Contacts of the helix formed by residues 40 - 77 (chain a) in PDB entry 2LPZ
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 ASP 40 (chain a).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37a LYS* 3.1 30.0 + - + +
38a PRO 3.2 0.4 - - - -
39a SER* 1.3 76.8 + - - +
41a PRO* 1.3 65.7 - - - +
42a ALA* 2.9 21.6 + - - +
43a LEU* 3.4 32.5 - - + +
44a LEU* 2.9 31.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 41 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39a SER 3.2 11.9 - - - +
40a ASP* 1.3 90.9 - - - +
42a ALA* 1.3 55.6 + - - +
44a LEU* 3.7 10.5 - - + +
45a ALA* 2.9 32.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 42 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40a ASP* 2.9 16.1 + - - +
41a PRO* 1.3 80.2 - - - +
43a LEU* 1.3 58.5 + - + +
45a ALA* 4.1 2.9 - - - +
46a ALA* 3.1 31.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 43 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30a ALA* 4.8 5.8 - - + +
33a LYS* 3.5 56.5 - - + +
34a LEU* 3.5 19.4 - - + +
37a LYS* 3.7 23.3 - - + +
40a ASP* 3.2 24.9 + - + +
42a ALA* 1.3 77.1 - - + +
44a LEU* 1.3 60.9 + - - +
46a ALA* 4.6 4.0 - - + -
47a TYR* 2.9 34.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 44 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34a LEU* 3.6 22.2 - - + -
38a PRO* 3.2 28.0 - - + +
39a SER* 4.5 5.8 - - - +
40a ASP 2.9 21.5 + - - +
41a PRO* 3.7 8.5 - - + +
43a LEU* 1.3 77.2 - - - +
45a ALA* 1.3 56.6 - - - +
47a TYR* 4.1 0.9 - - + +
48a GLN* 2.9 36.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 45 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41a PRO 2.9 18.4 + - - +
42a ALA* 4.1 3.8 - - - +
44a LEU* 1.3 76.8 - - - +
46a ALA* 1.3 58.6 + - - +
48a GLN* 4.2 4.6 - - - +
49a SER* 3.0 33.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 46 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30a ALA* 4.8 5.8 - - + -
42a ALA 3.1 19.5 + - - +
43a LEU* 4.1 5.4 - - + +
45a ALA* 1.3 78.7 - - - +
47a TYR* 1.3 62.6 + - - +
49a SER* 3.7 3.3 - - - -
50a LYS* 3.1 42.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 47 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27a VAL* 3.4 40.8 - - + -
30a ALA* 3.8 15.4 - - + +
31a LEU* 3.6 40.1 - - + +
34a LEU* 3.3 28.0 - - + -
43a LEU 2.9 21.1 + - - +
44a LEU* 4.1 1.3 - - + +
46a ALA* 1.3 78.2 - - - +
48a GLN* 1.3 54.9 + - + +
50a LYS* 3.2 2.6 + - - +
51a LEU* 2.7 70.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 48 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44a LEU 2.9 20.2 + - - +
45a ALA* 4.2 4.0 - - - +
47a TYR* 1.3 82.1 - - + +
49a SER* 1.3 63.0 + - - +
51a LEU* 3.6 11.3 - - + +
52a SER* 2.9 40.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 49 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45a ALA 3.0 21.4 + - - -
46a ALA* 3.7 4.7 - - - -
48a GLN* 1.3 84.7 + - - +
50a LYS* 1.3 61.3 + - - +
52a SER* 2.8 21.6 + - - -
53a GLU* 3.6 14.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 50 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23a LEU* 3.5 12.0 - - + +
26a GLN* 2.9 55.1 + - + +
27a VAL* 3.8 15.2 - - + +
30a ALA* 4.9 3.6 - - + -
46a ALA* 3.1 30.7 + - - +
47a TYR* 3.9 2.7 - - - +
49a SER* 1.3 77.1 - - - +
51a LEU* 1.3 60.7 + - - +
53a GLU* 3.4 14.7 + - - +
54a TYR* 2.8 26.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 51 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27a VAL* 3.7 14.8 - - + -
47a TYR* 2.7 58.1 + - + +
48a GLN* 3.3 11.6 + - + +
50a LYS* 1.3 71.9 - - - +
52a SER* 1.3 59.6 - - - +
53a GLU 3.1 1.8 - - - -
54a TYR* 3.0 20.5 + - + +
55a ASN* 2.8 42.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 52 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39V SER* 5.8 0.2 - - - -
48a GLN* 2.9 27.5 + - - +
49a SER* 2.8 23.0 + - - -
51a LEU* 1.3 75.4 - - - +
53a GLU* 1.3 62.2 + - - +
55a ASN* 3.5 27.1 + - - +
56a LEU* 4.1 9.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 53 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38V PRO* 5.8 1.0 - - - +
39V SER* 3.5 33.2 + - - +
23a LEU* 3.7 27.4 - - + +
26a GLN* 5.8 0.2 - - - +
49a SER* 3.6 15.4 + - - +
50a LYS* 3.4 14.8 + - - +
51a LEU 3.1 0.4 - - - -
52a SER* 1.3 77.6 + - - +
54a TYR* 1.3 59.0 + - - +
55a ASN 3.0 1.8 - - - -
56a LEU* 2.9 24.0 + - - +
57a TYR 3.0 8.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 54 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41U PRO* 4.6 9.1 - - + +
23a LEU* 3.9 5.6 - - + +
24a GLN* 4.0 21.8 + - + +
27a VAL* 3.8 23.6 - - + -
28a THR* 6.0 0.2 - - - -
50a LYS 2.8 17.8 + - - +
51a LEU* 3.0 26.0 + - + +
53a GLU* 1.3 73.5 - - - +
55a ASN* 1.3 65.4 + - - +
56a LEU 3.2 0.2 - - - -
57a TYR* 3.1 46.7 + + + +
58a ARG* 2.9 45.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 55 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51a LEU* 2.8 24.8 + - - +
52a SER* 3.5 26.1 + - - +
54a TYR* 1.3 79.6 - - - +
56a LEU* 1.3 60.6 + - + +
58a ARG* 3.7 3.0 + - - +
59a ASN* 3.1 28.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 56 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38V PRO* 3.7 31.4 - - + +
39V SER* 3.8 19.3 - - - +
44V LEU* 4.8 9.6 - - + -
16a PHE* 3.6 3.7 - - - -
52a SER 4.3 10.3 - - - +
53a GLU 2.9 10.5 + - - +
55a ASN* 1.3 77.2 - - + +
57a TYR* 1.3 65.5 + - - +
58a ARG 3.0 2.5 - - - -
59a ASN* 4.5 14.4 - - + +
60a ALA* 2.9 44.0 + - + +
61a GLN 3.4 2.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 57 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38V PRO* 5.7 1.0 - - - +
16a PHE* 3.6 9.8 - - - -
17a ASP* 3.8 23.4 + - - +
20a VAL* 3.2 49.1 - - + -
21a ASP* 5.2 5.2 + - - -
23a LEU* 3.8 10.5 - - + -
24a GLN* 2.8 27.4 + - + +
53a GLU 3.0 5.3 + - - -
54a TYR* 3.1 47.3 - + + +
56a LEU* 1.3 76.8 - - - +
58a ARG* 1.3 82.4 + - - +
61a GLN* 2.7 37.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 58 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41U PRO* 3.5 40.9 + - + +
42U ALA* 3.6 22.6 - - - +
45U ALA* 3.9 14.6 - - + +
24a GLN* 3.6 22.0 - - - +
54a TYR* 2.9 43.4 + - + +
55a ASN 4.3 3.6 - - - +
56a LEU 3.0 0.2 - - - -
57a TYR* 1.3 102.4 - - + +
59a ASN* 1.3 65.5 + - - +
60a ALA 3.6 0.2 - - - -
61a GLN* 3.6 10.2 + - - +
62a SER* 3.1 25.8 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 59 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55a ASN 3.1 20.0 + - - +
56a LEU* 4.2 13.9 - - + +
58a ARG* 1.3 76.6 - - - +
60a ALA* 1.3 62.8 + - - +
62a SER* 3.0 10.3 + - - -
63a ASN* 2.7 51.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 60 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34V LEU* 6.2 2.2 - - + -
38V PRO* 4.9 4.0 - - + -
44V LEU* 5.5 9.4 - - + -
16a PHE* 4.0 16.6 - - + -
56a LEU* 2.9 33.6 + - + +
59a ASN* 1.3 76.6 - - - +
61a GLN* 1.3 63.4 + - - +
63a ASN* 3.5 11.3 - - - +
64a THR* 3.1 32.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 61 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45U ALA* 4.6 16.3 - - - +
13a SER* 2.8 32.3 + - - +
16a PHE* 3.6 24.5 - - + -
17a ASP* 3.1 26.7 + - - +
56a LEU 3.4 3.0 + - - -
57a TYR* 2.7 36.5 - - - +
58a ARG* 3.6 19.4 + - - +
59a ASN 3.2 0.2 - - - -
60a ALA* 1.3 78.2 - - - +
62a SER* 1.3 62.7 + - - +
64a THR* 2.8 22.0 + - - -
65a VAL* 3.3 15.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 62 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45U ALA* 6.4 2.9 - - - -
48U GLN* 4.8 14.7 - - - +
58a ARG 3.1 11.4 + - - -
59a ASN* 3.0 17.2 + - - -
61a GLN* 1.3 78.4 - - - +
63a ASN* 1.3 63.0 + - - +
65a VAL* 3.8 7.4 - - - +
66a LYS* 3.0 28.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 63 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56a LEU* 6.2 0.2 - - - +
59a ASN* 2.7 47.7 + - - +
60a ALA* 3.5 10.4 - - - +
61a GLN 3.2 0.2 - - - -
62a SER* 1.3 81.3 + - - +
64a THR* 1.3 64.0 + - + +
66a LYS* 3.3 12.9 + - - +
67a VAL* 3.1 28.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 64 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31V LEU* 4.4 10.7 - - + +
34V LEU* 5.4 4.3 - - + -
47V TYR* 3.9 35.0 - - + +
51V LEU* 5.6 1.3 - - + -
12a VAL* 4.1 13.5 - - - +
16a PHE* 4.8 14.0 - - + +
60a ALA* 3.1 14.3 + - + +
61a GLN* 2.8 22.0 + - - -
63a ASN* 1.3 77.9 - - + +
65a VAL* 1.3 61.9 + - - +
67a VAL* 3.3 7.4 + - - +
68a PHE* 3.0 33.0 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 65 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48U GLN* 5.0 7.4 - - - +
49U SER* 4.5 14.4 - - - +
52U SER* 4.3 13.9 - - - +
9a LEU* 3.4 35.3 - - + +
12a VAL* 3.9 22.4 - - + -
13a SER* 4.1 16.6 - - - +
61a GLN* 3.3 19.2 + - + +
62a SER* 3.8 7.9 - - - +
63a ASN 3.3 0.6 - - - -
64a THR* 1.3 79.4 + - - +
66a LYS* 1.3 65.5 + - - +
68a PHE 3.3 0.7 + - - -
69a LYS* 2.9 21.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 66 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48U GLN* 6.1 4.3 - - - +
62a SER 3.0 18.7 + - - +
63a ASN* 3.4 12.3 - - - +
65a VAL* 1.3 77.6 - - - +
67a VAL* 1.3 55.1 + - + +
69a LYS* 3.0 8.6 + - + +
70a ASP* 2.6 68.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 67 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51V LEU* 3.8 37.7 - - + -
54V TYR* 5.8 0.2 - - + -
55V ASN* 3.4 27.1 - - - +
63a ASN* 3.1 16.0 + - + +
64a THR* 3.7 7.9 - - - +
65a VAL 3.3 0.2 - - - -
66a LYS* 1.3 79.6 - - + +
68a PHE* 1.3 60.1 + - + +
70a ASP* 3.0 26.7 + - + +
71a ILE* 3.0 18.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 68 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41P PRO* 4.0 1.7 - - - +
27V VAL* 6.1 3.4 - - + -
28V THR* 6.5 0.4 - - - -
31V LEU* 3.8 27.1 - - + -
47V TYR* 3.6 22.4 - + - -
51V LEU* 4.9 6.1 - - + -
54V TYR* 3.8 23.3 - + - -
8a TYR* 3.4 34.1 - + + -
9a LEU* 3.5 20.4 - - + +
12a VAL* 3.6 21.3 - - + -
64a THR* 3.0 26.7 + - - +
65a VAL 4.5 0.2 - - - -
67a VAL* 1.3 79.1 - - + +
69a LYS* 1.3 57.0 + - - +
71a ILE* 3.1 32.8 - - + +
72a ASP* 2.9 16.5 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 69 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52U SER* 3.9 28.7 - - - +
55U ASN* 4.1 22.1 - - - +
56U LEU* 5.4 11.3 - - + +
9a LEU* 3.6 22.1 - - + +
65a VAL 2.9 14.0 + - - +
66a LYS* 3.3 11.2 - - + +
68a PHE* 1.3 77.1 - - - +
70a ASP* 1.3 65.1 + - - +
71a ILE 3.3 0.7 - - - -
72a ASP* 3.2 13.6 - - + +
73a ALA* 3.0 39.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 70 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55V ASN* 5.9 0.9 - - - +
66a LYS* 2.6 61.4 + - - +
67a VAL* 3.0 15.8 + - + +
69a LYS* 1.3 82.0 + - - +
71a ILE* 1.3 58.1 + - + +
73a ALA* 3.3 8.5 + - - +
74a ALA* 2.9 26.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 71 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41P PRO* 3.4 29.8 - - + -
54V TYR* 3.5 29.6 - - + +
55V ASN* 3.9 38.6 - - + +
58V ARG* 3.9 15.4 - - + +
67a VAL* 3.0 12.3 + - + +
68a PHE* 3.1 28.7 - - + +
70a ASP* 1.3 73.9 - - + +
72a ASP* 1.3 63.5 + - - +
74a ALA* 3.6 9.0 - - + +
75a ILE* 3.2 29.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 72 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39P SER* 2.7 37.9 - - - +
41P PRO* 3.2 19.8 - - - +
44P LEU* 3.4 23.6 - - + +
56U LEU* 4.5 12.3 - - + +
9a LEU* 4.2 2.4 - - - +
68a PHE 2.9 16.5 - - - +
69a LYS* 3.2 16.9 - - + +
70a ASP 3.2 0.2 - - - -
71a ILE* 1.3 76.1 - - - +
73a ALA* 1.3 64.7 + - - +
75a ILE* 3.3 3.3 + - - +
76a ILE* 3.1 30.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 73 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56U LEU* 5.9 0.6 - - - +
69a LYS* 3.0 28.1 + - - +
70a ASP* 3.3 11.6 + - - +
72a ASP* 1.3 74.8 - - - +
74a ALA* 1.3 58.7 + - - +
76a ILE* 3.3 15.6 - - + +
77a GLN* 2.8 33.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 74 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55V ASN 5.6 0.2 - - - +
59V ASN* 4.2 36.7 - - + +
62V SER* 3.8 10.3 + - - -
70a ASP 2.9 17.6 + - - +
71a ILE* 3.6 12.1 - - - +
73a ALA* 1.3 77.4 - - - +
75a ILE* 1.3 62.2 + - + +
77a GLN* 3.4 17.6 - - - +
78a ASN* 3.8 6.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 75 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41P PRO* 3.4 34.5 - - + +
44P LEU* 3.7 37.9 - - + +
45P ALA* 3.9 13.9 - - + +
48P GLN* 4.3 14.7 - - + +
58V ARG* 4.2 27.1 - - + +
62V SER* 4.3 12.0 + - - -
71a ILE 3.2 17.4 + - - +
72a ASP 3.7 5.4 - - - +
73a ALA 3.2 0.4 - - - -
74a ALA* 1.3 78.1 - - - +
76a ILE* 1.3 59.1 + - + +
77a GLN 3.1 0.7 - - - -
78a ASN* 3.0 27.4 + - - +
79a PHE* 3.6 1.8 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 76 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44P LEU* 3.8 28.9 - - + -
56U LEU* 3.6 31.4 - - + -
59U ASN* 3.9 23.1 - - - +
60U ALA* 5.4 4.5 - - + -
63U ASN* 4.5 13.3 + - - +
72a ASP 3.1 11.6 + - - +
73a ALA* 3.3 24.2 - - + +
75a ILE* 1.3 73.3 - - + +
77a GLN* 1.3 61.7 + - - +
78a ASN 3.1 1.6 - - - -
79a PHE* 3.1 37.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 77 (chain a).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66V LYS* 5.7 1.2 - - - -
73a ALA 2.8 17.7 + - - +
74a ALA* 3.4 12.3 - - - +
76a ILE* 1.3 79.9 - - - +
78a ASN* 1.3 63.2 + - - +
79a PHE 3.3 2.0 + - - -
80a ARG* 5.8 1.4 - - - -
----------------------------------------------------------
Back to top of page
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