 1.3 81.9 - - + +
42A LYS* 1.3 68.8 + - + +
44A HIS* 3.1 9.6 + - + +
45A GLU* 3.0 26.6 + - + +
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Residues in contact with LYS 42 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A GLU 3.0 17.9 + - - +
39A ALA* 3.6 11.6 - - + -
40A LEU 3.4 0.4 - - - -
41A ILE* 1.3 76.4 - - + +
43A LYS* 1.3 58.4 + - - +
45A GLU* 2.7 64.8 + - - +
46A ASP* 3.2 17.0 + - - +
49A LYS* 5.5 1.2 - - - +
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Residues in contact with LYS 43 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A PHE* 6.2 0.7 - - + -
28A ASP* 2.7 29.7 + - - +
32A ASN* 3.1 20.3 + - - -
33A ALA* 3.7 26.6 - - + +
39A ALA 3.3 11.7 + - - +
41A ILE 3.2 0.4 - - - -
42A LYS* 1.3 74.5 - - - +
44A HIS* 1.3 66.4 + - - +
46A ASP* 3.0 12.5 + - + +
47A PHE* 3.0 40.7 + - + -
100B LYS* 4.0 5.4 + - - +
103B ARG* 5.5 1.8 - - - +
104B LEU* 3.0 44.4 - - + -
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Residues in contact with HIS 44 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A LEU 3.0 7.8 + - - +
41A ILE* 3.1 10.9 + - + +
43A LYS* 1.3 76.2 - - - +
45A GLU* 1.3 62.9 + - - +
47A PHE* 3.1 14.1 + - - +
48A ASP* 3.1 34.4 + - - +
101B ARG* 3.3 31.7 + - + +
102B SER* 5.8 0.7 - - - -
104B LEU* 2.7 38.7 + - + +
105B GLY* 4.6 6.0 - - - -
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Residues in contact with GLU 45 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A ILE* 3.0 14.3 + - + +
42A LYS* 2.7 72.5 + - - +
44A HIS* 1.3 78.7 - - - +
46A ASP* 1.3 68.1 + - - +
48A ASP* 3.5 9.7 + - - +
49A LYS* 2.9 41.6 + - - +
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Residues in contact with ASP 46 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A LYS* 3.3 16.5 + - - +
43A LYS* 3.0 15.8 + - + +
45A GLU* 1.3 87.0 - - - +
47A PHE* 1.3 60.6 + - + +
49A LYS* 2.5 41.6 + - - +
50A ALA* 2.9 27.2 + - - +
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Residues in contact with PHE 47 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A PHE* 4.3 16.6 - + - -
25A LEU* 3.7 15.7 - - + -
28A ASP* 3.5 20.6 - - - -
43A LYS* 3.0 46.6 + - + -
44A HIS* 3.1 2.4 + - - +
46A ASP* 1.3 77.0 - - + +
48A ASP* 1.3 56.4 + - - +
50A ALA* 3.0 7.0 + - + +
51A ILE* 2.7 44.0 + - + +
97B LEU* 3.3 30.7 - - + +
100B LYS* 3.6 34.1 - - + -
101B ARG* 3.7 26.2 - - + -
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Residues in contact with ASP 48 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A HIS* 3.1 30.6 + - - +
45A GLU* 3.6 11.4 - - - +
47A PHE* 1.3 76.4 - - - +
49A LYS* 1.3 58.2 - - - +
51A ILE* 3.6 6.0 + - - +
52A ASN* 2.9 32.1 + - - +
101B ARG* 3.0 35.6 + - - -
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Residues in contact with LYS 49 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A LYS* 5.5 1.2 - - - +
45A GLU* 2.9 33.1 + - - +
46A ASP* 2.5 37.2 + - - +
47A PHE 3.2 0.2 - - - -
48A ASP* 1.3 74.1 - - - +
50A ALA* 1.4 66.6 + - - +
52A ASN* 3.2 5.2 + - - +
53A GLY* 3.0 21.0 + - - -
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Residues in contact with ALA 50 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21A ARG* 3.7 42.9 + - - +
46A ASP 2.9 14.6 + - - +
47A PHE* 3.0 10.7 + - + +
49A LYS* 1.4 76.7 - - - +
51A ILE* 1.3 65.1 + - - +
52A ASN 3.1 0.7 + - - -
53A GLY* 3.1 1.3 + - - -
54A HIS* 2.9 30.4 + - + -
97B LEU* 4.5 8.5 - - + -
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Residues in contact with ILE 51 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A PHE* 2.7 30.1 + - + +
48A ASP* 3.9 4.9 - - - +
50A ALA* 1.3 72.1 - - - +
52A ASN* 1.3 63.5 + - - +
54A HIS* 3.4 1.4 + - - +
55A GLU* 3.1 48.4 + - - +
90B TRP* 3.9 14.5 - - + -
94B LYS* 4.5 7.4 - - + -
97B LEU* 3.7 37.5 - - + +
98B ILE* 4.2 16.8 - - + -
101B ARG* 4.2 21.8 - - - +
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Residues in contact with ASN 52 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A ASP 2.9 19.5 + - - +
49A LYS* 3.7 5.4 - - - +
50A ALA 3.1 0.2 - - - -
51A ILE* 1.3 77.9 - - - +
53A GLY* 1.3 62.0 + - - +
55A GLU* 3.2 15.7 + - - +
56A GLN* 3.0 55.4 + - - +
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Residues in contact with GLY 53 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A TRP* 6.1 1.1 - - - -
49A LYS 3.0 13.9 + - - -
50A ALA* 3.7 2.9 - - - -
52A ASN* 1.3 72.7 - - - +
54A HIS* 1.3 66.3 + - - +
56A GLN* 3.1 17.7 + - - +
57A LYS* 3.0 24.3 + - - +
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Residues in contact with HIS 54 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A TRP* 3.1 47.6 + + - -
18A MET* 4.2 17.8 - - + +
21A ARG* 3.0 31.6 + - - +
50A ALA 2.9 25.7 + - - +
53A GLY* 1.3 76.7 - - - +
55A GLU* 1.4 55.6 - - - +
57A LYS* 3.2 6.3 + - - +
58A ILE* 3.0 38.6 + - + +
90B TRP* 3.3 34.3 - + + -
93B LEU* 3.9 19.0 - - + +
97B LEU* 4.3 3.4 - - + -
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Residues in contact with GLU 55 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A ILE* 3.1 31.9 + - - +
52A ASN* 3.2 16.4 + - - +
54A HIS* 1.4 74.8 - - - +
56A GLN* 1.3 58.9 + - + +
58A ILE* 3.4 7.3 + - - +
59A ALA* 3.0 28.1 + - - +
90B TRP* 3.3 21.0 + - + +
94B LYS* 3.0 32.6 + - - -
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Residues in contact with GLN 56 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A ASN* 3.0 45.8 + - - +
53A GLY* 3.1 18.6 + - - +
54A HIS 3.2 0.2 - - - -
55A GLU* 1.3 76.1 - - + +
57A LYS* 1.3 66.4 + - - +
59A ALA* 3.2 6.0 + - - +
60A ALA* 2.9 22.7 + - - +
----------------------------------------------------------
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Residues in contact with LYS 57 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A ASP* 4.3 18.4 + - - +
14A ALA* 3.7 23.5 - - + +
17A TRP* 6.1 7.0 - - + -
53A GLY 3.0 18.0 + - - +
54A HIS* 3.6 7.9 - - - +
56A GLN* 1.3 77.0 - - - +
58A ILE* 1.3 77.5 + - + +
60A ALA* 3.2 11.6 + - - -
61A LEU* 3.1 41.7 + - + +
----------------------------------------------------------
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Residues in contact with ILE 58 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18A MET* 4.2 26.9 - - + -
54A HIS* 3.0 26.4 + - + +
55A GLU* 3.7 7.2 - - - +
56A GLN 3.2 0.2 - - - -
57A LYS* 1.3 88.5 - - + +
59A ALA* 1.3 64.7 + - - +
61A LEU* 3.0 8.7 + - + +
62A GLN* 3.0 24.0 + - - +
86B VAL* 4.3 13.0 - - + -
87B LEU* 3.1 33.8 - - + +
90B TRP* 3.9 31.4 - - + +
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Residues in contact with ALA 59 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A GLU 3.0 17.4 + - - +
56A GLN* 3.2 6.0 + - - +
58A ILE* 1.3 76.8 - - - +
60A ALA* 1.3 64.1 + - - +
62A GLN* 3.3 8.7 + - - +
63A THR* 3.1 25.2 + - - -
----------------------------------------------------------
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Residues in contact with ALA 60 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56A GLN 2.9 13.9 + - - +
57A LYS* 3.2 15.2 + - - +
59A ALA* 1.3 78.6 - - - +
61A LEU* 1.3 62.0 + - - +
63A THR* 3.0 15.7 + - - -
64A VAL* 3.2 17.5 + - + +
----------------------------------------------------------
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Residues in contact with LEU 61 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A TYR* 3.6 17.3 - - + +
10A ASP* 3.9 25.8 - - + -
11A CYS* 3.8 28.9 - - - +
14A ALA* 3.7 28.9 - - + -
57A LYS* 3.1 30.1 + - + +
58A ILE* 3.0 7.6 + - - +
60A ALA* 1.3 78.6 - - - +
62A GLN* 1.3 58.5 + - - +
64A VAL* 3.1 7.8 + - + +
65A ALA* 2.9 25.3 + - - +
83B ARG* 5.7 2.0 - - + -
86B VAL* 3.9 22.2 - - + -
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Residues in contact with GLN 62 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A ILE* 3.0 14.4 + - - +
59A ALA* 3.8 11.1 - - - +
60A ALA 3.2 0.2 - - - -
61A LEU* 1.3 78.3 - - - +
63A THR* 1.3 62.1 + - - +
65A ALA* 3.8 5.2 - - + +
66A ASP* 3.1 39.6 + - - +
83B ARG* 3.6 35.8 + - + -
87B LEU* 3.7 30.1 - - + +
----------------------------------------------------------
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Residues in contact with THR 63 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A ALA* 3.1 13.3 + - - +
60A ALA* 3.0 11.9 + - - -
61A LEU 3.0 0.8 - - - -
62A GLN* 1.3 77.6 - - - +
64A VAL* 1.3 64.3 + - + +
66A ASP* 3.5 8.4 + - + +
67A GLN* 2.9 49.9 + - + +
----------------------------------------------------------
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Residues in contact with VAL 64 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3A ASP 5.6 0.9 - - - +
7A TYR* 3.5 32.8 - - + -
10A ASP* 6.2 0.2 - - - +
60A ALA 3.2 12.0 + - - +
61A LEU* 3.1 12.2 + - + +
63A THR* 1.3 77.9 - - + +
65A ALA* 1.3 63.9 + - - +
67A GLN* 3.0 24.7 + - + +
68A LEU* 3.1 21.4 + - + +
----------------------------------------------------------
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Residues in contact with ALA 65 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A TYR* 3.5 25.5 - - - +
61A LEU 2.9 13.5 + - - +
62A GLN* 3.8 5.2 - - + +
63A THR 3.3 0.2 - - - -
64A VAL* 1.3 76.6 - - - +
66A ASP* 1.4 58.8 + - - +
68A LEU* 3.3 1.6 + - - -
69A ILE* 2.9 40.9 + - + +
79B VAL* 3.6 17.6 - - + +
80B ASP* 5.8 0.4 - - - +
83B ARG* 4.3 16.8 - - + -
----------------------------------------------------------
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Residues in contact with ASP 66 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A GLN* 3.1 38.3 + - - +
63A THR* 3.7 8.8 + - - +
64A VAL 3.2 0.2 - - - -
65A ALA* 1.4 78.7 - - - +
67A GLN* 1.3 59.9 + - + +
69A ILE* 4.0 8.6 - - - +
70A ALA* 3.1 29.6 + - - +
----------------------------------------------------------
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Residues in contact with GLN 67 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A THR* 2.9 34.4 - - + +
64A VAL* 3.0 20.1 + - + +
66A ASP* 1.3 78.3 - - + +
68A LEU* 1.3 67.0 + - + +
70A ALA* 3.4 5.4 + - - +
71A GLN* 2.9 38.2 + - - +
----------------------------------------------------------
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Residues in contact with LEU 68 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3A ASP* 3.1 41.1 - - + +
4A LEU* 4.1 11.2 - - + +
7A TYR* 3.7 38.1 - - + -
64A VAL* 3.1 22.5 + - + +
65A ALA 3.8 4.0 - - - +
67A GLN* 1.3 76.7 - - + +
69A ILE* 1.3 64.1 + - - +
71A GLN* 3.2 15.5 + - - +
72A ASN* 3.1 28.9 + - - +
79B VAL* 3.9 25.8 - - + -
----------------------------------------------------------
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Residues in contact with ILE 69 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A ALA* 2.9 26.6 + - + +
66A ASP* 4.1 7.4 - - - +
68A LEU* 1.3 76.9 - - - +
70A ALA* 1.4 52.2 + - - +
72A ASN* 3.2 1.4 + - - +
73A HIS* 2.8 62.7 + - + +
76B SER* 4.0 28.7 - - - +
79B VAL* 3.9 22.2 - - + -
80B ASP* 3.8 25.4 - - + +
----------------------------------------------------------
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Residues in contact with ALA 70 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A ASP 3.1 20.4 + - - +
67A GLN* 3.7 6.5 - - - +
68A LEU 3.4 0.2 - - - -
69A ILE* 1.4 72.3 - - - +
71A GLN* 1.3 64.8 + - - +
73A HIS* 3.7 7.9 - - - +
74A TYR* 3.0 24.9 + - - +
----------------------------------------------------------
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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