Contacts of the helix formed by residues 5 - 49 (chain L) in PDB entry 2MJZ
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with ASP 5 (chain L).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1L ALA 3.9 5.4 + - - +
3L GLY 3.3 5.9 - - - +
4L ASP* 1.3 76.7 - - - +
6L PRO* 1.3 73.4 - - - +
7L ALA* 2.8 22.0 + - - +
8L LYS* 2.8 30.1 + - + +
9L ALA* 3.3 4.9 + - - +
17Q SER* 5.6 0.7 + - - -
20Q GLU* 3.8 15.2 - - - +
21Q TYR* 2.7 33.0 + - - -
26U TRP* 4.3 5.2 - - - -
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Residues in contact with PRO 6 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4L ASP 3.2 10.3 - - - +
5L ASP* 1.3 90.5 - - - +
7L ALA* 1.3 55.9 + - - +
9L ALA* 3.2 10.7 + - + +
10L ALA* 2.9 29.3 + - - +
26U TRP* 3.7 42.8 - - + +
27U ALA* 5.3 0.9 - - - +
30U VAL* 3.7 18.1 - - + +
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Residues in contact with ALA 7 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5L ASP* 2.8 14.5 + - - +
6L PRO* 1.3 79.8 - - - +
8L LYS* 1.3 57.0 + - - +
10L ALA* 3.4 2.8 + - - +
11L PHE* 2.8 29.1 + - - +
21Q TYR* 3.4 32.3 - - + +
24Q TYR* 4.2 1.8 - - - -
26U TRP* 3.7 10.5 - - + -
30U VAL* 5.0 0.2 - - - -
42Z PHE* 3.5 30.0 - - + -
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Residues in contact with LYS 8 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2L GLU* 2.8 36.2 + - - +
3L GLY* 4.0 23.6 - - - +
5L ASP* 2.8 15.6 + - + +
7L ALA* 1.3 77.5 - - - +
9L ALA* 1.3 59.7 + - - +
11L PHE* 3.2 0.9 + - + +
12L ASN* 2.8 51.1 + - - +
20Q GLU* 4.2 5.8 - - - +
24Q TYR* 3.2 32.2 - - + +
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Residues in contact with ALA 9 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3L GLY 6.1 1.3 - - - +
5L ASP 3.3 4.6 + - - +
6L PRO* 3.2 14.1 + - + +
8L LYS* 1.3 79.1 - - - +
10L ALA* 1.3 58.7 + - - +
12L ASN* 4.0 6.5 - - - +
13L SER* 2.8 30.1 + - - -
30U VAL* 5.5 3.4 - - + -
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Residues in contact with ALA 10 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6L PRO 2.9 15.9 + - - +
7L ALA 3.6 0.4 - - - +
9L ALA* 1.3 73.7 - - - +
11L PHE* 1.3 66.3 + - - +
13L SER* 3.2 7.1 + - - -
14L LEU* 2.9 31.1 + - + +
30U VAL* 3.9 29.3 - - + +
33U VAL* 5.3 1.8 - - + -
34U GLY* 5.7 2.9 - - - +
42Z PHE* 3.6 27.1 - - + -
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Residues in contact with PHE 11 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7L ALA 2.8 21.5 + - - +
8L LYS* 3.5 4.0 - - + +
10L ALA* 1.3 73.3 - - - +
12L ASN* 1.3 71.0 + - - +
14L LEU* 3.1 11.4 + - - +
15L GLN* 2.8 67.6 + - + +
24Q TYR* 3.4 68.9 - + + -
27Q ALA* 3.7 21.1 - - + -
28Q MET* 3.9 5.4 - - + -
42Z PHE* 4.9 0.2 - - - -
45Z PHE* 3.7 16.4 - + + -
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Residues in contact with ASN 12 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8L LYS* 2.8 47.1 + - - +
9L ALA* 4.0 6.3 - - - +
11L PHE* 1.3 90.7 - - - +
13L SER* 1.3 57.1 + - - +
15L GLN* 3.2 8.5 + - - +
16L ALA* 3.0 28.6 + - - +
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Residues in contact with SER 13 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9L ALA 2.8 21.9 + - - -
10L ALA* 3.4 8.7 - - - -
11L PHE 3.2 0.2 - - - -
12L ASN* 1.3 77.8 - - - +
14L LEU* 1.3 58.1 - - - +
16L ALA* 3.4 7.8 + - - +
17L SER* 3.0 30.7 + - - -
34U GLY* 6.3 2.2 - - - -
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Residues in contact with LEU 14 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10L ALA* 2.9 22.4 + - + +
11L PHE 3.5 6.1 - - - +
13L SER* 1.3 75.1 - - - +
15L GLN* 1.3 59.8 + - - +
17L SER* 3.4 4.4 + - - +
18L ALA* 2.8 31.2 + - - +
28Q MET* 3.6 15.0 - - + -
33U VAL* 4.0 20.9 - - + -
34U GLY* 3.8 26.9 - - - +
37U ILE* 3.7 35.4 - - + -
38U GLY* 3.9 8.3 - - - +
41U LEU* 3.6 8.1 - - + +
42Z PHE* 5.4 0.2 - - + -
45Z PHE* 4.3 21.1 - - + -
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Residues in contact with GLN 15 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11L PHE* 2.8 51.3 + - + +
12L ASN* 3.4 12.8 - - - +
14L LEU* 1.3 77.8 - - - +
16L ALA* 1.3 56.3 + - - +
18L ALA* 3.5 3.9 + - - +
19L THR* 2.8 33.9 + - - -
27Q ALA* 4.3 4.3 + - - +
28Q MET* 3.2 37.2 - - - +
31Q VAL* 3.9 23.9 - - - +
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Residues in contact with ALA 16 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12L ASN 3.0 12.5 + - - +
13L SER* 3.6 10.3 - - - +
15L GLN* 1.3 75.6 - - - +
17L SER* 1.3 64.3 + - - +
19L THR* 3.4 6.8 + - - -
20L GLU* 3.0 25.1 + - - +
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Residues in contact with SER 17 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13L SER 3.0 18.4 + - - -
14L LEU* 3.6 9.7 - - - +
16L ALA* 1.3 75.5 - - - +
18L ALA* 1.3 63.5 + - - +
20L GLU* 3.3 9.8 + - - +
21L TYR* 3.0 50.4 + - - -
38U GLY* 5.1 7.3 - - - -
41U LEU* 4.3 6.3 - - - -
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Residues in contact with ALA 18 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14L LEU 2.8 20.8 + - - +
15L GLN* 3.7 7.2 - - - +
17L SER* 1.3 73.7 - - - +
19L THR* 1.3 52.5 + - - +
21L TYR* 3.1 6.1 + - - +
22L ILE* 2.8 42.3 + - + +
28Q MET* 4.6 7.2 - - - -
31Q VAL* 4.5 17.7 - - + -
32Q ILE* 5.8 1.3 - - + -
41U LEU* 3.9 26.4 - - + +
48U LYS* 5.1 0.3 + - - -
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Residues in contact with THR 19 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15L GLN* 2.8 23.5 + - - +
16L ALA* 3.6 7.7 - - - -
18L ALA* 1.3 75.0 - - - +
20L GLU* 1.3 63.3 + - - +
22L ILE* 3.3 14.5 + - + +
23L GLY* 3.0 18.2 + - - -
31Q VAL* 5.5 3.3 - - - +
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Residues in contact with GLU 20 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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16L ALA 3.0 14.2 + - - +
17L SER* 3.5 12.4 - - - +
18L ALA 3.2 0.2 - - - -
19L THR* 1.3 76.5 - - - +
21L TYR* 1.3 71.4 + - + +
23L GLY* 3.1 6.2 + - - -
24L TYR* 2.6 64.4 + - + -
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Residues in contact with TYR 21 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17L SER* 3.0 33.9 + - - +
18L ALA* 3.8 3.6 - - - +
20L GLU* 1.3 94.7 + - + +
22L ILE* 1.3 56.6 + - - +
24L TYR* 3.3 27.4 + + - +
25L ALA* 2.8 32.4 + - - +
26P TRP* 3.5 24.6 - + - -
38U GLY* 3.3 21.4 - - - -
41U LEU* 3.7 21.3 - - + +
42U PHE* 3.6 31.6 - + + -
45U PHE* 3.8 11.7 - - + +
48U LYS* 4.6 4.3 - - - +
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Residues in contact with ILE 22 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18L ALA* 2.8 23.8 + - + +
19L THR* 3.4 10.8 - - + +
21L TYR* 1.3 75.1 - - - +
23L GLY* 1.3 61.0 + - - +
25L ALA* 3.1 3.6 + - + +
26L TRP* 2.9 45.1 + - + +
31Q VAL* 3.5 34.1 - - + +
32Q ILE* 5.6 0.7 - - - -
35Q ALA* 3.6 26.5 - - + -
48U LYS* 3.4 23.1 - - - +
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Residues in contact with GLY 23 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19L THR 3.0 13.7 + - - -
20L GLU* 3.1 6.0 + - - -
22L ILE* 1.3 76.6 - - - +
24L TYR* 1.3 60.2 + - - +
26L TRP* 3.9 5.1 - - - +
27L ALA* 2.9 31.6 + - - +
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Residues in contact with TYR 24 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20L GLU* 2.6 47.8 + - + -
21L TYR* 3.3 35.0 - + - +
22L ILE 3.2 0.2 - - - -
23L GLY* 1.3 77.0 - - - +
25L ALA* 1.3 60.4 + - - +
27L ALA* 3.7 5.6 - - + +
28L MET* 2.8 33.8 + - - +
42U PHE* 5.3 12.1 - + - -
45U PHE* 3.4 19.4 - + + -
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Residues in contact with ALA 25 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21L TYR 2.8 19.5 + - - +
22L ILE* 3.1 6.7 + - + +
24L TYR* 1.3 74.1 - - - +
26L TRP* 1.3 62.0 + - - +
28L MET* 3.8 2.1 - - - +
29L VAL* 3.1 26.0 + - - +
39Q ILE* 3.7 21.0 - - + +
45U PHE* 3.5 15.2 - - + -
48U LYS* 3.8 28.5 - - + -
49U ALA* 4.7 3.7 - - - -
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Residues in contact with TRP 26 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22L ILE* 2.9 38.7 + - + +
23L GLY* 4.0 5.2 - - - +
25L ALA* 1.3 72.5 - - - +
27L ALA* 1.3 60.5 + - - +
29L VAL* 3.2 12.1 - - + +
30L VAL* 2.9 48.3 + - + +
35Q ALA* 4.7 7.3 + - - +
38Q GLY* 3.8 21.5 - - - -
39Q ILE* 3.6 33.4 - - + +
42Q PHE* 3.8 38.4 - + + -
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Residues in contact with ALA 27 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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23L GLY 2.9 21.3 + - - +
24L TYR* 3.7 8.5 - - + +
26L TRP* 1.3 76.2 - - - +
28L MET* 1.3 62.3 + - - +
30L VAL* 3.7 5.0 - - - +
31L VAL* 3.2 29.7 + - + +
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Residues in contact with MET 28 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24L TYR 2.8 19.2 + - - +
25L ALA 3.8 3.6 - - - +
27L ALA* 1.3 76.9 - - - +
29L VAL* 1.3 57.2 + - - +
31L VAL* 3.1 13.6 + - - +
32L ILE* 2.9 45.6 + - + +
37P ILE* 5.6 8.3 - - + -
41P LEU* 4.8 20.0 - - + -
45U PHE* 4.0 18.6 - - + -
49U ALA* 3.7 25.8 - - + +
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Residues in contact with VAL 29 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25L ALA 3.1 14.4 + - - +
26L TRP* 3.2 35.0 - - + +
28L MET* 1.3 76.3 - - - +
30L VAL* 1.3 64.9 + - + +
32L ILE* 4.1 14.4 - - + -
33L VAL* 2.8 49.8 + - + +
39Q ILE* 4.0 27.1 - - + -
42Q PHE* 4.6 5.2 - - + -
43Q LYS* 4.7 11.9 - - + -
48U LYS 4.7 6.7 - - - +
49U ALA* 5.0 5.4 - - - +
50U SER 6.1 1.1 - - - +
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Residues in contact with VAL 30 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26L TRP* 2.9 44.7 + - + +
27L ALA* 3.7 6.7 - - - +
29L VAL* 1.3 76.8 - - + +
31L VAL* 1.3 63.3 + - + +
33L VAL* 4.1 3.7 - - - +
34L GLY* 2.8 28.4 + - - -
42Q PHE* 4.9 11.0 - - + -
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Residues in contact with VAL 31 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27L ALA* 3.2 15.5 + - + +
28L MET* 3.1 16.0 + - - +
30L VAL* 1.3 81.4 - - + +
32L ILE* 1.3 64.8 + - + +
34L GLY* 3.9 0.6 - - - -
35L ALA* 3.2 24.7 + - + +
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Residues in contact with ILE 32 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28L MET* 2.9 37.0 + - + +
29L VAL* 3.7 11.4 - - + +
31L VAL* 1.3 80.4 - - + +
33L VAL* 1.3 59.7 + - + +
35L ALA* 4.0 2.5 - - - +
36L THR* 2.6 46.8 + - - +
41P LEU* 4.4 22.9 - - + -
44P LYS* 5.0 26.7 - - + +
48P LYS* 4.8 5.6 - - - +
49U ALA 3.4 25.6 - - - +
50U SER 5.6 1.8 - - - +
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Residues in contact with VAL 33 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29L VAL* 2.8 34.6 + - + +
30L VAL 4.1 1.6 - - - +
32L ILE* 1.3 72.8 - - + +
34L GLY* 1.3 62.7 + - - +
36L THR* 4.2 6.1 - - - -
37L ILE* 2.8 41.9 + - + +
42Q PHE* 3.7 30.1 - - + -
43Q LYS* 5.7 4.5 - - + -
45Q PHE* 5.3 2.5 - - + -
46Q THR* 3.5 32.5 - - + +
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Residues in contact with GLY 34 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30L VAL 2.8 20.1 + - - -
31L VAL* 3.9 1.3 - - - -
32L ILE 3.3 0.2 - - - -
33L VAL* 1.3 76.2 - - - +
35L ALA* 1.3 56.4 + - - +
37L ILE* 4.7 0.6 - - - +
38L GLY* 2.9 27.9 + - - -
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Residues in contact with ALA 35 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31L VAL* 3.2 17.3 + - + +
32L ILE 4.0 1.8 - - - +
34L GLY* 1.3 72.6 - - - +
36L THR* 1.3 66.6 + - - +
38L GLY* 4.9 0.4 - - - -
39L ILE* 3.0 34.2 + - + +
48P LYS* 4.0 22.4 - - + +
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Residues in contact with THR 36 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32L ILE* 2.6 36.1 + - - +
33L VAL* 3.8 5.4 - - - -
35L ALA* 1.3 78.2 - - - +
37L ILE* 1.3 69.3 + - + +
39L ILE* 3.5 3.6 + - - +
40L LYS* 3.1 30.6 + - - +
44P LYS* 5.8 2.1 - - - +
47P SER* 5.9 2.2 - - - +
48P LYS* 3.4 32.3 - - + +
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Residues in contact with ILE 37 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33L VAL* 2.8 39.7 + - + +
34L GLY* 4.7 0.4 - - - +
36L THR* 1.3 78.0 - - + +
38L GLY* 1.3 56.5 + - - +
40L LYS* 3.3 32.2 - - + +
41L LEU* 2.7 53.2 + - + +
45Q PHE* 6.1 3.6 - - + -
46Q THR* 4.0 29.8 - - + +
49Q ALA* 6.1 5.6 - - + -
50Q SER* 4.7 0.2 - - - +
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Residues in contact with GLY 38 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34L GLY 2.9 22.0 + - - -
35L ALA* 3.8 0.7 - - - -
37L ILE* 1.3 76.8 - - - +
39L ILE* 1.3 56.3 + - - +
41L LEU* 3.3 14.4 + - - +
42L PHE* 3.0 24.6 + - - +
----------------------------------------------------------
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Residues in contact with ILE 39 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35L ALA* 3.0 24.8 + - + +
36L THR 3.7 4.0 - - - +
38L GLY* 1.3 71.9 - - - +
40L LYS* 1.3 62.1 + - - +
42L PHE* 3.0 14.4 + - + +
43L LYS* 2.8 40.2 + - + +
48P LYS* 3.6 48.2 - - + +
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Residues in contact with LYS 40 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36L THR* 3.1 19.3 + - - +
37L ILE* 3.1 33.4 + - + +
39L ILE* 1.3 77.5 - - - +
41L LEU* 1.3 57.4 + - + +
43L LYS* 3.1 21.3 + - + +
44L LYS* 2.8 44.1 + - + +
49Q ALA 5.4 1.6 - - - +
50Q SER* 3.6 34.9 + - - +
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Residues in contact with LEU 41 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37L ILE* 2.7 41.0 + - + +
38L GLY* 3.5 9.9 - - - +
39L ILE 3.2 0.2 - - - -
40L LYS* 1.3 74.9 - - + +
42L PHE* 1.3 57.7 + - - +
44L LYS* 3.1 15.9 + - + +
45L PHE* 2.9 25.5 + - - +
48L LYS* 5.3 2.3 + - - -
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Residues in contact with PHE 42 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38L GLY 3.0 12.6 + - - +
39L ILE* 3.0 17.6 + - + +
41L LEU* 1.3 74.5 - - - +
43L LYS* 1.3 67.4 + - + +
45L PHE* 3.1 49.3 - + + +
46L THR* 3.2 19.8 + - + +
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Residues in contact with LYS 43 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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39L ILE* 2.8 29.3 + - + +
40L LYS* 3.2 21.3 - - + +
42L PHE* 1.3 78.3 - - + +
44L LYS* 1.3 63.5 + - + +
46L THR* 2.5 26.3 + - - +
47L SER* 3.1 9.2 + - - -
48P LYS 5.3 1.6 - - - +
50P SER* 2.8 35.6 + - - +
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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
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40L LYS* 2.8 32.3 + - + +
41L LEU* 3.1 22.2 + - + +
43L LYS* 1.3 74.8 - - + +
45L PHE* 1.3 60.2 + - - +
47L SER* 3.3 9.7 + - - -
48L LYS* 2.8 46.0 + - + +
50Q SER* 4.0 21.2 + - - +
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Residues in contact with PHE 45 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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41L LEU 2.9 12.4 + - - +
42L PHE* 3.1 43.3 - + + +
44L LYS* 1.3 75.6 - - - +
46L THR* 1.3 69.7 + - + +
48L LYS* 3.1 16.8 + - + +
49L ALA* 2.8 52.1 + - + +
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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
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42L PHE* 3.2 24.9 + - + +
43L LYS* 2.5 25.9 + - - +
45L PHE* 1.3 92.3 - - + +
47L SER* 1.3 52.9 + - - +
49L ALA* 3.6 6.8 + - - +
50L SER* 2.6 32.4 + - - -
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Residues in contact with SER 47 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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43L LYS 3.1 8.4 + - - -
44L LYS* 3.4 17.0 - - - -
45L PHE 3.1 0.2 - - - -
46L THR* 1.3 80.2 + - - +
48L LYS* 1.3 65.8 + - - +
50L SER* 3.0 25.4 + - - +
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Residues in contact with LYS 48 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41L LEU 5.3 1.6 + - - -
44L LYS* 2.8 39.3 + - + +
45L PHE* 3.7 11.6 - - + +
47L SER* 1.3 75.2 - - - +
49L ALA* 1.3 59.4 + - - +
50L SER* 3.1 5.3 + - - +
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Residues in contact with ALA 49 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45L PHE* 2.8 39.4 + - + +
46L THR* 4.1 6.3 - - - +
47L SER 3.1 0.4 - - - -
48L LYS* 1.3 75.8 - - - +
50L SER* 1.3 60.4 + - - +
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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) + - + + + + + -
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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