Contacts of the helix formed by residues 1 - 50 (chain A) in PDB entry 1KFN
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 1 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2A SER* 1.3 56.6 + - - +
3A ASN* 3.6 8.7 + - - +
4A ALA* 3.4 28.3 + - - +
5A LYS* 2.7 39.3 + - - +
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Residues in contact with SER 2 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1A SER* 1.3 72.7 + - - +
3A ASN* 1.3 61.4 + - - +
5A LYS* 3.2 6.1 + - - +
6A ILE* 2.9 44.5 + - - +
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Residues in contact with ASN 3 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1A SER* 3.3 6.8 + - - +
2A SER* 1.3 80.5 + - - +
4A ALA* 1.3 59.0 + - - +
6A ILE* 3.2 15.9 + - - +
7A ASP* 2.9 41.8 + - - +
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Residues in contact with ALA 4 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1A SER* 3.1 29.4 + - - +
3A ASN* 1.3 78.6 - - - +
5A LYS* 1.3 57.5 + - - +
7A ASP* 3.4 9.1 + - - +
8A GLN* 3.0 28.1 + - - +
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Residues in contact with LYS 5 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1A SER 2.7 21.9 + - - +
2A SER* 3.6 6.1 - - - +
4A ALA* 1.3 70.2 - - - +
6A ILE* 1.3 67.0 + - + +
8A GLN* 3.3 29.6 - - - +
9A LEU* 3.0 42.6 + - + +
12A ASP* 5.5 0.2 - - - -
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Residues in contact with ILE 6 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2A SER* 2.9 33.3 + - - +
3A ASN* 3.2 17.2 + - - +
5A LYS* 1.3 79.2 - - + +
7A ASP* 1.3 62.0 + - - +
9A LEU* 3.2 11.0 + - + +
10A SER* 2.9 38.1 + - - +
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Residues in contact with ASP 7 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3A ASN* 2.9 30.2 + - - +
4A ALA* 3.7 7.1 - - - +
6A ILE* 1.3 81.7 - - - +
8A GLN* 1.3 61.0 + - - +
10A SER* 3.2 9.9 + - - -
11A SER* 3.2 21.7 + - - -
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Residues in contact with GLN 8 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4A ALA 3.0 15.0 + - - +
5A LYS* 3.3 21.5 - - - +
6A ILE 3.3 0.2 - - - -
7A ASP* 1.3 77.4 - - - +
9A LEU* 1.3 56.6 + - - +
11A SER* 3.3 11.8 + - - -
12A ASP* 2.6 58.8 + - - +
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Residues in contact with LEU 9 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5A LYS* 3.0 50.8 + - + +
6A ILE* 3.6 10.1 - - + +
8A GLN* 1.3 76.1 - - - +
10A SER* 1.3 63.0 + - - +
12A ASP* 3.5 15.6 - - + +
13A VAL* 2.9 33.1 + - + +
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Residues in contact with SER 10 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6A ILE* 2.9 23.9 + - - +
7A ASP* 3.2 12.0 + - - -
9A LEU* 1.3 77.1 - - - +
11A SER* 1.3 63.6 + - - +
13A VAL* 3.3 7.3 + - - +
14A GLN* 3.1 36.8 + - - +
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Residues in contact with SER 11 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A ASP 3.2 9.5 + - - -
8A GLN* 3.6 17.9 + - - -
10A SER* 1.3 76.5 - - - +
12A ASP* 1.3 67.7 + - - +
14A GLN* 3.3 13.4 + - - +
15A THR* 3.0 27.9 + - - -
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Residues in contact with ASP 12 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8A GLN* 2.6 54.9 + - - +
9A LEU* 3.5 22.4 - - + +
11A SER* 1.3 78.0 + - - +
13A VAL* 1.3 57.8 + - + +
15A THR* 3.2 9.5 + - - -
16A LEU* 2.9 37.3 + - + +
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Residues in contact with VAL 13 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A LEU* 2.9 24.6 + - + +
10A SER* 3.5 7.4 - - - +
12A ASP* 1.3 77.5 - - + +
14A GLN* 1.3 59.8 + - + +
16A LEU* 3.1 13.0 + - + +
17A ASN* 2.9 41.9 + - - +
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Residues in contact with GLN 14 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A SER* 3.1 30.5 + - - +
11A SER* 3.3 12.2 + - - +
13A VAL* 1.3 78.5 - - + +
15A THR* 1.3 61.9 + - - +
17A ASN* 3.2 9.6 + - - +
18A ALA* 3.2 21.1 + - - +
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Residues in contact with THR 15 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A SER* 3.0 18.2 + - - -
12A ASP* 3.5 11.4 - - - -
14A GLN* 1.3 75.9 - - - +
16A LEU* 1.3 63.1 + - + +
18A ALA* 3.2 7.8 + - + +
19A LYS* 3.0 51.5 + - + +
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Residues in contact with LEU 16 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12A ASP* 2.9 22.8 + - + +
13A VAL* 3.5 13.7 - - + +
15A THR* 1.3 76.0 - - - +
17A ASN* 1.3 55.1 + - - +
19A LYS* 3.6 23.9 - - + +
20A VAL* 2.7 49.0 + - + +
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Residues in contact with ASN 17 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13A VAL* 2.9 28.7 + - - +
14A GLN* 3.4 12.2 - - - +
16A LEU* 1.3 75.6 - - - +
18A ALA* 1.3 56.8 + - - +
20A VAL* 3.4 6.8 + - - +
21A ASP* 2.9 49.5 + - - +
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Residues in contact with ALA 18 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14A GLN 3.2 9.4 + - - +
15A THR* 3.6 9.6 - - + +
16A LEU 3.2 0.4 - - - -
17A ASN* 1.3 77.5 - - - +
19A LYS* 1.3 66.4 + - + +
21A ASP* 3.5 6.3 + - - +
22A GLN* 3.0 24.6 + - - +
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Residues in contact with LYS 19 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15A THR* 3.0 39.6 + - + +
16A LEU* 3.6 27.0 - - + +
18A ALA* 1.3 79.5 - - + +
20A VAL* 1.3 58.2 + - + +
22A GLN* 3.4 6.3 + - - +
23A ALA* 3.0 28.4 + - - +
----------------------------------------------------------
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Residues in contact with VAL 20 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16A LEU* 2.7 38.1 + - + +
17A ASN* 3.6 8.1 - - - +
19A LYS* 1.3 72.4 - - + +
21A ASP* 1.3 74.4 + - - +
23A ALA* 3.3 6.8 + - - +
24A SER* 3.1 23.0 + - - -
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Residues in contact with ASP 21 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A ASN* 2.9 35.7 + - - +
18A ALA* 3.9 6.4 - - - +
20A VAL* 1.3 83.4 - - - +
22A GLN* 1.3 61.6 + - - +
24A SER* 3.4 7.2 + - - -
25A ASN* 3.1 30.1 + - - +
----------------------------------------------------------
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Residues in contact with GLN 22 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18A ALA 3.0 19.0 + - - +
19A LYS* 3.7 7.4 - - - +
20A VAL 3.2 0.2 - - - -
21A ASP* 1.3 75.0 - - - +
23A ALA* 1.3 64.5 + - - +
25A ASN* 3.3 15.5 + - - +
26A ASP* 3.0 54.5 + - - +
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Residues in contact with ALA 23 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19A LYS 3.0 16.9 + - - +
20A VAL* 3.3 8.0 + - - +
22A GLN* 1.3 76.9 - - - +
24A SER* 1.3 58.5 + - - +
26A ASP* 3.4 8.8 + - - +
27A ALA* 2.9 29.1 + - - +
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Residues in contact with SER 24 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20A VAL* 3.1 15.1 + - - -
21A ASP* 3.7 10.8 - - - -
22A GLN 3.2 0.4 - - - -
23A ALA* 1.3 75.6 - - - +
25A ASN* 1.3 64.4 + - - +
27A ALA* 3.6 5.9 - - - +
28A ASN* 2.8 43.9 + - - +
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Residues in contact with ASN 25 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21A ASP* 3.1 21.0 + - - +
22A GLN* 3.5 23.8 - - - +
24A SER* 1.3 79.9 + - - +
26A ASP* 1.3 57.4 + - - +
28A ASN* 3.9 5.7 + - - +
29A ALA* 3.0 30.4 + - - +
----------------------------------------------------------
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Residues in contact with ASP 26 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A GLN* 3.0 44.4 + - - +
23A ALA* 3.7 7.3 - - - +
25A ASN* 1.3 77.3 - - - +
27A ALA* 1.3 58.0 + - - +
29A ALA* 3.6 6.1 - - - +
30A ALA* 2.9 30.2 + - - +
----------------------------------------------------------
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Residues in contact with ALA 27 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A ALA 2.9 18.4 + - - +
24A SER* 3.6 7.4 - - - +
26A ASP* 1.3 76.4 - - - +
28A ASN* 1.3 63.6 + - - +
30A ALA* 3.3 6.5 + - - +
31A ARG* 2.8 28.6 + - - +
----------------------------------------------------------
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Residues in contact with ASN 28 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A SER* 2.8 33.6 + - - +
25A ASN* 4.0 6.1 + - - +
27A ALA* 1.3 71.7 - - - +
29A ALA* 1.3 66.6 + - - +
31A ARG* 3.6 12.1 - - - +
32A SER* 3.0 22.7 + - - -
----------------------------------------------------------
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Residues in contact with ALA 29 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A ASN 3.0 19.7 + - - +
26A ASP* 3.6 7.0 - - - +
28A ASN* 1.3 76.2 - - - +
30A ALA* 1.3 59.2 + - - +
32A SER* 3.2 6.7 + - - -
33A ASP* 2.9 38.8 + - - +
----------------------------------------------------------
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Residues in contact with ALA 30 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A ASP 2.9 18.8 + - - +
27A ALA* 3.5 7.9 - - - +
29A ALA* 1.3 74.3 - - - +
31A ARG* 1.3 60.2 + - - +
33A ASP* 3.9 6.8 - - - +
34A ALA* 2.9 33.1 + - - +
----------------------------------------------------------
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Residues in contact with ARG 31 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A ALA 2.8 17.4 + - - +
28A ASN* 3.6 15.5 - - - +
29A ALA 3.3 0.2 - - - -
30A ALA* 1.3 75.4 - - - +
32A SER* 1.3 57.9 + - - +
34A ALA* 3.7 5.7 - - - +
35A GLN* 3.0 29.9 + - + +
----------------------------------------------------------
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Residues in contact with SER 32 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A ASN 3.0 14.0 + - - -
29A ALA* 3.3 11.4 - - - -
31A ARG* 1.3 75.1 - - - +
33A ASP* 1.3 68.3 + - - +
35A GLN* 3.1 8.0 + - - +
36A ALA* 3.0 23.1 + - - +
----------------------------------------------------------
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Residues in contact with ASP 33 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29A ALA* 2.9 35.0 + - - +
30A ALA* 3.9 6.5 - - - +
32A SER* 1.3 74.9 + - - +
34A ALA* 1.3 58.5 + - - +
36A ALA* 3.3 6.9 + - - +
37A ALA* 2.9 30.4 + - - +
----------------------------------------------------------
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Residues in contact with ALA 34 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A ALA 2.9 19.7 + - - +
31A ARG* 3.7 6.5 - - - +
33A ASP* 1.3 77.2 - - - +
35A GLN* 1.3 55.9 - - - +
37A ALA* 3.8 5.6 - - - +
38A LYS* 2.8 33.8 + - + +
----------------------------------------------------------
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Residues in contact with GLN 35 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A ARG* 3.0 16.4 + - + +
32A SER* 3.4 11.4 - - - +
34A ALA* 1.3 77.5 - - - +
36A ALA* 1.3 63.3 + - - +
38A LYS* 3.8 19.6 + - - +
39A ASP* 2.9 42.2 + - - +
----------------------------------------------------------
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Residues in contact with ALA 36 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A SER* 3.0 12.4 + - - +
33A ASP* 3.6 9.9 - - - +
35A GLN* 1.3 79.3 - - - +
37A ALA* 1.3 58.2 + - - +
39A ASP* 3.2 7.2 + - - +
40A ASP* 2.9 29.6 + - - +
----------------------------------------------------------
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Residues in contact with ALA 37 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A ASP 2.9 17.4 + - - +
34A ALA* 3.8 6.5 - - - +
36A ALA* 1.3 74.9 - - - +
38A LYS* 1.3 60.3 + - - +
40A ASP* 3.3 5.8 + - - +
41A ALA* 2.8 32.4 + - - +
----------------------------------------------------------
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Residues in contact with LYS 38 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A ALA 2.8 19.4 + - - +
35A GLN* 3.8 19.6 + - - +
37A ALA* 1.3 76.8 - - - +
39A ASP* 1.3 59.1 + - - +
41A ALA* 4.0 4.8 - - - +
42A ALA* 3.0 27.9 + - - +
----------------------------------------------------------
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Residues in contact with ASP 39 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35A GLN* 2.9 42.5 + - - +
36A ALA* 3.6 7.0 - - - +
38A LYS* 1.3 76.3 - - - +
40A ASP* 1.3 59.6 + - - +
42A ALA* 3.2 7.7 + - - +
43A ARG* 2.9 28.6 + - - +
----------------------------------------------------------
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Residues in contact with ASP 40 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A ALA 2.9 17.2 + - - +
37A ALA* 3.8 6.5 - - - +
39A ASP* 1.3 76.5 - - - +
41A ALA* 1.3 58.6 + - - +
43A ARG* 3.1 39.7 + - - +
44A ALA* 3.0 26.5 + - - +
----------------------------------------------------------
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Residues in contact with ALA 41 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A ALA 2.8 18.1 + - - +
38A LYS* 4.0 4.7 - - - +
40A ASP* 1.3 73.9 - - - +
42A ALA* 1.3 66.8 + - - +
44A ALA* 3.3 7.1 + - - +
45A ASN* 3.0 35.0 + - - +
----------------------------------------------------------
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Residues in contact with ALA 42 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A LYS 3.0 19.5 + - - +
39A ASP* 3.2 8.5 + - - +
41A ALA* 1.3 77.1 - - - +
43A ARG* 1.3 57.1 + - - +
45A ASN* 3.4 7.0 + - - +
46A GLN* 3.0 32.9 + - - +
----------------------------------------------------------
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Residues in contact with ARG 43 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A ASP 2.9 14.1 + - - +
40A ASP* 3.1 36.1 + - - +
42A ALA* 1.3 75.1 - - - +
44A ALA* 1.3 65.1 + - - +
46A GLN* 3.3 14.8 + - - +
47A ARG* 3.1 64.1 + - + +
----------------------------------------------------------
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Residues in contact with ALA 44 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A ASP 3.0 16.0 + - - +
41A ALA* 3.3 8.3 + - - +
43A ARG* 1.3 78.0 - - - +
45A ASN* 1.3 64.4 + - - +
47A ARG* 3.3 14.6 + - - +
48A LEU* 3.0 32.7 + - + +
----------------------------------------------------------
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Residues in contact with ASN 45 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A ALA* 3.0 31.4 + - - +
42A ALA* 3.9 6.4 - - - +
43A ARG 3.2 0.2 - - - -
44A ALA* 1.3 80.2 - - - +
46A GLN* 1.3 56.5 + - - +
48A LEU* 3.4 16.6 + - - +
49A ASP* 2.9 39.1 + - - +
----------------------------------------------------------
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Residues in contact with GLN 46 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A ALA* 3.0 16.5 + - - +
43A ARG* 3.3 19.6 + - - +
45A ASN* 1.3 73.5 - - - +
47A ARG* 1.3 68.6 + - + +
49A ASP* 3.1 13.9 + - + +
50A ASN* 3.1 32.2 + - - +
----------------------------------------------------------
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Residues in contact with ARG 47 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A ARG* 3.1 57.2 + - + +
44A ALA* 3.5 12.6 - - - +
46A GLN* 1.3 77.4 - - + +
48A LEU* 1.3 63.2 + - + +
50A ASN* 3.3 17.4 + - - +
51A MET* 3.3 21.8 + - + +
----------------------------------------------------------
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Residues in contact with LEU 48 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A ALA* 3.0 25.7 + - + +
45A ASN* 3.6 22.7 - - - +
47A ARG* 1.3 76.3 - - + +
49A ASP* 1.3 66.7 + - - +
51A MET* 2.9 41.1 + - + +
52A ALA 4.2 1.2 + - - -
----------------------------------------------------------
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Residues in contact with ASP 49 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A ASN* 2.9 28.2 + - - +
46A GLN* 3.4 16.3 - - - +
48A LEU* 1.3 77.2 - - - +
50A ASN* 1.3 65.2 + - - +
51A MET 3.4 1.0 + - - -
52A ALA* 4.0 13.0 + - - +
53A THR* 5.1 1.4 + - - +
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Residues in contact with ASN 50 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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46A GLN* 3.1 21.7 + - - +
47A ARG* 3.8 9.5 - - - +
48A LEU 3.1 0.4 - - - -
49A ASP* 1.3 81.2 - - - +
51A MET* 1.3 60.7 + - - +
52A ALA 3.4 0.7 - - - -
53A THR* 2.9 30.6 + - - +
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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) + - + + + + + -
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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