Contacts of the helix formed by residues 48 - 87 (chain B) in PDB entry 2VRZ
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 PHE 48 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72A ILE* 4.0 18.8 - - + -
75A GLN* 5.1 1.8 - - + -
76A LEU* 4.7 3.8 - - + -
36B GLN* 3.3 45.5 - - - -
39B ILE* 3.7 29.8 - - + -
40B ALA* 4.3 7.0 - - - -
43B TRP* 3.4 43.1 - + + -
45B GLY 5.0 1.2 + - - -
46B GLN 3.1 0.6 - - - -
47B ALA* 1.3 78.2 - - - +
49B SER* 1.3 57.7 + - - +
50B ARG 3.4 2.0 - - - -
51B PHE* 3.2 30.4 + + + +
52B GLU* 3.0 54.3 + - + +
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Residues in contact with SER 49 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46B GLN* 2.7 45.1 + - - +
47B ALA 3.4 0.2 - - - -
48B PHE* 1.3 77.8 - - - +
50B ARG* 1.3 61.8 + - - +
52B GLU* 3.4 15.8 + - - +
53B GLU* 2.9 27.7 - - - -
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Residues in contact with ARG 50 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46B GLN 4.6 0.4 + - - -
47B ALA 5.0 1.8 + - - +
48B PHE 3.4 0.4 - - - -
49B SER* 1.3 79.3 + - - +
51B PHE* 1.3 68.0 + - + +
53B GLU* 3.7 8.5 - - + +
54B GLN* 3.0 61.1 + - + +
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Residues in contact with PHE 51 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68A LEU* 3.8 14.3 - - + +
71A GLU* 3.8 42.2 - - + -
72A ILE* 3.8 22.6 - - + +
75A GLN* 3.6 34.8 - - + -
36B GLN* 4.1 2.4 - - - +
47B ALA 4.3 11.2 - - - -
48B PHE* 3.2 38.7 + + + +
50B ARG* 1.3 79.4 - - + +
52B GLU* 1.3 56.5 + - - +
54B GLN* 3.8 8.8 - - - +
55B PHE* 2.9 31.0 + - - +
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Residues in contact with GLU 52 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36B GLN* 3.9 10.7 + - + +
40B ALA* 3.4 27.6 - - + +
48B PHE* 3.0 37.8 + - + +
49B SER* 3.5 25.1 + - - +
50B ARG 3.3 0.2 - - - -
51B PHE* 1.3 76.2 - - - +
53B GLU* 1.3 61.5 + - - +
55B PHE* 3.3 2.1 + - - +
56B GLN* 3.0 37.6 + - + +
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Residues in contact with GLU 53 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49B SER 2.9 17.5 - - - -
50B ARG* 3.7 11.0 - - + +
51B PHE 3.4 0.2 - - - -
52B GLU* 1.3 76.4 - - - +
54B GLN* 1.3 60.9 + - + +
56B GLN* 3.3 8.9 + - - +
57B GLN* 3.0 53.9 + - + +
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Residues in contact with GLN 54 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68A LEU* 3.7 30.6 - - + +
71A GLU* 4.9 6.9 + - - +
50B ARG* 3.0 57.9 + - + +
51B PHE* 3.8 10.5 - - - +
53B GLU* 1.3 77.3 - - + +
55B PHE* 1.3 60.6 + - - +
57B GLN* 3.4 5.3 + - - +
58B LEU* 3.0 41.1 + - + +
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Residues in contact with PHE 55 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18A TYR* 4.6 0.2 - + - -
65A PHE* 3.6 32.0 - + - -
68A LEU* 3.6 15.1 - - + +
69A LEU* 4.0 11.4 - - + -
72A ILE* 4.3 5.2 - - + -
29B LEU* 4.3 3.1 - - + -
32B LEU* 3.9 8.7 - - + -
33B THR* 3.6 37.5 - - + -
36B GLN* 3.5 45.8 - - + +
51B PHE 2.9 19.0 + - - +
52B GLU 3.6 4.3 - - - +
54B GLN* 1.3 75.8 - - - +
56B GLN* 1.3 65.3 + - + +
58B LEU* 3.3 0.7 + - - +
59B SER* 2.9 44.7 + - - -
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Residues in contact with GLN 56 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52B GLU* 3.0 28.2 + - - +
53B GLU* 3.7 8.1 - - - +
55B PHE* 1.3 81.9 - - + +
57B GLN* 1.3 68.4 + - - +
59B SER* 3.4 6.6 + - - -
60B PRO* 3.2 19.8 - - - +
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Residues in contact with GLN 57 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53B GLU* 3.0 44.7 + - + +
54B GLN* 3.8 5.8 - - - +
55B PHE 3.3 0.2 - - - -
56B GLN* 1.3 84.8 - - - +
58B LEU* 1.3 63.1 + - + +
60B PRO* 3.4 10.4 - - - +
61B LYS* 4.1 19.6 - - - +
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Residues in contact with LEU 58 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A LYS* 3.8 39.9 - - + +
64A LYS* 3.9 19.5 - - + +
65A PHE* 3.8 42.2 - - + +
68A LEU* 4.2 11.4 - - + -
54B GLN* 3.0 27.9 + - + +
55B PHE 3.3 0.6 + - - +
57B GLN* 1.3 81.5 - - + +
59B SER* 1.3 64.5 + - - +
60B PRO 3.4 0.4 - - - -
61B LYS* 3.0 23.6 + - + +
62B VAL* 3.0 14.3 + - - +
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Residues in contact with SER 59 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A PHE* 4.8 2.0 - - - -
29B LEU* 3.8 30.2 - - - +
33B THR* 5.4 1.1 - - - -
55B PHE* 2.9 29.4 + - - -
56B GLN* 3.4 9.4 + - - -
58B LEU* 1.3 75.8 - - - +
60B PRO* 1.4 64.2 - - - +
62B VAL* 3.2 5.5 - - - +
63B GLU* 2.9 29.4 - - - -
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Residues in contact with PRO 60 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B GLN 3.2 14.8 - - - +
57B GLN 3.4 8.7 - - - +
58B LEU 3.4 4.0 - - - -
59B SER* 1.4 97.3 - - - +
61B LYS* 1.3 57.9 + - + +
63B GLU* 3.7 6.7 - - + +
64B LYS* 2.9 39.0 + - + +
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Residues in contact with LYS 61 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A LEU* 3.9 16.6 - - + +
61A LYS* 3.3 62.3 - - + +
62A VAL* 4.7 2.4 - - - +
57B GLN* 4.1 19.1 + - - +
58B LEU* 3.0 17.4 + - + +
60B PRO* 1.3 77.5 - - + +
62B VAL* 1.3 59.5 + - + +
64B LYS* 3.6 9.3 - - + +
65B PHE* 2.9 27.9 + - - +
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Residues in contact with VAL 62 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A ILE* 5.1 2.7 - - + -
61A LYS 5.0 0.9 - - - +
62A VAL* 4.6 17.3 - - + -
65A PHE* 3.6 49.6 - - + -
25B ILE* 3.4 26.1 - - + +
29B LEU* 4.4 12.3 - - + -
58B LEU* 3.0 14.7 + - + +
59B SER* 3.2 8.0 - - - +
61B LYS* 1.3 75.0 - - + +
63B GLU* 1.3 61.6 + - - +
65B PHE* 3.3 7.3 + - - +
66B ALA* 2.9 27.5 + - - +
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Residues in contact with GLU 63 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26B ARG* 2.8 48.5 + - - +
29B LEU* 3.9 16.9 - - + +
59B SER 2.9 16.2 - - - -
60B PRO* 3.7 8.5 - - + +
62B VAL* 1.3 76.3 - - - +
64B LYS* 1.3 64.3 + - + +
66B ALA* 3.2 3.3 + - - +
67B GLN* 3.0 21.4 + - + +
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Residues in contact with LYS 64 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A LEU* 4.0 18.6 - - + +
60B PRO* 2.9 30.9 + - + +
61B LYS* 3.6 9.4 - - + +
63B GLU* 1.3 77.2 - - + +
65B PHE* 1.3 57.7 + - - +
67B GLN* 3.3 8.0 + - - +
68B LEU* 2.9 27.9 + - - +
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Residues in contact with PHE 65 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A ILE* 5.3 3.6 - - + -
29A LEU* 3.7 26.5 - - + -
32A LEU* 5.5 1.1 - - + -
55A PHE* 3.6 50.0 - + - -
58A LEU* 3.8 25.4 - - + +
59A SER* 4.5 2.5 - - - -
62A VAL* 3.5 25.6 - - + -
25B ILE* 3.8 24.5 - - + -
61B LYS 2.9 14.2 + - - +
62B VAL 3.5 7.9 - - - +
63B GLU 3.3 0.2 - - - -
64B LYS* 1.3 72.8 - - - +
66B ALA* 1.3 65.2 + - - +
68B LEU* 3.0 10.6 + - + +
69B LEU* 2.9 48.0 + - + +
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Residues in contact with ALA 66 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22B SER* 2.7 35.1 + - - +
25B ILE* 4.1 11.7 - - + -
26B ARG* 3.6 33.0 - - + +
62B VAL 2.9 13.9 + - - +
63B GLU* 3.2 10.7 + - - +
65B PHE* 1.3 75.1 - - - +
67B GLN* 1.3 63.4 + - - +
69B LEU* 3.3 6.3 + - - -
70B GLU 3.2 10.7 + - - -
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Residues in contact with GLN 67 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26B ARG* 2.8 42.0 - - - +
63B GLU* 3.0 12.7 + - + +
64B LYS* 3.7 10.1 - - - +
66B ALA* 1.3 74.9 - - - +
68B LEU* 1.3 60.0 + - - +
70B GLU* 3.4 9.7 + - - +
71B GLU* 2.9 60.1 + - - +
74B GLN* 5.9 0.3 + - - -
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Residues in contact with LEU 68 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A PHE* 3.6 30.5 - - + +
54A GLN* 3.8 34.8 - - + +
55A PHE* 3.4 48.0 - - + +
58A LEU* 4.5 4.3 - - + -
64B LYS 2.9 14.4 + - - +
65B PHE* 3.3 17.7 - - + +
67B GLN* 1.3 77.8 - - - +
69B LEU* 1.3 57.1 + - + +
71B GLU* 3.0 9.1 + - - +
72B ILE* 2.8 38.2 + - + +
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Residues in contact with LEU 69 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A LEU* 3.7 26.7 - - + -
55A PHE* 3.9 14.8 - - + -
18B TYR* 3.6 35.3 - - + +
21B GLY 3.8 4.9 - - - -
22B SER* 3.7 22.0 - - - +
25B ILE* 3.9 9.9 - - + -
65B PHE* 2.9 57.3 + - + +
66B ALA* 3.6 7.0 - - - +
68B LEU* 1.3 76.5 - - + +
70B GLU* 1.3 59.7 + - - +
72B ILE* 3.3 3.8 + - + +
73B LYS* 2.9 24.4 + - - +
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Residues in contact with GLU 70 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18B TYR 5.2 0.2 - - - -
19B GLY* 4.0 10.2 - - - +
22B SER* 3.7 18.9 + - - +
23B ASP* 5.1 3.8 - - - +
26B ARG* 4.6 10.5 - - - +
66B ALA 3.2 4.5 + - - +
67B GLN* 3.7 16.6 - - - +
68B LEU 3.3 0.2 - - - -
69B LEU* 1.3 80.0 - - - +
71B GLU* 1.3 61.4 + - + +
73B LYS* 3.4 15.4 + - - +
74B GLN* 3.0 49.1 + - - +
1089B ZN 1.9 37.9 - - - -
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Residues in contact with GLU 71 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A PHE* 3.8 25.8 - - + -
54A GLN* 4.7 11.0 + - - +
67B GLN* 2.9 49.8 + - - +
68B LEU* 3.0 10.9 + - - +
70B GLU* 1.3 77.3 - - + +
72B ILE* 1.3 56.6 + - - +
74B GLN* 3.4 11.3 + - - +
75B GLN* 3.0 28.6 + - - +
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Residues in contact with ILE 72 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A GLN* 3.7 26.9 - - - +
39A ILE* 5.5 3.8 - - + -
51A PHE* 3.8 30.1 - - + +
55A PHE* 4.4 6.7 - - + -
18B TYR* 3.7 28.7 - - + -
68B LEU* 2.8 40.4 + - + +
69B LEU* 3.7 7.0 - - - +
71B GLU* 1.3 69.1 - - - +
73B LYS* 1.3 55.0 - - - +
75B GLN* 3.1 7.1 + - + +
76B LEU* 2.8 53.2 + - + +
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Residues in contact with LYS 73 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15B SER* 2.6 52.5 + - - +
16B GLN* 5.5 3.6 - - - +
18B TYR* 4.0 3.7 - - + +
19B GLY* 3.8 18.2 - - - +
69B LEU 2.9 14.6 + - - +
70B GLU* 3.5 18.5 + - - +
71B GLU 3.4 0.2 - - - -
72B ILE* 1.3 76.8 - - - +
74B GLN* 1.3 63.3 + - + +
76B LEU 3.3 0.2 + - - -
77B ASN* 3.0 26.5 + - - +
1089B ZN 2.2 41.1 - - - -
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Residues in contact with GLN 74 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67B GLN* 5.9 0.4 + - - -
70B GLU* 3.0 49.4 + - - +
71B GLU* 3.9 9.6 - - - +
73B LYS* 1.3 78.4 - - + +
75B GLN* 1.3 62.5 + - - +
77B ASN* 3.3 8.1 + - - +
78B SER* 3.0 25.9 + - - +
1089B ZN 4.4 1.0 - - - -
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Residues in contact with GLN 75 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A ALA* 6.1 0.9 - - - -
48A PHE* 4.2 22.8 - - + -
50A ARG* 3.0 29.1 + - - -
51A PHE* 4.0 21.5 - - + -
71B GLU 3.0 17.8 + - - +
72B ILE* 3.6 6.3 - - + +
74B GLN* 1.3 76.9 - - - +
76B LEU* 1.3 57.8 + - + +
78B SER* 3.3 11.1 + - - -
79B THR* 2.9 59.5 + - - +
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Residues in contact with LEU 76 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A ILE* 4.0 37.5 - - + -
43A TRP* 4.2 8.7 - - + -
48A PHE* 4.3 9.4 - - + -
11B ILE* 3.3 32.5 - - + +
14B LYS* 4.5 1.3 - - + -
15B SER* 3.9 20.9 - - - +
18B TYR* 3.9 24.5 - - + -
72B ILE* 2.8 40.9 + - + +
73B LYS 3.6 4.0 - - - +
75B GLN* 1.3 74.0 - - + +
77B ASN* 1.3 57.7 + - - +
79B THR* 3.2 3.0 + - - -
80B ALA* 2.9 25.5 + - - +
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Residues in contact with ASN 77 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12B ARG* 3.7 31.1 + - - +
15B SER* 3.2 29.3 + - - -
73B LYS* 3.0 28.1 + - - +
74B GLN* 3.8 6.6 - - - +
76B LEU* 1.3 73.5 - - - +
78B SER* 1.3 63.8 + - - +
80B ALA* 3.4 4.2 + - - +
81B ASP* 3.1 23.8 + - - +
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Residues in contact with SER 78 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74B GLN* 3.0 15.6 + - - +
75B GLN* 3.3 17.9 + - - -
77B ASN* 1.3 75.1 - - - +
79B THR* 1.3 56.9 + - - +
81B ASP* 3.3 9.2 - - - +
82B ALA* 3.0 27.2 + - - +
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Residues in contact with THR 79 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A TRP* 3.7 40.8 - - + +
48A PHE* 3.3 19.2 - - + -
11B ILE* 4.9 1.1 - - + -
75B GLN* 2.9 36.4 + - - +
76B LEU* 3.6 6.5 - - - -
78B SER* 1.3 73.6 - - - +
80B ALA* 1.3 61.6 + - - +
82B ALA* 3.2 8.4 + - + +
83B VAL* 2.9 35.4 + - + +
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Residues in contact with ALA 80 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8B PRO* 3.6 25.6 - - + +
11B ILE* 3.8 15.9 - - + +
12B ARG* 3.4 36.8 + - + +
76B LEU 2.9 16.9 + - - +
77B ASN 3.7 3.8 - - - +
79B THR* 1.3 75.5 - - - +
81B ASP* 1.3 63.3 + - - +
83B VAL* 3.3 1.9 + - - +
84B GLN* 3.1 19.2 + - - +
----------------------------------------------------------
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Residues in contact with ASP 81 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12B ARG* 3.4 15.8 - - - +
77B ASN 3.1 13.8 + - - +
78B SER* 3.3 14.4 - - - +
80B ALA* 1.3 75.8 - - - +
82B ALA* 1.3 62.0 + - - +
84B GLN* 3.1 6.4 + - - +
85B GLU* 2.5 61.8 + - - +
----------------------------------------------------------
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Residues in contact with ALA 82 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78B SER 3.0 15.5 + - - +
79B THR* 3.4 12.1 - - + +
81B ASP* 1.3 74.7 - - - +
83B VAL* 1.3 65.4 + - + +
85B GLU* 3.2 8.9 + - - +
86B GLN* 3.2 21.0 + - - +
----------------------------------------------------------
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Residues in contact with VAL 83 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A TRP* 5.1 7.0 - - + +
6B MSE 4.9 6.5 - - - +
8B PRO* 3.8 25.1 - - + -
11B ILE* 4.6 9.4 - - + -
79B THR* 2.9 33.7 + - + +
80B ALA* 3.8 4.9 - - - +
81B ASP 3.3 0.4 - - - -
82B ALA* 1.3 77.2 - - + +
84B GLN* 1.3 58.4 - - - +
86B GLN* 3.3 5.8 + - - +
87B ASP* 3.0 42.5 + - - +
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Residues in contact with GLN 84 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8B PRO* 3.5 22.6 - - + +
9B GLU* 4.4 11.3 + - - +
12B ARG* 2.9 31.8 + - - +
80B ALA 3.1 8.3 + - - +
81B ASP* 3.3 10.9 - - - +
83B VAL* 1.3 79.0 - - - +
85B GLU* 1.3 63.4 - - - +
87B ASP* 3.3 13.3 + - + +
88B GLN* 3.2 22.3 + - - +
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Residues in contact with GLU 85 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81B ASP* 2.5 49.0 + - - +
82B ALA* 3.2 13.2 + - - +
84B GLN* 1.3 75.0 - - - +
86B GLN* 1.3 64.1 - - - +
88B GLN* 3.2 22.7 - - - +
----------------------------------------------------------
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Residues in contact with GLN 86 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82B ALA 3.2 8.6 + - - +
83B VAL* 3.5 11.2 - - - +
85B GLU* 1.3 74.6 + - - +
87B ASP* 1.3 60.7 + - - +
88B GLN 2.9 16.1 + - - +
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Residues in contact with ASP 87 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8B PRO* 4.4 9.2 - - - +
83B VAL* 3.0 31.7 + - - +
84B GLN* 3.3 16.5 + - + +
86B GLN* 1.3 77.5 - - - +
88B GLN* 1.3 56.5 + - - +
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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