Contacts of the helix formed by residues 5 - 40 (chain O) in PDB entry 1NF6
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 ARG 5 (chain O).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7A ASP* 5.8 1.0 + - - -
6O GLU* 1.3 77.2 + - + +
7O ASP* 3.2 6.1 - - - +
8O ARG* 3.1 49.5 + - - +
9O LYS* 2.9 54.7 + - + +
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Residues in contact with GLU 6 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4A ASN* 4.0 3.5 + - - +
6A GLU* 3.8 30.6 - - + +
7A ASP* 3.9 25.0 + - - +
10A ALA* 4.1 20.5 - - + +
5O ARG* 1.3 83.2 - - + +
7O ASP* 1.3 58.2 + - - +
9O LYS* 3.6 13.4 + - - +
10O ALA* 3.0 29.5 + - - +
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Residues in contact with ASP 7 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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3A GLY* 5.3 3.4 - - - -
4A ASN* 4.6 15.0 + - - +
7A ASP* 3.4 22.7 + - - +
5O ARG 3.2 3.6 - - - +
6O GLU* 1.3 79.4 - - - +
8O ARG* 1.3 58.5 - - + +
10O ALA* 3.2 5.1 + - - +
11O LYS* 2.5 67.8 + - - +
116O GLN* 4.2 1.9 - - - +
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Residues in contact with ARG 8 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5O ARG* 3.1 51.3 + - - +
7O ASP* 1.3 80.4 - - + +
9O LYS* 1.3 61.5 + - + +
11O LYS 3.7 0.2 + - - -
12O VAL* 3.1 30.8 + - - +
116O GLN* 2.7 46.7 + - - +
117O GLY* 3.3 25.0 + - - -
118O ASP* 5.4 0.6 - - + +
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Residues in contact with LYS 9 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5O ARG* 2.9 47.8 + - + +
6O GLU* 4.0 13.5 - - - +
8O ARG* 1.3 76.4 - - + +
10O ALA* 1.3 61.9 + - - +
12O VAL* 4.2 1.9 - - - +
13O ILE* 2.8 34.3 + - + +
69O GLU 4.7 4.9 + - - -
70O LEU* 3.4 57.2 + - + +
118O ASP* 5.9 0.2 - - - -
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Residues in contact with ALA 10 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4A ASN* 3.2 31.0 - - - +
6O GLU 3.0 12.4 + - - +
7O ASP* 3.2 5.8 + - - +
9O LYS* 1.3 79.2 - - - +
11O LYS* 1.3 63.5 + - + +
13O ILE* 3.6 10.1 + - - +
14O GLU* 3.2 20.8 + - - +
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Residues in contact with LYS 11 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7O ASP* 2.5 47.6 + - - +
10O ALA* 1.3 75.8 - - + +
12O VAL* 1.3 66.6 + - - +
14O GLU* 3.3 18.2 - - - +
15O VAL* 3.3 24.8 + - - +
112O VAL* 4.3 8.7 - - + +
116O GLN* 3.5 41.2 + - + +
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Residues in contact with VAL 12 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8O ARG 3.1 19.4 + - - +
9O LYS 4.2 0.2 - - - +
10O ALA 3.3 0.4 - - - -
11O LYS* 1.3 74.7 - - - +
13O ILE* 1.3 61.1 + - - +
14O GLU 3.0 1.3 - - - -
15O VAL* 2.9 10.7 - - - +
16O LEU* 2.8 28.7 + - + +
70O LEU* 3.8 12.8 - - + -
112O VAL* 5.1 0.2 - - - -
113O CYS* 3.9 16.2 - - - +
116O GLN* 3.7 23.8 - - + -
118O ASP* 3.4 31.2 - - + +
121O THR* 3.4 27.4 - - + -
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Residues in contact with ILE 13 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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9O LYS* 2.8 26.7 + - + +
10O ALA* 3.8 8.7 - - - +
12O VAL* 1.3 76.5 - - - +
14O GLU* 1.3 57.2 + - - +
16O LEU* 3.7 8.8 - - - +
17O ASN* 2.8 46.6 + - - +
67O ILE* 4.2 17.0 - - + +
70O LEU* 4.0 26.5 - - + +
71O GLY 4.2 0.9 - - - -
72O GLY* 3.4 33.7 - - - +
73O GLU 4.8 0.9 - - - +
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Residues in contact with GLU 14 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10O ALA 3.2 14.1 + - - +
11O LYS* 3.3 23.2 - - - +
12O VAL 3.0 0.6 - - - -
13O ILE* 1.3 78.5 - - - +
15O VAL* 1.3 60.4 + - + +
17O ASN* 3.4 5.7 + - - +
18O LYS* 3.0 59.8 + - - +
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Residues in contact with VAL 15 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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11O LYS 3.3 9.6 + - - +
12O VAL* 2.9 36.1 - - + +
14O GLU* 1.3 80.7 - - + +
16O LEU* 1.3 61.3 + - - +
18O LYS* 3.4 13.7 - - + +
19O ALA* 2.8 30.8 + - - +
109O PHE* 3.8 46.8 - - + +
112O VAL* 4.2 22.7 - - + -
113O CYS* 4.5 2.0 - - - -
125O PHE* 4.4 9.2 - - + -
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Residues in contact with LEU 16 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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12O VAL* 2.8 22.7 + - + +
13O ILE* 3.7 2.0 - - - +
15O VAL* 1.3 79.8 - - - +
17O ASN* 1.3 56.6 + - - +
19O ALA* 3.3 4.4 + - - +
20O ARG* 2.8 31.2 + - - +
63O PHE* 3.6 34.4 - - + +
66O ARG* 3.6 27.1 - - + -
67O ILE* 3.5 29.6 - - + +
70O LEU* 3.9 19.3 - - + -
121O THR* 3.6 21.5 - - + -
124O LEU* 4.4 1.8 - - + -
125O PHE* 3.9 9.4 - - + -
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Residues in contact with ASN 17 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13O ILE* 2.8 32.2 + - - +
14O GLU* 3.9 5.6 - - - +
16O LEU* 1.3 76.7 - - - +
18O LYS* 1.3 58.2 + - - +
20O ARG* 4.1 2.2 - - - -
21O ALA* 3.0 29.1 + - - +
67O ILE* 3.5 8.3 - - - +
73O GLU 2.8 23.8 + - - -
74O PRO* 3.4 4.2 - - - +
75O THR* 2.5 45.2 + - + +
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Residues in contact with LYS 18 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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14O GLU* 3.0 49.3 + - - +
15O VAL* 3.4 14.9 - - - +
16O LEU 3.1 0.2 - - - -
17O ASN* 1.3 77.3 - - + +
19O ALA* 1.3 64.1 + - - +
21O ALA* 3.4 6.1 + - - +
22O MET* 3.0 27.8 + - - +
79O GLU* 5.1 0.9 - - - +
109O PHE* 3.8 32.4 - - + -
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Residues in contact with ALA 19 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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15O VAL 2.8 16.6 + - - +
16O LEU 3.7 2.9 - - - +
18O LYS* 1.3 72.5 - - - +
20O ARG* 1.3 66.2 + - - +
22O MET* 2.9 14.3 + - - +
23O GLU* 2.9 16.5 + - - +
63O PHE* 3.5 23.3 - - + -
106O TYR* 3.4 16.9 + - + -
109O PHE* 3.9 4.9 - - + -
125O PHE* 3.5 22.9 - - + -
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Residues in contact with ARG 20 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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16O LEU 2.8 17.8 + - - +
17O ASN* 3.7 7.9 - - - +
18O LYS 3.3 0.2 - - - -
19O ALA* 1.3 77.7 - - - +
21O ALA* 1.3 55.7 + - - +
23O GLU* 2.9 20.6 + - - +
24O LEU* 2.9 32.3 + - + +
60O ALA* 2.7 46.9 + - + +
63O PHE* 3.8 14.5 - - + -
64O ALA* 3.7 15.9 - - - +
67O ILE* 4.1 4.9 - - - -
74O PRO* 3.7 19.8 - - - +
75O THR* 2.8 39.2 + - + +
76O THR* 4.6 5.1 - - - +
2502O FEC 3.1 39.4 + - - -
28P HIS* 5.5 0.6 - - - -
35P TYR* 4.4 4.0 - - - -
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Residues in contact with ALA 21 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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17O ASN 3.0 18.1 + - - +
18O LYS* 3.7 6.5 - - - +
19O ALA 3.2 0.2 - - - -
20O ARG* 1.3 76.2 - - - +
22O MET* 1.3 62.8 + - - +
24O LEU* 4.3 2.7 - - - -
25O HIS 3.2 11.4 + - - -
75O THR* 4.1 4.6 - - + +
77O GLN 3.4 24.0 - - - +
78O LYS* 3.4 2.2 - - - +
79O GLU* 2.8 37.9 + - + +
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Residues in contact with MET 22 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18O LYS 3.0 16.1 + - - +
19O ALA 2.9 7.0 + - - +
21O ALA* 1.3 77.0 - - - +
23O GLU* 1.3 62.6 + - - +
25O HIS* 3.5 4.2 + - - +
26O ALA* 3.2 22.7 + - - +
79O GLU* 4.3 17.7 - - + -
98O GLN* 4.4 4.2 + - - -
101O ALA* 4.4 4.0 - - + +
102O THR* 3.4 42.5 + - + +
105O ALA* 3.8 24.5 - - + -
106O TYR* 3.9 17.5 - - - +
109O PHE* 4.1 8.5 - - - -
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Residues in contact with GLU 23 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19O ALA 2.9 10.1 + - - +
20O ARG 2.9 8.4 + - - +
22O MET* 1.3 76.7 - - - +
24O LEU* 1.3 55.2 + - - +
26O ALA* 3.3 4.7 + - - +
27O ILE* 2.7 40.8 + - - +
56O GLU* 3.3 27.8 - - - +
59O HIS* 2.6 41.9 + - + +
60O ALA* 3.9 17.5 - - + -
63O PHE* 3.9 10.8 - - + -
102O THR* 5.6 0.4 - - - -
106O TYR* 2.8 32.4 + - - +
132O GLU* 4.0 3.8 - - - +
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Residues in contact with LEU 24 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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20O ARG* 2.9 38.6 + - + +
21O ALA* 4.3 2.0 - - - -
22O MET 3.4 0.2 - - - -
23O GLU* 1.3 73.3 - - - +
25O HIS* 1.3 63.4 + - - +
27O ILE* 4.3 5.8 - - + -
28O HIS* 2.5 36.5 + - + +
60O ALA* 4.4 6.3 - - + -
75O THR* 4.2 9.9 - - + +
76O THR* 3.8 13.0 - - - +
77O GLN 3.3 37.5 - - - +
78O LYS* 3.5 15.0 - - + -
2502O FEC 4.2 22.9 - - + -
28P HIS* 4.4 15.3 - - + +
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Residues in contact with HIS 25 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21O ALA 3.2 4.8 + - - +
22O MET* 3.8 7.2 - - - +
23O GLU 3.3 0.2 - - - -
24O LEU* 1.3 76.8 - - - +
26O ALA* 1.3 50.6 + - - +
28O HIS* 3.0 5.2 + - - +
29O GLN* 2.7 55.3 + - + +
78O LYS* 3.1 19.8 - - + +
79O GLU 3.0 22.6 + - - +
80O GLY 3.4 15.5 - - - -
81O LYS 2.8 32.5 + - - -
82O VAL* 3.7 11.6 - - + +
98O GLN* 3.1 40.3 + - - -
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Residues in contact with ALA 26 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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22O MET 3.2 12.1 + - - +
23O GLU* 3.5 10.1 - - - +
25O HIS* 1.3 77.5 + - - +
27O ILE* 1.3 66.1 + - - +
29O GLN* 4.2 2.5 - - - -
30O TYR* 2.9 48.3 + - + +
56O GLU* 4.4 10.1 - - + +
98O GLN* 3.4 24.9 - - - +
99O GLU* 5.0 1.3 - - - +
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Residues in contact with ILE 27 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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23O GLU 2.7 24.7 + - - +
24O LEU* 3.9 9.9 - - + +
25O HIS 3.3 0.2 - - - -
26O ALA* 1.3 73.7 - - - +
28O HIS* 1.3 65.6 + - - +
31O MET* 3.2 23.4 + - - +
53O ALA* 4.0 10.2 - - - +
56O GLU* 4.0 3.8 - - + +
57O MET* 3.6 52.7 - - + +
60O ALA* 4.1 10.5 - - + -
2502O FEC 3.8 61.7 - - + -
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Residues in contact with HIS 28 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24O LEU* 2.5 30.0 + - + +
25O HIS 3.0 8.0 + - - +
27O ILE* 1.3 78.2 - - + +
29O GLN* 1.3 63.3 + - - +
31O MET* 4.1 0.7 - - - +
32O ASN* 3.1 24.3 + - - +
78O LYS* 3.4 17.8 + - + +
82O VAL* 3.9 18.9 - - + +
2502O FEC 3.9 37.2 - - + +
24P LEU* 4.1 16.1 - - + +
28P HIS* 3.5 36.5 - + - -
76P THR* 3.8 26.2 + - - +
78P LYS* 5.5 0.2 + - - -
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Residues in contact with GLN 29 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25O HIS* 2.7 37.0 + - + +
26O ALA* 3.8 5.6 - - - +
28O HIS* 1.3 73.5 - - - +
30O TYR* 1.3 66.3 + - + +
32O ASN* 3.3 3.7 + - - +
33O GLN* 3.1 34.4 + - - +
81O LYS 4.3 0.2 - - - +
82O VAL* 3.6 13.0 - - + +
83O VAL* 2.8 52.5 + - - +
86O GLN* 3.6 13.2 + - - -
95O ASP* 4.7 0.9 - - - +
98O GLN* 4.0 16.4 - - - +
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Residues in contact with TYR 30 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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26O ALA* 2.9 24.5 + - + +
29O GLN* 1.3 76.4 - - + +
31O MET* 1.3 63.3 + - - +
33O GLN* 3.0 20.4 + - - +
34O HIS 2.7 24.1 + - - -
49O MET* 3.3 21.5 - - - +
52O ILE* 3.8 10.5 - - + -
53O ALA* 4.0 13.2 - - + -
56O GLU* 3.5 30.1 - - + -
95O ASP* 3.6 26.2 + - + -
98O GLN* 3.6 30.1 + - - +
99O GLU* 2.3 33.3 + - - +
139O TYR* 3.7 19.7 - + - -
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Residues in contact with MET 31 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27O ILE 3.2 20.0 + - - +
30O TYR* 1.3 78.1 - - - +
32O ASN* 1.3 64.0 + - - +
34O HIS* 2.9 32.3 + - + +
35O TYR* 3.0 29.3 + - + +
50O LYS* 3.8 33.4 - - + +
53O ALA* 3.8 22.4 - - + -
57O MET* 4.4 9.2 - - + -
2502O FEC 3.4 59.9 - - + +
61P GLU* 4.3 2.2 - - - +
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Residues in contact with ASN 32 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28O HIS 3.1 19.1 + - - +
29O GLN* 3.5 5.2 - - - +
30O TYR 3.2 0.2 - - - -
31O MET* 1.3 79.4 - - - +
33O GLN* 1.3 66.1 + - - +
35O TYR* 3.4 18.2 + - - +
36O SER* 3.2 18.0 + - - -
82O VAL* 4.6 7.9 - - + -
83O VAL 3.8 6.4 + - - -
84O THR* 3.7 29.8 - - - +
85O GLY 4.5 2.2 - - - +
86O GLN* 5.2 1.4 + - - +
2502O FEC 5.1 1.0 + - - -
20P ARG* 6.1 1.3 - - - +
68P LYS* 5.3 0.3 - - - -
73P GLU* 2.5 29.5 + - - +
74P PRO* 3.9 14.4 - - - +
76P THR* 4.6 5.0 - - + +
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Residues in contact with GLN 33 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29O GLN* 3.1 22.3 + - - +
30O TYR* 3.0 11.1 + - - +
32O ASN* 1.3 80.5 - - - +
34O HIS* 1.3 62.8 + - - +
36O SER* 3.3 7.5 + - - -
37O LEU* 2.9 31.3 + - - +
49O MET* 3.0 21.8 - - + +
86O GLN* 3.1 29.2 + - + +
91O ILE* 3.7 25.2 - - + +
94O SER* 4.2 1.6 + - - -
95O ASP* 2.5 46.1 + - - +
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Residues in contact with HIS 34 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30O TYR 2.7 13.1 + - - +
31O MET* 2.9 29.3 + - + +
33O GLN* 1.3 79.0 - - - +
35O TYR* 1.3 76.5 + + - +
37O LEU* 3.3 4.6 + - - +
38O ASP* 2.9 44.5 + - + +
46O ALA* 2.5 37.5 + - + +
47O ALA* 4.5 2.0 - - - -
49O MET* 3.9 15.0 - - + -
50O LYS* 3.4 31.3 - - + +
162O SER* 5.3 4.0 - - - -
2501O SO4 5.4 1.8 + - - -
61P GLU* 4.2 7.3 + - - -
65P GLU* 5.1 1.6 + - - -
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Residues in contact with TYR 35 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31O MET* 3.0 32.9 + - + -
32O ASN* 3.8 10.8 - - - +
33O GLN 3.3 0.2 - - - -
34O HIS* 1.3 95.2 - + - +
36O SER* 1.3 55.9 + - - +
38O ASP* 3.9 4.9 - - + +
39O ASP* 2.9 29.3 + - - +
2502O FEC 2.5 42.9 + - - +
20P ARG* 3.7 4.2 + - - -
61P GLU* 3.4 35.8 - - + -
64P ALA* 3.5 31.2 - - + -
65P GLU* 4.5 12.8 - - + -
68P LYS* 4.0 25.1 - - + +
74P PRO* 4.2 9.4 - - + -
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Residues in contact with SER 36 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32O ASN* 3.2 18.9 + - - -
33O GLN* 3.3 9.0 + - - -
34O HIS 3.3 0.4 - - - -
35O TYR* 1.3 76.0 - - - +
37O LEU* 1.3 60.2 + - - +
39O ASP* 3.1 3.7 + - - +
40O MET* 2.9 47.8 + - - +
85O GLY* 5.5 5.4 + - - -
86O GLN 5.1 9.2 + - - -
91O ILE* 5.2 1.9 - - - +
68P LYS* 3.6 23.9 + - - +
73P GLU* 5.1 2.4 + - - -
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Residues in contact with LEU 37 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33O GLN 2.9 20.8 + - - +
34O HIS* 3.7 3.8 - - - +
36O SER* 1.3 76.8 - - - +
38O ASP* 1.3 60.8 + - - +
40O MET* 3.3 21.2 + - + +
41O ASP 3.1 3.8 + - - -
42O TYR* 3.1 30.4 + - + +
45O LEU* 3.8 27.6 - - + +
46O ALA* 3.9 13.5 - - - +
49O MET* 3.9 23.1 - - + -
88O VAL* 4.4 10.3 - - + -
91O ILE* 4.2 14.6 - - + -
92O TYR* 3.4 32.3 - - + +
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Residues in contact with ASP 38 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141K ASN* 5.4 1.7 + - - +
34O HIS* 2.9 31.6 + - - +
35O TYR* 3.9 7.3 - - + +
37O LEU* 1.3 72.8 - - - +
39O ASP* 1.3 60.4 + - - +
41O ASP* 2.9 21.9 + - - +
42O TYR 5.0 0.4 - - - +
43O GLY* 5.1 0.9 - - - -
46O ALA* 3.6 12.5 - - + +
162O SER* 3.5 27.9 + - - -
65P GLU* 3.9 19.2 - - - +
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Residues in contact with ASP 39 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141K ASN* 4.0 12.8 - - - +
35O TYR 2.9 20.1 + - - +
36O SER* 3.1 8.9 + - - +
38O ASP* 1.3 78.5 - - - +
40O MET* 1.3 61.9 + - - +
41O ASP 3.4 0.7 + - - -
68P LYS* 4.0 41.7 + - + +
69P GLU* 5.3 1.6 - - - -
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Residues in contact with MET 40 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141K ASN* 5.0 0.4 - - - -
144K SER* 5.5 5.3 - - - -
145K HIS* 3.2 14.4 - - - -
36O SER* 2.9 43.2 + - - +
37O LEU* 3.6 17.9 - - + +
38O ASP 3.2 0.4 - - - -
39O ASP* 1.3 78.8 - - + +
41O ASP* 1.3 70.3 + - - +
42O TYR* 3.4 26.5 + - + -
86O GLN 5.3 2.5 - - - +
88O VAL* 3.6 34.5 - - + +
91O ILE* 4.8 4.7 - - + -
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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