Contacts of the helix formed by residues 25 - 62 (chain R) in PDB entry 1PP9
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
----------------------------------------------------------
235N ARG* 3.4 20.5 - - - +
236N PHE* 3.5 25.1 + - - +
258N GLU* 5.1 2.9 + - - -
17R GLU 5.5 1.6 - - - -
18R VAL* 3.1 23.9 - - - +
23R LYS 3.5 2.6 + - - -
24R SER* 1.3 70.0 + - - +
26R LYS* 1.3 63.0 + - - +
27R GLU 3.1 3.1 - - - -
28R SER* 3.1 14.2 + - - -
29R SER 3.2 0.3 + - - -
32R ARG* 2.9 32.1 + - - -
22T GLU* 4.1 5.0 + - - -
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Residues in contact with LYS 26 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
258N GLU* 3.3 57.9 + - - +
259N GLY 3.9 9.1 + - - -
260N PRO* 4.7 1.6 - - - +
413N LYS 5.9 2.2 - - - -
414N TYR* 3.9 20.8 - - - +
418N GLN* 5.3 13.2 - - - +
24R SER* 3.2 10.2 + - - +
25R SER* 1.3 80.0 - - - +
27R GLU* 1.3 61.0 + - + +
28R SER 3.0 0.7 - - - -
29R SER* 3.0 26.9 + - - +
30R GLU* 4.6 3.1 + - - +
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Residues in contact with GLU 27 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23R LYS* 4.8 12.7 - - - +
24R SER* 3.5 36.3 + - - +
25R SER 3.1 0.6 - - - -
26R LYS* 1.3 78.1 - - + +
28R SER* 1.3 58.9 + - - +
30R GLU* 5.4 1.0 + - - +
31R ALA* 5.6 1.0 + - - +
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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 GLU* 3.7 28.1 + - - -
18R VAL* 3.7 10.2 - - - +
24R SER 5.2 0.4 + - - -
25R SER* 3.1 9.2 + - - -
26R LYS 3.0 0.2 - - - -
27R GLU* 1.3 82.2 - - - +
29R SER* 1.3 58.4 + - - +
30R GLU 3.4 2.5 - - - -
31R ALA* 3.1 13.1 + - - +
32R ARG* 2.8 52.3 + - - +
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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 GLN* 4.7 12.3 + - - -
25R SER 3.2 5.8 + - - -
26R LYS* 3.0 25.5 + - - +
28R SER* 1.3 77.4 - - - +
30R GLU* 1.3 63.8 + - - +
32R ARG* 3.2 22.2 + - - +
33R LYS* 2.9 49.2 + - - +
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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 LYS 4.6 2.6 + - - +
27R GLU 5.4 0.4 - - - -
28R SER 3.4 0.4 - - - -
29R SER* 1.3 82.5 + - - +
31R ALA* 1.3 57.6 + - - +
33R LYS* 5.2 1.6 - - - +
34R GLY* 2.9 23.4 + - - -
3W PRO* 6.0 1.4 - - - +
7W ALA* 3.6 20.0 - - + +
10W TYR* 3.3 41.4 - - + +
11W SER* 3.1 27.8 + - - -
15W ARG* 5.3 3.5 - - - -
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Residues in contact with ALA 31 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17R GLU* 5.5 4.9 - - - +
27R GLU 5.6 1.1 + - - +
28R SER* 3.1 17.5 + - - +
30R GLU* 1.3 79.6 - - - +
32R ARG* 1.3 62.8 + - + +
34R GLY 3.4 0.2 + - - -
35R PHE* 3.1 17.7 + - - +
4W THR* 3.6 18.8 - - + +
6W THR* 3.1 29.0 + - - +
7W ALA* 3.8 8.5 - - + +
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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* 5.7 1.8 - - - -
15R ARG* 3.1 41.0 + - - +
17R GLU* 3.5 30.3 - - + +
18R VAL* 3.5 16.5 - - - +
25R SER* 2.9 34.2 + - - -
28R SER* 2.8 27.8 + - - +
29R SER* 3.2 20.3 + - - +
31R ALA* 1.3 75.3 - - - +
33R LYS* 1.3 64.2 + - + +
35R PHE* 3.4 2.7 + - - +
36R SER* 3.4 15.9 + - - -
21T PHE* 2.9 39.5 + - + +
22T GLU* 3.8 15.8 + - - +
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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
----------------------------------------------------------
417N ASP* 2.9 30.2 + - - +
418N GLN* 3.9 14.7 - - - +
419N CYS* 5.9 1.3 - - - -
438N ARG* 3.5 11.4 - - - +
29R SER* 2.9 34.5 + - - +
30R GLU* 4.4 1.8 - - - +
32R ARG* 1.3 74.5 - - + +
34R GLY* 1.3 67.7 + - - +
36R SER* 3.4 1.0 + - - -
37R TYR* 2.9 35.6 + - + -
21T PHE* 3.8 28.7 - - + -
10W TYR* 2.6 51.2 + - + +
15W ARG* 3.8 6.9 - - - +
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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
----------------------------------------------------------
30R GLU 2.9 19.1 + - - -
31R ALA 3.8 0.9 - - - -
32R ARG 3.2 0.4 - - - -
33R LYS* 1.3 78.6 - - - +
35R PHE* 1.3 56.1 + - - +
38R LEU* 2.9 32.1 + - - +
6W THR* 3.6 21.9 - - - +
10W TYR* 3.8 9.1 - - - -
14W PHE* 3.5 12.0 - - - -
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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
----------------------------------------------------------
15R ARG* 4.5 8.3 - - - +
31R ALA 3.1 13.0 + - - +
32R ARG* 3.7 9.6 - - - +
33R LYS 3.2 0.4 - - - -
34R GLY* 1.3 76.9 - - - +
36R SER* 1.3 63.4 + - - +
38R LEU* 3.3 6.6 + - + +
39R VAL* 3.2 27.8 + - + +
3005T PEE 3.3 109.3 - - + -
6W THR* 3.8 18.3 - - + -
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Residues in contact with SER 36 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222Q MET* 5.8 0.2 - - - +
225Q HIS* 3.4 18.9 + - - -
15R ARG* 3.0 29.6 + - - -
32R ARG 3.4 6.1 + - - -
35R PHE* 1.3 74.6 - - - +
37R TYR* 1.3 68.1 + - - +
39R VAL* 3.1 12.5 + - - +
40R THR* 3.1 22.7 + - - -
21T PHE* 3.8 22.1 - - - -
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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* 2.5 43.5 + - - -
438N ARG* 4.1 0.2 + - - -
442N PHE* 3.9 18.8 - + - -
33R LYS* 2.9 36.3 + - + +
36R SER* 1.3 74.5 - - - +
38R LEU* 1.3 54.8 + - - +
40R THR* 3.1 13.9 + - + -
41R ALA* 2.7 35.2 + - - +
21T PHE* 3.7 25.9 - + - -
10W TYR* 3.7 17.5 - + - -
14W PHE* 3.7 26.2 - - + -
20W PHE* 3.7 12.7 - + + -
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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
----------------------------------------------------------
34R GLY 2.9 19.7 + - - +
35R PHE* 3.5 8.3 - - + +
36R SER 3.1 0.2 - - - -
37R TYR* 1.3 76.5 - - - +
39R VAL* 1.3 57.5 + - - +
41R ALA* 4.3 3.4 - - + +
42R THR* 2.9 45.4 + - - +
3005T PEE 3.8 31.0 - - + -
5W LEU* 6.2 1.3 - - + -
6W THR* 5.0 9.9 - - + -
9W LEU* 4.3 21.5 - - + -
14W PHE* 3.6 25.5 - - + -
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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* 3.7 37.4 - - + +
221Q ALA* 4.3 9.4 - - + -
222Q MET* 3.9 14.8 - - + +
35R PHE* 3.2 22.6 + - + +
36R SER* 3.1 12.7 + - - +
38R LEU* 1.3 78.5 - - - +
40R THR* 1.3 57.9 + - - +
42R THR* 4.0 1.8 - - - -
43R THR* 2.7 34.4 + - - +
3005T PEE 4.0 33.4 - - + +
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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* 4.4 30.7 - - + +
36R SER 3.1 13.0 + - - -
37R TYR* 3.3 19.8 - - + -
39R VAL* 1.3 78.1 - - - +
41R ALA* 1.3 60.1 + - - +
43R THR* 3.4 2.3 + - - -
44R THR* 2.8 35.3 + - - +
20W PHE* 4.0 16.4 - - + -
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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 2.7 19.7 + - - +
38R LEU* 3.3 6.7 + - + +
40R THR* 1.3 71.4 - - - +
42R THR* 1.3 64.3 + - - +
44R THR* 3.3 4.4 + - - -
45R VAL* 3.0 28.0 + - + +
14W PHE* 4.1 16.6 - - + -
20W PHE* 3.9 20.4 - - + -
23W THR* 5.3 4.7 - - + -
24W ILE* 4.3 16.2 - - + +
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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* 4.5 12.4 - - + +
215Q LEU* 5.0 0.2 - - - +
218Q LEU* 3.5 23.0 - - + +
38R LEU* 2.9 25.5 + - - +
39R VAL 4.0 3.4 - - - -
41R ALA* 1.3 75.2 - - - +
43R THR* 1.3 62.8 + - - +
45R VAL* 3.0 11.5 + - + +
46R GLY* 3.0 19.9 + - - -
3005T PEE 3.6 37.5 - - + +
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Residues in contact with THR 43 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215Q LEU* 3.6 15.9 - - + +
218Q LEU* 3.4 21.4 - - - +
219Q VAL* 3.8 26.5 - - + -
222Q MET* 3.7 20.1 - - + -
39R VAL 2.7 22.4 + - - -
40R THR 3.6 4.9 - - - -
42R THR* 1.3 78.2 - - - +
44R THR* 1.3 57.5 + - - +
46R GLY 3.3 1.2 + - - -
47R VAL* 3.0 41.3 + - + +
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Residues in contact with THR 44 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40R THR* 2.8 26.6 + - - +
41R ALA 3.6 5.2 - - - -
43R THR* 1.3 77.6 - - - +
45R VAL* 1.3 56.9 + - - +
47R VAL* 3.4 8.1 + - + +
48R ALA* 2.9 29.4 + - + +
20W PHE* 5.3 0.5 - - - -
24W ILE* 3.7 32.4 - - + +
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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* 3.0 17.2 + - + +
42R THR* 3.0 13.7 + - + +
44R THR* 1.3 77.5 - - - +
46R GLY* 1.3 62.5 + - - +
48R ALA* 3.2 5.7 + - - +
49R TYR* 3.0 21.5 + - - +
23W THR 5.0 0.2 - - - +
24W ILE* 3.7 35.0 - - + +
27W GLY* 3.9 7.2 - - - +
28W ALA* 3.7 23.8 - - - +
31W PHE* 3.8 27.6 - - + -
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Residues in contact with GLY 46 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211Q MET* 3.5 32.3 - - - +
214Q LEU* 5.3 4.0 - - - -
215Q LEU* 4.0 10.5 - - - +
42R THR 3.0 13.1 + - - -
43R THR 3.3 3.1 + - - -
45R VAL* 1.3 80.1 - - - +
47R VAL* 1.3 58.5 - - - +
49R TYR* 3.4 2.9 + - - +
50R ALA* 3.1 20.4 + - - +
31W PHE* 4.9 3.4 - - - -
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Residues in contact with VAL 47 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
233P LEU* 6.0 2.2 - - + -
215Q LEU* 4.1 15.7 - - + -
219Q VAL* 5.9 2.0 - - + -
3006Q PEE 4.9 30.3 - - + -
43R THR* 3.0 30.9 + - + +
44R THR* 3.8 8.5 - - + +
45R VAL 3.2 0.2 - - - -
46R GLY* 1.3 72.9 - - - +
48R ALA* 1.3 56.5 + - - +
50R ALA* 3.2 5.5 + - - +
51R ALA* 2.8 38.2 + - + +
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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 THR* 2.9 19.1 + - + +
45R VAL* 3.5 6.3 - - - +
47R VAL* 1.3 77.7 - - - +
49R TYR* 1.3 56.1 + - - +
51R ALA* 4.0 4.8 - - - +
52R LYS* 2.9 32.9 + - - +
24W ILE* 5.3 4.9 - - + -
28W ALA* 4.3 16.8 - - + -
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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
----------------------------------------------------------
207Q LYS* 3.7 1.2 - - - +
211Q MET* 3.8 20.0 - - + -
3006Q PEE 3.5 37.1 - - - -
45R VAL 3.0 13.8 + - - +
46R GLY 3.5 7.4 - - - +
48R ALA* 1.3 78.0 - - - +
50R ALA* 1.3 62.1 + - - +
52R LYS* 3.8 4.7 - - - +
53R ASN* 2.7 51.5 + - - -
28W ALA* 5.5 3.5 - - - +
31W PHE* 3.9 16.2 - + + -
32W GLU* 4.0 31.0 - - + -
35W PHE* 3.4 28.1 - + - -
36W ASP* 2.7 39.3 + - - -
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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 MET* 5.4 0.2 - - + -
215Q LEU* 5.1 0.2 - - + -
3006Q PEE 3.4 61.9 - - + -
46R GLY 3.1 13.2 + - - +
47R VAL 3.2 6.7 + - - +
49R TYR* 1.3 77.5 - - + +
51R ALA* 1.3 64.1 + - - +
53R ASN* 3.3 2.4 + - - +
54R VAL* 3.0 30.3 + - + +
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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
----------------------------------------------------------
3006Q PEE 4.0 29.3 - - + +
47R VAL* 2.8 25.5 + - + +
48R ALA* 4.0 5.2 - - - +
50R ALA* 1.3 72.9 - - - +
52R LYS* 1.3 58.3 + - - +
55R VAL* 2.9 40.9 + - + +
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Residues in contact with LYS 52 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3006Q PEE 5.1 7.3 + - - -
48R ALA 2.9 20.1 + - - +
49R TYR* 3.8 5.8 - - - +
51R ALA* 1.3 77.6 - - - +
53R ASN* 1.3 59.9 + - - +
55R VAL* 4.1 3.4 - - - +
56R SER* 3.0 37.2 + - - -
29W LEU* 6.0 4.3 - - + -
32W GLU* 2.9 36.9 + - - +
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Residues in contact with ASN 53 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3006Q PEE 3.4 64.8 + - - +
49R TYR* 2.7 54.0 + - - +
50R ALA 3.8 3.8 - - - +
51R ALA 3.3 0.2 - - - -
52R LYS* 1.3 81.3 + - - +
54R VAL* 1.3 65.9 + - - +
56R SER* 3.2 8.2 + - - -
57R GLN* 2.9 31.7 + - - +
32W GLU* 4.7 6.6 + - - -
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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
----------------------------------------------------------
82P MET* 6.1 0.2 - - + -
3006Q PEE 3.4 81.2 - - + -
50R ALA 3.0 22.4 + - - +
51R ALA* 3.8 4.9 - - - +
53R ASN* 1.3 76.3 - - - +
55R VAL* 1.3 65.9 + - - +
57R GLN* 3.1 18.0 + - - +
58R PHE* 3.1 38.2 + - + -
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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
----------------------------------------------------------
3006Q PEE 4.1 29.2 - - + -
51R ALA* 2.9 25.6 + - + +
52R LYS* 4.1 3.4 - - - +
54R VAL* 1.3 77.6 - - - +
56R SER* 1.3 61.6 + - - +
58R PHE* 3.2 7.8 + - - +
59R VAL* 3.0 38.9 + - + +
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Residues in contact with SER 56 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52R LYS* 3.0 28.9 + - - +
53R ASN* 3.2 12.5 + - - -
55R VAL* 1.3 78.6 - - - +
57R GLN* 1.3 58.9 + - - +
59R VAL* 3.9 8.3 - - - +
60R SER* 2.9 30.1 + - - -
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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
----------------------------------------------------------
75P TYR* 3.5 49.3 - - + +
78P ILE* 3.9 33.9 - - + +
79P ILE* 5.3 0.9 - - + -
82P MET* 6.2 0.2 - - - -
204Q MET* 4.1 4.1 - - - +
3006Q PEE 3.2 42.3 - - - +
53R ASN* 2.9 22.4 + - - +
54R VAL* 3.1 7.5 + - - +
56R SER* 1.3 78.5 - - - +
58R PHE* 1.3 69.2 + - + +
60R SER* 3.3 2.9 + - - -
61R SER* 3.1 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
----------------------------------------------------------
46P LEU* 4.2 13.7 - - + -
47P THR* 3.9 30.1 - - + -
50P PHE* 3.4 53.1 - + + -
78P ILE* 5.7 0.9 - - + -
79P ILE* 4.0 23.8 - - + -
82P MET* 4.7 16.8 - - + -
54R VAL* 3.1 37.2 + - + +
55R VAL* 3.7 8.5 - - - +
57R GLN* 1.3 82.5 - - + +
59R VAL* 1.3 67.0 + - + +
61R SER* 2.5 26.0 + - - -
62R MET 3.7 0.5 + - - -
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Residues in contact with VAL 59 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163C TRP* 2.9 55.4 + - + +
50P PHE* 5.1 3.1 - - + -
55R VAL* 3.0 31.4 + - + +
56R SER* 3.9 7.0 - - - +
58R PHE* 1.3 75.7 - - + +
60R SER* 1.3 65.4 + - - +
62R MET* 3.0 9.0 + - - +
63R SER* 5.5 0.4 - - - +
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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
----------------------------------------------------------
74P ASN* 3.0 37.6 + - - +
75P TYR* 3.9 17.0 - - - -
56R SER 2.9 20.2 + - - -
57R GLN 3.5 6.1 - - - -
58R PHE 3.1 0.2 - - - -
59R VAL* 1.3 80.0 - - - +
61R SER* 1.3 62.0 + - - +
63R SER* 2.9 21.0 + - - -
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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
----------------------------------------------------------
50P PHE* 3.4 19.6 - - - +
54P HIS* 3.4 25.6 + - - -
73P VAL* 3.6 14.1 - - - +
74P ASN* 3.2 27.2 + - - -
79P ILE* 3.7 19.7 - - - +
57R GLN 3.1 6.3 + - - -
58R PHE 2.5 21.2 + - - -
60R SER* 1.3 74.5 - - - +
62R MET* 1.3 60.4 + - - +
63R SER 3.7 5.8 + - - +
65R SER* 6.0 0.2 - - - -
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Residues in contact with MET 62 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163C TRP* 3.3 51.6 - - + +
164C ILE* 5.1 6.1 - - + -
166C GLY* 3.3 3.1 - - - -
177C ARG* 3.0 47.6 + - - +
181C PHE* 4.1 25.8 - - + -
50P PHE* 3.9 27.1 - - + -
53P MET* 3.8 22.7 - - - +
54P HIS* 4.8 1.3 - - - +
58R PHE 5.0 0.2 - - - +
59R VAL* 3.0 10.6 + - - +
60R SER 3.0 1.0 - - - -
61R SER* 1.3 77.5 + - - +
63R SER* 1.3 64.6 + - - +
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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