Contacts of the helix formed by residues 43 - 72 (chain L) in PDB entry 6CP3
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 ILE 43 (chain L).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38H ARG* 6.1 3.1 - - - +
36L GLY 4.6 4.9 - - - +
37L VAL* 4.8 0.7 - - - +
40L ASN* 3.3 41.6 + - + +
41L PRO 3.3 1.2 - - - -
42L SER* 1.3 94.3 - - - +
44L LYS* 1.3 63.4 + - - +
45L ASP 3.5 0.9 - - - +
46L THR* 3.7 31.4 - - + +
47L VAL* 3.3 29.7 + - + +
37M VAL* 4.3 16.4 - - + +
38M SER* 4.8 2.2 - - - -
41M PRO* 4.8 18.2 - - + -
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Residues in contact with LYS 44 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46K THR* 3.7 41.4 + - + -
47K VAL* 4.2 4.0 - - - +
50K MET* 3.4 43.0 - - - +
33L LEU* 5.7 2.0 - - - +
37L VAL* 3.7 26.2 - - + +
41L PRO 4.1 8.4 + - - +
42L SER 3.3 3.8 - - - -
43L ILE* 1.3 78.5 - - - +
45L ASP* 1.3 72.2 + - - +
46L THR 3.3 0.3 + - - -
47L VAL* 4.3 1.1 - - - +
48L PHE* 3.1 36.7 + - + +
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Residues in contact with ASP 45 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42L SER 4.7 3.2 + - - +
43L ILE* 3.5 0.6 - - - +
44L LYS* 1.3 91.4 - - - +
46L THR* 1.3 63.6 + - - +
48L PHE* 4.8 6.5 - - - +
49L PRO* 3.3 19.9 - - - +
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Residues in contact with THR 46 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42L SER 5.3 0.7 + - - -
43L ILE* 3.7 31.5 + - + +
44L LYS 3.2 0.8 - - - -
45L ASP* 1.3 80.2 - - - +
47L VAL* 1.3 64.9 + - - +
48L PHE 3.7 0.2 + - - -
49L PRO* 3.9 6.4 - - - +
50L MET* 4.1 11.9 + - + +
37M VAL* 4.3 11.7 - - + -
44M LYS* 3.5 36.1 + - - +
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Residues in contact with VAL 47 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33L LEU* 3.8 17.0 - - + -
36L GLY 5.1 2.2 - - - +
43L ILE* 3.3 30.7 - - + +
44L LYS* 3.5 2.7 + - - +
46L THR* 1.3 77.1 - - - +
48L PHE* 1.3 55.0 + - - +
50L MET* 2.9 12.4 + - + -
51L ALA* 2.4 43.7 + - + +
34M ILE* 3.7 30.1 - - + -
37M VAL* 3.7 27.4 - - + -
38M SER* 4.7 10.8 - - - +
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Residues in contact with PHE 48 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50K MET* 4.2 29.6 - - + -
53K LEU* 4.9 15.0 - - + -
30L PHE* 5.6 2.9 - + - -
33L LEU* 4.5 13.2 - - + +
44L LYS* 3.1 26.4 + - + +
45L ASP* 4.8 3.8 - - - +
47L VAL* 1.3 77.2 - - - +
49L PRO* 1.3 70.8 - - + +
51L ALA* 4.2 5.2 - - + -
52L ILE* 3.1 51.1 + - + +
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Residues in contact with PRO 49 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45L ASP* 3.3 22.9 - - - +
46L THR 3.9 4.3 - - - +
47L VAL 3.8 0.9 - - - -
48L PHE* 1.3 94.3 - - + +
50L MET* 1.3 54.3 + - - +
52L ILE* 3.0 11.5 + - + +
53L LEU* 2.7 36.6 + - - +
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Residues in contact with MET 50 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46L THR 4.1 10.7 + - - +
47L VAL* 2.9 12.7 + - + +
49L PRO* 1.3 74.5 - - - +
51L ALA* 1.3 57.4 + - - +
53L LEU* 3.0 11.8 - - - +
54L GLY* 2.9 25.3 + - - -
30M PHE* 5.0 3.0 - - + -
33M LEU* 3.6 39.3 - - + -
34M ILE* 6.2 1.1 - - + -
37M VAL* 4.3 19.5 - - + -
44M LYS* 3.9 36.6 - - + +
48M PHE* 3.7 34.8 - - + -
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Residues in contact with ALA 51 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29L VAL* 4.3 12.5 - - + +
30L PHE* 6.3 2.2 - - + -
33L LEU* 4.1 20.9 - - + -
47L VAL* 2.4 47.5 + - + +
48L PHE* 4.2 3.4 - - + +
50L MET* 1.3 68.5 - - - +
52L ILE* 1.3 59.4 + - - +
54L GLY* 3.0 6.7 + - - -
55L PHE* 2.8 22.3 + - - +
30M PHE* 6.1 1.6 - - - -
34M ILE* 4.3 14.6 - - + -
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Residues in contact with ILE 52 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53K LEU* 5.0 11.9 - - + -
57K LEU* 6.2 3.8 - - + -
30L PHE* 5.5 8.1 - - + -
48L PHE* 3.1 42.5 + - + +
49L PRO* 3.0 21.4 + - + +
51L ALA* 1.3 73.6 - - - +
53L LEU* 1.3 62.7 + - - +
55L PHE* 2.8 42.1 - - + +
56L ALA* 3.3 6.6 + - - +
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Residues in contact with LEU 53 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49L PRO 2.7 12.7 + - - +
50L MET* 3.0 17.7 - - + +
52L ILE* 1.3 77.9 - - - +
54L GLY* 1.3 55.2 + - - +
56L ALA* 3.0 25.1 + - + +
57L LEU* 3.2 35.0 + - + +
30M PHE* 4.8 7.9 - - + -
48M PHE* 5.1 14.8 - - + -
52M ILE* 4.9 12.6 - - + -
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Residues in contact with GLY 54 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26L ILE* 4.9 0.3 - - - +
29L VAL* 4.6 9.2 - - - +
50L MET 2.9 11.9 + - - -
51L ALA 3.0 6.0 + - - -
53L LEU* 1.3 71.4 - - - +
55L PHE* 1.3 65.9 + - - +
57L LEU* 4.7 0.9 - - - -
58L SER* 3.3 19.2 + - - -
30M PHE* 3.5 42.4 - - - +
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Residues in contact with PHE 55 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57K LEU* 3.6 43.7 - - + -
26L ILE* 3.6 34.1 - - + +
29L VAL* 5.6 3.1 - - + -
30L PHE* 3.8 31.4 - + + -
51L ALA 2.8 7.2 + - - +
52L ILE* 2.8 35.2 + - + +
54L GLY* 1.3 78.7 - - - +
56L ALA* 1.3 69.1 + - + +
58L SER* 3.0 6.4 + - - -
59L GLU* 3.0 45.5 + - + +
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Residues in contact with ALA 56 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52L ILE 3.3 5.6 + - - +
53L LEU* 3.0 12.8 + - + +
55L PHE* 1.3 82.2 - - + +
57L LEU* 1.3 58.3 + - + +
58L SER 2.9 6.2 + - - -
59L GLU* 3.0 29.6 + - - +
60L ALA* 3.1 16.6 + - - +
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Residues in contact with LEU 57 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53L LEU* 3.2 43.1 - - + +
54L GLY* 4.2 0.9 - - - -
56L ALA* 1.3 76.9 - - + +
58L SER* 1.3 58.2 + - - +
60L ALA* 5.0 5.4 - - - -
61L THR* 4.2 7.1 - - - +
26M ILE* 3.5 3.6 - - - +
30M PHE* 3.6 25.6 - - + -
52M ILE* 4.9 10.5 - - + -
55M PHE* 3.3 54.4 - - + -
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Residues in contact with SER 58 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21L GLY 6.2 0.2 - - - -
22L ALA* 5.9 0.6 - - - -
26L ILE* 4.0 11.2 - - - -
54L GLY 3.3 14.6 + - - -
55L PHE 3.0 10.2 + - - -
56L ALA 2.9 1.2 + - - -
57L LEU* 1.3 77.1 - - - +
59L GLU* 1.3 59.8 + - - +
60L ALA 3.3 2.2 - - - -
61L THR* 2.3 34.8 + - - -
23M GLY* 4.9 5.8 - - - -
26M ILE* 3.6 27.1 - - - +
27M ALA* 3.9 18.6 - - - -
30M PHE* 4.0 6.2 - - - -
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Residues in contact with GLU 59 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61K THR* 5.4 6.8 - - + +
22L ALA* 4.5 13.7 - - + +
26L ILE* 3.7 30.7 - - + -
55L PHE* 3.0 36.9 + - + +
56L ALA* 3.2 21.2 - - - +
58L SER* 1.3 76.2 - - - +
60L ALA* 1.3 73.9 + - - +
62L GLY* 3.0 14.0 + - - -
63L LEU* 3.2 38.9 + - - +
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Residues in contact with ALA 60 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56L ALA 3.1 15.3 + - - +
57L LEU* 5.1 4.9 - - - -
58L SER 3.3 0.2 + - - -
59L GLU* 1.3 80.7 - - - +
61L THR* 1.3 64.6 + - + +
63L LEU* 3.0 20.3 + - + +
64L PHE* 2.9 39.3 + - + -
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Residues in contact with THR 61 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21L GLY 5.5 0.7 + - - -
57L LEU 4.2 13.9 - - - +
58L SER 2.3 28.5 + - - +
60L ALA* 1.3 75.8 - - + +
62L GLY* 1.3 67.1 + - - +
64L PHE* 3.0 37.0 + - + +
19M LEU* 3.3 20.4 + - - +
22M ALA* 4.5 17.0 - - + -
23M GLY* 3.8 16.8 - - - -
26M ILE* 4.3 12.1 - - + -
59M GLU* 5.0 10.5 - - - +
63M LEU* 6.2 1.8 - - + -
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Residues in contact with GLY 62 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18L GLY 3.7 21.8 - - - -
19L LEU* 4.3 12.8 + - - -
21L GLY 5.4 0.4 - - - -
22L ALA* 4.6 9.3 - - - +
59L GLU 3.0 7.7 + - - -
61L THR* 1.3 82.5 + - - +
63L LEU* 1.3 62.7 + - - +
65L CYS* 3.1 19.2 + - - +
66L LEU* 3.6 9.2 + - - +
19M LEU* 3.8 3.6 - - - -
23M GLY* 6.3 0.2 - - - -
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Residues in contact with LEU 63 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61K THR* 5.4 6.5 - - + -
64K PHE* 3.9 27.8 - - + -
59L GLU* 3.2 35.5 + - - +
60L ALA* 3.0 21.9 + - + +
62L GLY* 1.3 74.7 - - - +
64L PHE* 1.4 64.5 + - + +
66L LEU* 3.1 27.2 + - + +
67L MET* 3.3 13.4 + - - +
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Residues in contact with PHE 64 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60L ALA* 2.9 27.1 + - + -
61L THR* 3.0 28.5 + - + +
63L LEU* 1.4 76.7 - - + +
65L CYS* 1.3 60.6 + - - +
67L MET* 3.1 29.7 + - + +
68L VAL* 3.0 25.6 + - - +
19M LEU* 4.4 8.7 - - + -
63M LEU* 5.0 14.4 - - + -
66M LEU* 4.7 22.9 - - + -
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Residues in contact with CYS 65 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15L SER 3.2 24.8 - - - +
16L THR 4.3 2.7 - - - +
18L GLY* 3.5 28.5 - - - -
19L LEU 4.6 0.7 - - - +
61L THR 3.6 1.2 + - - -
62L GLY 3.1 12.3 + - - +
64L PHE* 1.3 78.2 - - - +
66L LEU* 1.3 58.5 + - - +
68L VAL* 3.1 10.6 + - - +
69L SER 2.8 22.5 + - - -
16M THR* 3.6 16.8 - - - -
17M ILE* 4.4 4.7 - - - -
19M LEU* 3.7 25.8 - - + +
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Residues in contact with LEU 66 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64K PHE* 4.3 25.6 - - + -
67K MET* 6.5 0.4 - - + -
68K VAL* 4.1 27.4 - - + +
15L SER 4.6 1.3 - - - -
16L THR* 5.4 4.9 - - + +
19L LEU* 4.6 17.5 - - + -
62L GLY 3.8 4.7 - - - +
63L LEU* 3.1 46.4 + - + +
65L CYS* 1.3 80.8 - - - +
67L MET* 1.3 60.8 + - + +
69L SER* 3.0 14.2 + - - -
70L PHE* 2.8 24.9 + - - +
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Residues in contact with MET 67 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63L LEU 3.3 10.7 + - - +
64L PHE* 3.1 42.5 + - + +
66L LEU* 1.3 76.4 - - + +
68L VAL* 1.3 75.7 + - + +
70L PHE* 3.0 9.6 + - + +
71L LEU* 2.9 43.7 + - + +
66M LEU* 5.4 3.4 - - + -
70M PHE* 5.3 10.1 - - + -
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Residues in contact with VAL 68 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15L SER* 4.8 2.2 - - - -
64L PHE 3.0 20.7 + - - +
65L CYS* 3.2 11.7 - - - +
67L MET* 1.3 90.7 - - + +
69L SER* 1.3 54.9 + - - +
71L LEU* 3.1 23.0 + - + +
72L LEU* 2.9 31.7 + - + +
12M ALA* 5.2 2.0 - - + +
16M THR* 3.7 30.1 - - + +
19M LEU* 5.9 1.3 - - + -
66M LEU* 5.3 10.1 - - + -
69M SER* 4.8 10.1 - - - +
70M PHE* 4.9 13.7 - - + -
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Residues in contact with SER 69 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68K VAL* 4.1 16.9 - - - +
12L ALA* 3.2 26.2 + - - +
15L SER* 3.3 32.3 - - - -
16L THR* 4.3 1.9 + - - -
65L CYS 2.8 7.3 + - - -
66L LEU* 3.0 18.4 + - - -
68L VAL* 1.3 76.3 - - - +
70L PHE* 1.3 55.7 + - - +
72L LEU* 3.0 5.8 + - - +
73L LEU* 2.9 26.1 + - - +
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Residues in contact with PHE 70 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71K LEU* 5.7 4.7 - - + -
66L LEU 2.8 12.8 + - - +
67L MET* 3.0 10.5 + - - +
69L SER* 1.3 76.4 - - - +
71L LEU* 1.3 53.9 + - + +
73L LEU* 3.3 24.4 - - + +
74L PHE* 2.5 69.2 + + + +
----------------------------------------------------------
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Residues in contact with LEU 71 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8L LYS* 4.3 6.6 + - - -
67L MET* 2.9 31.3 + - + +
68L VAL* 3.1 29.6 + - + +
70L PHE* 1.3 79.1 - - + +
72L LEU* 1.3 61.3 + - + +
73L LEU 3.3 0.2 - - - -
74L PHE* 3.9 19.7 - - + +
70M PHE* 5.6 8.1 - - + -
73M LEU* 3.7 31.4 - - + +
----------------------------------------------------------
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Residues in contact with LEU 72 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8L LYS* 2.9 64.6 - - + +
11L GLY* 3.4 33.4 - - - +
12L ALA* 3.9 3.4 - - - +
15L SER* 4.3 3.8 - - - +
68L VAL* 2.9 17.6 + - + +
69L SER* 3.0 8.0 + - - +
71L LEU* 1.3 79.8 - - + +
73L LEU* 1.3 56.9 + - - +
9M TYR* 3.5 39.3 - - + +
12M ALA* 4.7 4.0 - - + -
13M GLY* 4.0 12.6 - - - +
16M THR* 5.5 0.4 - - - +
73M LEU* 5.1 8.1 - - + -
----------------------------------------------------------
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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