Contacts of the helix formed by residues 37 - 70 (chain B) 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 B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36B ASN* 1.3 69.9 - - - +
38B GLU* 1.3 70.1 + - + +
40B LEU* 2.9 11.9 + - + +
41B ILE* 2.9 46.9 + - + +
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Residues in contact with GLU 38 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36B ASN* 3.4 9.1 + - - +
37B VAL* 1.3 81.2 - - + +
39B ALA* 1.3 56.8 + - - +
41B ILE* 3.8 6.4 - - - +
42B LYS* 3.1 26.9 + - - +
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Residues in contact with ALA 39 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35B GLY* 5.5 3.4 - - - -
36B ASN* 3.0 25.0 + - - +
38B GLU* 1.3 74.4 - - - +
40B LEU* 1.3 70.4 + - - +
41B ILE 3.1 1.1 - - - -
42B LYS* 3.8 9.0 - - + +
43B LYS* 3.0 21.0 + - - +
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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
----------------------------------------------------------
104A LEU* 3.9 37.2 - - + +
105A GLY* 6.3 0.2 - - - -
34B GLY 3.9 20.2 - - - +
35B GLY* 4.0 16.4 - - - +
36B ASN 2.8 21.1 + - - +
37B VAL* 3.6 11.4 - - + +
39B ALA* 1.3 75.4 - - - +
41B ILE* 1.3 62.0 + - + +
43B LYS* 2.9 27.8 + - + +
44B HIS* 2.9 14.8 + - - +
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Residues in contact with ILE 41 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37B VAL* 2.9 37.4 + - + +
38B GLU* 3.8 7.2 - - - +
40B LEU* 1.3 82.3 - - + +
42B LYS* 1.3 57.3 + - + +
44B HIS* 3.6 8.0 + - + +
45B GLU* 3.1 34.3 + - + +
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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 GLU 3.1 18.0 + - - +
39B ALA* 3.3 8.9 + - + +
40B LEU 3.2 0.6 - - - -
41B ILE* 1.3 76.3 - - + +
43B LYS* 1.3 62.0 + - - +
45B GLU* 3.7 8.0 - - - +
46B ASP* 3.0 64.3 + - - +
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Residues in contact with LYS 43 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A LYS* 4.6 0.2 - - - +
104A LEU* 3.3 36.3 - - + -
24B PHE* 4.7 6.9 - - - -
28B ASP* 2.9 37.3 + - - -
31B ALA 5.2 4.0 - - - -
39B ALA 3.0 11.8 + - - +
40B LEU* 2.9 15.8 + - + +
42B LYS* 1.3 77.2 - - - +
44B HIS* 1.3 68.3 + - - +
46B ASP* 2.9 18.6 + - + +
47B PHE* 3.0 24.8 + - - -
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Residues in contact with HIS 44 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A ARG* 3.3 37.2 + - + +
104A LEU* 3.7 14.9 - - + +
40B LEU 2.9 11.3 + - - +
41B ILE* 3.8 11.4 - - - +
43B LYS* 1.3 75.3 - - - +
45B GLU* 1.3 62.9 + - + +
47B PHE* 2.8 32.0 + - - +
48B ASP* 3.1 31.1 + - - -
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Residues in contact with GLU 45 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41B ILE* 3.1 27.3 + - + +
42B LYS* 3.7 10.1 - - + +
44B HIS* 1.3 83.3 - - + +
46B ASP* 1.3 68.9 + - - +
48B ASP* 3.2 9.0 + - - +
49B LYS* 3.0 57.1 + - - +
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Residues in contact with ASP 46 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42B LYS* 3.0 57.4 + - - +
43B LYS* 2.9 12.6 + - + +
45B GLU* 1.3 82.2 - - - +
47B PHE* 1.3 60.5 + - - +
49B LYS* 3.6 13.4 + - - +
50B ALA* 3.2 21.7 + - - +
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Residues in contact with PHE 47 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A LEU* 3.2 47.8 - - + -
100A LYS* 3.5 23.1 - - + -
101A ARG* 3.8 30.7 - - + -
104A LEU* 4.2 10.5 - - + -
24B PHE* 4.4 9.6 - + - -
25B LEU* 3.9 11.0 - - + -
28B ASP* 3.7 14.4 - - - -
43B LYS* 3.0 40.4 + - - -
44B HIS* 2.8 10.5 + - - +
46B ASP* 1.3 76.6 - - - +
48B ASP* 1.3 68.1 + - - +
50B ALA* 3.0 5.6 + - + +
51B ILE* 2.8 29.4 + - + +
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Residues in contact with ASP 48 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A ARG* 2.9 32.7 + - - -
44B HIS* 3.1 27.0 + - - -
45B GLU* 3.6 12.1 - - - +
47B PHE* 1.3 81.0 - - - +
49B LYS* 1.3 59.4 + - + +
51B ILE* 3.2 8.2 + - - +
52B ASN* 2.9 29.7 + - - +
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Residues in contact with LYS 49 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45B GLU* 3.0 56.0 + - - +
46B ASP* 3.9 13.2 - - - +
47B PHE 3.0 0.2 - - - -
48B ASP* 1.3 78.3 - - + +
50B ALA* 1.3 65.6 + - - +
52B ASN* 3.2 5.8 + - - +
53B GLY* 3.0 19.9 + - - -
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Residues in contact with ALA 50 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A LEU* 4.6 5.6 - - + -
17B TRP* 5.3 0.4 - - - -
21B ARG* 2.9 45.1 - - - +
46B ASP 3.2 13.6 + - - +
47B PHE* 3.0 8.5 + - + +
49B LYS* 1.3 75.2 - - - +
51B ILE* 1.3 65.1 + - - +
53B GLY* 3.0 2.3 + - - +
54B HIS* 3.0 29.7 + - - +
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Residues in contact with ILE 51 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90A TRP* 3.7 12.0 - - + -
94A LYS* 3.8 13.0 - - + -
97A LEU* 3.3 39.5 - - + -
98A ILE* 3.5 31.2 - - + +
101A ARG* 5.3 6.3 - - - +
47B PHE* 2.8 22.1 + - + +
48B ASP* 3.6 7.0 - - - +
50B ALA* 1.3 77.7 - - - +
52B ASN* 1.3 60.0 + - - +
55B GLU* 3.2 45.2 + - - +
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Residues in contact with ASN 52 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48B ASP 2.9 16.3 + - - +
49B LYS* 3.9 5.8 - - - +
50B ALA 3.1 0.4 - - - -
51B ILE* 1.3 75.4 - - - +
53B GLY* 1.3 59.5 + - - +
54B HIS 3.4 0.2 - - - -
55B GLU* 3.6 13.6 + - - +
56B GLN* 3.1 48.1 + - - +
----------------------------------------------------------
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Residues in contact with GLY 53 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17B TRP* 3.3 19.8 - - - -
49B LYS 3.0 14.0 + - - -
50B ALA* 3.0 2.9 + - - -
52B ASN* 1.3 73.9 - - - +
54B HIS* 1.3 60.7 + - - +
56B GLN* 3.2 14.2 + - - +
57B LYS* 2.9 24.4 + - - +
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Residues in contact with HIS 54 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90A TRP* 3.3 32.5 - + + -
93A LEU* 3.0 32.8 - - + +
97A LEU* 3.9 4.4 - - - +
17B TRP* 2.9 54.8 + + - -
18B MET* 4.2 10.2 - - + +
21B ARG* 3.2 33.1 - - + +
50B ALA 3.0 12.9 + - - +
53B GLY* 1.3 75.9 - - - +
55B GLU* 1.3 64.4 + - - +
57B LYS* 3.2 1.7 + - - +
58B ILE* 3.0 31.0 + - - +
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Residues in contact with GLU 55 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90A TRP* 2.8 27.7 + - - +
94A LYS* 2.8 41.3 + - - +
51B ILE* 3.2 26.6 + - - +
52B ASN* 3.8 15.6 - - - +
53B GLY 3.3 0.2 - - - -
54B HIS* 1.3 79.5 - - - +
56B GLN* 1.3 59.2 + - + +
58B ILE* 3.5 5.7 + - + +
59B ALA* 3.0 27.7 + - - +
----------------------------------------------------------
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Residues in contact with GLN 56 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52B ASN* 3.1 38.1 + - - +
53B GLY* 3.4 11.7 + - - +
54B HIS 3.1 0.2 - - - -
55B GLU* 1.3 77.5 - - + +
57B LYS* 1.3 67.0 + - - +
59B ALA* 3.4 6.7 + - - +
60B ALA* 3.1 22.5 + - - +
----------------------------------------------------------
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Residues in contact with LYS 57 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10B ASP 4.9 2.4 + - - -
13B LEU* 4.1 10.9 + - - +
14B ALA* 3.3 40.5 - - + +
17B TRP* 3.2 52.8 - - + +
53B GLY 2.9 7.6 + - - +
54B HIS 3.2 2.7 + - - +
56B GLN* 1.3 74.4 - - - +
58B ILE* 1.3 61.2 + - + +
60B ALA* 3.0 9.9 + - + +
61B LEU* 2.9 35.8 + - + +
----------------------------------------------------------
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Residues in contact with ILE 58 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A VAL* 4.0 27.1 - - + -
87A LEU* 3.2 29.2 - - + -
90A TRP* 4.1 28.3 - - + +
14B ALA* 5.0 1.8 - - + -
17B TRP* 5.8 0.9 - - + -
18B MET* 4.4 18.8 - - + -
54B HIS* 3.0 20.5 + - - +
55B GLU* 3.7 6.7 - - + +
57B LYS* 1.3 78.4 - - + +
59B ALA* 1.3 70.2 + - - +
61B LEU* 3.0 14.6 + - + +
62B GLN* 2.9 25.1 + - - +
----------------------------------------------------------
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Residues in contact with ALA 59 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55B GLU 3.0 17.6 + - - +
56B GLN* 3.6 7.6 - - - +
58B ILE* 1.3 78.9 - - - +
60B ALA* 1.3 64.4 + - - +
62B GLN* 3.2 9.7 + - - +
63B THR* 3.0 24.6 + - - -
----------------------------------------------------------
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Residues in contact with ALA 60 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B GLN 3.1 9.0 + - - +
57B LYS* 3.0 11.9 + - + +
59B ALA* 1.3 82.6 - - - +
61B LEU* 1.3 62.7 + - - +
63B THR* 3.4 9.5 + - - +
64B VAL* 3.3 25.3 + - - +
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Residues in contact with LEU 61 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83A ARG* 5.5 3.1 - - + -
86A VAL* 4.3 12.6 - - + -
7B TYR* 3.7 13.6 - - + +
10B ASP* 3.8 31.2 - - + +
11B CYS* 4.1 26.5 - - - +
14B ALA* 3.6 29.4 - - + -
57B LYS* 2.9 22.1 + - + +
58B ILE* 3.0 20.4 + - + +
60B ALA* 1.3 76.9 - - + +
62B GLN* 1.3 66.7 + - - +
64B VAL* 3.2 10.0 + - + +
65B ALA* 3.0 19.0 + - - +
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Residues in contact with GLN 62 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83A ARG* 3.7 36.9 + - + +
87A LEU* 3.8 26.1 - - + +
58B ILE* 2.9 12.8 + - - +
59B ALA* 3.4 11.1 - - - +
61B LEU* 1.3 77.6 - - - +
63B THR* 1.3 57.9 + - - +
65B ALA* 3.0 7.0 + - + +
66B ASP* 2.8 47.1 + - - +
----------------------------------------------------------
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Residues in contact with THR 63 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B ALA 3.0 12.9 + - - -
60B ALA* 3.7 11.1 - - - -
61B LEU 3.3 0.2 - - - -
62B GLN* 1.3 75.9 - - - +
64B VAL* 1.3 65.3 + - + +
66B ASP* 3.3 10.3 + - + +
67B GLN* 3.0 46.1 + - + +
----------------------------------------------------------
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Residues in contact with VAL 64 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3B ASP 5.5 0.7 - - - +
7B TYR* 3.5 31.6 - - + -
10B ASP* 5.8 4.7 - - - +
60B ALA 3.3 12.1 + - - +
61B LEU* 3.2 12.3 + - + +
63B THR* 1.3 78.7 - - + +
65B ALA* 1.3 58.4 + - - +
67B GLN* 3.1 18.8 + - + +
68B LEU* 2.9 37.0 + - + +
----------------------------------------------------------
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Residues in contact with ALA 65 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A VAL* 3.6 26.2 - - + -
80A ASP* 5.8 0.2 - - - +
83A ARG* 4.3 17.3 - - + +
7B TYR* 3.6 21.0 - - + +
61B LEU 3.0 8.6 + - - +
62B GLN* 3.0 8.0 + - + +
64B VAL* 1.3 75.6 - - - +
66B ASP* 1.3 65.0 + - - +
68B LEU* 3.0 3.6 + - - +
69B ILE* 2.9 33.9 + - + +
----------------------------------------------------------
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Residues in contact with ASP 66 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B GLN* 2.8 39.0 + - - +
63B THR* 3.6 10.7 - - - +
65B ALA* 1.3 74.5 - - - +
67B GLN* 1.3 56.4 + - + +
69B ILE* 3.4 11.2 + - - +
70B ALA* 2.9 30.0 + - - +
----------------------------------------------------------
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Residues in contact with GLN 67 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63B THR* 3.0 33.0 + - + +
64B VAL* 3.1 21.5 + - + +
66B ASP* 1.3 75.3 - - + +
68B LEU* 1.3 66.0 + - + +
70B ALA* 3.3 5.8 + - - +
71B GLN* 3.0 27.3 + - - +
----------------------------------------------------------
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Residues in contact with LEU 68 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A VAL* 3.6 32.8 - - + -
0B GLN* 4.2 8.7 - - - +
3B ASP* 3.4 37.0 - - + +
4B LEU* 4.1 6.3 - - + -
7B TYR* 3.7 31.4 - - + -
64B VAL* 2.9 20.9 + - + +
65B ALA 3.5 5.8 - - - +
67B GLN* 1.3 80.0 - - + +
69B ILE* 1.3 58.3 + - - +
71B GLN* 3.3 19.4 + - - +
72B ASN* 3.0 34.4 + - - +
----------------------------------------------------------
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Residues in contact with ILE 69 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76A SER* 4.0 23.3 - - - +
79A VAL* 4.1 16.2 - - + -
80A ASP* 3.7 36.3 - - + +
65B ALA* 2.9 24.9 + - + +
66B ASP* 3.8 10.5 - - - +
68B LEU* 1.3 76.3 - - - +
70B ALA* 1.4 57.4 + - - +
72B ASN* 3.3 1.4 + - - +
73B HIS* 2.8 57.4 + - + +
----------------------------------------------------------
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Residues in contact with ALA 70 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66B ASP 2.9 17.6 + - - +
67B GLN* 3.9 6.1 - - - +
68B LEU 3.2 0.2 - - - -
69B ILE* 1.4 79.0 - - - +
71B GLN* 1.3 54.9 + - - +
73B HIS* 3.3 8.1 + - - +
74B TYR* 2.9 29.6 + - - +
----------------------------------------------------------
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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