Contacts of the helix formed by residues 25 - 62 (chain R) in PDB entry 3L73
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 SER 25 (chain R).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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235N ARG* 4.2 9.0 - - - +
236N PHE* 2.7 32.8 + - - +
258N GLU* 5.2 0.8 + - - -
17R ASP 5.3 2.0 - - - -
18R VAL* 3.6 28.0 - - - -
23R THR 3.2 4.9 + - - -
24R SER* 1.3 71.6 + - - +
26R GLN* 1.3 76.5 + - - +
27R THR 3.3 0.2 - - - -
28R SER* 3.1 12.5 + - - -
29R SER 3.2 0.9 + - - -
32R ARG* 3.0 26.4 + - - -
22T GLU* 4.4 5.0 + - - -
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Residues in contact with GLN 26 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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236N PHE* 3.9 12.9 - - - -
258N GLU* 3.2 45.1 + - + +
418N LYS* 3.0 35.4 + - - +
24R SER* 3.1 11.6 - - - +
25R SER* 1.3 85.6 + - - +
27R THR* 1.3 64.1 + - + +
29R SER* 2.8 28.5 + - - -
30R GLU* 4.3 2.6 + - - +
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Residues in contact with THR 27 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23R THR* 4.8 6.0 - - + +
24R SER* 3.0 29.3 + - - +
26R GLN* 1.3 78.7 - - + +
28R SER* 1.3 62.1 + - - +
29R SER 3.6 0.3 + - - -
30R GLU* 4.6 3.3 + - - +
7W ARG* 4.1 22.0 + - - -
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Residues in contact with SER 28 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17R ASP* 3.5 39.1 + - - +
18R VAL* 3.8 5.7 - - - +
24R SER 4.8 0.2 + - - -
25R SER* 3.1 12.3 + - - -
26R GLN 3.2 0.4 - - - -
27R THR* 1.3 81.6 + - - +
29R SER* 1.3 63.2 + - - +
30R GLU 3.5 0.9 - - - -
31R ASP* 3.2 13.5 - - - +
32R ARG* 3.0 34.6 + - - +
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Residues in contact with SER 29 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
418N LYS* 4.3 9.2 + - - -
25R SER 3.2 4.2 + - - -
26R GLN* 2.8 32.3 + - - -
28R SER* 1.3 72.8 - - - +
30R GLU* 1.3 83.7 + - - +
31R ASP 2.9 3.0 + - - -
32R ARG* 3.0 26.2 + - - +
33R LYS* 3.0 40.7 + - - +
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Residues in contact with GLU 30 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26R GLN 4.9 3.4 - - - +
27R THR 4.6 1.5 + - - +
28R SER 3.5 0.4 - - - -
29R SER* 1.3 89.8 + - - +
31R ASP* 1.3 56.4 + - - +
33R LYS* 4.6 4.3 - - - +
34R GLY* 2.9 27.5 + - - -
6W LEU 3.8 1.4 - - - +
7W ARG* 3.1 53.3 + - + +
10W TYR* 3.5 29.9 - - + +
11W SER* 3.6 22.9 + - - -
15W ARG* 5.4 2.4 + - - -
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Residues in contact with ASP 31 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17R ASP* 5.0 7.8 - - - +
27R THR 5.4 0.2 - - - -
28R SER* 3.2 19.6 + - - +
29R SER 2.9 1.0 + - - -
30R GLU* 1.3 77.8 - - - +
32R ARG* 1.3 66.4 + - + +
34R GLY 3.4 0.7 + - - -
35R PHE* 3.1 24.8 + - - +
4W ALA* 4.2 8.2 - - - +
6W LEU* 3.7 23.0 - - + +
7W ARG* 2.7 43.2 + - - +
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Residues in contact with ARG 32 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
419N CYS* 5.4 1.4 - - - -
15R ARG* 3.0 51.2 + - + +
17R ASP* 4.7 12.1 - - - +
18R VAL* 3.6 17.2 - - - +
25R SER* 3.0 29.3 + - - -
26R GLN* 6.1 0.2 - - - -
28R SER* 3.2 23.8 + - - +
29R SER* 3.0 24.2 + - - +
31R ASP* 1.3 76.1 - - + +
33R LYS* 1.3 60.6 + - + +
35R PHE* 4.0 1.9 - - - +
36R SER* 3.5 17.5 + - - -
21T PHE* 2.6 47.6 + - + +
22T GLU* 2.6 31.0 + - - +
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Residues in contact with LYS 33 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
416N TYR 4.9 0.6 + - - -
417N ASP* 3.2 26.1 + - - +
418N LYS* 4.3 18.8 - - - +
419N CYS* 4.8 5.6 - - - -
438N ARG* 3.4 23.6 - - - +
29R SER* 3.0 32.5 + - - +
30R GLU* 4.6 1.5 - - - +
32R ARG* 1.3 73.7 - - + +
34R GLY* 1.3 58.8 + - - +
35R PHE 3.0 5.3 + - - -
36R SER* 3.2 1.0 + - - -
37R TYR* 2.8 37.7 + - + +
21T PHE* 3.4 30.7 - - + -
10W TYR* 3.5 38.9 + - + -
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Residues in contact with GLY 34 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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30R GLU 2.9 21.2 + - - -
31R ASP 3.4 1.3 + - - -
33R LYS* 1.3 75.7 - - - +
35R PHE* 1.3 56.2 + - - +
38R LEU* 3.1 26.9 + - - +
6W LEU* 3.7 14.6 - - - +
10W TYR* 3.5 21.4 - - - -
14W PHE* 3.3 12.7 - - - -
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Residues in contact with PHE 35 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
221Q TYR* 3.8 31.9 - + - -
15R ARG* 4.9 7.6 - - - +
31R ASP 3.1 16.5 + - - +
32R ARG* 4.0 4.9 - - - +
33R LYS 3.0 0.8 - - - -
34R GLY* 1.3 76.0 - - - +
36R SER* 1.3 68.6 + - - +
37R TYR 3.2 0.9 - - - -
38R LEU* 3.0 21.6 + - + +
39R VAL* 3.0 26.8 + - + +
6W LEU* 4.1 26.4 - - + +
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Residues in contact with SER 36 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
221Q TYR* 2.8 35.1 + - - -
225Q HIS* 3.5 20.9 - - - -
15R ARG* 3.1 21.1 + - - -
32R ARG 3.5 7.9 + - - -
33R LYS 3.2 1.0 + - - -
35R PHE* 1.3 78.8 - - - +
37R TYR* 1.3 63.8 + - - +
39R VAL* 3.2 5.2 + - - +
40R THR* 3.1 25.7 + - - -
21T PHE* 4.0 10.8 - - - -
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Residues in contact with TYR 37 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
417N ASP* 2.9 42.2 + - - -
438N ARG* 3.9 4.5 + - - -
442N TYR* 4.5 5.2 - - - -
33R LYS* 2.8 23.2 + - + +
36R SER* 1.3 76.6 - - - +
38R LEU* 1.3 60.5 + - - +
40R THR* 3.7 3.3 - - - -
41R ALA* 2.9 30.7 + - - +
3005R PEE 3.7 57.8 + - - -
21T PHE* 3.8 26.8 - + - -
10W TYR* 3.8 20.4 - + - -
14W PHE* 3.7 31.2 - - + -
20W PHE* 3.9 5.1 - + + -
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Residues in contact with LEU 38 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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34R GLY 3.1 21.7 + - - +
35R PHE* 3.0 15.1 + - + +
37R TYR* 1.3 75.0 - - - +
39R VAL* 1.3 60.2 + - + +
41R ALA* 3.8 2.4 - - + +
42R THR* 2.7 43.2 + - - +
6W LEU* 4.5 17.3 - - + -
9W ALA* 5.8 2.7 - - + -
14W PHE* 3.4 26.7 - - + -
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Residues in contact with VAL 39 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218Q LEU* 3.6 38.4 - - + +
221Q TYR* 3.4 40.2 - - + -
222Q MET* 4.1 5.4 - - + -
35R PHE* 3.0 32.0 + - + +
36R SER* 3.3 6.7 - - - +
38R LEU* 1.3 78.3 - - + +
40R THR* 1.3 64.4 + - - +
42R THR* 3.0 8.7 + - - -
43R ALA* 3.0 19.1 + - - +
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Residues in contact with THR 40 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222Q MET* 2.8 39.3 - - + +
36R SER 3.1 11.3 + - - -
37R TYR* 3.7 9.6 - - - -
39R VAL* 1.3 80.6 - - - +
41R ALA* 1.3 65.3 + - - +
43R ALA* 2.9 15.2 + - - +
44R CYS* 3.1 17.4 + - - -
3005R PEE 3.2 39.2 + - + +
20W PHE* 4.0 14.8 - - + -
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Residues in contact with ALA 41 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37R TYR 2.9 22.3 + - - +
38R LEU* 3.8 5.4 - - + +
40R THR* 1.3 71.9 - - - +
42R THR* 1.3 62.3 + - - +
44R CYS* 3.2 6.4 - - - +
45R VAL* 3.1 27.4 + - + +
14W PHE* 3.9 18.4 - - + -
20W PHE* 3.4 29.6 - - + -
23W THR* 5.1 6.3 - - + -
24W VAL* 4.0 6.0 - - + +
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Residues in contact with THR 42 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214Q LEU* 4.7 13.7 - - + -
218Q LEU* 3.5 22.7 - - + -
38R LEU* 2.7 29.3 + - - +
39R VAL* 3.0 11.2 + - - -
41R ALA* 1.3 74.5 - - - +
43R ALA* 1.3 60.3 + - - +
45R VAL* 3.1 10.8 + - + +
46R ALA* 2.8 28.1 + - + +
----------------------------------------------------------
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Residues in contact with ALA 43 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215Q LEU* 3.5 8.4 - - + +
218Q LEU* 3.4 23.3 - - + +
219Q LEU* 5.0 4.3 - - + -
222Q MET* 4.2 19.7 - - - -
39R VAL 3.0 10.4 + - - +
40R THR 2.9 10.9 + - - +
42R THR* 1.3 76.0 - - - +
44R CYS* 1.3 58.0 + - - +
46R ALA* 3.3 2.3 + - - +
47R THR* 2.8 35.2 + - - -
3005R PEE 4.7 12.8 - - + -
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Residues in contact with CYS 44 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40R THR* 3.1 21.2 + - - -
41R ALA 3.2 8.5 - - - +
43R ALA* 1.3 76.7 - - - +
45R VAL* 1.3 53.8 + - - +
47R THR* 2.8 8.5 + - - +
48R ALA* 2.5 36.9 + - - +
3005R PEE 4.0 38.4 - - + -
20W PHE* 4.1 22.0 - - - -
24W VAL* 3.5 22.0 - - + -
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Residues in contact with VAL 45 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41R ALA* 3.1 15.8 + - + +
42R THR* 3.1 10.7 + - + +
44R CYS* 1.3 78.6 - - - +
46R ALA* 1.3 57.5 - - - +
48R ALA* 3.4 5.3 + - - +
49R TYR* 3.1 26.5 + - - +
23W THR* 4.5 2.0 - - + +
24W VAL* 3.5 32.5 - - - +
27W GLY* 3.6 12.8 - - - +
28W ALA* 3.3 28.2 - - - +
31W PHE* 3.7 19.3 - - + -
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Residues in contact with ALA 46 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211Q ILE* 4.6 9.8 - - + +
214Q LEU* 4.3 25.1 - - + -
215Q LEU* 3.4 27.8 - - + +
218Q LEU* 4.6 0.4 - - + -
42R THR* 2.8 16.5 + - + +
43R ALA* 4.3 0.7 - - - -
45R VAL* 1.3 75.8 - - - +
47R THR* 1.3 62.5 + - - +
49R TYR* 3.5 9.0 - - - +
50R ALA* 3.3 20.6 + - - +
31W PHE* 4.7 6.7 - - - -
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Residues in contact with THR 47 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215Q LEU* 3.6 13.9 - - - +
43R ALA 2.8 23.6 + - - -
44R CYS* 3.5 5.8 - - - -
46R ALA* 1.3 74.1 - - - +
48R ALA* 1.3 59.6 + - - +
49R TYR 3.0 2.2 + - - -
50R ALA* 3.3 4.3 + - - +
51R ALA* 2.9 33.8 + - + +
3005R PEE 3.6 56.5 - - + +
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Residues in contact with ALA 48 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44R CYS 2.5 20.2 + - - +
45R VAL* 3.8 6.3 - - - +
47R THR* 1.3 72.7 - - - +
49R TYR* 1.3 62.5 + - - +
51R ALA* 4.1 4.7 - - - -
52R LYS* 3.2 23.2 + - - +
3005R PEE 3.7 43.0 - - + +
24W VAL* 4.7 2.9 - - + -
28W ALA* 4.1 12.1 - - + -
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Residues in contact with TYR 49 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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207Q LYS* 3.9 9.2 + - - +
211Q ILE* 3.7 33.7 - - + -
3009Q BOG 4.3 15.5 + - + -
45R VAL 3.1 13.9 + - - +
46R ALA 3.5 7.9 - - - +
47R THR 3.0 0.2 - - - -
48R ALA* 1.3 76.4 - - - +
50R ALA* 1.3 80.3 + - - +
52R LYS* 3.2 5.9 + - - +
53R ASN* 2.8 43.7 + - - -
3005R PEE 5.4 4.3 - - - -
28W ALA* 5.2 2.4 - - + +
31W PHE* 3.8 15.5 - + + -
32W GLU* 3.3 47.8 - - + -
35W PHE* 3.4 22.2 - + - -
36W ASP* 2.7 24.7 + - - -
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Residues in contact with ALA 50 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211Q ILE* 4.8 3.6 - - + -
215Q LEU* 5.3 2.2 - - + -
3009Q BOG 3.8 35.9 - - + -
46R ALA 3.3 10.3 + - - +
47R THR* 3.3 7.7 + - - +
49R TYR* 1.3 87.5 - - + +
51R ALA* 1.3 63.3 + - - +
53R ASN* 3.3 5.6 + - - +
54R VAL* 3.0 30.1 + - + +
3005R PEE 4.5 13.2 - - + -
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Residues in contact with ALA 51 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47R THR* 2.9 25.6 + - + +
48R ALA* 4.3 4.9 - - - +
50R ALA* 1.3 70.9 - - - +
52R LYS* 1.3 70.1 + - - +
53R ASN 3.1 0.2 + - - -
54R VAL* 3.2 1.5 + - - +
55R VAL* 2.9 34.4 + - + +
3005R PEE 4.5 23.3 - - + +
----------------------------------------------------------
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Residues in contact with LYS 52 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48R ALA 3.2 19.4 + - - +
49R TYR* 3.2 4.6 + - - +
51R ALA* 1.3 77.6 - - - +
53R ASN* 1.3 63.4 + - - +
55R VAL* 3.9 4.6 - - - +
56R THR* 2.7 53.3 + - - +
3005R PEE 3.9 26.8 - - + +
32W GLU* 3.1 38.0 + - - +
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Residues in contact with ASN 53 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3009Q BOG 2.6 44.5 + - + +
49R TYR* 2.8 57.9 + - - -
50R ALA* 3.6 6.2 - - - +
51R ALA 3.1 1.0 - - - -
52R LYS* 1.3 81.8 - - - +
54R VAL* 1.3 61.6 + - - +
56R THR* 3.0 6.6 + - - +
57R GLN* 2.7 37.8 + - - +
32W GLU* 4.0 13.1 + - - +
36W ASP* 5.5 1.0 - - - +
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Residues in contact with VAL 54 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83P LEU* 6.2 0.2 - - + -
3009Q BOG 5.3 11.9 - - + -
50R ALA* 3.0 19.5 + - + +
51R ALA* 4.0 4.0 - - - +
53R ASN* 1.3 75.0 - - + +
55R VAL* 1.3 58.8 + - - +
57R GLN* 3.2 14.6 + - - +
58R PHE* 2.8 64.1 + - + -
3005R PEE 4.6 28.9 - - + -
----------------------------------------------------------
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Residues in contact with VAL 55 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51R ALA* 2.9 25.0 + - + +
52R LYS* 3.9 4.0 - - - +
54R VAL* 1.3 75.8 - - - +
56R THR* 1.3 57.3 + - - +
58R PHE* 4.7 4.5 - - - -
59R ILE* 2.7 58.5 + - + +
3005R PEE 4.8 17.5 - - + -
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Residues in contact with THR 56 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76P TYR* 5.9 2.7 - - + +
3009Q BOG 5.4 6.7 - - - +
52R LYS* 2.7 39.4 + - - +
53R ASN* 3.2 13.5 - - - +
55R VAL* 1.3 77.9 - - - +
57R GLN* 1.3 67.0 + - + +
59R ILE* 3.8 4.4 - - - +
60R SER* 3.0 28.4 + - - -
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Residues in contact with GLN 57 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76P TYR* 3.8 42.4 - - + +
79P LEU* 3.0 33.7 - - - +
204Q MET* 3.5 18.7 - - - +
3009Q BOG 3.1 30.4 + - - +
53R ASN 2.7 23.9 + - - +
54R VAL* 3.6 14.5 - - - +
56R THR* 1.3 76.7 - - + +
58R PHE* 1.3 71.6 + - + +
60R SER* 3.3 3.8 + - - -
61R SER* 3.0 21.7 + - - -
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Residues in contact with PHE 58 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47P LEU* 4.6 21.5 - - + -
48P THR* 4.7 14.1 - - + -
51P LEU* 3.7 29.8 - - + +
76P TYR* 5.7 0.2 - - + -
79P LEU* 4.9 2.5 - - + -
80P ILE* 3.8 27.6 - - + -
83P LEU* 4.0 26.0 - - + -
54R VAL* 2.8 45.9 + - + +
55R VAL* 3.9 4.7 - - - +
57R GLN* 1.3 83.6 - - + +
59R ILE* 1.3 69.3 + - + +
61R SER* 2.8 25.3 + - - -
62R LEU* 3.8 1.6 + - - +
3005R PEE 5.2 5.2 - - + -
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Residues in contact with ILE 59 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164C TRP* 3.1 45.3 + - + +
55R VAL* 2.7 43.8 + - + +
56R THR* 3.8 4.9 - - - +
58R PHE* 1.3 75.0 - - + +
60R SER* 1.3 65.1 + - - +
62R LEU* 3.0 14.2 + - + +
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Residues in contact with SER 60 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164C TRP* 4.9 0.7 - - - +
75P GLN* 3.4 24.2 - - - +
76P TYR* 3.8 11.9 - - - -
56R THR* 3.0 19.6 + - - -
57R GLN* 3.5 5.1 + - - -
59R ILE* 1.3 77.6 - - - +
61R SER* 1.3 63.1 + - - +
62R LEU 2.9 6.8 + - - -
63R SER* 3.0 28.2 + - - +
----------------------------------------------------------
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Residues in contact with SER 61 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51P LEU* 3.2 23.0 + - - +
55P HIS* 3.6 13.2 + - - -
74P VAL* 3.5 22.0 - - - +
75P GLN* 3.2 27.1 + - - -
80P ILE* 3.6 19.9 - - - +
57R GLN 3.0 7.1 + - - -
58R PHE 2.8 16.9 + - - -
60R SER* 1.3 76.0 - - - +
62R LEU* 1.3 59.7 + - - +
63R SER 3.4 5.2 + - - +
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Residues in contact with LEU 62 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164C TRP* 3.3 40.6 - - + +
167C GLY* 3.8 1.2 - - - -
178C ARG* 3.1 52.0 + - - +
51P LEU* 4.4 12.1 - - + -
54P MET* 3.6 31.6 - - + -
55P HIS* 4.5 11.7 - - + -
58R PHE 4.7 1.3 - - - +
59R ILE* 3.0 10.2 + - - +
60R SER 2.9 1.4 - - - -
61R SER* 1.3 85.9 + - - +
63R SER* 1.3 63.1 + - - +
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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