Contacts of the helix formed by residues 40 - 77 (chain D) 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 D).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37D LYS* 3.1 22.0 + - + +
38D PRO 3.2 0.4 - - - -
39D SER* 1.3 75.5 - - - +
41D PRO* 1.3 66.7 - - - +
42D ALA* 2.9 21.6 + - - +
43D LEU* 3.4 31.6 + - + +
44D LEU* 2.9 31.1 + - - +
8O TYR* 3.5 28.5 - - + +
72O ASP* 3.9 1.1 - - - -
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Residues in contact with PRO 41 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39D SER 3.2 9.0 - - - +
40D ASP* 1.3 90.7 - - - +
42D ALA* 1.3 55.7 + - - +
44D LEU* 4.3 0.4 - - + -
45D ALA* 2.9 32.9 + - - +
54J TYR* 4.8 0.7 - - - +
58J ARG* 3.5 27.8 + - - +
8O TYR* 3.4 28.0 - - + +
68O PHE 4.0 1.3 - - - +
71O ILE* 3.4 26.9 - - + -
72O ASP* 3.2 19.5 - - - +
75O ILE* 3.4 10.1 - - + +
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Residues in contact with ALA 42 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40D ASP* 2.9 15.7 + - - +
41D PRO* 1.3 80.3 - - - +
43D LEU* 1.3 59.4 + - + +
45D ALA* 4.1 1.2 - - - +
46D ALA* 3.1 30.7 + - - +
24J GLN* 5.4 3.8 - - - +
58J ARG* 3.6 22.7 - - - +
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Residues in contact with LEU 43 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30D ALA* 4.8 6.1 - - + +
33D LYS* 3.5 55.4 - - + +
34D LEU* 3.5 19.0 - - + +
37D LYS* 3.7 22.4 - - + +
40D ASP* 3.2 25.4 + - + +
42D ALA* 1.3 76.3 - - + +
44D LEU* 1.3 61.2 + - - +
46D ALA* 4.1 4.6 - - + +
47D TYR* 2.9 34.1 + - - +
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Residues in contact with LEU 44 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34D LEU* 3.6 22.4 - - + -
38D PRO* 3.2 28.0 - - + +
40D ASP 2.9 12.8 + - - +
41D PRO* 3.7 4.0 - - + +
43D LEU* 1.3 77.8 - - - +
45D ALA* 1.3 57.8 + - - +
47D TYR* 4.1 0.9 - - - +
48D GLN* 2.9 34.7 + - - +
56I LEU* 4.8 2.5 - - + -
60I ALA* 5.5 6.7 - - + -
72O ASP* 3.4 49.4 - - + +
75O ILE* 3.7 15.2 - - + +
76O ILE* 3.8 21.3 - - + -
79O PHE* 5.8 5.2 - - + -
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Residues in contact with ALA 45 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41D PRO 2.9 17.5 + - - +
42D ALA 4.1 1.6 - - - +
44D LEU* 1.3 76.0 - - - +
46D ALA* 1.3 58.1 + - - +
48D GLN* 4.2 2.2 - - - +
49D SER* 3.0 33.4 + - - -
58J ARG* 3.9 15.9 - - - +
61J GLN* 4.6 20.6 - - - +
62J SER* 6.4 1.8 - - - -
75O ILE* 3.9 17.9 - - + +
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Residues in contact with ALA 46 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30D ALA* 4.8 5.4 - - + -
42D ALA 3.1 19.1 + - - +
43D LEU* 4.1 5.8 - - + +
45D ALA* 1.3 77.7 - - - +
47D TYR* 1.3 62.6 + - - +
49D SER* 3.7 4.1 - - - -
50D LYS* 3.1 41.1 + - - +
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Residues in contact with TYR 47 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27D VAL* 3.4 41.3 - - + -
30D ALA* 3.8 16.5 - - + +
31D LEU* 3.6 33.2 - - + +
34D LEU* 3.3 26.0 - - + -
43D LEU 2.9 20.9 + - - +
44D LEU 4.1 1.1 - - - +
46D ALA* 1.3 77.7 - - - +
48D GLN* 1.3 52.5 + - - +
50D LYS* 3.2 3.3 + - - +
51D LEU* 2.7 53.8 + - + +
64I THR* 3.9 14.3 - - + +
68I PHE* 3.6 21.7 - + - -
79O PHE* 3.7 28.7 - + - -
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Residues in contact with GLN 48 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44D LEU* 2.9 20.7 + - + +
45D ALA* 4.2 2.8 - - - +
47D TYR* 1.3 79.5 - - - +
49D SER* 1.3 63.1 + - - +
51D LEU* 3.6 8.3 - - + +
52D SER* 2.9 39.5 + - - -
62J SER* 4.8 14.4 - - - +
65J VAL* 5.0 8.6 - - - +
66J LYS* 6.1 3.0 - - - +
75O ILE* 4.3 14.3 - - + +
78O ASN* 2.8 29.1 + - - +
79O PHE* 3.6 31.2 - - + -
80O ARG* 3.9 10.1 + - - +
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Residues in contact with SER 49 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45D ALA 3.0 19.2 + - - -
46D ALA* 3.7 5.8 - - - -
48D GLN* 1.3 85.0 + - - +
50D LYS* 1.3 59.5 + - - +
52D SER* 2.8 20.8 + - - -
53D GLU* 3.6 12.8 + - - +
9J LEU* 4.0 16.6 + - - +
10J ASP* 3.6 13.6 + - - -
13J SER* 4.2 15.4 - - - -
65J VAL* 4.5 11.4 - - - +
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Residues in contact with LYS 50 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23D LEU* 3.5 12.2 - - + +
26D GLN* 2.9 54.4 + - + +
27D VAL* 3.8 15.0 - - + +
30D ALA* 4.9 3.6 - - + -
46D ALA* 3.1 30.2 + - - +
47D TYR* 3.9 2.5 - - - +
49D SER* 1.3 74.9 - - - +
51D LEU* 1.3 59.1 + - - +
53D GLU* 3.4 8.6 + - - +
54D TYR* 2.8 27.0 + - - +
5J TRP 4.7 3.0 + - - -
6J SER* 6.2 0.2 - - - -
10J ASP* 3.8 25.8 + - - +
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Residues in contact with LEU 51 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27D VAL* 3.7 15.2 - - + +
47D TYR* 2.7 46.7 + - + +
48D GLN* 3.3 6.3 + - + +
50D LYS* 1.3 72.1 - - - +
52D SER* 1.3 59.7 + - - +
53D GLU 3.1 1.3 - - - -
54D TYR* 3.0 19.8 + - + +
55D ASN* 2.8 33.9 + - - +
64I THR* 5.6 0.2 - - - -
67I VAL* 3.8 31.2 - - + -
68I PHE* 4.9 6.1 - - + -
79O PHE* 3.2 38.4 - - + -
80O ARG* 4.9 4.3 - - - +
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Residues in contact with SER 52 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48D GLN* 2.9 27.0 + - - +
49D SER* 2.8 23.4 + - - -
51D LEU* 1.3 76.6 - - - +
53D GLU* 1.3 58.6 + - - +
55D ASN* 3.5 26.1 - - - +
56D LEU* 4.1 6.2 + - - +
9J LEU* 3.5 14.9 - - - +
65J VAL* 4.3 6.5 - - - +
69J LYS* 3.9 30.7 - - - +
80O ARG* 4.7 4.9 + - - -
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Residues in contact with GLU 53 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23D LEU* 3.7 17.8 - - + +
49D SER 3.6 8.3 + - - +
50D LYS* 3.4 7.9 + - - +
51D LEU 3.1 0.4 - - - -
52D SER* 1.3 76.6 + - - +
54D TYR* 1.3 59.6 + - - +
55D ASN 3.0 1.8 - - - -
56D LEU* 2.9 27.3 + - + +
57D TYR 3.0 8.1 + - - -
5J TRP* 3.3 15.6 - - + -
7J GLY* 3.3 12.6 - - - -
8J TYR 3.7 0.4 + - - -
9J LEU* 3.3 25.2 + - + +
10J ASP* 2.9 56.6 + - - +
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Residues in contact with TYR 54 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23D LEU* 3.9 5.3 - - + +
24D GLN* 4.0 22.3 + - + +
27D VAL* 3.8 22.2 - - + -
28D THR* 6.0 0.7 - - - -
50D LYS 2.8 16.9 + - - +
51D LEU* 3.0 26.9 + - + +
53D GLU* 1.3 72.5 - - - +
55D ASN* 1.3 64.8 + - - +
56D LEU 3.2 0.2 - - - -
57D TYR* 3.1 47.6 + + + +
58D ARG* 2.9 38.4 + - - +
8I TYR* 4.6 5.4 + - - -
67I VAL* 5.8 0.4 - - + -
68I PHE* 3.8 18.6 - + - -
71I ILE* 3.5 30.3 - - + +
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Residues in contact with ASN 55 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51D LEU* 2.8 15.2 + - - +
52D SER* 3.5 22.3 + - - +
54D TYR* 1.3 79.3 - - - +
56D LEU* 1.3 58.4 + - + +
58D ARG* 3.7 2.8 + - - +
59D ASN* 3.1 28.5 + - - +
67I VAL* 3.4 24.0 - - - +
70I ASP* 5.9 0.9 - - - +
71I ILE* 3.9 15.5 - - + +
74I ALA* 5.6 0.2 - - - +
69J LYS* 4.1 19.3 - - - +
80O ARG* 2.9 29.9 + - - -
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Residues in contact with LEU 56 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16D PHE* 3.6 5.5 - - + -
52D SER 4.3 11.0 - - - +
53D GLU* 2.9 12.9 + - + +
55D ASN* 1.3 76.4 - - + +
57D TYR* 1.3 67.2 + - - +
58D ARG 3.0 2.2 - - - -
59D ASN* 4.5 5.6 - - + +
60D ALA* 2.9 43.3 + - + +
61D GLN 3.4 2.8 + - - -
9J LEU* 5.8 2.2 - - + -
69J LYS* 5.4 10.1 - - + +
72J ASP* 4.5 27.4 - - + +
73J ALA* 5.9 0.4 - - - +
76J ILE* 3.6 34.8 - - + -
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Residues in contact with TYR 57 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16D PHE* 3.6 9.0 - - - -
17D ASP* 3.8 24.2 + - - +
20D VAL* 3.2 48.4 + - + -
21D ASP* 5.1 4.7 + - - -
23D LEU* 3.8 10.8 - - + -
24D GLN* 2.8 27.8 + - + +
53D GLU 3.0 5.9 + - - -
54D TYR* 3.1 46.4 - + - +
56D LEU* 1.3 76.9 - - - +
58D ARG* 1.3 82.4 + - - +
61D GLN* 2.7 38.3 - - - +
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Residues in contact with ARG 58 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24D GLN* 3.6 21.6 - - - +
54D TYR* 2.9 34.5 + - + +
55D ASN 4.3 1.8 - - - +
56D LEU 3.0 0.4 - - - -
57D TYR* 1.3 102.3 + - + +
59D ASN* 1.3 65.0 + - - +
61D GLN* 3.6 13.0 + - - +
62D SER* 3.1 25.8 + - - -
8I TYR* 5.9 0.4 + - - -
71I ILE* 3.9 47.2 - - + +
75I ILE* 4.2 23.2 - - + +
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Residues in contact with ASN 59 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55D ASN 3.1 20.3 + - - +
56D LEU* 4.2 6.3 - - + +
58D ARG* 1.3 76.9 - - - +
60D ALA* 1.3 63.1 + - - +
62D SER* 3.0 10.5 + - - -
63D ASN* 2.7 51.5 + - - +
74I ALA* 4.2 27.3 - - + +
76J ILE* 3.9 19.1 - - - +
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Residues in contact with ALA 60 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16D PHE* 4.0 16.6 - - + -
56D LEU* 2.9 34.5 + - + +
59D ASN* 1.3 76.4 - - - +
61D GLN* 1.3 63.6 + - - +
63D ASN* 3.5 11.7 - - - +
64D THR* 3.1 31.7 + - + +
76J ILE* 5.4 7.4 - - + -
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Residues in contact with GLN 61 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13D SER* 2.8 31.7 + - - +
16D PHE* 3.6 25.6 - - + -
17D ASP* 3.1 25.7 + - - +
56D LEU 3.4 3.2 + - - -
57D TYR* 2.7 35.4 - - - +
58D ARG* 3.6 20.8 + - - +
60D ALA* 1.3 78.2 - - - +
62D SER* 1.3 62.8 + - - +
64D THR* 2.8 22.3 + - - -
65D VAL* 3.3 14.4 + - + +
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Residues in contact with SER 62 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58D ARG 3.1 10.3 + - - -
59D ASN* 3.0 13.0 + - - -
61D GLN* 1.3 78.3 - - - +
63D ASN* 1.3 59.3 + - - +
65D VAL* 3.6 8.1 + - - +
66D LYS* 3.0 29.1 + - - +
74I ALA 3.8 9.7 + - - -
75I ILE* 4.3 18.1 - - - -
78I ASN* 2.9 28.5 + - - +
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Residues in contact with ASN 63 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59D ASN* 2.7 45.4 + - - +
60D ALA* 3.5 10.9 - - - +
61D GLN 3.2 0.4 - - - -
62D SER* 1.3 78.6 - - - +
64D THR* 1.3 62.5 + - - +
66D LYS* 3.3 6.5 + - - +
67D VAL* 3.1 27.5 + - - +
78I ASN* 2.9 23.3 + - - +
76J ILE* 4.5 21.8 + - - +
79J PHE* 3.6 24.1 - - + -
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Residues in contact with THR 64 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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12D VAL* 4.1 13.4 - - - +
13D SER* 6.1 0.2 - - - -
16D PHE* 4.8 16.3 - - + +
60D ALA* 3.1 15.3 + - + +
61D GLN* 2.8 22.0 + - - -
63D ASN* 1.3 75.7 - - - +
65D VAL* 1.3 61.0 + - - +
67D VAL* 3.3 4.1 + - - +
68D PHE* 3.0 39.4 + - + -
79J PHE* 3.8 24.2 - - + -
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Residues in contact with VAL 65 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9D LEU* 3.4 38.1 - - + +
12D VAL* 3.9 22.2 - - + -
13D SER* 4.1 16.6 - - - +
61D GLN* 3.3 18.8 + - + +
62D SER* 3.8 6.7 - - - +
63D ASN 3.3 0.2 - - - -
64D THR* 1.3 80.3 + - - +
66D LYS* 1.3 66.1 + - - +
68D PHE 3.3 0.9 + - - -
69D LYS* 2.9 22.7 + - + +
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Residues in contact with LYS 66 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62D SER 3.0 19.3 + - - +
63D ASN* 3.3 7.6 + - - +
65D VAL* 1.3 77.1 - - - +
67D VAL* 1.3 52.0 + - + +
69D LYS* 3.0 8.1 + - - +
70D ASP* 2.6 68.8 + - - +
77I GLN 5.7 0.7 - - - -
78I ASN* 3.3 35.0 - - + +
80I ARG* 4.2 31.8 - - + +
79J PHE 5.8 0.8 + - - -
80J ARG 5.0 6.7 + - - -
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Residues in contact with VAL 67 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63D ASN 3.1 14.6 + - - +
64D THR* 3.7 7.6 - - - +
65D VAL 3.3 0.4 - - - -
66D LYS* 1.3 77.9 - - + +
68D PHE* 1.3 63.9 + - + +
70D ASP* 3.0 23.9 + - + +
71D ILE* 3.0 25.0 + - + +
79J PHE* 3.4 22.2 - - + +
80J ARG* 3.2 33.0 - - - +
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Residues in contact with PHE 68 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8D TYR* 3.4 35.2 - + + -
9D LEU* 3.5 20.6 - - + -
12D VAL* 3.6 25.4 - - + -
64D THR* 3.0 34.1 + - - +
66D LYS 3.3 0.2 - - - -
67D VAL* 1.3 81.4 - - + +
69D LYS* 1.3 57.5 + - - +
71D ILE* 3.1 36.9 - - + +
72D ASP* 2.9 16.8 - - - +
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Residues in contact with LYS 69 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9D LEU* 3.6 23.3 - - + +
65D VAL* 2.9 14.4 + - + +
66D LYS* 3.0 11.0 + - - +
68D PHE* 1.3 76.3 - - - +
70D ASP* 1.3 65.1 + - - +
71D ILE 3.3 0.4 - - - -
72D ASP* 3.2 13.8 - - + +
73D ALA* 3.0 38.2 + - - +
80I ARG* 4.6 30.3 - - + +
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Residues in contact with ASP 70 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66D LYS* 2.6 61.3 + - - +
67D VAL* 3.0 15.8 + - + +
69D LYS* 1.3 83.1 + - - +
71D ILE* 1.3 58.5 + - + +
73D ALA* 3.3 9.2 + - - +
74D ALA* 2.9 26.6 + - - +
80I ARG* 4.7 9.5 + - - +
80J ARG 4.8 2.6 - - - +
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Residues in contact with ILE 71 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8D TYR* 5.8 1.1 - - + -
67D VAL* 3.0 19.6 + - + +
68D PHE* 3.1 46.0 - - + +
70D ASP* 1.3 74.6 - - + +
72D ASP* 1.3 68.5 + - - +
74D ALA* 3.6 10.6 - - + +
75D ILE* 3.2 33.1 + - + +
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Residues in contact with ASP 72 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8D TYR* 5.1 7.4 - - - +
9D LEU* 4.2 15.6 - - - +
68D PHE 2.9 21.2 - - - +
69D LYS* 3.2 18.3 + - + +
71D ILE* 1.3 81.0 - - - +
73D ALA* 1.3 64.3 + - - +
75D ILE* 3.3 11.9 + - - +
76D ILE* 3.1 32.2 + - + +
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Residues in contact with ALA 73 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69D LYS* 3.0 28.3 + - + +
70D ASP* 3.6 11.4 - - - +
72D ASP* 1.3 75.6 - - - +
74D ALA* 1.3 58.7 - - - +
76D ILE* 3.3 16.1 - - + +
77D GLN* 2.8 33.7 + - - +
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Residues in contact with ALA 74 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70D ASP 2.9 16.5 + - - +
71D ILE* 3.6 12.6 - - + +
72D ASP 3.2 0.2 - - - -
73D ALA* 1.3 78.0 - - - +
75D ILE* 1.3 62.0 + - + +
77D GLN* 3.4 17.2 - - - +
78D ASN* 3.8 13.3 + - - -
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Residues in contact with ILE 75 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71D ILE* 3.2 22.8 + - + +
72D ASP* 3.7 13.2 - - - +
73D ALA 3.2 0.6 - - - -
74D ALA* 1.3 78.3 - - + +
76D ILE* 1.3 64.2 + - + +
77D GLN 3.1 0.4 - - - -
78D ASN* 3.0 28.6 + - - +
79D PHE* 3.6 4.9 + - + -
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Residues in contact with ILE 76 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72D ASP* 3.1 15.0 + - + +
73D ALA* 3.3 25.4 - - + +
75D ILE* 1.3 78.4 - - + +
77D GLN* 1.3 61.4 + - - +
78D ASN 3.1 1.8 - - - -
79D PHE* 3.1 37.6 + - + +
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Residues in contact with GLN 77 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73D ALA 2.8 19.5 + - - +
74D ALA* 3.4 12.3 - - - +
75D ILE 3.1 0.2 - - - -
76D ILE* 1.3 79.7 - - - +
78D ASN* 1.3 65.2 + - - +
79D PHE 3.3 1.4 + - - -
80D ARG* 5.8 1.6 - - - -
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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