Contacts of the helix formed by residues 6 - 45 (chain C) in PDB entry 1QL2
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 6 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4C ASP* 3.1 22.8 + - - +
5C THR* 1.3 79.0 - - - +
7C ALA* 1.3 65.4 + - - +
9C GLU* 3.4 20.2 + - - +
10C SER* 3.8 5.4 + - - -
----------------------------------------------------------
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Residues in contact with ALA 7 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4C ASP 5.0 0.4 + - - -
6C SER* 1.3 76.7 - - - +
8C VAL* 1.3 62.5 + - + +
10C SER* 3.0 12.2 + - - +
11C ALA* 2.8 30.3 + - - +
----------------------------------------------------------
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Residues in contact with VAL 8 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4C ASP 4.9 3.4 - - - +
5C THR* 3.3 30.9 + - + -
6C SER 3.3 0.4 - - - -
7C ALA* 1.3 79.9 - - + +
9C GLU* 1.3 64.8 + - - +
11C ALA* 3.3 19.8 - - + +
12C ILE* 3.4 17.4 - - + +
----------------------------------------------------------
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Residues in contact with GLU 9 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5C THR* 3.0 37.6 + - + +
6C SER* 3.5 11.9 - - - +
7C ALA 3.2 0.8 - - - -
8C VAL* 1.3 76.3 - - - +
10C SER* 1.3 64.2 + - - +
12C ILE* 3.0 27.3 + - - +
13C THR* 4.1 2.8 + - - -
----------------------------------------------------------
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Residues in contact with SER 10 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6C SER 3.8 3.7 + - - -
7C ALA* 3.0 21.7 + - - -
9C GLU* 1.3 78.3 - - - +
11C ALA* 1.3 56.7 + - - +
13C THR* 2.8 35.2 + - - -
14C ASP* 3.5 8.3 + - - +
----------------------------------------------------------
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Residues in contact with ALA 11 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7C ALA 2.8 18.7 + - - +
8C VAL* 3.3 19.5 - - + +
10C SER* 1.3 77.9 + - - +
12C ILE* 1.3 57.8 + - + +
14C ASP* 2.9 42.4 + - - +
15C GLY 3.6 2.6 + - - -
----------------------------------------------------------
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Residues in contact with ILE 12 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8C VAL* 3.4 22.0 - - + +
9C GLU* 3.0 12.8 + - - +
11C ALA* 1.3 76.5 - - + +
13C THR* 1.3 60.7 + - - +
14C ASP 3.4 0.2 + - - -
15C GLY* 3.4 3.7 + - - +
16C GLN* 3.1 34.1 + - + +
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Residues in contact with THR 13 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C GLU 4.6 1.0 + - - -
10C SER* 2.8 21.2 + - - -
12C ILE* 1.3 76.8 - - - +
14C ASP* 1.3 65.5 + - - +
16C GLN* 3.1 33.7 + - + +
17C GLY* 3.1 11.1 + - - -
20C LYS* 5.1 4.7 - - - +
----------------------------------------------------------
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Residues in contact with ASP 14 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10C SER* 3.5 8.3 - - - +
11C ALA* 2.9 31.4 + - - +
13C THR* 1.3 79.7 - - - +
15C GLY* 1.3 59.8 + - - +
17C GLY* 3.6 5.9 + - - -
18C ASP* 3.1 15.3 + - - +
----------------------------------------------------------
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Residues in contact with GLY 15 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11C ALA 3.6 2.8 + - - -
12C ILE 3.4 5.9 + - - -
13C THR 3.3 0.2 - - - -
14C ASP* 1.3 77.4 - - - +
16C GLN* 1.3 58.0 + - - +
18C ASP* 2.8 30.5 + - - +
19C MET* 3.1 17.2 + - - +
----------------------------------------------------------
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Residues in contact with GLN 16 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12C ILE* 3.1 28.0 + - + +
13C THR* 3.1 32.5 + - + +
15C GLY* 1.3 75.7 - - - +
17C GLY* 1.3 64.6 + - - +
19C MET* 2.9 24.7 + - + +
20C LYS* 2.9 33.0 + - + +
----------------------------------------------------------
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Residues in contact with GLY 17 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13C THR 3.1 9.7 + - - -
14C ASP 3.6 3.1 + - - -
15C GLY 3.2 0.8 + - - -
16C GLN* 1.3 77.9 - - - +
18C ASP* 1.3 51.8 + - - +
20C LYS* 3.2 22.2 + - - +
21C ALA* 2.7 36.0 + - - +
----------------------------------------------------------
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Residues in contact with ASP 18 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14C ASP 3.1 20.1 - - - +
15C GLY* 2.8 14.1 + - - +
17C GLY* 1.3 74.3 - - - +
19C MET* 1.3 58.7 + - + +
21C ALA* 3.9 8.4 - - - +
22C ILE* 3.0 45.5 + - + +
----------------------------------------------------------
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Residues in contact with MET 19 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15C GLY 3.1 14.0 + - - +
16C GLN* 2.9 17.3 + - + +
18C ASP* 1.3 79.3 - - - +
20C LYS* 1.3 63.9 + - + +
22C ILE* 4.6 7.5 - - - +
23C GLY* 3.8 12.3 + - - -
----------------------------------------------------------
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Residues in contact with LYS 20 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13C THR* 4.9 5.9 + - - +
16C GLN* 2.9 46.4 + - - +
17C GLY* 3.4 18.4 - - - +
19C MET* 1.3 78.2 - - + +
21C ALA* 1.3 64.1 + - - +
23C GLY* 3.5 8.0 + - - -
24C GLY* 3.8 6.4 + - - -
----------------------------------------------------------
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Residues in contact with ALA 21 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C GLY 2.7 17.6 + - - +
18C ASP* 3.3 13.0 + - - +
20C LYS* 1.3 75.1 - - - +
22C ILE* 1.3 66.0 + - + +
23C GLY 3.4 0.3 + - - -
24C GLY* 3.4 7.8 + - - -
25C TYR* 3.2 27.5 - - + -
----------------------------------------------------------
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Residues in contact with ILE 22 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C ASP* 3.0 27.0 + - + +
19C MET* 4.6 7.9 - - - +
21C ALA* 1.3 74.2 - - + +
23C GLY* 1.3 65.4 + - - +
25C TYR* 3.1 20.4 + - + +
26C ILE* 3.3 27.6 + - + +
----------------------------------------------------------
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Residues in contact with GLY 23 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19C MET 3.8 7.5 + - - -
20C LYS 3.5 7.2 + - - -
21C ALA 3.2 1.6 - - - -
22C ILE* 1.3 77.3 - - - +
24C GLY* 1.3 62.9 + - - +
25C TYR 3.1 0.5 + - - -
26C ILE* 3.2 8.0 + - - +
27C VAL* 2.8 35.4 + - - +
----------------------------------------------------------
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Residues in contact with GLY 24 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20C LYS 3.8 6.0 + - - -
21C ALA 3.4 7.9 + - - -
22C ILE 3.3 1.2 + - - -
23C GLY* 1.3 74.1 - - - +
25C TYR* 1.3 57.1 + - - +
27C VAL* 3.7 5.7 - - - +
28C GLY* 2.8 26.7 + - - -
----------------------------------------------------------
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Residues in contact with TYR 25 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C ALA* 3.2 32.8 - - + -
22C ILE* 3.1 11.0 + - + +
24C GLY* 1.3 73.0 - - - +
26C ILE* 1.3 68.8 - - + +
28C GLY* 3.2 3.8 + - - -
29C ALA* 3.1 19.9 + - - +
----------------------------------------------------------
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Residues in contact with ILE 26 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22C ILE* 3.4 30.3 - - + +
23C GLY* 3.2 7.4 + - - +
25C TYR* 1.3 77.7 - - + +
27C VAL* 1.3 57.2 + - + +
29C ALA* 2.8 28.4 + - + +
30C LEU* 2.8 36.2 + - + +
----------------------------------------------------------
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Residues in contact with VAL 27 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23C GLY* 2.8 26.5 + - - +
24C GLY* 3.9 5.8 - - - +
26C ILE* 1.3 75.3 - - + +
28C GLY* 1.3 61.9 + - - +
30C LEU* 3.5 22.2 - - + +
31C VAL* 3.1 30.1 + - + +
----------------------------------------------------------
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Residues in contact with GLY 28 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C GLY 2.8 19.0 + - - -
25C TYR* 3.2 3.8 + - - -
26C ILE 3.1 0.4 - - - -
27C VAL* 1.3 78.5 - - - +
29C ALA* 1.3 60.1 + - - +
31C VAL* 3.4 20.3 - - - +
32C ILE* 3.5 10.4 - - - +
----------------------------------------------------------
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Residues in contact with ALA 29 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C TYR 3.1 9.6 + - - +
26C ILE* 2.8 13.4 + - + +
28C GLY* 1.3 72.8 - - - +
30C LEU* 1.3 71.0 + - + +
31C VAL 3.0 1.3 - - - -
32C ILE* 2.8 27.3 + - - +
33C LEU* 3.4 10.4 - - + +
----------------------------------------------------------
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Residues in contact with LEU 30 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26C ILE* 2.8 32.2 + - + +
27C VAL* 3.4 36.5 + - + +
29C ALA* 1.3 77.4 - - + +
31C VAL* 1.3 63.9 + - + +
33C LEU* 2.9 34.7 + - + +
34C ALA* 3.6 3.1 + - - +
----------------------------------------------------------
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Residues in contact with VAL 31 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27C VAL* 3.1 23.6 + - + +
28C GLY* 3.4 15.0 - - - +
29C ALA 2.9 0.4 + - - -
30C LEU* 1.3 76.3 - - + +
32C ILE* 1.3 66.5 + - + +
34C ALA* 2.9 21.5 + - + +
35C VAL* 3.1 22.4 + - + +
----------------------------------------------------------
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Residues in contact with ILE 32 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C GLY 3.5 15.0 - - - +
29C ALA* 2.8 26.3 + - - +
31C VAL* 1.3 74.5 - - + +
33C LEU* 1.3 62.5 + - + +
35C VAL* 3.0 8.4 + - + +
36C ALA* 2.7 46.1 + - + +
----------------------------------------------------------
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Residues in contact with LEU 33 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29C ALA 3.4 15.0 - - - +
30C LEU* 3.1 27.8 - - + +
32C ILE* 1.3 83.8 - - + +
34C ALA* 1.3 55.8 + - - +
36C ALA* 4.7 2.7 - - - -
37C GLY* 2.9 28.3 + - - +
----------------------------------------------------------
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Residues in contact with ALA 34 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30C LEU 3.6 2.1 + - - +
31C VAL* 2.9 18.0 + - + +
33C LEU* 1.3 79.1 - - - +
35C VAL* 1.3 60.4 + - + +
38C LEU* 2.9 40.1 - - + +
----------------------------------------------------------
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Residues in contact with VAL 35 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31C VAL* 3.4 26.2 - - + +
32C ILE* 3.0 9.3 + - + +
34C ALA* 1.3 77.6 - - + +
36C ALA* 1.3 56.1 + - - +
38C LEU* 2.9 6.7 + - - +
39C ILE* 2.8 58.5 + - + +
----------------------------------------------------------
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Residues in contact with ALA 36 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C ILE* 2.7 32.6 + - + +
33C LEU* 4.5 2.5 - - - +
35C VAL* 1.3 75.0 - - - +
37C GLY* 1.3 51.8 + - - +
39C ILE* 3.0 7.7 + - - +
40C TYR* 2.6 40.8 + - + +
----------------------------------------------------------
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Residues in contact with GLY 37 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33C LEU 2.9 20.4 + - - -
36C ALA* 1.3 77.2 - - - +
38C LEU* 1.3 63.4 + - - +
40C TYR* 3.1 26.7 - - - +
41C SER* 3.2 14.6 + - - -
----------------------------------------------------------
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Residues in contact with LEU 38 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34C ALA* 2.9 29.8 - - + +
35C VAL* 2.9 4.9 + - - +
37C GLY* 1.3 82.3 - - - +
39C ILE* 1.3 59.9 + - + +
41C SER* 3.9 9.3 - - - +
42C MET* 2.9 32.2 + - + +
----------------------------------------------------------
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Residues in contact with ILE 39 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C VAL* 2.8 38.7 + - + +
36C ALA* 3.7 6.7 - - - +
38C LEU* 1.3 78.3 - - + +
40C TYR* 1.3 56.6 + - - +
41C SER 3.2 1.6 - - - -
42C MET* 3.3 22.7 - - + -
43C LEU* 2.9 47.4 + - + +
----------------------------------------------------------
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Residues in contact with TYR 40 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38B LEU* 5.1 10.5 - - + +
36C ALA* 2.6 22.2 + - + +
37C GLY* 3.1 17.3 - - - +
39C ILE* 1.3 70.8 - - - +
41C SER* 1.3 60.3 + - - +
43C LEU* 4.1 3.4 + - - +
44C ARG* 3.0 55.2 + - - +
----------------------------------------------------------
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Residues in contact with SER 41 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37C GLY 3.2 12.4 + - - -
38C LEU* 4.0 10.9 - - - +
40C TYR* 1.3 81.4 - - - +
42C MET* 1.3 66.7 + - - +
43C LEU 3.2 0.2 - - - -
44C ARG* 3.0 16.2 + - - +
45C LYS* 2.8 30.5 + - - +
----------------------------------------------------------
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Residues in contact with MET 42 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C LEU* 2.9 28.8 + - + +
39C ILE* 3.1 28.2 + - + +
41C SER* 1.3 75.2 - - - +
43C LEU* 1.3 61.7 + - + +
45C LYS* 4.8 1.3 - - - -
46C ALA* 2.7 55.9 + - + +
----------------------------------------------------------
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Residues in contact with LEU 43 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C ILE* 2.9 28.5 + - + +
40C TYR* 4.6 4.7 - - - +
41C SER 3.2 0.4 - - - -
42C MET* 1.3 78.4 - - + +
44C ARG* 1.3 58.8 + - - +
46C ALA 4.3 7.4 - - - +
----------------------------------------------------------
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Residues in contact with ARG 44 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38B LEU* 4.0 23.6 - - - +
41B SER* 5.4 8.7 + - - -
45B LYS* 6.2 5.2 - - - +
40C TYR* 3.0 48.4 + - - +
41C SER* 3.1 25.1 - - - +
43C LEU* 1.3 77.1 - - - +
45C LYS* 1.3 65.1 + - + +
46C ALA 4.3 2.8 - - - +
----------------------------------------------------------
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Residues in contact with LYS 45 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C SER* 2.8 25.2 + - - +
42C MET* 4.1 1.8 - - - +
44C ARG* 1.3 79.5 - - + +
46C ALA* 1.3 60.9 + - - +
----------------------------------------------------------
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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