Contacts of the helix formed by residues 28 - 59 (chain O) in PDB entry 2FJC
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 28 (chain O).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29O ALA* 1.3 64.0 + - - +
30O ARG* 3.0 28.3 + - - +
31O ALA* 2.9 34.0 + - + +
32O ILE* 3.3 22.5 + - - +
148O SER* 5.1 3.3 - - - -
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Residues in contact with ALA 29 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28O ASP* 1.3 72.3 + - - +
30O ARG* 1.3 61.9 + - - +
32O ILE* 3.9 10.7 - - - +
33O ALA* 3.0 28.3 + - - +
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Residues in contact with ARG 30 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28O ASP* 3.0 17.4 + - - +
29O ALA* 1.3 78.3 - - - +
31O ALA* 1.3 64.6 + - - +
33O ALA* 4.1 4.6 - - - +
34O ALA* 3.1 30.6 + - - +
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Residues in contact with ALA 31 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28O ASP* 2.9 29.3 + - + +
30O ARG* 1.3 80.1 - - - +
32O ILE* 1.3 60.8 + - + +
34O ALA* 3.2 5.2 + - - +
35O ILE* 2.8 36.4 + - + +
144O LEU* 4.2 9.8 - - + +
148O SER* 3.5 30.1 - - - +
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Residues in contact with ILE 32 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28O ASP 3.3 22.0 + - - +
29O ALA* 3.9 9.9 - - - +
31O ALA* 1.3 77.7 - - + +
33O ALA* 1.3 59.6 + - - +
35O ILE* 3.4 9.9 + - + +
36O CYS* 2.9 41.6 + - - -
93O LEU* 4.5 26.2 - - + +
150O ASP* 6.1 0.4 - - - +
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Residues in contact with ALA 33 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29O ALA 3.0 20.0 + - - +
30O ARG* 4.1 4.7 - - - +
32O ILE* 1.3 78.6 - - + +
34O ALA* 1.3 63.6 + - - +
36O CYS* 3.4 6.7 + - - +
37O GLU* 3.0 24.8 + - - +
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Residues in contact with ALA 34 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30O ARG* 3.1 26.2 + - - +
31O ALA* 3.2 4.7 + - - +
33O ALA* 1.3 75.8 - - - +
35O ILE* 1.3 63.6 + - - +
37O GLU* 3.2 8.0 + - - +
38O GLN* 3.1 25.5 + - - +
144O LEU* 3.6 20.4 - - + -
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Residues in contact with ILE 35 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31O ALA* 2.8 22.6 + - + +
32O ILE* 3.6 8.1 - - + +
34O ALA* 1.3 76.0 - - - +
36O CYS* 1.3 57.8 + - - +
38O GLN* 3.1 6.6 + - - +
39O LEU* 2.9 36.8 + - + +
93O LEU* 3.9 22.0 - - + -
141O THR* 4.7 4.5 - - + +
144O LEU* 3.3 24.7 - - + +
145O ALA* 3.8 15.9 - - + +
148O SER* 3.6 23.8 - - - +
150O ASP* 3.7 18.4 - - + +
153O THR* 4.0 14.8 - - + -
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Residues in contact with CYS 36 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32O ILE* 2.9 32.1 + - - +
33O ALA* 3.7 7.0 - - - +
35O ILE* 1.3 76.5 - - - +
37O GLU* 1.3 58.5 + - - +
39O LEU* 3.3 1.0 + - - -
40O ARG* 2.9 38.3 + - - +
90O LEU* 3.5 23.0 - - + +
93O LEU* 3.8 33.2 - - - -
95O ALA* 4.0 15.3 - - + -
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Residues in contact with GLU 37 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33O ALA 3.0 14.9 + - - +
34O ALA* 3.5 11.2 - - - +
35O ILE 3.2 0.4 - - - -
36O CYS* 1.3 76.7 - - - +
38O GLN* 1.3 66.1 + - + +
40O ARG* 3.4 29.1 + - - +
41O GLN* 3.2 21.3 + - - +
107O LEU* 4.9 9.4 - - - +
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Residues in contact with GLN 38 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34O ALA 3.1 16.4 + - - +
35O ILE 3.1 8.3 + - - +
37O GLU* 1.3 80.5 - - + +
39O LEU* 1.3 56.9 + - - +
41O GLN* 3.1 26.5 + - - +
42O HIS* 2.9 36.6 + - - -
137O ARG* 3.6 13.6 - - - +
140O GLN* 3.7 20.5 + - - +
141O THR* 3.1 32.2 + - + +
144O LEU* 4.4 13.0 - - + -
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Residues in contact with LEU 39 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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35O ILE* 2.9 23.1 + - + +
36O CYS 3.6 4.5 - - - +
38O GLN* 1.3 77.6 - - - +
40O ARG* 1.3 63.8 + - - +
42O HIS* 3.1 14.3 + - + +
43O VAL* 3.0 27.0 + - - +
86O ILE* 3.7 17.2 - - + +
89O ARG* 4.2 11.0 - - + -
90O LEU* 3.7 30.1 - - + +
93O LEU* 3.8 29.6 - - + -
141O THR* 3.8 24.9 - - + -
153O THR* 4.2 1.6 - - + -
157O ILE* 4.1 14.1 - - + -
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Residues in contact with ARG 40 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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36O CYS* 2.9 24.5 + - - +
37O GLU* 3.7 29.2 + - - +
38O GLN 3.3 0.2 - - - -
39O LEU* 1.3 75.7 - - - +
41O GLN* 1.3 62.2 + - - +
43O VAL 3.4 0.3 + - - -
44O ALA* 3.2 20.1 + - - +
90O LEU* 3.5 24.7 - - + -
95O ALA* 5.6 3.1 - - - -
96O GLN 3.8 12.3 + - - -
97O ALA 4.6 0.4 - - - -
98O PRO* 3.7 36.9 - - + +
103O GLU* 4.7 7.7 + - - -
107O LEU* 3.7 32.8 - - + +
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Residues in contact with GLN 41 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37O GLU 3.2 10.3 + - - +
38O GLN* 3.1 30.7 + - - +
40O ARG* 1.3 77.3 - - - +
42O HIS* 1.3 62.5 + - - +
44O ALA* 3.1 8.4 + - - +
45O ASP* 2.8 39.3 + - - +
107O LEU* 4.3 21.7 - - + +
109O GLY 5.6 0.2 - - - +
133O TYR* 4.8 1.3 - - - +
137O ARG* 3.0 55.2 + - - +
140O GLN* 5.3 0.2 + - - -
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Residues in contact with HIS 42 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38O GLN* 2.9 29.6 + - - -
39O LEU* 3.1 21.5 + - + +
41O GLN* 1.3 82.6 + - - +
43O VAL* 1.3 57.7 + - - +
45O ASP* 3.8 6.2 + - - +
46O LEU* 2.8 37.4 + - - +
86O ILE* 3.9 11.7 - - + -
134O LEU* 5.3 2.0 - - - +
137O ARG* 3.6 30.6 - - + +
138O PHE* 3.3 44.0 - + + -
141O THR* 2.6 31.0 + - + -
157O ILE* 4.8 0.7 - - + -
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Residues in contact with VAL 43 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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39O LEU 3.0 19.2 + - - +
40O ARG 3.7 7.0 - - - +
42O HIS* 1.3 75.3 - - - +
44O ALA* 1.3 59.6 + - - +
46O LEU* 3.4 3.1 + - - -
47O GLY 2.8 26.0 + - - -
83O PHE* 3.4 34.6 - - + +
86O ILE* 3.8 17.3 - - + -
87O ALA* 3.8 28.5 - - + +
90O LEU* 4.5 7.9 - - + -
98O PRO* 3.8 11.7 - - + +
104O TYR* 3.7 18.8 - - + +
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Residues in contact with ALA 44 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40O ARG 3.2 6.9 + - - +
41O GLN 3.1 9.1 + - - +
43O VAL* 1.3 79.4 - - - +
45O ASP* 1.3 61.3 + - - +
47O GLY* 3.3 1.6 + - - -
48O VAL* 3.0 28.4 + - - +
104O TYR* 3.5 27.0 - - + +
107O LEU* 3.6 32.1 - - + -
108O SER* 3.8 12.8 - - - +
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Residues in contact with ASP 45 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41O GLN* 2.8 34.8 + - - +
42O HIS* 3.8 3.9 + - - +
44O ALA* 1.3 72.0 - - - +
46O LEU* 1.3 59.6 + - - +
48O VAL* 3.2 3.1 + - - +
49O LEU* 2.8 30.5 + - - +
108O SER* 2.6 32.6 + - - -
109O GLY 2.7 17.9 + - - -
110O ILE* 3.6 9.6 + - + +
133O TYR* 3.3 29.6 + - - -
134O LEU* 3.7 21.7 - - + +
137O ARG* 4.4 0.9 - - - +
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Residues in contact with LEU 46 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42O HIS 2.8 25.9 + - - +
43O VAL* 3.7 4.0 - - - +
45O ASP* 1.3 73.0 - - - +
47O GLY* 1.3 59.6 + - - +
49O LEU* 3.2 1.5 + - + -
50O TYR* 2.8 27.0 + - - +
79O VAL* 3.3 36.4 - - + +
82O ALA* 4.0 7.2 - - + -
83O PHE* 3.8 32.3 - - + +
86O ILE* 3.9 24.9 - - + -
134O LEU* 3.6 29.6 - - + -
138O PHE* 3.9 13.7 - - + -
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Residues in contact with GLY 47 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43O VAL 2.8 18.6 + - - -
44O ALA 3.7 2.0 - - - -
46O LEU* 1.3 76.9 - - - +
48O VAL* 1.3 59.1 + - - +
50O TYR* 3.3 20.7 - - - +
51O ILE* 3.5 13.9 + - - +
83O PHE* 3.7 17.7 - - - -
104O TYR* 4.7 11.9 - - - -
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Residues in contact with VAL 48 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44O ALA 3.0 20.2 + - - +
45O ASP 3.6 3.8 - - - +
47O GLY* 1.3 73.0 - - - +
49O LEU* 1.3 65.8 + - - +
51O ILE* 3.4 6.6 + - - +
52O LYS* 3.0 20.6 + - + +
104O TYR* 4.3 16.4 - - + +
105O LEU* 4.6 12.8 - - + -
108O SER* 3.5 21.1 - - - +
110O ILE* 3.5 35.4 - - + +
111O ALA 4.6 1.8 - - - +
112O GLU* 4.1 26.1 - - + +
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Residues in contact with LEU 49 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45O ASP 2.8 17.8 + - - +
46O LEU* 3.6 6.5 - - - +
48O VAL* 1.3 75.0 - - - +
50O TYR* 1.3 58.2 + - - +
52O LYS* 4.0 10.8 - - + -
53O LEU* 2.7 57.3 + - + +
56O TYR* 6.1 0.2 - - + -
79O VAL* 3.8 16.8 - - + -
110O ILE* 4.2 13.0 - - + -
127O VAL* 5.6 2.9 - - + -
130O ASP* 4.3 23.3 - - + +
131O PHE* 3.7 24.5 - - + -
134O LEU* 3.5 28.3 - - + -
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Residues in contact with TYR 50 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46O LEU 2.8 13.2 + - - +
47O GLY* 3.3 14.4 - - - +
49O LEU* 1.3 77.3 - - - +
51O ILE* 1.3 73.4 + - + +
53O LEU* 3.6 3.7 + - - +
54O HIS* 2.8 57.7 + + - -
76O TYR* 3.3 41.3 - + + -
77O VAL* 5.3 0.2 - - - -
79O VAL* 4.0 8.9 - - + +
80O THR* 3.7 28.7 + - + +
83O PHE* 6.2 1.1 - - + -
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Residues in contact with ILE 51 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47O GLY 3.5 10.5 + - - +
48O VAL* 3.4 7.9 + - - +
49O LEU 3.2 0.6 - - - -
50O TYR* 1.3 88.5 - - + +
52O LYS* 1.3 67.9 + - - +
53O LEU 3.2 0.2 - - - -
54O HIS* 3.1 12.6 + - + +
55O ASN* 3.1 20.0 + - + +
58O TRP* 5.4 4.4 - - + -
101O MET* 3.8 32.3 - - + -
112O GLU* 4.8 14.4 - - - +
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Residues in contact with LYS 52 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48O VAL* 3.0 17.8 + - + +
49O LEU* 3.5 10.3 - - + +
51O ILE* 1.3 78.3 - - - +
53O LEU* 1.3 61.8 + - - +
55O ASN* 3.0 23.1 + - - +
56O TYR* 3.2 38.1 + - + -
110O ILE* 3.8 9.4 - - + +
111O ALA* 2.7 33.8 + - - +
112O GLU* 4.5 2.2 - - - -
113O GLU* 3.9 27.1 - - + +
126O ARG* 5.3 3.0 + - - +
130O ASP* 2.6 37.4 + - - +
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Residues in contact with LEU 53 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49O LEU* 2.7 38.3 + - + +
50O TYR 3.8 4.9 - - - +
52O LYS* 1.3 74.3 - - - +
54O HIS* 1.3 56.8 + - - +
56O TYR* 3.4 5.5 + - + +
57O HIS* 2.8 28.5 + - - +
72O LEU* 4.1 15.3 - - + +
75O TYR* 3.9 15.0 - - + -
76O TYR* 3.6 39.9 - - + +
79O VAL* 3.7 23.3 - - + -
127O VAL* 3.8 31.4 - - + -
131O PHE* 4.9 3.6 - - + -
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Residues in contact with HIS 54 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50O TYR* 2.8 58.4 + + - -
51O ILE* 3.1 15.3 + - + +
53O LEU* 1.3 74.3 - - - +
55O ASN* 1.3 55.7 + - - +
57O HIS* 3.0 7.3 + - - +
58O TRP* 2.8 79.0 + + + -
76O TYR* 3.4 41.6 + + - -
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Residues in contact with ASN 55 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51O ILE* 3.1 11.2 + - + +
52O LYS* 3.0 15.9 + - - +
54O HIS* 1.3 76.3 - - - +
56O TYR* 1.3 60.1 + - - +
58O TRP* 3.2 7.7 + - - -
59O HIS* 2.9 62.5 + - - +
113O GLU* 3.1 42.9 + - + +
115O GLU 3.4 15.5 + - - +
116O LYS* 5.1 7.1 - - - +
118O ILE* 5.5 0.9 - - - +
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Residues in contact with TYR 56 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49O LEU* 6.1 0.9 - - + -
52O LYS* 3.2 46.4 + - + -
53O LEU* 3.8 7.6 - - + +
55O ASN* 1.3 78.1 - - - +
57O HIS* 1.3 65.0 + - - +
59O HIS 4.5 0.2 - - - +
60O ILE* 3.0 35.1 + - - +
72O LEU* 4.0 14.8 - - + -
113O GLU* 2.6 41.7 + - + -
118O ILE* 3.8 23.8 - - + -
123O ALA* 3.8 22.7 - - + -
126O ARG* 3.3 19.9 - - + +
127O VAL* 3.5 33.0 - - + -
130O ASP* 5.4 0.4 - - - -
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Residues in contact with HIS 57 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53O LEU 2.8 16.6 + - - +
54O HIS* 3.1 14.6 - + - +
56O TYR* 1.3 78.4 - - - +
58O TRP* 1.3 86.7 + + - +
60O ILE* 4.2 5.5 - - - +
65O PHE* 4.3 1.2 - - - -
69O HIS* 2.7 85.4 + + - -
72O LEU* 3.9 13.6 - - + +
73O GLU* 3.9 25.8 + - + -
76O TYR* 3.7 23.2 + + + -
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Residues in contact with TRP 58 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51O ILE* 5.4 4.7 - - + -
54O HIS* 2.8 58.2 + + + +
55O ASN* 3.8 8.5 - - - +
57O HIS* 1.3 97.4 - + - +
59O HIS* 1.3 84.9 + + + +
60O ILE 3.7 4.5 + - - +
65O PHE* 4.8 0.7 - - - -
69O HIS* 5.0 3.4 - + - -
169P TRP* 3.9 29.0 + + + -
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Residues in contact with HIS 59 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55O ASN* 2.9 45.3 + - - +
58O TRP* 1.3 101.8 - + + +
60O ILE* 1.3 65.0 + - - +
61O TYR* 4.1 2.4 - - - +
116O LYS* 3.4 35.0 - - + +
117O GLU* 3.3 25.6 - - - +
118O ILE* 3.0 23.1 + - + +
176P LYS* 5.6 0.2 + - - -
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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).
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