Contacts of the helix formed by residues 2 - 52 (chain D) in PDB entry 1YBK
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 2 (chain D).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1D GLY* 1.3 70.3 - - - -
3D ILE* 1.3 63.9 + - - +
4D ILE 3.3 2.9 - - - -
5D ASN* 3.2 17.3 + - - +
6D GLU* 2.6 47.1 + - - +
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Residues in contact with ILE 3 (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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2A SER* 5.3 2.5 - - - +
4A ILE* 3.7 28.0 - - + -
1D GLY* 3.2 9.6 - - - +
2D SER* 1.3 78.2 + - - +
4D ILE* 1.3 66.4 + - + +
6D GLU* 3.9 10.7 + - + -
7D THR* 2.6 47.8 + - - +
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Residues in contact with ILE 4 (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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4A ILE* 5.2 14.8 - - + -
4C ILE* 5.6 15.7 - - + -
7C THR* 3.7 30.2 - - + +
1D GLY 4.7 4.9 + - - +
2D SER 3.3 1.0 - - - -
3D ILE* 1.3 87.0 - - + +
5D ASN* 1.3 62.5 + - - +
7D THR* 3.4 5.4 + - - -
8D ALA* 3.0 27.5 + - - +
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Residues in contact with ASN 5 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7C THR* 4.8 8.3 + - - +
2D SER* 3.2 17.5 + - - +
4D ILE* 1.3 85.9 - - - +
6D GLU* 1.3 62.9 + - + +
8D ALA* 3.3 7.8 + - - +
9D ASP* 3.0 29.5 + - - +
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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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2D SER* 2.6 41.7 + - - +
3D ILE* 3.9 9.4 + - + +
5D ASN* 1.3 77.2 - - + +
7D THR* 1.3 58.5 + - - +
9D ASP* 3.4 8.8 + - - +
10D ASP* 3.0 26.7 + - - +
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Residues in contact with THR 7 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4A ILE* 3.7 35.2 - - + +
5A ASN* 5.6 1.1 - - - -
8A ALA* 3.6 28.9 - - + -
3D ILE* 2.6 31.0 + - - +
4D ILE* 3.8 4.0 - - - -
6D GLU* 1.3 73.1 - - - +
8D ALA* 1.3 62.0 + - - +
10D ASP* 3.1 7.7 + - + +
11D ILE* 2.9 34.7 + - + +
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Residues in contact with ALA 8 (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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7C THR* 3.7 24.7 - - + +
10C ASP* 5.2 3.1 - - - +
11C ILE* 3.9 21.8 - - + +
14C ARG* 4.5 4.9 - - - +
4D ILE 3.0 18.7 + - - +
5D ASN* 3.5 7.2 - - - +
7D THR* 1.3 75.5 - - - +
9D ASP* 1.3 66.6 + - - +
11D ILE* 3.2 4.9 + - - +
12D VAL* 3.1 28.1 + - - +
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Residues in contact with ASP 9 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14C ARG* 2.8 37.2 + - - +
5D ASN* 3.0 21.9 + - - +
6D GLU* 3.7 8.0 - - - +
7D THR 3.2 0.2 - - - -
8D ALA* 1.3 77.6 - - - +
10D ASP* 1.3 57.3 + - - +
12D VAL* 3.5 2.4 + - - +
13D TYR* 2.9 29.5 + - - +
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Residues in contact with ASP 10 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8A ALA* 5.7 3.2 - - + +
6D GLU 3.0 14.3 + - - +
7D THR* 3.1 13.2 + - + +
9D ASP* 1.3 75.6 - - - +
11D ILE* 1.3 61.7 + - + +
13D TYR* 3.3 10.0 + - - +
14D ARG* 2.9 63.0 + - - +
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Residues in contact with ILE 11 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8A ALA* 3.9 35.4 - - + +
11A ILE* 4.1 28.3 - - + -
12A VAL* 4.3 14.1 - - + -
11C ILE* 4.1 33.4 - - + -
7D THR* 2.9 23.3 + - + +
8D ALA* 3.2 7.2 + - - +
10D ASP* 1.3 77.8 - - + +
12D VAL* 1.3 62.6 + - - +
14D ARG* 4.0 1.4 - - - +
15D LEU* 3.0 44.3 + - + +
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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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11C ILE* 4.2 28.5 - - + +
14C ARG* 3.7 51.4 - - + +
15C LEU* 3.8 18.2 - - + +
18C ILE* 4.7 5.6 - - + -
8D ALA 3.1 16.6 + - - +
9D ASP 3.8 0.4 - - - +
11D ILE* 1.3 76.8 - - - +
13D TYR* 1.3 53.2 + - - +
16D THR* 2.7 46.7 + - - +
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Residues in contact with TYR 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 ASP 2.9 19.8 + - - +
10D ASP* 3.6 12.3 - - - +
11D ILE 3.3 0.2 - - - -
12D VAL* 1.3 76.9 - - - +
14D ARG* 1.3 72.9 + - + +
16D THR* 3.3 7.2 + - - -
17D VAL* 3.2 40.7 + - + +
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Residues in contact with ARG 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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8A ALA* 4.3 5.7 + - - +
9A ASP* 2.8 38.9 + - - +
12A VAL* 3.7 45.5 - - + +
13A TYR 5.5 0.2 - - - +
10D ASP* 2.9 44.6 + - - +
11D ILE* 4.0 3.1 - - - +
13D TYR* 1.3 84.5 - - + +
15D LEU* 1.3 62.0 + - - +
17D VAL* 3.3 9.6 + - - +
18D ILE* 3.3 23.8 + - - +
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Residues in contact with LEU 15 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A ILE* 4.8 0.2 - - + -
12A VAL* 4.0 36.1 - - + +
15A LEU* 3.7 34.5 - - + -
16A THR* 4.0 10.5 - - - +
19A ILE* 4.2 14.8 - - + -
15C LEU* 3.7 31.9 - - + -
11D ILE* 3.0 31.3 + - + +
14D ARG* 1.3 74.1 - - - +
16D THR* 1.3 60.2 + - - +
18D ILE* 3.2 5.4 + - + +
19D ILE* 2.8 40.0 + - + +
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Residues in contact with THR 16 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15C LEU* 4.0 1.6 - - - +
18C ILE* 3.1 37.6 - - + +
22C ARG* 5.0 9.2 - - - +
12D VAL* 2.7 28.7 + - - +
13D TYR* 3.3 8.4 + - - -
15D LEU* 1.3 75.3 - - - +
17D VAL* 1.3 60.5 + - + +
19D ILE* 3.8 9.2 - - - +
20D ASP* 2.8 31.7 + - + +
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Residues in contact with VAL 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 TYR* 3.2 36.1 + - + +
14D ARG* 3.5 10.3 - - - +
15D LEU 3.2 0.2 - - - -
16D THR* 1.3 79.5 - - + +
18D ILE* 1.3 63.5 + - + +
20D ASP* 3.4 3.9 + - - +
21D ASP* 2.9 32.7 + - + +
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Residues in contact with ILE 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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12A VAL* 5.5 2.5 - - + -
16A THR* 4.0 30.3 - - + +
19A ILE* 4.0 25.4 - - + -
20A ASP* 4.5 0.2 - - - +
14D ARG 3.5 15.0 - - - +
15D LEU* 3.2 13.6 + - + +
17D VAL* 1.3 82.4 - - + +
19D ILE* 1.3 62.4 + - - +
21D ASP* 3.2 1.9 + - + -
22D ARG* 3.1 57.8 + - - +
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Residues in contact with ILE 19 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19A ILE* 3.8 29.6 - - + -
15C LEU* 4.0 24.0 - - + +
18C ILE* 4.2 13.2 - - + -
19C ILE* 3.7 36.3 - - + -
22C ARG* 4.2 23.1 - - + -
15D LEU* 2.8 26.4 + - + +
16D THR* 3.8 5.6 - - - +
18D ILE* 1.3 72.5 - - - +
20D ASP* 1.3 59.6 + - - +
22D ARG* 3.4 2.6 + - - +
23D TYR* 3.0 26.2 + - - +
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Residues in contact with ASP 20 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C ILE* 6.3 0.2 - - + -
22C ARG* 2.9 42.9 + - - +
16D THR* 2.8 23.8 + - + +
17D VAL* 3.9 4.3 - - - +
19D ILE* 1.3 75.5 - - - +
21D ASP* 1.3 59.3 + - - +
23D TYR* 3.3 10.2 + - - +
24D GLU* 2.9 43.4 + - - +
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Residues in contact with ASP 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 VAL* 2.9 22.8 + - + +
18D ILE* 3.2 0.6 + - + -
20D ASP* 1.3 78.2 + - - +
22D ARG* 1.3 91.6 + - - +
24D GLU* 3.5 6.2 + - - +
25D SER* 3.1 32.4 + - - -
601D SO4 4.9 1.2 + - - -
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Residues in contact with ARG 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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16A THR* 4.6 2.4 - - - +
19A ILE* 3.8 20.9 - - + -
20A ASP* 2.7 35.1 + - - -
23A TYR* 3.7 42.2 - - + -
18D ILE* 3.1 46.3 + - - +
19D ILE 3.9 3.1 - - - +
21D ASP* 1.3 106.8 + - - +
23D TYR* 1.3 66.1 + - - +
25D SER* 3.3 4.9 + - - -
26D LEU* 3.0 30.6 + - + +
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Residues in contact with TYR 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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22C ARG* 3.6 57.9 - - + -
25C SER* 3.4 23.3 + - - -
26C LEU* 3.6 34.1 - - + -
701C BEQ 4.2 5.9 + - - -
19D ILE* 3.0 18.6 + - + +
20D ASP* 3.5 6.1 - - - +
22D ARG* 1.3 76.7 - - - +
24D GLU* 1.3 85.6 + - - +
26D LEU* 3.2 6.4 + - - +
27D LYS* 2.8 50.1 + - + +
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Residues in contact with GLU 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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20D ASP* 2.9 34.9 + - - +
21D ASP* 3.8 6.3 - - - +
23D TYR* 1.3 97.1 - - + +
25D SER* 1.3 57.5 + - - +
27D LYS* 2.8 35.0 + - - +
28D ASN* 2.9 42.2 + - - +
601D SO4 4.0 7.4 - - - +
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Residues in contact with SER 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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23A TYR* 3.4 29.2 + - - -
21D ASP* 3.1 22.3 + - - -
22D ARG* 3.6 8.4 - - - -
23D TYR 3.2 0.2 - - - -
24D GLU* 1.3 77.4 - - - +
26D LEU* 1.3 57.7 + - - +
28D ASN* 3.8 2.1 - - - +
29D LEU* 3.0 28.8 + - - +
601D SO4 2.8 33.7 + - - -
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Residues in contact with LEU 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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23A TYR* 3.6 28.3 - - + -
26A LEU* 3.9 26.9 - - + -
27A LYS* 4.0 26.2 - - + +
30A ILE* 4.1 16.4 - - + -
26C LEU* 3.9 25.4 - - + -
22D ARG* 3.0 21.7 + - + +
23D TYR* 3.7 3.6 - - - +
25D SER* 1.3 73.8 - - - +
27D LYS* 1.3 66.9 + - - +
29D LEU* 3.2 5.8 + - + +
30D ILE* 2.9 35.4 + - + +
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Residues in contact with LYS 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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26C LEU* 4.0 4.9 - - + +
29C LEU* 3.8 26.1 - - + +
701C BEQ 5.8 2.9 - - + +
23D TYR* 2.8 44.4 + - + +
24D GLU* 2.8 33.4 + - - +
26D LEU* 1.3 76.4 - - - +
28D ASN* 1.3 82.0 + - - +
30D ILE 3.5 0.2 + - - -
31D THR* 2.8 33.8 + - - +
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Residues in contact with ASN 28 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24D GLU* 2.9 27.1 + - - +
25D SER 3.8 0.4 - - - +
27D LYS* 1.3 97.3 + - - +
29D LEU* 1.3 57.0 + - - +
31D THR* 3.4 5.8 + - - -
32D LEU* 2.9 31.5 + - - +
601D SO4 3.1 36.7 + - - +
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Residues in contact with LEU 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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27A LYS* 3.8 39.9 - - + +
30A ILE* 3.9 27.8 - - + -
31A THR* 4.0 9.4 - - - +
25D SER 3.0 17.2 + - - +
26D LEU* 3.7 7.4 - - + +
28D ASN* 1.3 76.6 - - - +
30D ILE* 1.3 58.2 + - - +
32D LEU* 3.3 12.4 + - + +
33D ARG* 2.9 53.7 + - + +
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Residues in contact with ILE 30 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A ILE* 3.6 38.1 - - + -
26C LEU* 4.3 9.9 - - + -
29C LEU* 3.8 30.5 - - + -
30C ILE* 3.8 38.1 - - + -
33C ARG* 4.8 8.7 - - + -
26D LEU* 2.9 26.4 + - + +
29D LEU* 1.3 75.7 - - - +
31D THR* 1.3 64.8 + - - +
33D ARG* 3.5 2.6 + - - +
34D ALA* 3.0 22.9 + - + +
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Residues in contact with THR 31 (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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29C LEU* 3.9 10.4 - - - +
33C ARG* 3.4 26.2 - - - +
701C BEQ 3.8 13.0 + - - +
27D LYS* 2.8 27.4 + - - +
28D ASN* 3.8 6.3 - - - -
30D ILE* 1.3 77.7 - - - +
32D LEU* 1.3 57.4 + - - +
34D ALA* 3.3 5.3 + - - +
35D ASP* 2.9 38.3 + - - +
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Residues in contact with LEU 32 (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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28D ASN 2.9 18.7 + - - +
29D LEU* 3.6 12.1 - - + +
31D THR* 1.3 77.4 - - - +
33D ARG* 1.3 66.5 + - - +
35D ASP* 3.3 8.5 + - + +
36D ARG* 2.9 47.5 + - + +
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Residues in contact with ARG 33 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A ILE* 4.4 9.4 - - + -
31A THR* 3.9 24.0 + - - +
34A ALA* 3.5 34.2 - - + +
35A ASP* 2.8 33.3 + - - +
38A GLU* 3.1 25.4 + - - -
29D LEU* 2.9 40.4 + - + +
30D ILE* 4.1 4.7 - - - +
32D LEU* 1.3 83.6 - - - +
34D ALA* 1.3 62.4 + - - +
36D ARG* 3.4 21.8 + - - +
37D LEU* 3.0 30.3 + - + +
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Residues in contact with ALA 34 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33C ARG* 3.9 37.7 - - + +
37C LEU* 4.1 19.2 - - + +
30D ILE* 3.0 19.3 + - + +
31D THR 3.7 4.0 - - - +
33D ARG* 1.3 74.7 - - - +
35D ASP* 1.3 64.8 + - - +
37D LEU* 3.2 3.8 + - - +
38D GLU* 3.0 30.6 + - - +
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Residues in contact with ASP 35 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33C ARG* 3.1 25.8 + - - +
31D THR* 2.9 32.9 + - - +
32D LEU* 3.7 10.3 - - + +
34D ALA* 1.3 77.4 - - - +
36D ARG* 1.3 62.5 + - - +
38D GLU* 3.3 10.1 + - - +
39D MET* 3.1 23.7 + - - +
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Residues in contact with ARG 36 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A GLU* 3.0 36.9 + - - +
32D LEU* 2.9 37.4 + - + +
33D ARG* 3.6 27.3 - - - +
35D ASP* 1.3 77.2 - - - +
37D LEU* 1.3 57.3 + - - +
39D MET* 3.3 7.4 + - - +
40D ILE* 2.9 42.5 + - + +
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Residues in contact with LEU 37 (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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34A ALA* 4.8 11.7 - - + +
37A LEU* 4.0 33.4 - - + -
38A GLU* 3.7 28.9 - - + +
41A ILE* 3.9 25.6 - - + -
37B LEU* 5.5 0.2 - - + -
37C LEU* 3.9 26.9 - - + -
33D ARG* 3.0 23.0 + - + +
34D ALA* 3.2 4.2 + - - +
36D ARG* 1.3 76.9 - - - +
38D GLU* 1.3 63.7 + - - +
40D ILE* 3.7 4.8 - - + +
41D ILE* 2.9 33.8 + - + +
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Residues in contact with GLU 38 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33C ARG* 3.2 20.2 + - - -
36C ARG* 2.8 52.1 + - - +
37C LEU* 3.5 21.7 - - + +
40C ILE* 3.4 19.1 - - + +
34D ALA 3.0 18.1 + - - +
35D ASP* 3.7 9.3 - - - +
37D LEU* 1.3 75.1 - - - +
39D MET* 1.3 58.3 + - - +
41D ILE* 3.7 4.8 - - - +
42D ASN* 3.0 41.2 + - - +
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Residues in contact with MET 39 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35D ASP 3.1 16.4 + - - +
36D ARG* 3.6 6.3 - - - +
38D GLU* 1.3 75.3 - - - +
40D ILE* 1.3 63.2 + - + +
42D ASN* 3.4 5.8 + - - +
43D ASP* 2.9 52.3 + - - +
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Residues in contact with ILE 40 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A GLU* 3.5 43.1 - - + +
41A ILE* 4.0 19.3 - - + -
42A ASN* 4.8 10.8 - - - +
36D ARG* 2.9 32.9 + - - +
37D LEU* 3.7 5.8 - - + +
39D MET* 1.3 78.2 - - + +
41D ILE* 1.3 58.8 + - - +
43D ASP* 3.9 4.1 - - - +
44D ASN* 2.9 57.7 + - - +
----------------------------------------------------------
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Residues in contact with ILE 41 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A ILE* 3.9 27.8 - - + -
37C LEU* 4.2 12.8 - - + -
40C ILE* 4.2 8.1 - - + -
41C ILE* 3.4 38.6 - - + -
44C ASN* 3.8 24.2 - - + +
37D LEU* 2.9 28.5 + - + +
38D GLU* 3.7 4.9 - - - +
40D ILE* 1.3 78.0 - - - +
42D ASN* 1.3 60.5 + - - +
44D ASN* 4.0 3.9 - - - +
45D VAL* 3.0 38.2 + - + +
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Residues in contact with ASN 42 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40C ILE* 3.9 11.5 - - - +
44C ASN* 3.1 27.0 + - - +
38D GLU* 3.0 32.7 + - - +
39D MET* 3.9 5.4 - - - +
41D ILE* 1.3 76.0 - - - +
43D ASP* 1.3 66.1 + - - +
45D VAL* 3.5 5.5 + - - +
46D SER* 3.0 27.4 + - - -
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Residues in contact with ASP 43 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39D MET* 2.9 40.9 + - - +
40D ILE* 3.9 4.5 - - - +
42D ASN* 1.3 79.5 - - - +
44D ASN* 1.3 64.5 + - - +
46D SER* 3.3 8.5 + - - -
47D THR* 3.1 24.8 + - - -
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Residues in contact with ASN 44 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A ILE* 3.7 14.3 - - + +
42A ASN* 4.8 6.5 + - - +
45A VAL* 3.6 35.0 - - + +
40D ILE* 2.9 45.6 + - - +
41D ILE* 4.0 3.6 - - - +
43D ASP* 1.3 76.6 - - - +
45D VAL* 1.3 61.6 + - + +
47D THR* 3.2 9.2 + - - -
48D ILE* 3.0 33.9 + - + +
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Residues in contact with VAL 45 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44C ASN* 3.3 46.0 - - + +
45C VAL* 6.4 0.7 - - + -
47C THR* 5.5 1.1 - - - -
48C ILE* 4.0 24.5 - - + -
41D ILE* 3.0 31.6 + - + +
42D ASN 3.8 3.1 - - - +
43D ASP 3.3 0.2 - - - -
44D ASN* 1.3 75.2 - - + +
46D SER* 1.3 61.1 + - - +
48D ILE* 3.3 8.4 + - + +
49D LEU* 2.9 47.0 + - + +
----------------------------------------------------------
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Residues in contact with SER 46 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42D ASN 3.0 15.2 + - - -
43D ASP* 3.5 11.7 - - - -
45D VAL* 1.3 77.9 - - - +
47D THR* 1.3 62.7 + - - +
49D LEU* 3.4 9.7 + - - +
50D ALA* 3.1 24.5 + - - +
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Residues in contact with THR 47 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A VAL* 5.8 1.1 - - + -
49A LEU* 4.1 21.3 - - + -
43D ASP 3.1 12.9 + - - -
44D ASN* 3.2 13.1 + - - -
46D SER* 1.3 79.1 - - - +
48D ILE* 1.3 60.3 + - - +
50D ALA* 3.3 7.1 + - - +
51D SER* 2.8 36.8 + - - +
----------------------------------------------------------
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Residues in contact with ILE 48 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A VAL* 4.4 18.8 - - + -
48A ILE* 4.0 42.4 - - + -
49A LEU* 3.9 24.9 - - + +
52A ILE* 5.1 4.6 - - - +
48C ILE* 4.2 35.0 - - + -
44D ASN 3.0 22.1 + - - +
45D VAL* 3.6 9.4 - - + +
47D THR* 1.3 74.9 - - - +
49D LEU* 1.3 63.5 + - - +
51D SER* 3.1 12.3 + - - -
52D ILE* 3.2 18.8 + - - +
----------------------------------------------------------
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Residues in contact with LEU 49 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C THR* 3.7 20.9 - - + -
48C ILE* 3.9 26.7 - - + -
51C SER* 3.7 28.9 - - - +
45D VAL* 2.9 35.8 + - + +
46D SER* 3.8 7.2 - - - +
47D THR 3.4 0.2 - - - -
48D ILE* 1.3 78.1 - - + +
50D ALA* 1.3 59.6 + - - +
51D SER 3.6 0.2 + - - -
52D ILE* 3.7 16.7 + - - +
----------------------------------------------------------
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Residues in contact with ALA 50 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46D SER 3.1 17.3 + - - +
47D THR* 3.8 5.4 - - - +
49D LEU* 1.3 76.9 - - - +
51D SER* 1.3 61.2 + - - +
52D ILE 3.4 0.2 - - - -
----------------------------------------------------------
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Residues in contact with SER 51 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A LEU* 3.6 22.4 - - - +
52A ILE 4.1 12.2 - - - +
47D THR* 2.8 25.5 + - - +
48D ILE 3.1 5.1 + - - -
50D ALA* 1.3 77.9 - - - +
52D ILE* 1.3 56.7 + - - +
----------------------------------------------------------
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Residues in contact with ILE 52 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A ILE* 4.4 16.8 - - - +
48C ILE* 6.1 0.7 - - - +
51C SER* 4.1 21.1 - - - +
52C ILE* 5.5 4.2 - - - +
48D ILE* 3.2 20.1 + - - +
49D LEU* 3.7 13.7 + - - +
50D ALA 3.4 3.2 + - - -
51D SER* 1.3 81.1 - - - +
----------------------------------------------------------
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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