Contacts of the helix formed by residues 13 - 41 (chain G) in PDB entry 2FG8
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 13 (chain G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9G ARG* 2.9 10.7 + - - -
11G ASN 3.9 2.8 + - - -
12G TYR* 1.3 72.4 - - - +
14G THR* 1.3 60.7 + - - +
15G ASP* 3.0 8.0 + - - +
16G VAL* 2.8 53.2 + - - +
17G GLU 3.4 2.1 + - - -
124G ARG* 3.6 32.4 + - - -
126G ASP* 4.5 1.8 + - - -
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Residues in contact with THR 14 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9G ARG* 3.4 15.0 - - - +
12G TYR 3.6 0.4 + - - -
13G SER* 1.3 73.0 - - - +
15G ASP* 1.3 72.8 + - - +
17G GLU* 4.0 6.9 + - - +
18G ALA* 3.6 17.2 + - - +
124G ARG* 6.0 0.2 - - - +
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Residues in contact with ASP 15 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13G SER* 3.0 0.8 + - - -
14G THR* 1.3 93.2 + - - +
16G VAL* 1.3 54.6 + - - +
17G GLU 3.2 0.9 - - - -
18G ALA* 3.1 8.8 + - - +
19G ALA* 2.7 34.8 + - - +
120G LEU* 4.3 10.7 - - + +
124G ARG* 2.6 47.5 + - - +
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Residues in contact with VAL 16 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12G TYR* 3.6 24.0 - - + +
13G SER* 2.8 44.9 + - - +
15G ASP* 1.3 72.5 - - - +
17G GLU* 1.3 67.8 + - - +
19G ALA* 2.9 8.1 + - + +
20G VAL* 2.9 31.9 + - + +
117G LEU* 5.0 1.1 - - + -
120G LEU* 4.3 9.6 - - + -
121G GLY* 4.0 18.4 - - - +
124G ARG* 4.8 3.4 - - + -
126G ASP* 4.3 5.8 - - - +
129G LEU* 3.4 30.3 - - + -
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Residues in contact with GLU 17 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9G ARG* 2.5 42.9 + - - +
12G TYR* 3.7 21.5 - - + -
13G SER 3.4 1.5 + - - +
14G THR* 4.0 7.3 + - - +
16G VAL* 1.3 84.7 - - - +
18G ALA* 1.3 62.5 + - - +
21G ASN* 3.2 20.6 + - - +
73G GLN* 3.2 31.3 + - - +
78G GLY* 3.5 2.4 - - - -
79G ARG* 2.9 37.5 + - - +
81G LEU* 4.8 3.1 - - - +
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Residues in contact with ALA 18 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14G THR 3.6 12.4 + - - +
15G ASP* 3.1 12.1 + - - +
17G GLU* 1.3 79.2 - - - +
19G ALA* 1.3 64.8 + - - +
21G ASN* 3.4 12.0 + - - +
22G SER* 3.2 20.8 + - - -
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Residues in contact with ALA 19 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15G ASP 2.7 16.5 + - - +
16G VAL* 2.9 13.7 + - - +
18G ALA* 1.3 74.0 - - - +
20G VAL* 1.3 57.8 + - - +
22G SER* 3.1 8.7 + - - -
23G LEU* 2.8 26.3 + - - +
117G LEU* 4.1 19.9 - - + +
120G LEU* 3.9 18.8 - - + -
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Residues in contact with VAL 20 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12G TYR* 3.8 11.9 - - - +
16G VAL* 2.9 19.3 + - + +
17G GLU 3.5 0.2 - - - +
19G ALA* 1.3 66.5 - - - +
21G ASN* 1.3 63.4 + - - +
22G SER 2.9 2.2 - - - -
23G LEU* 2.7 12.8 + - + +
24G VAL* 2.6 38.1 + - + +
69G LEU* 4.8 18.7 - - + +
72G MET* 4.9 15.0 - - + -
73G GLN* 2.8 38.8 - - + +
117G LEU* 4.3 13.9 - - + -
129G LEU* 4.9 5.6 - - + -
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Residues in contact with ASN 21 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17G GLU* 3.2 23.4 + - - +
18G ALA* 3.5 12.3 - - - +
19G ALA 3.3 0.2 - - - -
20G VAL* 1.3 80.8 - - - +
22G SER* 1.3 58.4 + - - +
24G VAL* 2.8 24.6 - - - +
25G ASN* 3.5 9.9 + - - +
73G GLN* 3.6 6.4 + - - +
79G ARG 3.3 6.3 + - - +
80G ALA* 3.3 12.1 - - - +
81G LEU* 3.1 62.1 + - + +
83G GLN* 5.9 1.0 + - - +
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Residues in contact with SER 22 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18G ALA 3.2 8.6 + - - -
19G ALA* 3.1 10.9 + - - -
20G VAL 2.9 0.4 - - - -
21G ASN* 1.3 79.1 - - - +
23G LEU* 1.3 66.2 + - - +
25G ASN* 3.0 10.2 + - - +
26G LEU* 2.9 21.4 + - - +
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Residues in contact with LEU 23 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19G ALA 2.8 13.8 + - - +
20G VAL* 2.7 16.0 + - - +
22G SER* 1.3 71.5 - - - +
24G VAL* 1.3 55.7 + - - +
26G LEU* 3.2 12.0 + - + +
27G TYR* 3.0 44.6 + - + -
69G LEU* 3.6 29.2 - - + -
113G ALA* 4.1 27.1 - - + +
114G LEU* 3.9 27.8 - - + +
117G LEU* 3.5 26.0 - - + -
133G LEU* 5.4 1.3 - - + -
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Residues in contact with VAL 24 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20G VAL* 2.6 23.0 + - + +
21G ASN* 2.8 34.5 - - - +
23G LEU* 1.3 70.4 - - - +
25G ASN* 1.3 53.6 + - - +
27G TYR* 3.2 1.4 + - - +
28G LEU* 2.7 50.6 + - + +
66G TYR* 3.9 7.8 - - + +
69G LEU* 3.9 19.0 - - + +
70G LEU* 3.6 37.2 - - + -
81G LEU 5.5 1.8 - - - +
82G PHE* 4.4 8.7 - - + -
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Residues in contact with ASN 25 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21G ASN 3.5 10.9 + - - +
22G SER* 3.0 11.5 + - - +
24G VAL* 1.3 75.8 - - - +
26G LEU* 1.3 62.0 + - - +
28G LEU* 3.6 11.9 - - + +
29G GLN* 2.9 42.8 + - - +
83G GLN* 3.1 41.0 + - + +
84G ASP 3.1 12.8 + - - +
85G ILE* 4.5 7.4 - - - +
86G LYS* 5.4 1.6 - - - +
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Residues in contact with LEU 26 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22G SER 2.9 11.1 + - - +
23G LEU* 3.3 15.3 - - + +
25G ASN* 1.3 81.0 + - - +
27G TYR* 1.3 56.6 + - - +
29G GLN* 3.4 13.0 + - - +
30G ALA* 2.9 26.0 + - - +
106G LEU* 5.7 0.3 - - - +
109G LYS* 3.9 32.8 - - + +
110G LEU* 3.5 26.8 - - + +
113G ALA* 3.3 33.9 - - + -
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Residues in contact with TYR 27 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23G LEU* 3.0 41.2 + - + +
24G VAL* 3.6 2.5 - - - +
26G LEU* 1.3 72.9 - - - +
28G LEU* 1.3 67.1 + - - +
29G GLN 2.9 1.6 - - - -
30G ALA* 2.8 5.9 + - - +
31G SER* 2.8 25.1 + - - -
61G GLU 5.5 0.4 - - - -
62G LYS* 3.6 47.6 + - + +
65G GLY* 4.5 4.3 - - - -
66G TYR* 3.6 29.4 - - + -
69G LEU* 4.4 3.8 - - + -
110G LEU* 3.6 23.7 - - + +
114G LEU* 3.4 28.3 - - + +
137G PHE* 3.7 24.2 - + - -
141G GLU* 3.6 13.7 + - - +
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Residues in contact with LEU 28 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24G VAL* 2.7 39.8 + - + +
25G ASN* 3.6 14.1 - - + +
27G TYR* 1.3 73.2 - - - +
29G GLN* 1.3 56.2 + - - +
31G SER* 3.4 4.5 - - - -
32G TYR* 3.2 22.5 + - - +
66G TYR* 3.4 44.1 - - + +
82G PHE* 4.1 22.4 - - + -
83G GLN 5.6 1.6 - - - +
85G ILE* 3.8 34.5 - - + +
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Residues in contact with GLN 29 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25G ASN* 2.9 29.2 + - - +
26G LEU* 3.5 12.0 - - - +
28G LEU* 1.3 75.8 - - - +
30G ALA* 1.3 64.3 + - - +
31G SER 3.1 1.6 - - - -
32G TYR* 3.2 2.8 + - - +
33G THR* 3.1 29.9 + - + +
85G ILE* 4.0 13.5 - - + -
86G LYS* 3.4 50.8 - - - +
87G LYS 4.7 3.3 - - - +
106G LEU* 6.3 1.1 - - + -
109G LYS* 4.7 14.5 + - - +
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Residues in contact with ALA 30 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26G LEU 2.9 13.6 + - - +
27G TYR* 2.8 8.6 + - - +
29G GLN* 1.3 75.3 - - - +
31G SER* 1.3 64.2 + - - +
33G THR* 2.7 24.0 + - - -
34G TYR* 2.9 16.3 + - + -
62G LYS* 4.1 9.6 - - + -
106G LEU* 4.1 22.0 - - + -
110G LEU* 3.9 27.1 - - + -
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Residues in contact with SER 31 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27G TYR 2.8 11.1 + - - -
28G LEU 3.4 12.3 - - - -
30G ALA* 1.3 78.1 - - - +
32G TYR* 1.3 56.4 + - - -
34G TYR* 3.3 5.5 + - - +
35G LEU* 2.8 28.8 + - - +
59G ALA* 3.4 20.4 + - - +
62G LYS* 3.8 19.2 - - - +
63G ARG* 4.3 5.2 + - - +
66G TYR* 4.2 14.8 + - - -
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Residues in contact with TYR 32 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28G LEU 3.2 10.5 + - - +
29G GLN* 3.2 11.8 + - - +
30G ALA 3.2 0.4 - - - -
31G SER* 1.3 77.5 - - - +
33G THR* 1.3 65.9 + - - +
35G LEU* 3.2 26.5 + - + +
36G SER* 3.1 17.6 + - - -
85G ILE* 3.8 27.8 - - + -
86G LYS 4.0 11.0 - - - +
87G LYS* 4.1 18.5 - - + +
88G PRO* 3.6 19.5 - - + +
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Residues in contact with THR 33 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29G GLN* 3.1 23.8 + - + +
30G ALA* 2.7 18.7 + - - -
32G TYR* 1.3 75.0 - - - +
34G TYR* 1.3 57.9 + - - +
36G SER* 3.0 4.5 + - - -
37G LEU* 2.8 41.0 + - - +
87G LYS 5.1 0.7 - - - +
88G PRO* 3.8 31.9 - - + -
89G ALA* 4.6 4.5 - - + +
93G TRP* 4.6 5.6 - - + -
106G LEU* 3.2 27.4 - - + +
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Residues in contact with TYR 34 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30G ALA* 2.9 23.2 + - + +
31G SER 3.6 4.5 - - - +
33G THR* 1.3 75.5 + - - +
35G LEU* 1.3 65.3 + - - +
37G LEU* 3.1 9.0 + - + +
38G GLY* 2.8 23.6 + - - -
55G PHE* 3.8 25.9 - + - +
56G ARG* 5.1 0.2 - - - -
58G LEU* 3.6 38.0 - - + +
59G ALA* 3.7 18.2 - - + +
62G LYS* 3.7 29.6 - - + -
103G ALA* 4.1 14.0 + - + +
106G LEU* 3.6 23.5 - - + +
107G GLU* 2.4 43.8 + - - +
148G MET* 4.1 1.2 - - - +
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Residues in contact with LEU 35 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31G SER* 2.8 15.1 + - - +
32G TYR* 3.4 35.2 - - + +
34G TYR* 1.3 75.8 - - - +
36G SER* 1.3 60.1 + - - +
38G GLY* 3.8 1.4 + - - -
39G PHE* 3.2 53.3 + - + +
56G ARG* 5.6 5.4 - - - +
59G ALA* 4.0 12.0 - - + +
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Residues in contact with SER 36 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32G TYR* 3.1 5.8 + - - -
33G THR 3.0 10.2 + - - -
35G LEU* 1.3 74.5 - - - +
37G LEU* 1.3 66.8 + - - +
38G GLY 3.1 1.7 + - - -
39G PHE* 3.3 4.4 + - - +
40G TYR* 3.0 23.7 + - - +
88G PRO* 3.6 26.6 - - - +
90G GLU 4.1 5.9 + - - -
91G ASP* 4.9 4.7 + - - -
93G TRP* 3.3 17.4 + - - -
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Residues in contact with LEU 37 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33G THR* 2.8 39.8 + - - +
34G TYR* 3.6 11.2 - - + +
36G SER* 1.3 74.6 - - - +
38G GLY* 1.3 64.1 + - - +
40G TYR* 3.2 6.2 + - - +
41G PHE* 3.0 27.9 - - + -
55G PHE* 3.6 28.7 - - + -
93G TRP* 3.4 57.0 - - + +
99G ALA* 3.6 31.6 - - + +
102G ALA* 5.7 2.0 - - + -
103G ALA* 6.1 1.6 - - + +
106G LEU* 6.2 0.9 - - + -
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Residues in contact with GLY 38 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34G TYR 2.8 16.3 + - - -
35G LEU 4.0 2.0 - - - -
37G LEU* 1.3 79.4 - - - +
39G PHE* 1.3 62.4 + - - +
40G TYR 3.3 0.2 + - - -
41G PHE 3.4 6.6 + - - -
42G ASP 3.6 0.7 + - - -
52G SER* 2.8 43.9 + - - -
55G PHE* 3.7 5.5 - - - +
56G ARG* 4.0 11.7 - - - -
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Residues in contact with PHE 39 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35G LEU* 3.2 46.0 + - + +
36G SER* 3.3 4.8 + - - +
38G GLY* 1.3 74.7 - - - +
40G TYR* 1.3 65.6 + - - +
42G ASP* 3.0 35.8 + - + +
43G ARG* 3.6 9.2 + - - +
56G ARG* 3.8 40.8 - - - -
----------------------------------------------------------
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Residues in contact with TYR 40 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36G SER* 3.0 13.3 + - - +
37G LEU 3.3 8.5 - - - +
38G GLY 3.2 0.2 - - - -
39G PHE* 1.3 77.2 - - - +
41G PHE* 1.3 88.0 + + - +
42G ASP 3.1 4.5 + - - -
43G ARG* 3.2 56.4 + - - +
46G VAL* 3.3 26.4 - - + +
91G ASP 4.6 3.1 - - - +
92G GLU* 4.0 12.5 + - + +
93G TRP* 3.5 41.5 - + + -
94G GLY* 2.6 37.2 + - - -
----------------------------------------------------------
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Residues in contact with PHE 41 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37G LEU* 3.0 27.4 + - + -
38G GLY 3.4 1.7 + - - +
39G PHE 3.3 0.4 - - - -
40G TYR* 1.3 101.0 - + - +
42G ASP* 1.3 55.7 + - - +
43G ARG 3.3 2.7 - - - -
46G VAL* 3.5 21.3 - - + -
47G ALA* 4.0 1.6 - - - -
48G LEU* 3.2 36.1 + - + +
49G GLU* 4.4 0.9 + - - -
51G VAL* 3.3 29.2 - - + -
52G SER* 3.8 24.3 - - - +
55G PHE* 3.6 21.3 - + - -
93G TRP 4.7 0.7 - - - -
94G GLY 4.4 0.9 - - - -
95G LYS* 4.4 3.4 - - - -
96G THR* 4.1 24.2 - - - -
99G ALA* 3.6 23.8 - - + -
----------------------------------------------------------
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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