Contacts of the helix formed by residues 2 - 36 (chain B) in PDB entry 2Q7M
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 ASP 2 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4A GLU* 4.9 8.7 - - - +
8A ASN* 5.7 0.9 - - - +
1B MET* 1.3 73.9 - - - +
3B GLN* 1.3 56.6 + - - +
4B GLU* 2.7 24.1 + - + +
5B THR* 2.4 48.8 + - - +
6B VAL* 2.8 4.4 - - - +
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Residues in contact with GLN 3 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133A TYR* 3.1 54.9 + - - +
136A ILE* 3.4 37.3 - - + +
137A PHE* 3.2 21.8 - - - +
1B MET 3.0 7.7 + - - +
2B ASP* 1.3 69.0 - - - +
4B GLU* 1.3 64.7 + - - +
6B VAL* 3.1 12.3 - - - +
7B GLY* 3.3 11.4 + - - -
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Residues in contact with GLU 4 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2B ASP* 2.7 13.7 + - + +
3B GLN* 1.3 75.2 - - - +
5B THR* 1.3 90.4 + - - +
7B GLY* 2.8 17.0 + - - -
8B ASN* 2.6 32.9 + - - +
2C ASP* 5.1 7.1 - - - +
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Residues in contact with THR 5 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1B MET* 3.1 19.3 - - + +
2B ASP* 2.4 52.4 + - - +
4B GLU* 1.3 97.8 - - - +
6B VAL* 1.3 59.8 + - - -
7B GLY 2.8 4.5 - - - -
8B ASN* 2.5 29.7 + - - +
9B VAL* 2.8 15.1 - - - +
2C ASP* 5.7 4.9 - - - +
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Residues in contact with VAL 6 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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77A LEU* 4.3 26.5 - - + -
129A GLY 6.5 0.7 - - - -
133A TYR* 4.2 17.9 - - + -
1B MET* 3.0 36.3 - - + +
2B ASP 2.8 22.9 - - - +
3B GLN* 3.1 23.6 - - - +
5B THR* 1.3 72.6 + - - +
7B GLY* 1.3 54.7 + - - +
9B VAL* 3.3 7.8 - - + +
10B VAL* 2.8 39.4 + - + +
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Residues in contact with GLY 7 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133A TYR* 3.4 29.1 + - - -
3B GLN 3.3 3.8 + - - -
4B GLU 2.8 11.0 + - - -
5B THR 2.8 2.6 - - - -
6B VAL* 1.3 80.1 - - - +
8B ASN* 1.3 55.1 + - - -
9B VAL 3.1 5.4 + - - -
10B VAL* 3.6 10.7 + - - +
11B LEU* 5.1 2.1 - - - +
80B GLN* 3.6 7.3 + - - +
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Residues in contact with ASN 8 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4B GLU* 2.6 35.0 + - - +
5B THR* 2.5 25.3 + - - +
7B GLY* 1.3 64.2 - - - -
9B VAL* 1.3 62.6 + - - +
12B LEU* 4.4 2.4 - - - +
76B LEU* 4.5 8.7 - - - +
80B GLN* 3.2 29.2 - - + +
1C MET* 6.0 2.1 + - - -
2C ASP* 5.4 3.1 - - - +
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Residues in contact with VAL 9 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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77A LEU* 5.1 11.2 - - + -
1B MET* 4.8 7.9 - - + -
5B THR* 2.8 25.6 - - - +
6B VAL* 3.3 15.0 - - - +
8B ASN* 1.3 75.5 - - - +
10B VAL* 1.3 67.0 + - - +
11B LEU 2.7 2.3 + - - -
12B LEU* 2.8 20.6 + - + -
13B ALA* 2.9 14.4 + - + -
72B TRP* 3.9 26.5 - - + -
76B LEU* 5.5 3.1 - - + -
80B GLN* 2.8 11.7 - - - +
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Residues in contact with VAL 10 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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77A LEU* 6.1 1.8 - - + -
130A ILE* 3.5 22.6 - - + +
133A TYR* 3.6 33.2 - - + +
134A TYR* 3.1 31.4 - - + +
6B VAL* 2.8 32.6 + - + +
7B GLY 3.8 7.9 - - - +
9B VAL* 1.3 76.6 - - - +
11B LEU* 1.3 63.7 + - + +
13B ALA* 3.4 9.8 - - - +
14B ILE* 2.9 29.2 + - + +
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Residues in contact with LEU 11 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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134A TYR* 4.2 7.9 - - - +
7B GLY 5.1 2.2 - - - +
9B VAL 2.7 4.4 + - - -
10B VAL* 1.3 89.4 - - + +
12B LEU* 1.3 53.1 + - - +
14B ILE* 3.2 11.8 + - + +
15B VAL* 2.8 38.5 + - - +
80B GLN* 2.8 45.8 - - - +
81B VAL* 4.5 9.6 - - + -
84B ALA* 3.4 20.4 - - + +
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Residues in contact with LEU 12 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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9B VAL* 2.8 12.0 + - - +
11B LEU* 1.3 69.2 - - - +
13B ALA* 1.3 57.4 + - - +
15B VAL* 2.9 18.5 - - + +
16B THR* 2.7 29.6 + - - -
71B LEU* 3.9 20.6 - - + +
72B TRP* 3.2 46.2 - - + -
75B GLY* 4.0 11.7 - - - -
76B LEU* 4.2 15.3 - - + -
80B GLN* 3.6 28.5 - - + +
84B ALA* 3.6 29.4 - - + +
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Residues in contact with ALA 13 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73A SER* 5.9 2.7 - - - -
77A LEU* 3.9 28.9 - - + -
130A ILE* 4.6 2.0 - - + -
9B VAL* 2.9 19.7 + - + +
10B VAL* 3.4 14.6 - - - +
12B LEU* 1.3 76.1 - - - +
14B ILE* 1.3 53.9 + - - +
16B THR* 3.1 4.5 + - - -
17B LEU* 2.6 47.9 + - + +
72B TRP* 3.7 7.3 - - + -
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Residues in contact with ILE 14 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130A ILE* 4.0 17.9 - - + +
134A TYR* 3.8 25.1 - - + +
10B VAL* 2.9 24.8 + - + +
11B LEU* 3.2 15.5 - - + +
13B ALA* 1.3 75.3 - - - +
15B VAL* 1.3 69.4 + - + +
17B LEU* 2.9 7.4 + - - -
18B ILE* 2.8 43.0 + - + +
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Residues in contact with VAL 15 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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11B LEU 2.8 24.2 - - - +
12B LEU* 2.9 28.9 - - - +
14B ILE* 1.3 80.8 - - + +
16B THR* 1.3 57.8 + - - +
18B ILE* 3.0 10.1 - - - +
19B SER* 2.9 28.6 + - - +
67B PHE* 4.9 2.2 - - + -
71B LEU* 4.0 18.4 - - + -
84B ALA* 4.1 15.3 - - + +
87B GLY* 3.7 20.0 - - - +
88B LEU* 4.1 4.5 - - + +
91B LEU* 3.4 22.5 - - + +
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Residues in contact with THR 16 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69A ALA* 4.5 12.6 - - + -
73A SER* 5.7 3.1 - - - -
12B LEU 2.7 24.9 + - - -
13B ALA* 3.4 6.1 - - - +
14B ILE 3.0 0.2 - - - -
15B VAL* 1.3 77.3 - - - +
17B LEU* 1.3 58.6 + - + +
18B ILE 3.0 0.2 - - - -
19B SER* 2.7 20.8 + - - -
20B VAL* 2.7 31.1 + - + +
64B TYR* 4.3 10.5 - - - +
68B LEU* 3.9 8.0 - - + +
71B LEU* 3.6 10.0 - - - +
72B TRP* 3.5 25.0 + - + +
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Residues in contact with LEU 17 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70A VAL* 3.6 31.2 - - + +
73A SER* 3.7 20.6 - - - +
77A LEU* 4.5 5.6 - - + -
123A PHE* 3.3 30.3 - - + +
126A SER* 3.6 26.7 - - - +
127A VAL* 5.1 3.6 - - + +
130A ILE* 5.2 3.4 - - + -
13B ALA* 2.6 38.7 + - + +
14B ILE* 3.6 6.3 - - - +
16B THR* 1.3 75.9 - - + +
18B ILE* 1.3 66.4 + - + +
20B VAL* 3.3 10.5 - - + +
21B VAL* 3.1 17.3 + - - +
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Residues in contact with ILE 18 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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123A PHE* 6.2 1.3 - - + -
14B ILE* 2.8 41.4 + - + +
15B VAL* 3.0 11.2 - - - +
17B LEU* 1.3 80.6 - - + +
19B SER* 1.3 58.5 + - - +
21B VAL* 2.8 33.8 + - + +
22B GLN* 2.9 15.1 + - + +
88B LEU* 5.5 5.4 - - + -
91B LEU* 3.5 29.4 - - + -
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Residues in contact with SER 19 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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15B VAL 3.0 7.8 + - - -
16B THR* 2.7 24.1 + - - -
18B ILE* 1.3 80.7 - - - +
20B VAL* 1.3 55.2 + - - +
22B GLN* 3.5 7.1 - - - +
23B ASN* 2.9 38.2 + - - +
64B TYR* 3.2 24.7 + - - -
67B PHE* 4.6 5.1 - - - -
68B LEU* 5.0 0.3 - - - +
91B LEU* 3.4 30.7 - - - +
94B ARG* 4.3 1.8 - - - -
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Residues in contact with VAL 20 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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66A THR* 3.4 21.5 - - + +
69A ALA* 3.4 32.8 - - + -
70A VAL* 3.9 10.8 - - + -
123A PHE* 3.7 24.0 - - + -
503A 2CS 4.9 5.9 - - + +
16B THR 2.7 22.3 + - - +
17B LEU* 3.3 21.3 - - + +
19B SER* 1.3 72.4 - - - +
21B VAL* 1.3 61.3 + - - +
23B ASN* 3.2 17.2 - - - +
24B GLY* 3.4 6.4 + - - -
64B TYR* 3.7 5.8 + - - +
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Residues in contact with VAL 21 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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123A PHE* 4.3 11.2 - - + -
503A 2CS 3.2 60.6 - - + +
17B LEU 3.1 8.7 + - - +
18B ILE* 2.8 18.3 + - + +
20B VAL* 1.3 78.4 - - + +
22B GLN* 1.3 69.1 + - + +
23B ASN 3.0 1.6 + - - -
24B GLY 3.2 9.2 + - - -
25B PHE* 3.2 8.3 + - - +
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Residues in contact with GLN 22 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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503A 2CS 5.5 0.2 - - - -
18B ILE* 2.9 16.3 + - + +
19B SER* 3.5 11.0 - - - +
21B VAL* 1.3 79.5 - - + +
23B ASN* 1.3 66.3 + - - +
25B PHE* 3.0 24.2 - - + +
26B PHE* 3.1 26.5 + - + -
91B LEU* 3.4 33.3 + - + +
94B ARG* 2.7 38.5 + - - +
95B GLN* 2.9 29.9 + - - +
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Residues in contact with ASN 23 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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66A THR* 2.9 38.2 + - + +
503A 2CS 3.4 14.2 - - + -
19B SER 2.9 16.0 + - - +
20B VAL 3.2 0.9 - - - +
22B GLN* 1.3 74.2 - - - +
24B GLY* 1.3 62.9 + - - +
25B PHE 2.9 5.0 + - - -
26B PHE* 3.1 11.8 + - - +
27B ALA 3.0 17.5 + - - -
61B VAL* 6.3 2.4 - - - +
64B TYR* 3.2 34.7 - - - +
94B ARG* 2.3 32.2 + - - -
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Residues in contact with GLY 24 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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66A THR* 4.9 0.2 - - - +
503A 2CS 3.4 44.9 + - - -
20B VAL 3.4 5.9 + - - -
21B VAL 3.2 8.0 + - - -
23B ASN* 1.3 79.2 - - - +
25B PHE* 1.3 56.6 + - - +
27B ALA* 3.5 10.5 + - - +
28B HIS* 3.1 25.5 + - - +
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Residues in contact with PHE 25 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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503A 2CS 2.9 34.0 - - + -
21B VAL 3.2 3.8 + - - +
22B GLN* 3.0 14.8 + - - +
23B ASN 2.9 0.6 - - - -
24B GLY* 1.3 74.0 - - - +
26B PHE* 1.3 82.9 + + - +
27B ALA 2.9 1.8 - - - -
28B HIS* 2.6 26.2 + + - +
29B LYS* 2.9 50.8 + - + -
95B GLN* 3.5 27.1 - - - -
98B PHE* 4.3 8.7 - + - -
99B VAL* 6.1 0.9 - - + -
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Residues in contact with PHE 26 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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503A 2CS 5.4 0.9 - - + -
22B GLN* 3.2 27.6 - - - -
23B ASN* 3.1 13.4 + - - +
25B PHE* 1.3 91.3 - + - +
27B ALA* 1.3 57.7 + - - +
28B HIS 3.3 2.9 + - - -
29B LYS 3.5 0.9 + - - -
30B VAL* 3.4 19.8 + - - +
57B ASN* 3.9 12.8 + - + +
60B CYS* 3.7 30.5 - - + -
94B ARG* 3.6 35.9 - - - -
95B GLN* 2.9 28.7 - - - -
98B PHE* 3.4 46.1 - + + -
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Residues in contact with ALA 27 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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112A TYR* 3.9 15.4 - - + +
113A ILE* 2.7 38.8 - - + +
503A 2CS 3.0 50.7 - - + +
23B ASN 3.0 6.3 + - - +
24B GLY 3.6 7.4 - - - +
25B PHE 2.9 0.8 - - - -
26B PHE* 1.3 74.4 - - - +
28B HIS* 1.3 53.7 + - - +
30B VAL* 3.9 2.5 - - - -
31B GLU 3.9 5.7 + - - -
57B ASN* 4.0 0.4 - - - +
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Residues in contact with HIS 28 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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113A ILE* 3.9 9.0 - - + +
116A LYS* 6.0 0.8 + - - -
503A 2CS 3.6 36.6 - + + -
24B GLY 3.1 12.9 + - - +
25B PHE* 2.6 19.8 + + - +
27B ALA* 1.3 71.8 - - - +
29B LYS* 1.3 103.6 + - + +
30B VAL 2.9 4.9 - - - -
31B GLU* 2.9 23.3 + - + +
32B HIS* 3.1 24.6 + + - +
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Residues in contact with LYS 29 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25B PHE* 2.9 39.3 + - + +
26B PHE 3.5 4.9 + - - +
28B HIS* 1.3 110.3 + - + +
30B VAL* 1.3 58.0 + - - +
32B HIS* 3.8 30.5 + - + +
33B GLU* 3.6 16.2 - - - +
53B VAL* 3.2 20.3 - - + +
98B PHE* 4.3 14.6 - - + -
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Residues in contact with VAL 30 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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112A TYR* 3.0 41.1 - - + +
26B PHE 3.4 7.4 + - - +
27B ALA 4.1 1.6 - - - +
28B HIS 2.9 0.6 - - - -
29B LYS* 1.3 79.0 - - - +
31B GLU* 1.3 63.9 + - - +
32B HIS 3.4 0.4 - - - -
33B GLU* 3.8 1.3 + - - -
34B SER* 3.3 20.4 + - - -
42B PHE* 4.4 6.3 - - + -
50B PHE* 4.0 5.5 - - + -
53B VAL* 3.0 26.7 - - + -
54B TYR* 3.6 28.9 - - + -
57B ASN* 3.8 20.6 - - + -
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Residues in contact with GLU 31 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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111A GLY* 3.1 15.2 - - - -
112A TYR* 3.8 22.9 + - - -
113A ILE* 3.1 30.2 - - + +
27B ALA 3.9 0.8 + - - -
28B HIS* 2.9 14.2 + - + +
30B VAL* 1.3 82.5 - - - +
32B HIS* 1.3 65.0 + - + +
33B GLU 3.2 0.2 - - - -
34B SER* 3.1 6.1 + - - -
35B ARG* 2.9 67.8 + - + +
42B PHE* 4.9 0.7 - - - -
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Residues in contact with HIS 32 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28B HIS* 3.1 28.3 + + - +
29B LYS* 3.8 30.4 + - + +
31B GLU* 1.3 79.6 - - + +
33B GLU* 1.3 74.7 + - - +
35B ARG* 3.4 4.8 + - - +
36B THR* 3.1 38.7 + - + +
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Residues in contact with GLU 33 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29B LYS* 3.6 15.9 + - - +
30B VAL 3.8 1.9 + - - +
31B GLU 3.2 0.4 - - - -
32B HIS* 1.3 98.1 + - - +
34B SER* 1.3 59.0 + - - +
35B ARG 3.1 4.9 - - - -
36B THR* 3.3 26.9 + - - +
37B GLN* 4.7 3.5 + - - +
46B GLY* 5.2 1.0 - - - -
49B ALA* 3.5 36.9 - - - +
50B PHE* 3.4 40.5 + - + +
53B VAL* 4.1 10.1 - - + +
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Residues in contact with SER 34 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30B VAL 3.3 13.9 + - - -
31B GLU* 3.1 13.9 + - - -
33B GLU* 1.3 76.6 - - - +
35B ARG* 1.3 62.4 + - - +
37B GLN 4.5 0.9 - - - -
39B GLY* 2.8 40.0 + - - +
42B PHE* 2.8 45.1 - - - -
50B PHE* 3.8 9.8 - - - -
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Residues in contact with ARG 35 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110A PRO* 2.8 30.5 - - - +
111A GLY* 2.9 22.0 - - - +
31B GLU* 2.9 46.2 + - + +
32B HIS* 3.7 6.3 - - - +
33B GLU 3.1 0.2 - - - -
34B SER* 1.3 84.5 + - - +
36B THR* 1.3 52.9 + - + +
37B GLN* 2.4 29.2 + - - +
39B GLY 3.2 16.1 + - - -
40B ARG* 3.8 11.8 - - - +
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Residues in contact with THR 36 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32B HIS* 3.1 22.3 + - - +
33B GLU* 3.3 30.2 + - - +
35B ARG* 1.3 72.5 - - + +
37B GLN* 1.3 74.6 + - - +
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il