Contacts of the helix formed by residues 4 - 41 (chain D) 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 D).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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3D GLY* 1.3 73.9 - - - -
5D ARG* 1.3 59.3 + - - +
6D GLU* 2.9 22.6 - - - +
7D ASP* 2.8 50.8 + - - +
8D ARG* 2.8 30.5 + - - +
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Residues in contact with ARG 5 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4D ASN* 1.3 76.1 - - - +
6D GLU* 1.3 63.6 + - - +
8D ARG* 3.0 38.6 + - - +
9D LYS* 3.2 47.3 + - - +
100E ASP* 2.9 41.0 + - - -
104E GLU* 3.2 32.8 + - - +
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Residues in contact with GLU 6 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4D ASN* 2.9 13.3 - - - +
5D ARG* 1.3 76.2 - - - +
7D ASP* 1.3 61.2 + - - +
9D LYS* 3.6 9.5 + - - +
10D ALA* 3.2 23.7 + - - +
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Residues in contact with ASP 7 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3D GLY* 4.3 4.2 - - - -
4D ASN* 2.8 40.1 - - - +
6D GLU* 1.3 74.8 - - - +
8D ARG* 1.3 65.1 + - - +
10D ALA* 3.5 5.6 + - - +
11D LYS* 2.8 72.1 + - - +
116D GLN* 4.9 0.2 - - - -
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Residues in contact with ARG 8 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3D GLY 3.4 29.4 - - - +
4D ASN 2.8 18.6 + - - +
5D ARG* 3.0 28.2 + - - +
7D ASP* 1.3 75.8 - - - +
9D LYS* 1.3 60.8 + - + +
11D LYS* 3.8 0.7 + - - +
12D VAL* 3.3 26.9 + - - +
116D GLN* 2.8 44.1 + - - +
117D GLY* 2.9 30.3 + - - -
118D ASP* 5.8 0.3 - - - +
104E GLU* 2.7 35.3 + - - -
107E SER* 5.8 1.6 - - - -
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Residues in contact with LYS 9 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5D ARG* 3.2 53.7 + - - +
6D GLU* 4.1 7.1 - - - +
8D ARG* 1.3 77.6 - - + +
10D ALA* 1.3 54.4 + - - +
12D VAL* 3.0 7.1 + - - +
13D ILE* 2.7 43.6 + - + +
69D GLU 5.7 1.3 - - - -
70D LEU* 3.5 51.1 - - + +
118D ASP* 5.8 0.2 - - - -
100E ASP* 5.2 2.5 + - - -
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Residues in contact with ALA 10 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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6D GLU 3.2 16.1 + - - +
7D ASP* 3.7 8.3 - - - +
9D LYS* 1.3 79.5 - - - +
11D LYS* 1.3 58.3 + - + +
13D ILE* 3.4 11.5 + - - +
14D GLU* 3.1 30.0 + - - +
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Residues in contact with LYS 11 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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3D GLY* 5.1 7.5 - - - +
7D ASP* 2.8 44.5 + - - +
8D ARG 4.0 0.4 - - - +
9D LYS 3.2 0.2 - - - -
10D ALA* 1.3 76.6 - - + +
12D VAL* 1.3 59.6 + - - +
14D GLU* 4.2 8.9 - - - +
15D VAL* 3.5 23.9 + - - +
112D VAL* 3.7 8.6 - - + +
116D GLN* 3.5 40.0 + - + +
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Residues in contact with VAL 12 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8D ARG 3.3 15.0 + - - +
9D LYS* 3.0 7.7 + - - +
11D LYS* 1.3 77.8 - - - +
13D ILE* 1.3 59.3 + - - +
14D GLU 3.2 1.3 - - - -
15D VAL* 3.1 8.9 - - - +
16D LEU* 2.8 33.6 + - + +
70D LEU* 3.3 25.8 - - + -
112D VAL* 5.1 0.4 - - + -
113D CYS* 4.3 14.6 - - - +
116D GLN* 3.9 21.1 - - + -
118D ASP* 3.3 26.9 - - + +
121D THR* 3.7 15.0 - - + +
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Residues in contact with ILE 13 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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9D LYS* 2.7 29.5 + - + +
10D ALA* 3.9 9.2 - - - +
12D VAL* 1.3 74.7 - - - +
14D GLU* 1.3 58.3 + - - +
16D LEU* 3.6 8.5 - - - +
17D ASN* 2.8 38.1 + - - +
67D ILE* 3.9 22.8 - - + +
70D LEU* 3.7 32.1 - - + +
71D GLY 4.3 0.9 - - - -
72D GLY* 3.6 32.1 - - - +
73D GLU 4.8 1.1 - - - +
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Residues in contact with GLU 14 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10D ALA 3.1 16.3 + - - +
11D LYS* 4.3 9.3 - - - +
12D VAL 3.2 0.4 - - - -
13D ILE* 1.3 79.2 - - - +
15D VAL* 1.3 61.4 + - + +
17D ASN* 3.2 6.7 + - - +
18D LYS* 3.0 50.0 + - + +
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Residues in contact with VAL 15 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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11D LYS 3.5 12.6 - - - +
12D VAL* 3.1 23.7 + - - +
14D GLU* 1.3 76.9 - - + +
16D LEU* 1.3 64.9 + - - +
18D LYS* 3.2 18.3 + - + +
19D ALA* 3.1 23.6 + - - +
109D PHE* 4.0 36.9 - - + +
112D VAL* 4.0 26.7 - - + -
113D CYS* 4.6 4.0 - - - -
125D PHE* 4.1 13.0 - - + -
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Residues in contact with LEU 16 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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12D VAL* 2.8 22.0 + - + +
13D ILE* 3.6 2.5 - - - +
15D VAL* 1.3 79.0 - - - +
17D ASN* 1.3 61.3 + - - +
19D ALA* 3.4 2.6 + - - +
20D ARG* 3.0 22.9 + - - +
63D PHE* 3.7 37.4 - - + +
66D ARG* 3.9 9.2 - - + -
67D ILE* 3.5 27.5 - - + +
70D LEU* 3.6 31.0 - - + -
121D THR* 3.7 25.1 - - + -
124D LEU* 4.4 7.2 - - + -
125D PHE* 4.2 12.1 - - + -
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Residues in contact with ASN 17 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13D ILE* 2.8 33.1 + - - +
14D GLU* 3.8 6.9 - - - +
15D VAL 3.2 0.4 - - - -
16D LEU* 1.3 74.8 - - - +
18D LYS* 1.3 57.3 + - - +
20D ARG* 4.2 1.1 - - - -
21D ALA* 2.9 28.6 + - - +
67D ILE* 3.5 12.1 - - - +
73D GLU 3.0 23.8 + - - -
74D PRO 3.5 0.9 - - - -
75D THR* 2.5 46.0 + - + +
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Residues in contact with LYS 18 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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14D GLU* 3.0 38.6 + - + +
15D VAL* 3.2 17.3 + - + +
17D ASN* 1.3 78.0 - - - +
19D ALA* 1.3 61.0 + - - +
21D ALA* 3.3 8.7 - - - +
22D MET* 3.2 25.0 + - - +
79D GLU* 4.7 2.4 - - - +
109D PHE* 3.6 32.1 - - + -
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Residues in contact with ALA 19 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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15D VAL 3.1 14.9 + - - +
16D LEU 3.7 4.9 - - - +
18D LYS* 1.3 74.2 - - - +
20D ARG* 1.3 65.4 + - - +
22D MET* 3.0 6.6 + - - +
23D GLU* 2.8 19.2 + - - +
63D PHE* 3.6 28.0 - - + -
106D TYR* 3.4 29.5 + - + -
109D PHE* 3.9 3.7 - - + -
125D PHE* 3.8 10.3 - - + -
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Residues in contact with ARG 20 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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32C ASN* 6.2 1.2 - - - +
35C TYR* 4.2 4.2 - - - -
1305C FEC 2.7 43.4 + - - -
16D LEU 3.0 17.5 + - - +
17D ASN* 3.7 4.9 - - - +
19D ALA* 1.3 76.0 - - - +
21D ALA* 1.3 54.1 + - - +
23D GLU* 3.1 3.4 + - - +
24D LEU* 2.7 50.3 + - + +
60D ALA* 2.9 43.4 + - + +
63D PHE* 3.9 12.4 - - + -
64D ALA* 3.5 19.6 - - - +
67D ILE* 4.1 9.6 - - - -
74D PRO* 3.7 14.2 - - - +
75D THR* 2.6 37.3 + - + -
76D THR* 4.5 4.8 - - - +
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Residues in contact with ALA 21 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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17D ASN 2.9 15.5 + - - +
18D LYS* 3.3 14.1 - - - +
20D ARG* 1.3 76.6 - - - +
22D MET* 1.3 60.0 + - - +
24D LEU* 4.6 0.2 - - - -
25D HIS 3.2 11.4 + - - -
75D THR* 4.0 4.0 - - + +
77D GLN 3.6 23.1 - - - +
78D LYS* 3.2 2.7 - - - +
79D GLU* 2.5 43.3 + - + +
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Residues in contact with MET 22 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18D LYS 3.5 13.5 - - - +
19D ALA 3.0 7.8 + - - +
21D ALA* 1.3 75.7 - - - +
23D GLU* 1.3 59.2 + - - +
25D HIS* 3.1 8.1 + - - +
26D ALA* 3.0 26.9 + - - +
79D GLU* 4.1 20.6 - - + +
98D GLN* 4.9 1.4 + - - -
101D ALA* 4.3 3.4 - - + +
102D THR* 3.4 46.4 - - - +
105D ALA* 3.7 21.8 - - + -
106D TYR* 4.1 19.3 - - + +
109D PHE* 4.2 8.1 - - - -
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Residues in contact with GLU 23 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19D ALA 2.8 14.7 + - - +
20D ARG 3.6 5.6 - - - +
22D MET* 1.3 69.6 - - - +
24D LEU* 1.3 66.0 + - - +
26D ALA* 3.8 3.7 - - - +
27D ILE* 3.1 31.2 + - - +
56D GLU* 3.2 31.2 - - - +
59D HIS* 2.7 36.5 + - + +
60D ALA* 3.8 18.2 - - + -
63D PHE* 3.6 15.9 - - + -
102D THR* 5.6 0.2 - - - -
106D TYR* 2.8 33.7 + - - +
132D GLU* 4.2 4.8 - - - +
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Residues in contact with LEU 24 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28C HIS* 4.1 19.5 - - + +
1305C FEC 4.6 9.6 - - + -
20D ARG* 2.7 40.9 + - + +
23D GLU* 1.3 74.7 - - - +
25D HIS* 1.3 57.8 + - - +
27D ILE* 3.6 17.2 + - + +
28D HIS* 2.5 38.2 + - + -
60D ALA* 4.5 8.1 - - + -
75D THR* 3.8 16.4 - - + +
76D THR* 3.8 31.2 - - - +
77D GLN 3.9 9.9 - - - +
78D LYS* 3.4 17.7 - - + +
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Residues in contact with HIS 25 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21D ALA 3.2 7.7 + - - +
22D MET* 3.1 9.5 + - - +
23D GLU 3.1 0.6 - - - -
24D LEU* 1.3 75.7 - - - +
26D ALA* 1.3 60.7 + - - +
28D HIS* 3.5 1.4 + - - +
29D GLN* 2.8 57.4 + - + +
78D LYS* 3.5 9.6 - - + +
79D GLU 3.1 32.7 + - - +
80D GLY* 3.8 12.3 - - - -
81D LYS 2.9 27.4 + - - -
82D VAL* 3.7 18.8 + - + -
98D GLN* 3.3 26.9 + - - -
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Residues in contact with ALA 26 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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22D MET 3.0 14.0 + - - +
23D GLU* 3.3 8.5 + - - +
25D HIS* 1.3 76.2 + - - +
27D ILE* 1.3 56.8 + - - +
29D GLN* 4.1 1.3 - - - -
30D TYR* 2.6 50.3 + - + +
56D GLU* 3.9 23.8 - - + +
98D GLN* 3.7 23.3 - - - +
99D GLU* 5.3 0.7 - - - +
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Residues in contact with ILE 27 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1305C FEC 4.0 42.2 - - + -
23D GLU 3.1 19.6 + - - +
24D LEU* 3.8 23.1 - - + +
25D HIS 3.2 0.2 - - - -
26D ALA* 1.3 77.4 - - - +
28D HIS* 1.3 60.1 + - - +
30D TYR* 4.3 0.2 - - - +
31D MET* 2.9 36.6 + - + +
53D ALA* 4.2 7.0 - - - +
56D GLU* 3.9 7.9 - - + +
57D MET* 3.7 55.9 - - + +
60D ALA* 4.3 4.7 - - + -
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Residues in contact with HIS 28 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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20C ARG* 5.9 0.3 + - - -
24C LEU* 4.0 23.9 - - + +
28C HIS* 3.6 35.9 - + - -
76C THR* 3.6 20.2 - - - +
78C LYS* 6.1 0.4 + - - +
1305C FEC 4.2 19.4 - - + +
24D LEU* 2.5 37.0 + - + +
25D HIS 3.5 0.6 + - - +
27D ILE* 1.3 75.4 - - + +
29D GLN* 1.3 66.1 + - - +
31D MET* 4.0 3.6 - - - +
32D ASN* 3.1 23.9 + - - +
78D LYS* 3.4 29.7 + - + +
82D VAL* 3.9 20.8 - - + +
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Residues in contact with GLN 29 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25D HIS* 2.8 42.9 + - + +
26D ALA* 3.7 4.5 - - - +
28D HIS* 1.3 77.8 - - - +
30D TYR* 1.3 69.5 + - + +
32D ASN* 3.2 11.1 + - - +
33D GLN* 3.2 29.7 + - - +
81D LYS 4.2 2.0 + - - -
82D VAL* 3.4 11.5 - - + +
83D VAL* 2.9 49.8 - - - +
86D GLN* 3.9 8.5 - - - +
94D SER* 6.2 0.8 - - - -
95D ASP* 4.5 0.2 - - - +
98D GLN* 3.9 17.4 + - - +
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Residues in contact with TYR 30 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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26D ALA* 2.6 32.2 + - + +
29D GLN* 1.3 73.5 - - + +
31D MET* 1.3 64.6 + - - +
33D GLN* 3.3 16.9 + - - +
34D HIS* 3.0 18.7 + - - +
49D MET* 3.2 18.8 - - - +
52D ILE* 4.0 12.3 - - + -
53D ALA* 4.1 14.4 - - + -
56D GLU* 3.7 17.0 - - + -
95D ASP* 3.0 39.1 + - - +
98D GLN* 3.8 27.5 + - - +
99D GLU* 2.5 33.4 + - - +
139D TYR* 3.8 20.2 - + - -
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Residues in contact with MET 31 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61C GLU* 4.3 0.9 - - - +
1305C FEC 4.0 50.7 - - + +
27D ILE 2.9 22.8 + - - +
28D HIS 4.2 2.2 - - - +
30D TYR* 1.3 77.8 - - - +
32D ASN* 1.3 61.5 + - - +
34D HIS* 3.5 25.9 + - + +
35D TYR* 2.8 52.8 + - + +
50D LYS* 4.0 24.2 - - + -
53D ALA* 3.7 24.7 - - + -
57D MET* 4.4 9.4 - - + -
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Residues in contact with ASN 32 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20C ARG* 6.2 0.2 - - - +
73C GLU* 2.8 28.2 + - - +
74C PRO* 3.9 17.6 + - - +
76C THR* 4.1 8.3 - - + +
28D HIS 3.1 18.3 + - - +
29D GLN* 3.4 8.5 - - - +
30D TYR 3.1 0.8 - - - -
31D MET* 1.3 78.3 - - - +
33D GLN* 1.3 63.9 + - - +
35D TYR* 3.2 22.1 + - - +
36D SER* 3.3 14.7 + - - -
82D VAL* 4.7 2.9 - - + -
83D VAL 3.9 3.3 - - - +
84D THR* 3.5 31.4 - - - +
85D GLY 3.8 4.0 + - - -
86D GLN* 5.1 1.4 + - - +
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Residues in contact with GLN 33 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29D GLN* 3.2 23.6 - - - +
30D TYR* 3.3 7.3 + - - +
32D ASN* 1.3 76.0 - - + +
34D HIS* 1.3 61.1 + - - +
36D SER* 3.0 9.9 + - - -
37D LEU* 2.8 34.1 + - - +
49D MET* 3.3 16.0 - - + +
86D GLN* 3.1 32.2 + - - +
91D ILE* 3.6 30.4 + - + +
94D SER* 4.6 0.2 + - - -
95D ASP* 2.3 46.7 + - - +
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Residues in contact with HIS 34 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61C GLU* 4.1 7.7 + - - -
65C GLU* 4.9 3.6 + - - -
30D TYR 3.0 16.8 + - - +
31D MET* 3.6 25.1 - - + +
33D GLN* 1.3 77.1 - - - +
35D TYR* 1.3 78.6 + + - +
37D LEU* 3.8 4.4 - - - +
38D ASP* 2.8 45.7 + - - +
46D ALA* 2.8 34.1 + - + -
47D ALA* 4.8 1.6 - - - -
49D MET* 3.8 16.9 - - + +
50D LYS* 3.7 26.9 - - + +
162D SER* 5.5 3.1 - - - -
164D THR* 5.7 0.2 - - + -
1401D SO4 5.3 4.9 - - - -
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Residues in contact with TYR 35 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20C ARG* 3.7 15.0 + - - -
61C GLU* 3.5 25.3 - - + +
64C ALA* 3.3 31.0 - - + -
65C GLU* 4.6 11.0 - - + -
68C LYS* 3.6 23.3 - - + +
74C PRO* 4.2 11.0 - - + -
1305C FEC 2.5 27.0 + - - -
31D MET* 2.8 36.9 + - + +
32D ASN* 3.2 14.1 + - - +
33D GLN 3.2 0.6 - - - -
34D HIS* 1.3 97.1 - + - +
36D SER* 1.3 62.3 + - - +
38D ASP* 3.9 4.8 - - + +
39D ASP* 3.0 25.3 + - - +
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Residues in contact with SER 36 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C LYS* 3.8 21.5 + - - +
73C GLU* 5.1 2.8 + - - -
32D ASN* 3.3 16.7 + - - -
33D GLN* 3.0 11.6 + - - -
35D TYR* 1.3 79.2 - - - +
37D LEU* 1.3 57.5 + - - +
39D ASP* 3.0 5.0 + - - +
40D MET* 2.8 47.9 + - - +
85D GLY* 5.2 6.3 - - - -
86D GLN 4.7 12.1 + - - -
91D ILE* 5.0 1.3 - - - -
----------------------------------------------------------
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Residues in contact with LEU 37 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33D GLN 2.8 24.7 + - - +
34D HIS 3.8 2.9 - - - +
36D SER* 1.3 70.8 - - - +
38D ASP* 1.3 64.0 + - - +
40D MET* 3.0 20.8 + - + +
41D ASP 2.9 17.8 + - - -
42D TYR* 2.9 18.7 + - + +
45D LEU* 3.7 29.2 - - + +
46D ALA* 3.9 13.2 - - + +
49D MET* 4.1 21.3 - - + -
88D VAL* 4.1 10.5 - - + -
91D ILE* 4.0 15.7 - - + -
92D TYR* 3.3 30.5 - - + +
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Residues in contact with ASP 38 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65C GLU* 4.3 14.0 - - - +
34D HIS* 2.8 36.1 + - + +
35D TYR* 3.9 5.6 - - + +
37D LEU* 1.3 74.3 - - - +
39D ASP* 1.3 56.8 + - - +
41D ASP* 3.1 19.3 + - - +
42D TYR 4.8 1.1 - - - +
43D GLY* 4.9 1.2 - - - -
46D ALA* 3.4 12.0 - - + +
162D SER* 3.3 32.2 + - - -
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Residues in contact with ASP 39 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C LYS* 3.9 44.7 + - + +
69C GLU* 5.2 1.9 - - - -
35D TYR 3.0 20.7 + - - +
36D SER* 3.3 5.0 - - - +
38D ASP* 1.3 74.0 - - - +
40D MET* 1.3 64.6 + - - +
41D ASP* 3.0 6.7 + - - +
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Residues in contact with MET 40 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36D SER* 2.8 43.1 + - - +
37D LEU* 3.0 17.7 + - + +
39D ASP* 1.3 80.5 - - - +
41D ASP* 1.3 70.1 + - - +
42D TYR* 3.5 33.4 - - + -
86D GLN 5.2 2.5 - - - +
87D ALA* 5.6 0.7 - - - -
88D VAL* 3.5 36.6 - - + +
91D ILE* 4.4 4.7 - - + -
----------------------------------------------------------
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Residues in contact with ASP 41 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37D LEU 2.9 2.2 + - - -
38D ASP* 3.1 12.9 + - - +
39D ASP 3.0 5.6 - - - +
40D MET* 1.3 84.4 - - - +
42D TYR* 1.3 63.5 + - - +
43D GLY* 3.4 3.9 + - - -
158D ALA* 3.8 0.9 - - - -
159D GLY* 3.2 41.3 + - - -
160D THR 4.9 3.8 - - - +
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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