Contacts of the helix formed by residues 1 - 31 (chain I) in PDB entry 2ONK
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 MET 1 (chain I).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69F ARG* 6.2 3.8 - - - +
2I ARG* 1.3 70.5 + - + +
3I LEU* 3.3 8.6 - - - +
4I LEU* 3.3 41.3 - - + +
5I PHE* 4.1 1.9 + - - +
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Residues in contact with ARG 2 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49F LYS* 6.2 1.8 - - - +
66F PRO* 2.4 52.8 - - - +
68F GLU* 2.4 35.1 + - - +
69F ARG* 4.6 8.5 - - - +
163H ARG* 3.8 9.8 - - - +
168H SER* 5.2 1.9 - - - -
169H PRO* 4.1 27.1 - - + +
1I MET* 1.3 78.3 - - + +
3I LEU* 1.3 62.2 + - + +
4I LEU 3.0 2.5 - - - -
5I PHE* 3.1 8.9 + - + +
6I SER* 2.8 30.8 + - - -
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Residues in contact with LEU 3 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1I MET 3.3 5.9 - - - +
2I ARG* 1.3 79.3 - - + +
4I LEU* 1.3 58.9 + - + +
6I SER* 3.6 13.2 - - - +
7I ALA* 2.7 39.1 + - + +
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Residues in contact with LEU 4 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1I MET* 3.3 41.3 - - + +
2I ARG 3.0 0.4 - - - -
3I LEU* 1.3 83.5 - - + +
5I PHE* 1.3 56.8 + - - +
7I ALA* 4.2 3.4 - - + +
8I LEU* 2.8 29.0 + - - +
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Residues in contact with PHE 5 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74H TYR* 5.4 4.0 - + - -
169H PRO* 3.9 26.5 - - + -
170H LEU* 3.4 53.6 - - + +
173H PHE* 3.6 34.3 - + + -
174H PHE* 4.2 2.2 - + - -
1I MET 4.1 1.5 + - - +
2I ARG* 3.1 11.3 + - - +
4I LEU* 1.3 75.4 - - - +
6I SER* 1.3 68.2 + - - +
7I ALA 3.1 2.2 - - - -
8I LEU* 3.6 17.2 - - + +
9I LEU* 3.0 64.1 + - + +
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Residues in contact with SER 6 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75H ILE* 5.5 0.9 - - - +
79H LYS* 3.9 23.3 + - - +
2I ARG* 2.8 18.0 + - - -
3I LEU* 3.9 17.8 - - - +
5I PHE* 1.3 82.8 - - - +
7I ALA* 1.3 57.0 + - - +
9I LEU* 4.3 5.5 - - - +
10I ALA* 3.3 21.4 + - - +
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Residues in contact with ALA 7 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3I LEU* 2.7 24.3 + - + +
4I LEU* 4.2 4.0 - - + +
6I SER* 1.3 73.8 - - - +
8I LEU* 1.3 56.3 + - - +
9I LEU 3.1 1.8 - - - -
10I ALA* 3.5 6.5 - - - +
11I LEU* 2.5 40.0 + - + +
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Residues in contact with LEU 8 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170H LEU* 5.8 2.0 - - + -
174H PHE* 6.2 3.4 - - + -
4I LEU 2.8 21.2 + - - +
5I PHE* 3.6 24.9 - - + +
7I ALA* 1.3 76.4 - - - +
9I LEU* 1.3 61.5 + - + +
11I LEU* 3.6 10.7 - - + +
12I LEU* 3.0 52.9 + - + +
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Residues in contact with LEU 9 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71H PRO* 3.7 29.8 - - + +
74H TYR* 4.1 24.7 - - + -
75H ILE* 4.2 15.5 - - + -
79H LYS* 5.9 4.5 - - - +
173H PHE* 4.7 13.0 - - + -
5I PHE* 3.0 60.2 + - + +
6I SER* 4.3 4.7 - - - +
8I LEU* 1.3 85.0 - - + +
10I ALA* 1.3 57.1 + - - +
12I LEU* 3.5 2.6 + - + -
13I SER* 2.6 36.5 + - - -
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Residues in contact with ALA 10 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75H ILE* 4.2 9.8 - - + +
6I SER 3.3 18.0 + - - +
7I ALA* 3.0 9.3 + - - +
9I LEU* 1.3 78.1 - - - +
11I LEU* 1.3 57.3 + - - +
13I SER* 3.0 8.6 + - - -
14I SER* 2.9 31.1 + - - -
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Residues in contact with LEU 11 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7I ALA* 2.5 22.1 + - + +
8I LEU* 3.6 12.3 - - + +
10I ALA* 1.3 70.3 - - - +
12I LEU* 1.3 74.4 + - + +
14I SER* 2.6 26.5 + - - +
15I ILE* 3.1 26.9 - - + +
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Residues in contact with LEU 12 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67H ILE* 3.5 24.2 - - + +
68H PHE* 3.2 38.6 - - + -
71H PRO* 3.7 21.3 - - + -
8I LEU* 3.0 37.3 + - + +
9I LEU* 3.9 3.1 - - + +
11I LEU* 1.3 85.3 - - + +
13I SER* 1.3 59.4 + - - +
15I ILE* 3.2 10.1 + - + -
16I ILE* 2.9 19.2 - - - +
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Residues in contact with SER 13 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68H PHE 3.9 1.5 + - - -
71H PRO 4.2 0.4 - - - -
72H LEU* 3.4 42.6 - - - +
75H ILE* 3.7 7.7 - - - +
9I LEU 2.6 24.5 + - - -
10I ALA* 3.0 15.2 + - - -
12I LEU* 1.3 72.0 - - - +
14I SER* 1.3 59.2 + - - +
15I ILE 3.0 4.9 - - - -
16I ILE* 3.1 20.8 - - - +
17I LEU* 3.3 20.7 + - - +
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Residues in contact with SER 14 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10I ALA 2.9 16.3 + - - -
11I LEU* 2.6 31.0 + - - +
13I SER* 1.3 73.4 + - - +
15I ILE* 1.3 63.3 + - - +
17I LEU* 3.8 14.0 - - - +
18I LEU* 3.1 32.9 + - - +
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Residues in contact with ILE 15 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68H PHE* 3.4 30.1 - - + -
11I LEU* 3.1 35.0 - - + +
12I LEU* 3.2 10.5 - - + +
13I SER 3.0 0.6 - - - -
14I SER* 1.3 77.2 - - - +
16I ILE* 1.3 58.2 + - - +
17I LEU 2.9 3.1 - - - -
18I LEU* 2.6 34.7 + - + +
19I PHE* 2.8 13.3 + - + -
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Residues in contact with ILE 16 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64H ILE* 5.7 2.2 - - + +
65H ALA* 5.7 3.4 - - - -
68H PHE* 2.9 47.1 - - + +
69H GLY* 4.0 5.4 - - - +
72H LEU* 4.6 6.7 - - + -
136H LEU* 5.3 4.3 - - + -
140H VAL* 3.6 40.1 - - + +
144H ILE* 5.0 4.5 - - + -
12I LEU 2.9 26.5 - - - +
13I SER* 3.1 18.8 - - - +
15I ILE* 1.3 73.0 - - - +
17I LEU* 1.3 60.2 + - - +
19I PHE* 3.6 15.9 - - + -
20I VAL* 3.0 28.2 + - - +
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Residues in contact with LEU 17 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72H LEU* 3.9 14.8 - - + -
87H VAL* 3.8 44.6 - - + +
90H ILE* 3.6 36.2 - - + +
91H VAL* 4.0 12.8 - - + -
13I SER* 3.3 23.4 + - - +
14I SER* 3.8 13.0 - - - +
15I ILE 2.8 0.8 + - - -
16I ILE* 1.3 79.8 - - - +
18I LEU* 1.3 59.3 + - + +
20I VAL* 5.0 0.4 - - + -
21I LEU* 3.0 30.0 + - - +
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Residues in contact with LEU 18 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14I SER* 3.1 17.5 - - - +
15I ILE* 2.6 20.9 + - + +
17I LEU* 1.3 73.0 - - + +
19I PHE* 1.3 60.4 + - - +
21I LEU* 2.8 14.3 + - + -
22I LEU* 2.5 47.2 + - + +
----------------------------------------------------------
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Residues in contact with PHE 19 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106H LEU* 4.6 2.5 - - + -
110H PHE* 4.1 28.5 - + - -
133H VAL* 3.6 35.0 - - + -
136H LEU* 3.4 33.7 - - + -
137H PHE* 3.3 35.0 - + + -
140H VAL* 4.3 0.9 - - + -
15I ILE* 2.8 10.2 + - + +
16I ILE* 3.5 23.6 - - + +
18I LEU* 1.3 76.0 - - - +
20I VAL* 1.3 68.6 + - + +
22I LEU* 5.0 2.5 - - - -
23I PRO* 2.9 28.1 - - - +
----------------------------------------------------------
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Residues in contact with VAL 20 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90H ILE* 3.3 20.4 - - + +
91H VAL* 5.5 3.4 - - - +
93H LEU* 3.5 4.9 - - + +
94H PRO* 3.3 36.8 - - + -
137H PHE* 3.6 16.4 - - + +
140H VAL* 4.1 24.2 - - + -
16I ILE 3.0 18.6 + - - +
17I LEU* 4.1 2.7 - - - +
19I PHE* 1.3 89.7 - - + +
21I LEU* 1.3 60.5 + - - +
23I PRO* 4.3 0.2 - - - -
24I VAL* 3.4 20.6 - - - +
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Residues in contact with LEU 21 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90H ILE* 3.9 26.0 - - + -
93H LEU* 3.8 20.4 - - + -
17I LEU 3.0 17.8 + - - +
18I LEU* 2.8 18.3 + - + +
20I VAL* 1.3 79.7 - - - +
22I LEU* 1.3 67.7 + - - +
23I PRO 3.3 0.5 - - - -
24I VAL* 3.4 3.4 + - + +
25I ALA* 2.7 42.2 + - + +
----------------------------------------------------------
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Residues in contact with LEU 22 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109H VAL* 4.1 7.2 - - + -
115H LEU* 4.0 26.5 - - + -
116H ILE* 3.3 37.7 - - + -
18I LEU* 2.5 28.3 + - + +
19I PHE* 4.5 1.8 - - - +
21I LEU* 1.3 71.1 - - - +
23I PRO* 1.3 63.7 - - + +
25I ALA* 4.2 4.0 - - + -
26I ALA* 2.6 41.9 + - + +
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Residues in contact with PRO 23 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105H ALA* 3.5 26.2 - - + +
106H LEU* 3.9 16.8 - - + +
109H VAL* 3.7 18.5 - - + -
110H PHE* 5.6 3.8 - - + -
137H PHE* 3.9 19.7 - - + -
19I PHE* 2.9 29.6 - - - +
20I VAL 4.1 2.0 - - - +
22I LEU* 1.3 91.0 - - + +
24I VAL* 1.3 70.5 + - - +
26I ALA* 2.9 4.9 + - - +
27I THR* 2.9 21.8 + - - +
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Residues in contact with VAL 24 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93H LEU* 3.9 20.2 - - + -
97H ILE* 3.3 36.8 - - + -
105H ALA* 4.0 6.0 - - + +
137H PHE* 3.8 14.1 - - + -
20I VAL 3.4 21.8 - - - +
21I LEU* 3.4 3.6 + - + +
23I PRO* 1.3 75.0 - - - +
25I ALA* 1.3 66.7 + - - +
27I THR* 3.6 2.9 + - - -
28I VAL* 3.3 23.7 + - + +
237I ILE* 3.6 31.9 - - + -
241I LEU* 5.6 1.6 - - + -
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Residues in contact with ALA 25 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21I LEU* 2.7 44.4 + - + +
22I LEU* 3.3 5.8 - - + +
23I PRO 2.9 0.2 + - - -
24I VAL* 1.3 73.4 - - - +
26I ALA* 1.3 65.8 + - - +
28I VAL* 3.0 9.6 + - - +
29I THR* 2.9 24.8 + - - +
----------------------------------------------------------
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Residues in contact with ALA 26 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108H VAL* 4.7 7.0 - - + -
109H VAL* 4.2 16.6 - - + -
115H LEU* 4.3 19.7 - - + -
22I LEU* 2.6 26.2 + - + +
23I PRO 2.9 3.1 + - - +
25I ALA* 1.3 71.5 - - - +
27I THR* 1.3 56.0 + - - +
29I THR* 2.7 31.3 + - - -
30I LEU* 2.9 22.0 + - + +
----------------------------------------------------------
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Residues in contact with THR 27 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104H ILE* 5.6 3.4 - - - -
105H ALA* 3.2 39.5 - - + +
108H VAL* 4.0 17.0 - - + +
23I PRO 2.9 19.0 + - - +
26I ALA* 1.3 75.1 - - - +
28I VAL* 1.3 63.3 + - - +
30I LEU* 3.8 2.0 + - - +
31I GLN* 3.3 28.3 + - - +
230I MET* 4.4 14.1 - - - -
233I ALA* 5.0 3.6 - - - +
234I ALA* 4.3 7.9 + - - +
237I ILE* 3.4 22.2 - - - +
----------------------------------------------------------
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Residues in contact with VAL 28 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24I VAL* 3.3 16.4 - - + +
25I ALA* 3.0 8.1 + - - +
27I THR* 1.3 74.3 + - - +
29I THR* 1.3 71.0 + - - +
31I GLN* 3.2 14.3 + - + +
32I LEU* 4.6 3.6 - - - +
234I ALA* 4.2 13.2 - - + -
237I ILE* 3.8 33.4 - - + -
238I LEU* 3.4 36.3 - - + -
241I LEU* 6.3 0.2 - - + -
----------------------------------------------------------
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Residues in contact with THR 29 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25I ALA* 2.9 18.1 + - - +
26I ALA* 2.7 18.7 + - - -
28I VAL* 1.3 73.0 - - - +
30I LEU* 1.3 65.2 + - + +
31I GLN 2.6 13.0 + - - -
32I LEU* 2.9 34.1 + - + +
33I PHE* 4.9 8.7 - - + -
----------------------------------------------------------
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Residues in contact with LEU 30 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108H VAL* 3.7 31.4 - - + +
115H LEU* 5.8 12.3 - - + -
26I ALA* 2.9 19.6 + - + +
27I THR 4.1 4.0 - - - +
29I THR* 1.3 83.9 - - + +
31I GLN* 1.3 60.8 + - - +
32I LEU 2.8 7.8 + - - -
33I PHE* 3.1 44.2 + - + +
34I ASN* 3.7 8.3 + - - +
230I MET* 4.2 13.2 - - + -
----------------------------------------------------------
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Residues in contact with GLN 31 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27I THR 3.3 17.8 + - - +
28I VAL* 3.2 12.5 + - + +
29I THR 2.6 7.2 + - - -
30I LEU* 1.3 76.4 + - - +
32I LEU* 1.3 59.9 + - - -
34I ASN* 4.1 11.6 + - - +
35I PHE* 3.5 25.5 - - - -
38I PHE* 3.5 35.8 + - + +
230I MET* 3.6 31.7 - - - +
231I PRO* 3.5 25.7 - - - +
234I ALA* 3.3 23.1 - - + -
----------------------------------------------------------
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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