Contacts of the helix formed by residues 1 - 31 (chain H) 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 H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2H ARG* 1.3 71.4 + - + +
3H LEU* 3.2 8.8 - - - +
4H LEU* 3.3 42.2 - - + +
5H PHE* 4.1 1.9 + - - +
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Residues in contact with ARG 2 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66G PRO* 4.4 19.0 - - - +
68G GLU* 3.2 27.0 + - - +
69G ARG* 5.3 11.7 - - - +
1H MET* 1.3 78.5 - - + +
3H LEU* 1.3 62.0 + - + +
4H LEU 3.0 2.2 - - - -
5H PHE* 3.1 9.3 + - + +
6H SER* 2.7 30.7 + - - -
163I ARG* 4.7 9.7 - - - +
168I SER* 5.3 5.1 - - - -
169I PRO* 4.4 27.1 - - + +
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Residues in contact with LEU 3 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1H MET 3.2 6.0 - - - +
2H ARG* 1.3 79.8 - - + +
4H LEU* 1.3 58.4 + - + +
6H SER* 4.0 13.5 - - - +
7H ALA* 2.6 40.0 + - + +
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Residues in contact with LEU 4 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1H MET* 3.3 40.4 - - + +
2H ARG 3.0 0.8 - - - -
3H LEU* 1.3 83.1 - - + +
5H PHE* 1.3 56.0 + - - +
7H ALA* 4.1 3.3 - - + +
8H LEU* 2.8 29.1 + - - +
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Residues in contact with PHE 5 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1H MET 4.1 1.3 + - - +
2H ARG* 3.1 11.3 + - + +
4H LEU* 1.3 75.4 - - - +
6H SER* 1.3 64.4 + - - +
7H ALA 3.1 1.6 - - - -
8H LEU* 3.6 18.5 - - + +
9H LEU* 3.1 69.3 + - + +
74I TYR* 5.4 4.9 - + - -
169I PRO* 4.5 12.6 - - + -
170I LEU* 3.4 56.8 - - + -
173I PHE* 4.1 24.2 - + + -
174I PHE* 4.2 9.4 - + - -
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Residues in contact with SER 6 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2H ARG* 2.7 18.2 + - - -
3H LEU* 3.9 16.5 - - - +
5H PHE* 1.3 82.3 - - - +
7H ALA* 1.3 56.8 + - - +
9H LEU* 4.3 5.3 - - - +
10H ALA* 3.3 22.2 + - - +
79I LYS* 3.8 22.6 + - - +
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Residues in contact with ALA 7 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3H LEU* 2.6 24.7 + - + +
4H LEU* 4.1 4.3 - - + +
6H SER* 1.3 73.8 - - - +
8H LEU* 1.3 55.6 + - - +
9H LEU 3.1 1.3 - - - -
10H ALA* 3.5 7.5 - - + +
11H LEU* 2.5 40.3 + - + +
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Residues in contact with LEU 8 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4H LEU 2.8 21.7 + - - +
5H PHE* 3.4 25.8 + - + +
7H ALA* 1.3 76.7 - - - +
9H LEU* 1.3 61.8 + - + +
11H LEU* 3.6 10.6 - - + +
12H LEU* 3.0 53.7 + - + +
174I PHE* 6.5 0.9 - - + -
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Residues in contact with LEU 9 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5H PHE* 3.1 58.9 + - + +
6H SER* 4.3 4.9 - - - +
8H LEU* 1.3 85.2 - - + +
10H ALA* 1.3 56.8 + - - +
12H LEU* 4.7 2.5 - - + -
13H SER* 2.6 36.0 + - - -
71I PRO* 3.7 29.9 - - + +
74I TYR* 4.1 24.5 - - + -
75I ILE* 4.2 16.8 - - + -
79I LYS* 5.9 4.3 - - - +
173I PHE* 5.1 9.6 - - + -
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Residues in contact with ALA 10 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6H SER 3.3 18.8 + - - +
7H ALA* 3.0 8.8 + - + +
9H LEU* 1.3 78.9 - - - +
11H LEU* 1.3 57.3 + - - +
13H SER* 3.0 7.6 + - - -
14H SER* 2.9 31.2 + - - -
75I ILE* 4.2 9.4 - - + +
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Residues in contact with LEU 11 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7H ALA* 2.5 22.3 + - + +
8H LEU* 3.6 10.5 - - + +
10H ALA* 1.3 70.9 - - - +
12H LEU* 1.3 74.2 + - + +
14H SER* 2.6 26.9 + - - +
15H ILE* 3.1 26.6 - - + +
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Residues in contact with LEU 12 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8H LEU* 3.0 37.5 + - + +
9H LEU* 3.9 2.2 - - + +
11H LEU* 1.3 84.4 - - + +
13H SER* 1.3 59.4 + - - +
15H ILE* 3.2 16.9 - - + +
16H ILE* 2.9 18.8 - - - +
67I ILE* 3.5 23.3 - - + +
68I PHE* 3.2 33.6 - - + -
71I PRO* 3.8 21.3 - - + -
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Residues in contact with SER 13 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9H LEU 2.6 23.9 + - - -
10H ALA* 3.0 15.2 + - - -
12H LEU* 1.3 72.4 - - - +
14H SER* 1.3 59.6 + - - +
15H ILE 3.0 5.6 - - - -
16H ILE* 3.1 19.7 - - - +
17H LEU* 3.3 20.8 + - - +
68I PHE 4.0 1.7 + - - -
71I PRO 4.3 0.4 - - - -
72I LEU* 3.4 42.3 - - - +
75I ILE* 3.8 8.1 - - - +
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Residues in contact with SER 14 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10H ALA 2.9 15.3 + - - -
11H LEU* 2.6 30.5 + - - +
13H SER* 1.3 74.3 - - - +
15H ILE* 1.3 63.3 + - - +
17H LEU* 3.8 14.0 - - - +
18H LEU* 3.1 32.0 + - - +
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Residues in contact with ILE 15 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11H LEU* 3.1 35.0 - - + +
12H LEU* 3.2 11.2 - - + +
13H SER 3.0 0.6 - - - -
14H SER* 1.3 78.1 - - - +
16H ILE* 1.3 58.1 + - - +
17H LEU 2.9 3.1 - - - -
18H LEU* 2.6 35.3 + - + +
19H PHE* 2.8 13.3 + - + +
68I PHE* 3.5 29.8 - - + -
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Residues in contact with ILE 16 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12H LEU 2.9 26.9 - - - +
13H SER* 3.1 19.3 - - - +
15H ILE* 1.3 73.6 - - - +
17H LEU* 1.3 60.6 + - - +
18H LEU 3.3 0.2 - - - -
19H PHE* 3.6 17.7 - - + -
20H VAL* 3.0 28.4 + - - +
64I ILE* 5.8 1.3 - - + +
65I ALA* 5.8 2.7 - - - -
68I PHE* 3.1 44.6 - - + +
69I GLY* 4.0 5.6 - - - +
72I LEU* 4.7 9.2 - - + -
136I LEU* 4.8 6.3 - - + -
140I VAL* 3.8 39.2 - - + +
144I ILE* 5.6 0.4 - - + -
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Residues in contact with LEU 17 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13H SER* 3.3 23.4 + - - +
14H SER* 3.8 11.4 - - - +
15H ILE 2.8 0.8 + - - -
16H ILE* 1.3 80.6 - - - +
18H LEU* 1.3 59.7 + - + +
20H VAL* 5.0 0.2 - - - -
21H LEU* 2.9 28.6 + - - +
72I LEU* 4.0 12.8 - - + -
87I VAL* 3.8 40.4 - - + +
90I ILE* 3.5 43.2 - - + +
91I VAL* 4.1 12.6 - - + -
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Residues in contact with LEU 18 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14H SER* 3.1 17.7 - - - +
15H ILE* 2.6 19.9 + - + +
17H LEU* 1.3 73.5 - - + +
19H PHE* 1.3 60.4 + - - +
21H LEU* 2.8 15.4 + - + -
22H LEU* 2.5 46.3 + - + +
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Residues in contact with PHE 19 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15H ILE* 2.8 9.7 + - + +
16H ILE* 3.5 21.5 - - + +
18H LEU* 1.3 77.0 - - - +
20H VAL* 1.3 68.2 + - + +
22H LEU* 5.0 2.2 - - - -
23H PRO* 2.9 29.1 - - - +
106I LEU* 4.5 3.1 - - + -
110I PHE* 4.3 13.5 - + - -
133I VAL* 3.2 55.9 - - + -
136I LEU* 3.3 31.9 - - + -
137I PHE* 3.2 33.4 - + + -
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Residues in contact with VAL 20 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16H ILE 3.0 18.0 + - - +
17H LEU 4.1 2.7 - - - +
19H PHE* 1.3 89.0 - - + +
21H LEU* 1.3 57.8 + - - +
23H PRO* 4.0 0.6 - - - +
24H VAL* 3.4 22.9 - - - +
90I ILE* 3.4 20.2 - - + +
91I VAL* 5.1 3.4 - - - +
93I LEU* 3.4 4.5 - - + +
94I PRO* 3.2 36.3 - - + -
137I PHE* 3.4 17.9 - - + -
140I VAL* 4.4 23.8 - - + -
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Residues in contact with LEU 21 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17H LEU 2.9 18.5 + - - +
18H LEU* 2.8 17.4 + - + +
20H VAL* 1.3 78.8 - - - +
22H LEU* 1.3 67.5 + - - +
23H PRO 3.3 0.7 - - - -
24H VAL* 3.3 3.4 + - + +
25H ALA* 2.7 43.7 + - + +
90I ILE* 3.9 25.6 - - + -
93I LEU* 3.8 19.7 - - + -
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Residues in contact with LEU 22 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18H LEU* 2.5 28.2 + - + +
19H PHE* 4.4 1.6 - - - +
21H LEU* 1.3 73.4 - - - +
23H PRO* 1.3 63.3 - - + +
25H ALA* 4.2 4.3 - - + -
26H ALA* 2.6 48.1 + - + +
109I VAL* 3.9 11.7 - - + -
110I PHE* 6.2 0.2 - - + -
115I LEU* 5.0 15.0 - - + -
116I ILE* 3.9 30.3 - - + -
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Residues in contact with PRO 23 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19H PHE 2.9 28.0 - - - +
20H VAL 4.0 7.9 - - - +
22H LEU* 1.3 89.9 - - + +
24H VAL* 1.3 71.6 + - - +
25H ALA 2.9 0.2 + - - -
26H ALA 3.0 4.7 + - - -
27H THR* 2.9 22.9 + - - +
105I ALA* 3.4 27.8 - - + +
106I LEU* 3.9 21.1 - - + +
109I VAL* 3.3 21.5 - - + -
110I PHE* 5.5 2.5 - - + -
137I PHE* 4.2 8.1 - - + -
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Residues in contact with VAL 24 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20H VAL 3.4 21.8 - - - +
21H LEU* 3.3 3.6 + - + +
23H PRO* 1.3 74.4 - - + +
25H ALA* 1.3 66.3 + - - +
27H THR* 3.5 2.4 + - - -
28H VAL* 3.3 24.3 + - + +
237H ILE* 3.5 37.5 - - + -
241H LEU* 5.5 2.2 - - + -
93I LEU* 4.0 18.8 - - + -
97I ILE* 3.3 32.3 - - + -
102I ALA* 6.5 0.2 - - - -
105I ALA* 3.9 6.0 - - + +
137I PHE* 3.8 12.6 - - + -
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Residues in contact with ALA 25 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21H LEU* 2.7 44.6 + - + +
22H LEU* 3.3 6.1 - - + +
23H PRO 2.9 0.6 + - - -
24H VAL* 1.3 73.7 - - - +
26H ALA* 1.3 65.3 + - - +
28H VAL* 2.9 10.6 + - - +
29H THR* 2.9 25.3 + - - +
----------------------------------------------------------
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Residues in contact with ALA 26 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22H LEU* 2.6 31.2 + - + +
23H PRO 3.0 2.9 + - - +
25H ALA* 1.3 71.7 - - - +
27H THR* 1.3 55.9 + - - +
29H THR* 2.7 32.1 + - - -
30H LEU* 2.9 22.1 + - + +
108I VAL* 4.6 7.4 - - + +
109I VAL* 4.3 14.4 - - + -
115I LEU* 5.8 7.4 - - + -
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Residues in contact with THR 27 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23H PRO 2.9 17.9 + - - +
24H VAL 3.5 0.4 + - - +
26H ALA* 1.3 74.2 - - - +
28H VAL* 1.3 65.0 + - - +
30H LEU* 3.7 2.9 + - - +
31H GLN* 3.3 27.8 + - - +
230H MET* 4.3 15.4 - - - +
233H ALA* 5.0 2.2 - - - +
234H ALA* 4.2 8.7 + - - +
237H ILE* 3.4 21.3 - - - +
104I ILE* 5.5 3.8 - - - -
105I ALA* 3.3 38.6 - - + +
108I VAL* 4.0 16.4 - - + +
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Residues in contact with VAL 28 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24H VAL* 3.3 16.4 + - + +
25H ALA* 2.9 6.8 + - - +
27H THR* 1.3 77.9 - - - +
29H THR* 1.3 70.1 + - - +
31H GLN* 3.2 14.7 + - + +
32H LEU* 4.7 3.5 - - - +
234H ALA* 4.1 13.2 - - + -
237H ILE* 3.9 27.4 - - + -
238H LEU* 3.3 37.9 - - + -
241H LEU* 6.3 0.2 - - + -
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Residues in contact with THR 29 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25H ALA* 2.9 18.7 + - - +
26H ALA* 2.7 18.9 + - - -
28H VAL* 1.3 73.4 - - - +
30H LEU* 1.3 65.0 + - + +
31H GLN 2.6 13.0 + - - -
32H LEU* 2.9 34.8 + - + +
33H PHE* 4.9 8.7 - - + -
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Residues in contact with LEU 30 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26H ALA* 2.9 19.5 + - + +
27H THR 4.1 4.0 - - - +
29H THR* 1.3 84.4 - - + +
31H GLN* 1.3 60.0 + - - +
32H LEU 2.8 8.5 + - - -
33H PHE* 3.1 44.5 + - + +
34H ASN* 3.7 8.3 + - - +
230H MET* 4.1 14.6 - - + -
108I VAL* 3.7 29.2 - - + -
114I GLY* 6.1 2.7 - - - -
115I LEU* 6.5 0.9 - - + -
----------------------------------------------------------
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Residues in contact with GLN 31 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27H THR 3.3 17.0 + - - +
28H VAL* 3.3 12.3 - - + +
29H THR 2.6 6.6 + - - -
30H LEU* 1.3 75.8 + - - +
32H LEU* 1.3 59.3 + - - -
34H ASN* 4.1 11.0 + - - +
35H PHE* 3.5 26.0 + - - -
38H PHE* 3.5 34.3 + - + +
230H MET* 3.6 31.1 - - - +
231H PRO* 3.4 29.5 - - - +
234H ALA* 3.4 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