Contacts of the helix formed by residues 24 - 48 (chain A) in PDB entry 4BTF
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 CYS 24 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21A MET* 5.6 1.3 - - + -
23A TYR* 1.3 77.6 - - - +
25A ARG* 1.3 64.9 + - - +
26A LYS 3.2 3.5 + - - -
27A GLN* 3.7 18.2 - - - -
28A CYS* 3.1 23.0 + - - -
96A LEU* 3.8 28.7 - - + -
143A ASP* 3.3 25.3 + - - +
147A ASN* 6.6 0.2 - - - -
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Residues in contact with ARG 25 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18A CYS 5.4 1.8 - - - +
21A MET 3.6 13.7 - - - +
22A LYS* 3.2 26.9 + - - +
23A TYR* 4.3 1.1 - - - -
24A CYS* 1.3 76.2 - - - +
26A LYS* 1.3 60.4 + - + +
28A CYS* 4.1 3.5 - - - +
29A GLN* 3.0 35.0 + - - +
143A ASP* 3.3 3.8 + - - +
146A GLU* 3.1 40.6 + - - +
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Residues in contact with LYS 26 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25A ARG* 1.3 77.7 - - + +
27A GLN* 1.3 60.3 + - - +
29A GLN* 3.3 28.7 + - - +
30A ARG* 2.9 30.4 + - - +
139A ASP* 3.8 28.9 - - + +
142A GLU* 2.6 47.3 + - + +
143A ASP* 2.9 18.0 + - - +
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Residues in contact with GLN 27 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A CYS* 3.7 16.7 - - - +
26A LYS* 1.3 76.2 - - - +
28A CYS* 1.3 58.0 + - - +
30A ARG* 3.5 4.9 + - - +
31A LEU* 3.0 27.4 + - - +
95A ILE* 3.2 14.6 + - - +
96A LEU* 3.1 43.4 + - + +
97A PHE* 4.1 9.8 + - + +
101A ASN* 5.8 1.4 + - - -
136A ASP* 5.1 2.4 - - - +
139A ASP* 3.8 20.0 - - + -
140A ALA* 3.9 17.0 + - - +
143A ASP* 2.9 35.4 + - - +
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Residues in contact with CYS 28 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18A CYS* 3.4 34.4 - - + +
21A MET* 3.9 29.8 - - + -
23A TYR 4.0 7.0 - - - -
24A CYS 3.1 21.1 + - - +
25A ARG* 4.1 4.0 - - - +
27A GLN* 1.3 74.5 - - - +
29A GLN* 1.3 54.5 + - - +
31A LEU* 3.1 3.0 + - - +
32A GLY 2.6 32.2 + - - -
75A ILE* 5.9 0.7 - - - -
96A LEU* 4.4 7.9 - - - -
97A PHE* 4.1 23.8 - - - -
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Residues in contact with GLN 29 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18A CYS* 4.7 3.5 + - - -
19A GLU* 4.3 20.6 - - - +
25A ARG* 3.0 23.1 + - - +
26A LYS* 3.5 30.6 - - - +
28A CYS* 1.3 74.8 - - - +
30A ARG* 1.3 58.1 + - - +
32A GLY* 3.2 1.1 + - - -
33A ASN* 2.9 53.2 + - - +
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Residues in contact with ARG 30 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A LYS* 2.9 12.3 + - - +
27A GLN* 3.5 7.4 - - - +
28A CYS 3.1 0.2 - - - -
29A GLN* 1.3 74.9 - - - +
31A LEU* 1.3 65.8 + - - +
32A GLY 3.2 0.2 + - - -
33A ASN* 3.2 9.8 + - - +
34A ARG* 3.0 72.1 + - - +
101A ASN* 6.0 0.9 - - - +
135A GLU* 3.8 34.5 + - - +
136A ASP* 4.8 2.7 - - - +
138A GLN* 5.9 1.2 - - - +
139A ASP* 2.9 42.9 + - - +
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Residues in contact with LEU 31 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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14A ILE* 5.0 2.0 - - + -
18A CYS* 4.3 4.7 - - - -
27A GLN 3.0 14.3 + - - +
28A CYS 3.5 7.6 - - - +
30A ARG* 1.3 75.8 - - - +
32A GLY* 1.3 62.4 + - - +
34A ARG* 4.1 4.2 - - - +
35A VAL* 3.2 32.1 + - + +
71A ALA* 4.3 11.4 - - + -
75A ILE* 4.0 17.5 - - + -
97A PHE* 3.6 41.1 - - + -
100A VAL* 4.2 12.1 - - + -
101A ASN* 3.3 25.8 + - - +
104A LEU* 3.9 19.1 - - + -
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Residues in contact with GLY 32 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15A TYR* 3.0 32.9 - - - -
18A CYS* 4.0 16.8 - - - -
19A GLU* 4.9 1.1 - - - -
28A CYS 2.6 21.2 + - - -
29A GLN* 3.5 2.9 - - - -
30A ARG 3.1 0.2 - - - -
31A LEU* 1.3 75.4 - - - +
33A ASN* 1.3 57.4 + - - +
35A VAL* 3.5 4.2 + - - +
36A HIS 3.1 17.3 + - - -
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Residues in contact with ASN 33 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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15A TYR* 3.3 25.5 + - - -
19A GLU* 3.8 3.5 - - - +
29A GLN* 2.9 45.6 + - - +
30A ARG* 4.1 8.0 - - - +
32A GLY* 1.3 70.9 - - - +
34A ARG* 1.3 60.4 + - + +
36A HIS* 3.2 9.8 + - + +
37A GLY* 2.8 24.8 + - - -
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Residues in contact with ARG 34 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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30A ARG* 3.0 48.7 + - - +
31A LEU* 4.1 3.1 - - - +
33A ASN* 1.3 74.1 - - + +
35A VAL* 1.3 64.5 + - - +
38A LEU* 3.2 21.3 + - - +
101A ASN* 3.7 23.1 + - - +
104A LEU* 4.2 17.4 - - + +
108A TRP* 3.2 17.5 - - + -
129A PRO* 6.5 0.2 - - + -
132A TRP* 3.5 69.5 + - + +
135A GLU* 3.2 24.0 + - - +
136A ASP* 3.3 25.1 + - - -
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Residues in contact with VAL 35 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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11A GLY* 3.9 27.8 - - - +
14A ILE* 4.6 13.9 - - + -
15A TYR* 5.1 3.4 - - + +
31A LEU* 3.2 24.0 + - + +
32A GLY* 3.8 5.6 - - - +
34A ARG* 1.3 74.2 - - - +
36A HIS* 1.3 65.9 + - - +
38A LEU* 3.7 4.9 + - - +
39A LEU* 3.0 35.3 + - + +
64A PHE* 4.9 3.1 - - + -
68A LEU* 4.1 24.0 - - + -
104A LEU* 4.2 19.3 - - + -
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Residues in contact with HIS 36 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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15A TYR* 4.1 27.7 - + + -
32A GLY 3.1 15.0 + - - +
33A ASN* 3.3 14.6 - - + +
34A ARG 3.2 0.2 - - - -
35A VAL* 1.3 78.4 - - - +
37A GLY* 1.3 66.7 + - - +
39A LEU* 3.0 21.2 + - + +
40A GLN* 3.2 30.1 + - + +
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Residues in contact with GLY 37 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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33A ASN 2.8 15.0 + - - -
34A ARG 3.3 2.9 + - - -
35A VAL 3.3 0.4 - - - -
36A HIS* 1.3 81.0 - - - +
38A LEU* 1.3 60.5 + - - +
40A GLN* 3.2 7.6 + - - +
41A PRO* 3.1 18.5 - - - +
108A TRP* 4.1 16.4 - - - -
112A LEU* 6.1 0.4 - - - +
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Residues in contact with LEU 38 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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34A ARG 3.2 11.6 + - - +
35A VAL 4.1 1.1 - - - +
37A GLY* 1.3 75.7 - - - +
39A LEU* 1.3 62.2 + - - +
40A GLN 3.1 1.9 + - - -
41A PRO* 3.3 19.8 - - + +
42A LEU* 3.4 14.4 - - - +
64A PHE* 3.4 43.1 - - + -
104A LEU* 4.0 8.7 - - + -
107A VAL* 3.7 18.4 - - + -
108A TRP* 3.5 24.2 - - + -
111A LEU* 3.9 27.4 - - + -
112A LEU* 3.9 27.4 - - + -
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Residues in contact with LEU 39 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7A ILE 4.6 0.9 - - - +
8A ILE* 4.0 29.6 - - + +
11A GLY* 3.5 15.7 - - - -
12A GLN* 3.4 38.4 - - + +
15A TYR* 5.8 1.8 - - + -
35A VAL* 3.0 24.0 + - + +
36A HIS* 3.0 14.8 + - - +
38A LEU* 1.3 77.0 - - - +
40A GLN* 1.3 56.9 + - - +
42A LEU* 3.7 5.1 + - + +
43A GLN* 3.0 34.9 + - - +
64A PHE* 4.0 25.6 - - + -
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Residues in contact with GLN 40 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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36A HIS* 3.2 27.4 + - + +
37A GLY* 3.2 9.1 + - - +
38A LEU 3.1 1.8 - - - -
39A LEU* 1.3 75.9 - - - +
41A PRO* 1.3 70.4 - - + +
42A LEU 3.1 1.1 - - - -
43A GLN* 3.1 26.9 + - + +
44A ARG* 3.3 37.2 + - - +
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Residues in contact with PRO 41 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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37A GLY 3.1 15.3 - - - +
38A LEU* 3.3 19.3 - - + +
40A GLN* 1.3 92.1 - - + +
42A LEU* 1.3 56.6 + - + +
44A ARG* 3.0 26.3 + - + +
45A LEU* 2.9 26.0 + - - +
112A LEU* 5.3 7.9 - - + -
115A LEU* 3.8 26.0 - - + +
117A VAL 4.4 15.0 - - - +
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Residues in contact with LEU 42 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4A LEU* 4.3 4.8 - - + +
7A ILE* 3.7 17.3 - - + -
8A ILE* 3.5 18.8 - - + +
38A LEU 3.4 13.7 - - - +
39A LEU* 3.7 7.9 - - + +
40A GLN 3.1 0.8 - - - -
41A PRO* 1.3 74.8 - - + +
43A GLN* 1.3 67.9 + - - +
45A LEU* 3.4 14.5 + - + +
46A GLN* 3.1 24.8 + - - +
61A LEU* 3.6 25.8 - - + -
64A PHE* 3.6 32.5 - - + -
111A LEU* 4.7 9.9 - - + -
115A LEU* 4.0 21.5 - - + -
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Residues in contact with GLN 43 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8A ILE* 3.4 33.0 - - - +
12A GLN* 4.5 12.1 - - - +
39A LEU* 3.0 22.8 - - - +
40A GLN* 3.1 17.7 + - + +
42A LEU* 1.3 77.2 - - - +
44A ARG* 1.3 59.0 + - + +
46A GLN* 3.9 11.4 + - - +
47A ALA* 3.0 31.1 + - - +
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Residues in contact with ARG 44 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40A GLN* 3.3 40.0 - - - +
41A PRO* 3.0 32.7 + - + +
43A GLN* 1.3 75.3 - - + +
45A LEU* 1.3 58.6 + - - +
47A ALA* 4.6 4.0 - - - -
48A GLN* 2.9 39.6 + - + +
117A VAL 5.2 5.1 + - - -
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Residues in contact with LEU 45 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4A LEU* 4.1 10.4 - - + +
41A PRO 2.9 12.0 + - - +
42A LEU* 3.6 22.2 - - + +
44A ARG* 1.3 75.3 - - - +
46A GLN* 1.3 57.5 + - - +
48A GLN* 3.0 24.3 - - - +
49A GLY* 3.2 7.4 - - - -
50A LYS* 4.6 0.4 + - + -
53A LEU* 3.8 42.6 - - + +
57A ILE* 3.8 23.8 - - + -
61A LEU* 4.3 4.3 - - + -
115A LEU* 4.1 17.9 - - + -
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Residues in contact with GLN 46 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4A LEU* 3.6 18.6 - - + -
5A GLY* 3.1 33.3 + - - +
8A ILE* 3.9 11.3 - - + +
42A LEU 3.1 17.1 + - - +
43A GLN* 3.9 12.7 + - - +
45A LEU* 1.3 76.5 - - - +
47A ALA* 1.3 67.4 + - - +
49A GLY* 3.2 13.6 - - - -
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Residues in contact with ALA 47 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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43A GLN 3.0 19.3 + - - +
44A ARG* 4.2 3.8 - - - +
46A GLN* 1.3 76.4 - - - +
48A GLN* 1.3 56.1 + - - +
49A GLY 2.7 16.5 + - - +
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Residues in contact with GLN 48 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A ARG* 2.9 18.8 + - - +
45A LEU* 3.0 13.7 - - - +
47A ALA* 1.3 71.8 - - - +
49A GLY* 1.3 58.5 + - - +
50A LYS* 4.2 3.6 + - - +
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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
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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) + - + + + + + -
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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