Contacts of the helix formed by residues 4 - 40 (chain F) 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 ASN 4 (chain F).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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3F GLY* 1.3 76.1 - - - -
5F ARG* 1.3 56.8 + - - +
6F GLU* 4.4 10.7 - - - +
7F ASP* 3.1 25.2 + - - +
8F ARG* 2.7 37.4 + - - +
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Residues in contact with ARG 5 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4F ASN* 1.3 73.5 - - - +
6F GLU* 1.3 53.0 + - - +
8F ARG* 3.0 37.7 + - - +
9F LYS* 2.8 64.6 + - - +
100P ASP* 2.9 42.0 + - - -
104P GLU* 3.7 28.5 + - - +
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Residues in contact with GLU 6 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4F ASN* 3.3 11.8 - - - +
5F ARG* 1.3 77.1 - - - +
7F ASP* 1.3 59.9 + - - +
9F LYS* 3.6 12.5 - - + +
10F ALA* 2.9 29.1 + - - +
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Residues in contact with ASP 7 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3F GLY* 3.3 26.1 + - - -
4F ASN* 3.1 30.3 + - - +
6F GLU* 1.3 78.6 - - - +
8F ARG* 1.3 58.1 + - - +
10F ALA* 3.3 8.1 + - - +
11F LYS* 2.9 58.3 + - - +
116F GLN* 4.6 0.5 - - - +
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Residues in contact with ARG 8 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2F ALA* 4.6 7.4 - - - +
3F GLY 4.1 17.5 - - - +
4F ASN 2.7 15.1 + - - +
5F ARG* 3.0 38.5 - - - +
7F ASP* 1.3 75.2 - - - +
9F LYS* 1.3 65.1 + - - +
11F LYS* 3.4 0.5 + - - -
12F VAL* 3.3 25.9 + - - +
116F GLN* 2.9 48.0 + - - +
117F GLY* 3.5 21.0 + - - -
104P GLU* 2.5 42.2 + - - -
107P SER* 5.8 1.0 - - - -
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Residues in contact with LYS 9 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5F ARG* 2.8 55.5 + - - +
6F GLU* 3.6 13.7 - - - +
8F ARG* 1.3 74.2 - - - +
10F ALA* 1.3 51.9 + - - +
12F VAL* 3.0 6.5 + - - +
13F ILE* 2.7 40.9 + - + +
69F GLU 5.3 2.7 - - - -
70F LEU* 3.5 54.9 - - + +
100P ASP* 4.9 1.6 + - - -
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Residues in contact with ALA 10 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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6F GLU 2.9 17.7 + - - +
7F ASP* 3.3 10.1 + - - +
9F LYS* 1.3 76.0 - - - +
11F LYS* 1.3 65.1 + - + +
13F ILE* 3.7 12.0 - - - +
14F GLU* 2.9 23.2 + - - +
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Residues in contact with LYS 11 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2F ALA 5.6 2.9 - - - +
3F GLY 5.5 1.3 - - - +
7F ASP* 2.9 48.3 + - - +
10F ALA* 1.3 76.1 - - + +
12F VAL* 1.3 62.4 + - - +
14F GLU* 3.2 27.1 - - - +
15F VAL* 3.3 14.2 + - - +
112F VAL* 4.2 8.2 - - + +
116F GLN* 3.3 38.4 - - + +
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Residues in contact with VAL 12 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8F ARG 3.3 12.5 + - - +
9F LYS* 3.0 8.3 + - - +
11F LYS* 1.3 73.2 - - - +
13F ILE* 1.3 66.9 + - - +
14F GLU 3.0 1.6 - - - -
15F VAL* 3.0 10.9 - - - +
16F LEU* 2.9 22.0 + - + +
70F LEU* 3.7 11.2 - - + -
112F VAL* 4.6 0.7 - - - +
113F CYS* 4.0 15.3 - - - +
116F GLN* 3.7 23.6 - - + -
118F ASP* 3.6 27.4 - - + +
121F THR* 3.6 31.9 - - + -
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Residues in contact with ILE 13 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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9F LYS* 2.7 29.4 + - + +
10F ALA* 3.7 9.9 - - - +
12F VAL* 1.3 73.3 - - - +
14F GLU* 1.3 62.8 + - - +
16F LEU* 3.4 9.0 + - - +
17F ASN* 3.1 39.1 + - - +
67F ILE* 4.2 17.5 - - + +
70F LEU* 3.2 45.1 - - + +
71F GLY 4.4 0.9 - - - -
72F GLY* 3.8 19.3 - - - +
73F GLU 5.0 0.4 - - - +
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Residues in contact with GLU 14 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10F ALA 2.9 13.7 + - - +
11F LYS* 3.2 21.1 - - - +
12F VAL 3.0 0.2 - - - -
13F ILE* 1.3 80.8 - - - +
15F VAL* 1.3 66.2 + - - +
17F ASN* 3.6 5.1 + - - +
18F LYS* 3.3 40.9 + - + +
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Residues in contact with VAL 15 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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11F LYS 3.3 6.9 + - - +
12F VAL* 3.0 30.9 + - + +
14F GLU* 1.3 81.7 - - - +
16F LEU* 1.3 58.7 + - - +
18F LYS* 3.6 13.1 - - - +
19F ALA* 3.0 29.6 + - - +
109F PHE* 3.5 51.1 - - + +
112F VAL* 4.0 24.5 - - + -
113F CYS* 4.5 2.0 - - - -
125F PHE* 4.4 9.4 - - + -
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Residues in contact with LEU 16 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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12F VAL* 2.9 20.1 + - + +
13F ILE* 3.5 2.7 - - - +
15F VAL* 1.3 79.9 - - - +
17F ASN* 1.3 50.2 + - - +
19F ALA* 3.4 4.7 + - - +
20F ARG* 2.7 34.1 + - - +
63F PHE* 3.6 33.0 - - + +
66F ARG* 3.6 22.7 - - + -
67F ILE* 3.4 29.9 - - + +
70F LEU* 3.6 31.2 - - + -
121F THR* 3.9 20.0 - - + -
124F LEU* 4.5 2.2 - - + -
125F PHE* 4.0 8.1 - - + -
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Residues in contact with ASN 17 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13F ILE* 3.1 30.1 + - - +
14F GLU* 4.0 5.1 - - - +
16F LEU* 1.3 75.8 - - - +
18F LYS* 1.3 61.1 + - - +
20F ARG* 4.1 1.8 - - - -
21F ALA* 2.8 31.0 + - - +
67F ILE* 3.0 17.1 - - - +
73F GLU 3.3 17.2 + - - +
74F PRO* 3.4 0.2 - - - +
75F THR* 2.6 43.7 + - + +
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Residues in contact with LYS 18 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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14F GLU* 3.3 36.8 + - + +
15F VAL* 3.6 14.1 - - - +
16F LEU 3.3 0.6 - - - -
17F ASN* 1.3 79.5 - - - +
19F ALA* 1.3 60.6 + - - +
21F ALA* 3.3 8.3 + - - +
22F MET* 3.2 27.2 + - - +
79F GLU* 5.0 1.0 - - - +
109F PHE* 3.7 29.4 - - + -
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Residues in contact with ALA 19 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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15F VAL 3.0 17.3 + - - +
16F LEU 3.5 4.3 - - - +
18F LYS* 1.3 73.0 - - - +
20F ARG* 1.3 65.9 + - - +
22F MET* 3.0 10.8 + - - +
23F GLU* 3.1 10.9 + - - +
63F PHE* 3.7 27.4 - - + -
106F TYR* 3.4 23.0 + - + -
109F PHE* 3.7 9.0 - - + -
125F PHE* 3.8 16.6 - - + -
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Residues in contact with ARG 20 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28E HIS 5.8 0.2 + - - -
32E ASN* 5.9 1.8 - - - +
35E TYR* 4.1 5.1 - - - -
16F LEU 2.7 22.2 + - - +
17F ASN* 3.7 9.0 - - - +
19F ALA* 1.3 73.3 - - - +
21F ALA* 1.3 62.4 + - - +
23F GLU* 3.2 4.3 + - - +
24F LEU* 3.0 31.5 + - + +
60F ALA* 3.2 37.1 + - + +
63F PHE* 3.7 16.3 - - + -
64F ALA* 3.7 17.1 - - - +
67F ILE* 4.3 1.6 - - + -
74F PRO* 3.7 14.7 + - - +
75F THR* 2.6 42.7 + - + +
76F THR* 4.6 4.8 - - - +
1604F FEC 2.7 44.6 + - - -
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Residues in contact with ALA 21 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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17F ASN 2.8 21.8 + - - +
18F LYS* 3.5 9.4 - - - +
19F ALA 3.2 0.2 - - - -
20F ARG* 1.3 73.7 - - - +
22F MET* 1.3 57.1 + - - +
24F LEU* 4.4 1.8 - - - -
25F HIS 3.1 15.4 + - - -
75F THR* 4.1 6.7 - - + +
77F GLN 3.4 23.6 - - - +
78F LYS* 3.4 1.4 - - - -
79F GLU* 2.8 37.1 + - + +
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Residues in contact with MET 22 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18F LYS 3.2 15.7 - - - +
19F ALA 3.0 7.0 + - - +
21F ALA* 1.3 76.9 - - - +
23F GLU* 1.3 61.1 + - - +
25F HIS* 3.2 8.8 + - - +
26F ALA* 2.9 27.6 + - - +
79F GLU* 4.6 15.5 - - + +
98F GLN* 4.9 1.0 + - - -
101F ALA* 4.6 2.7 - - + +
102F THR* 3.8 37.9 - - - +
105F ALA* 4.0 15.5 - - + -
106F TYR* 3.9 20.9 - - + +
109F PHE* 4.2 15.5 - - - -
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Residues in contact with GLU 23 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19F ALA 3.1 8.1 + - - +
20F ARG 3.2 5.1 + - - +
22F MET* 1.3 74.1 - - - +
24F LEU* 1.3 59.3 + - - +
26F ALA* 2.9 5.6 + - - +
27F ILE* 2.7 36.1 + - - +
56F GLU* 3.3 40.6 - - - +
59F HIS* 3.2 32.7 + - + +
60F ALA* 3.9 8.5 - - + +
63F PHE* 3.6 14.8 - - + -
102F THR* 5.5 0.4 - - - -
106F TYR* 2.3 38.2 + - - +
132F GLU* 4.0 5.3 - - - +
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Residues in contact with LEU 24 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28E HIS* 4.3 13.9 - - + +
20F ARG* 3.0 30.7 + - + +
21F ALA* 3.8 6.7 - - - +
23F GLU* 1.3 76.2 - - - +
25F HIS* 1.3 63.0 + - - +
27F ILE* 3.6 10.4 + - + +
28F HIS* 2.7 34.6 + - + +
60F ALA* 4.5 2.2 - - + -
75F THR* 4.1 12.1 - - + +
76F THR* 3.8 9.2 - - - +
77F GLN 3.6 33.9 - - - +
78F LYS* 3.6 10.1 - - + +
1604F FEC 3.9 34.8 - - + +
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Residues in contact with HIS 25 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21F ALA 3.1 12.2 + - - +
22F MET* 3.4 9.5 + - - +
23F GLU 3.1 0.4 - - - -
24F LEU* 1.3 78.1 - - - +
26F ALA* 1.3 55.8 + - - +
28F HIS* 3.3 3.3 + - - +
29F GLN* 2.8 48.0 + - + +
78F LYS* 3.4 12.3 - - + +
79F GLU 3.4 27.1 + - - +
80F GLY* 3.8 12.1 - - - -
81F LYS 2.9 30.6 + - - -
82F VAL* 4.1 7.6 - - + +
98F GLN* 3.4 34.2 + - - -
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Residues in contact with ALA 26 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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22F MET 2.9 14.1 + - - +
23F GLU* 3.4 13.5 - - - +
25F HIS* 1.3 76.9 + - - +
27F ILE* 1.3 56.8 + - - +
29F GLN* 4.2 1.6 - - - -
30F TYR* 2.8 54.4 + - + +
56F GLU* 4.2 12.3 - - + +
98F GLN* 3.6 23.8 - - - +
99F GLU* 5.2 0.7 - - - +
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Residues in contact with ILE 27 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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23F GLU 2.7 28.1 + - - +
24F LEU* 3.8 15.0 - - + +
26F ALA* 1.3 72.9 - - - +
28F HIS* 1.3 58.5 + - - +
30F TYR* 4.3 0.3 - - - +
31F MET* 3.0 35.4 + - + +
53F ALA* 4.0 7.6 - - - +
56F GLU* 3.9 9.4 - - + +
57F MET* 3.6 50.5 - - + +
60F ALA* 4.3 9.0 - - + -
1604F FEC 3.5 52.9 - - + -
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Residues in contact with HIS 28 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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20E ARG* 5.2 0.4 - - - -
24E LEU* 3.8 28.6 - - + +
28E HIS* 3.8 21.0 - - - -
76E THR* 3.8 29.8 + - + +
78E LYS* 6.2 0.4 - - - -
24F LEU* 2.7 26.5 + - + +
25F HIS 3.3 6.0 + - - +
27F ILE* 1.3 78.3 - - + +
29F GLN* 1.3 65.2 + - - +
31F MET* 4.2 0.5 - - - +
32F ASN* 3.0 24.9 + - - +
78F LYS* 3.6 17.0 + - + +
82F VAL* 3.9 18.9 - - + +
1604F FEC 3.7 35.9 - - + +
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Residues in contact with GLN 29 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25F HIS* 2.8 36.3 + - + +
26F ALA* 3.8 3.8 - - - +
28F HIS* 1.3 78.0 - - - +
30F TYR* 1.3 71.1 + - + +
32F ASN* 3.2 3.3 + - - +
33F GLN* 3.1 40.7 + - - +
81F LYS 3.9 1.6 + - - -
82F VAL* 3.4 18.7 - - + +
83F VAL* 2.9 49.7 + - - +
86F GLN* 3.6 9.5 - - - +
95F ASP* 4.5 1.1 - - - +
98F GLN* 4.1 14.7 + - - +
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Residues in contact with TYR 30 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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26F ALA* 2.8 26.5 + - + +
29F GLN* 1.3 75.2 - - + +
31F MET* 1.3 64.2 + - - +
33F GLN* 3.0 19.1 + - - -
34F HIS* 2.9 19.3 + - - -
49F MET* 3.4 19.2 - - - +
52F ILE* 3.8 11.9 - - + -
53F ALA* 4.0 13.5 - - + -
56F GLU* 3.4 22.0 - - + -
95F ASP* 3.3 26.7 + - - -
98F GLN* 3.5 35.1 + - - +
99F GLU* 2.4 38.4 + - - +
139F TYR* 3.5 20.6 - + - -
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Residues in contact with MET 31 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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61E GLU* 4.6 1.3 - - - +
27F ILE 3.0 19.3 + - - +
30F TYR* 1.3 76.7 - - - +
32F ASN* 1.3 59.2 + - - +
34F HIS* 3.3 25.6 + - + +
35F TYR* 2.9 50.1 + - + +
50F LYS* 4.0 24.5 - - + -
53F ALA* 3.7 23.8 - - + -
57F MET* 4.5 7.4 - - + -
1604F FEC 3.0 63.9 - - + +
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Residues in contact with ASN 32 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73E GLU* 3.0 25.9 + - - +
74E PRO* 4.0 16.8 + - - +
76E THR* 4.3 5.4 - - + +
28F HIS 3.0 19.4 + - - +
29F GLN* 3.5 6.4 - - - +
30F TYR 3.1 0.2 - - - -
31F MET* 1.3 77.9 - - - +
33F GLN* 1.3 64.3 + - - +
35F TYR* 3.2 20.2 + - - +
36F SER* 3.3 19.2 + - - -
82F VAL* 4.4 6.7 - - + -
83F VAL 3.8 5.5 - - - +
84F THR* 3.5 36.8 - - - +
85F GLY 4.4 2.4 + - - -
86F GLN* 5.2 0.7 + - - +
1604F FEC 4.5 0.6 + - - -
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Residues in contact with GLN 33 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29F GLN* 3.1 24.9 + - - +
30F TYR* 3.0 14.6 + - - +
32F ASN* 1.3 80.2 - - - +
34F HIS* 1.3 57.5 + - - +
36F SER* 3.4 6.1 + - - -
37F LEU* 2.9 36.4 + - - +
49F MET* 3.5 10.6 - - + +
86F GLN* 2.8 34.2 + - + +
91F ILE* 3.8 31.0 + - + +
95F ASP* 2.3 45.2 + - - +
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Residues in contact with HIS 34 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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61E GLU* 4.4 7.1 + - - -
65E GLU* 5.0 2.6 + - - -
30F TYR 2.9 12.7 + - - +
31F MET* 3.3 34.6 - - + +
32F ASN 3.2 0.2 - - - -
33F GLN* 1.3 74.9 - - - +
35F TYR* 1.3 75.2 + + - +
37F LEU* 3.9 5.7 - - - +
38F ASP* 2.8 51.5 + - - +
46F ALA* 2.5 37.0 + - + -
47F ALA* 5.0 1.1 - - - -
49F MET* 3.9 14.9 - - + +
50F LYS* 3.7 27.1 - - + +
162F SER* 5.5 3.8 - - - -
1601F SO4 5.1 4.2 + - - -
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Residues in contact with TYR 35 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20E ARG* 3.7 6.2 + - - -
61E GLU* 3.6 30.8 - - + +
64E ALA* 3.7 31.6 - - + -
65E GLU* 4.7 11.7 - - + -
68E LYS* 3.7 25.1 - - + +
74E PRO* 4.3 11.0 - - + -
31F MET* 2.9 31.4 + - + +
32F ASN* 3.2 11.6 + - - +
34F HIS* 1.3 94.8 - + - +
36F SER* 1.3 57.4 + - - +
38F ASP* 3.8 5.5 - - + +
39F ASP* 2.9 28.6 + - - +
1604F FEC 2.3 42.9 + - - -
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Residues in contact with SER 36 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68E LYS* 3.8 22.2 + - - +
73E GLU* 4.8 2.4 + - - -
32F ASN* 3.3 16.3 + - - -
33F GLN* 3.6 10.6 - - - -
35F TYR* 1.3 75.1 - - - +
37F LEU* 1.3 54.4 + - - +
39F ASP* 3.0 3.0 + - - +
40F MET* 2.7 56.3 + - - +
85F GLY* 5.5 5.2 + - - -
86F GLN 5.1 5.9 + - - -
91F ILE* 4.9 4.3 - - - -
----------------------------------------------------------
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Residues in contact with LEU 37 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33F GLN 2.9 23.2 + - - +
34F HIS 3.9 1.3 - - - +
36F SER* 1.3 75.0 - - - +
38F ASP* 1.3 57.5 - - - +
40F MET* 3.3 19.3 + - + +
41F ASP 3.0 6.9 + - - -
42F TYR* 2.8 33.4 + - + +
45F LEU* 3.7 32.1 - - + +
46F ALA* 3.8 16.8 - - + +
49F MET* 3.9 19.7 - - + -
88F VAL* 4.2 11.7 - - + -
91F ILE* 4.1 12.8 - - + -
92F TYR* 3.3 29.6 - - + +
----------------------------------------------------------
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Residues in contact with ASP 38 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65E GLU* 3.7 21.3 - - - +
34F HIS* 2.8 33.8 + - + +
35F TYR* 3.8 6.6 - - - +
37F LEU* 1.3 72.5 - - - +
39F ASP* 1.3 64.7 + - - +
41F ASP* 3.0 16.4 + - - +
42F TYR 4.8 0.2 - - - +
43F GLY* 5.4 0.9 - - - -
46F ALA* 3.6 12.0 - - + +
162F SER* 3.6 27.1 + - - -
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Residues in contact with ASP 39 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68E LYS* 3.6 46.2 + - + +
69E GLU* 4.8 3.1 + - - +
35F TYR 2.9 19.9 + - - +
36F SER 3.0 4.9 + - - +
38F ASP* 1.3 77.4 - - - +
40F MET* 1.3 64.4 + - - +
41F ASP* 3.0 3.7 + - - +
----------------------------------------------------------
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Residues in contact with MET 40 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36F SER* 2.7 45.5 + - - +
37F LEU* 3.7 16.8 - - + +
38F ASP 3.2 0.2 - - - -
39F ASP* 1.3 74.4 - - - +
41F ASP* 1.3 71.8 + - - +
42F TYR* 3.4 26.6 + - + -
86F GLN 4.8 6.1 - - - +
87F ALA* 5.8 0.7 - - - -
88F VAL* 3.7 33.9 - - + +
91F ILE* 4.6 5.8 - - + -
158F ALA* 6.1 0.2 - - - +
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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