Contacts of the helix formed by residues 9 - 38 (chain E) in PDB entry 3ZPL
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 THR 9 (chain E).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A ARG* 4.7 2.5 - - - -
53B GLU* 3.5 43.7 - - + +
7E TRP 3.9 0.6 + - - -
8E LEU* 1.3 76.4 - - - +
10E ALA* 1.3 63.6 + - - +
11E GLU* 3.3 19.2 + - + +
12E GLU* 2.9 45.6 + - - +
13E GLN* 3.0 19.6 + - - +
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Residues in contact with ALA 10 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A ALA* 3.8 23.6 - - + +
13A GLN* 4.1 18.8 + - + +
14A LEU* 3.8 14.1 - - + +
17A ARG* 4.2 7.0 - - - +
53B GLU* 4.1 5.2 + - - +
9E THR* 1.3 71.3 - - - +
11E GLU* 1.3 74.1 + - - +
13E GLN* 3.4 14.2 + - - +
14E LEU* 3.1 27.7 + - - +
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Residues in contact with GLU 11 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14A LEU* 4.0 14.5 - - - +
17A ARG* 2.6 47.3 + - - -
9E THR* 3.5 13.0 + - + +
10E ALA* 1.3 77.6 + - - +
12E GLU* 1.3 63.7 + - + +
14E LEU* 3.0 18.8 + - - +
15E VAL* 3.0 18.4 + - + +
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Residues in contact with GLU 12 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6E ARG* 2.8 31.8 + - - -
8E LEU* 3.6 13.1 - - + -
9E THR* 2.9 42.1 + - - +
11E GLU* 1.3 80.7 - - + +
13E GLN* 1.3 64.0 + - - +
15E VAL* 3.1 7.0 + - - +
16E TRP* 2.9 24.3 + - - +
128F PHE* 3.6 25.9 - - + +
136F GLN* 3.2 37.0 + - + +
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Residues in contact with GLN 13 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8A LEU 5.0 0.9 - - - +
10A ALA* 4.0 15.2 + - + +
13A GLN* 3.3 38.2 + - - +
8E LEU* 3.1 40.3 + - + +
9E THR 3.0 12.9 + - - +
10E ALA* 3.5 10.0 - - - +
12E GLU* 1.3 76.2 - - - +
14E LEU* 1.3 56.9 + - - +
16E TRP* 3.4 8.9 + - - +
17E ARG* 3.0 29.8 + - - +
53F GLU* 5.0 4.5 - - - +
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Residues in contact with LEU 14 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A ALA* 3.0 42.0 - - + -
11A GLU* 4.1 23.3 - - + +
14A LEU* 4.6 16.2 - - + -
10E ALA 3.1 10.4 + - - +
11E GLU* 3.0 11.5 + - - +
13E GLN* 1.3 73.2 - - - +
15E VAL* 1.3 66.6 + - + +
17E ARG* 3.5 14.5 + - - +
18E SER* 3.1 24.8 + - - -
144F ARG* 6.3 1.3 - - - +
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Residues in contact with VAL 15 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11E GLU* 3.0 21.0 + - + +
12E GLU* 3.1 9.6 + - - +
14E LEU* 1.3 75.6 - - + +
16E TRP* 1.3 65.2 + - - +
18E SER* 2.9 10.4 + - - -
19E TYR* 2.9 20.6 + - - +
128F PHE* 4.1 18.2 - - + -
136F GLN* 3.5 28.7 - - + +
137F LYS* 5.0 3.1 - - - +
139F LEU* 3.1 33.2 - - + +
140F GLY* 3.8 12.3 - - - +
144F ARG* 6.3 0.4 - - - +
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Residues in contact with TRP 16 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8E LEU* 5.2 6.5 - - + -
12E GLU 2.9 12.4 + - - +
13E GLN* 3.5 11.2 - - - +
15E VAL* 1.3 78.1 - - - +
17E ARG* 1.3 64.2 + - - +
19E TYR* 3.1 27.9 + + + +
20E ILE* 2.9 55.0 + - + +
26F LEU* 4.2 12.6 - - + -
30F LEU* 3.6 31.9 - - + -
42F HIS* 4.3 5.5 + + - -
119F HIS* 4.5 7.9 + - - -
123F VAL* 3.7 36.5 - - + +
127F VAL* 4.2 19.1 - - + -
128F PHE* 3.9 17.9 - + + -
139F LEU* 6.4 0.7 - - + -
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Residues in contact with ARG 17 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A THR* 4.9 3.0 - - - -
10A ALA* 4.3 11.0 - - - +
11A GLU* 2.8 43.4 + - - -
13E GLN* 3.0 18.2 + - - +
14E LEU* 3.7 21.4 - - - +
16E TRP* 1.3 77.3 - - - +
18E SER* 1.3 65.3 + - - +
20E ILE* 3.0 11.0 + - + +
21E GLU* 3.0 42.6 + - + +
53F GLU* 4.9 14.1 + - - -
67F TYR* 6.0 5.4 - - - -
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Residues in contact with SER 18 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14E LEU 3.1 12.0 + - - -
15E VAL* 2.9 18.9 + - - -
17E ARG* 1.3 79.6 - - - +
19E TYR* 1.3 59.7 + - - +
21E GLU* 4.0 12.5 - - - +
22E ALA* 3.1 25.3 + - - +
140F GLY* 3.7 17.2 + - - -
143F MET* 3.5 5.6 - - - +
144F ARG* 4.2 26.3 + - - -
147F ALA* 4.7 2.0 - - - +
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Residues in contact with TYR 19 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15E VAL 2.9 13.1 + - - +
16E TRP* 3.1 31.6 + + + +
18E SER* 1.3 74.8 + - - +
20E ILE* 1.3 77.7 + - + +
22E ALA* 3.2 3.3 + - - +
23E ALA* 2.9 35.0 + - + +
143E MET* 3.8 23.3 - - + +
19F TYR* 4.4 2.2 - + - -
23F ALA* 3.4 32.9 + - - +
26F LEU* 3.9 26.3 - - + +
139F LEU* 4.2 17.7 - - + -
143F MET* 3.4 42.3 - - + +
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Residues in contact with ILE 20 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16E TRP* 2.9 63.1 + - + +
17E ARG* 3.4 9.0 - - - +
19E TYR* 1.3 85.7 - - + +
21E GLU* 1.3 60.8 + - + +
23E ALA* 3.5 3.4 + - - +
24E THR* 2.8 41.6 + - - +
42F HIS* 3.6 23.1 - - + +
68F ALA 5.9 1.8 - - - +
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Residues in contact with GLU 21 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17E ARG* 3.0 38.4 + - + +
18E SER* 4.0 11.4 - - - +
20E ILE* 1.3 74.0 - - + +
22E ALA* 1.3 67.6 + - - +
24E THR* 3.1 6.8 + - - -
25E LEU* 2.8 35.9 + - + +
67F TYR* 3.9 27.8 - - - +
68F ALA 5.8 0.7 - - - -
69F LYS* 4.9 8.3 - - + -
147F ALA* 4.5 11.1 - - + +
151F GLN* 4.3 15.8 + - - -
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Residues in contact with ALA 22 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18E SER 3.1 16.9 + - - +
21E GLU* 1.3 80.1 - - - +
23E ALA* 1.3 53.5 + - - +
25E LEU* 3.1 2.5 + - - +
26E LEU* 2.7 37.8 + - - +
19F TYR* 4.8 0.2 - - - -
143F MET* 3.4 41.3 - - + +
146F VAL* 4.0 13.5 - - + -
147F ALA* 4.0 12.7 - - + +
150F LEU* 4.5 1.2 - - - +
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Residues in contact with ALA 23 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19E TYR* 2.9 37.0 + - + +
20E ILE* 3.8 3.8 - - - +
22E ALA* 1.3 76.2 - - - +
24E THR* 1.3 58.2 + - - +
26E LEU* 3.4 1.5 + - - +
27E GLU* 3.0 31.4 + - - +
19F TYR* 3.5 23.3 - - - +
23F ALA* 5.3 5.2 - - + -
143F MET* 4.1 0.6 - - - +
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Residues in contact with THR 24 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20E ILE* 2.8 34.0 + - - +
21E GLU* 3.7 3.8 - - - -
23E ALA* 1.3 77.2 - - - +
25E LEU* 1.3 61.3 + - - +
27E GLU* 3.9 5.2 + - - +
28E ASP* 3.3 22.1 + - + +
43F VAL* 6.2 3.4 - - + -
68F ALA 4.0 15.5 + - - +
69F LYS* 3.9 21.7 - - - +
70F ILE* 4.6 8.5 - - + -
74F ARG* 5.0 8.1 - - - +
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Residues in contact with LEU 25 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21E GLU* 2.8 24.4 + - + +
22E ALA 3.6 2.5 - - - +
24E THR* 1.3 76.1 - - - +
26E LEU* 1.3 60.5 + - - +
28E ASP* 3.3 6.0 + - + +
29E HIS* 2.8 29.8 + - - +
69F LYS* 3.8 23.8 - - + +
147F ALA* 3.9 36.1 - - + +
150F LEU* 4.0 25.4 - - + +
151F GLN* 4.1 17.0 - - + +
159F LEU* 6.0 0.2 - - + -
160F PRO* 4.5 15.3 - - + -
161F TRP* 4.3 18.2 - - + -
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Residues in contact with LEU 26 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22E ALA 2.7 18.1 + - - +
23E ALA* 3.8 4.7 - - - +
25E LEU* 1.3 69.2 - - - +
27E GLU* 1.3 67.4 + - - +
29E HIS* 3.0 3.6 + - + +
30E LEU* 2.8 55.1 + - + +
123E VAL* 5.9 0.7 - - - -
126E ALA* 3.9 27.4 - - + -
127E VAL* 4.0 21.1 - - + -
16F TRP* 4.4 7.0 - - + -
19F TYR* 3.8 32.8 - - + +
143F MET* 5.8 1.1 - - + -
146F VAL* 4.1 12.3 - - + -
150F LEU* 3.8 14.5 - - + +
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Residues in contact with GLU 27 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23E ALA 3.0 17.6 + - - +
24E THR* 4.2 5.4 - - - +
26E LEU* 1.3 74.6 - - - +
28E ASP* 1.3 56.2 + - - +
30E LEU* 4.9 3.8 - - - -
31E ASP* 2.9 43.6 + - - +
42E HIS* 5.8 4.5 - - - -
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Residues in contact with ASP 28 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24E THR 3.3 17.6 + - - +
25E LEU* 3.5 8.9 - - + +
26E LEU 3.1 0.4 - - - -
27E GLU* 1.3 77.1 - - - +
29E HIS* 1.3 69.2 + - - +
31E ASP* 3.9 3.9 - - - +
32E ARG* 3.1 34.5 + - - +
69F LYS 5.3 3.1 - - - +
70F ILE* 6.1 0.2 - - - -
71F THR* 5.1 2.3 - - - +
158F ASP 5.0 0.5 - - - +
160F PRO* 4.0 18.9 - - + +
163F ARG* 3.0 37.1 + - - -
14G T 4.4 14.2 + - - +
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Residues in contact with HIS 29 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25E LEU 2.8 18.7 + - - +
26E LEU* 3.6 3.8 - - + +
28E ASP* 1.3 80.3 - - - +
30E LEU* 1.3 74.7 + - + +
32E ARG* 3.8 4.1 - - - +
33E GLN* 3.0 31.5 + - + +
122E ALA* 4.3 18.7 + - + +
125E GLN* 6.0 1.4 - - - +
126E ALA* 4.3 11.5 + - + +
150F LEU* 3.4 30.0 - - + +
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Residues in contact with LEU 30 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26E LEU* 2.8 33.7 + - + +
27E GLU* 4.3 2.0 - - - +
29E HIS* 1.3 94.1 - - + +
31E ASP* 1.3 64.2 + - - +
32E ARG 3.2 1.3 - - - -
33E GLN* 3.2 3.5 + - - +
34E LEU* 2.8 31.8 + - - +
42E HIS* 4.2 25.6 - - + +
119E HIS* 4.2 8.5 - - + +
122E ALA* 4.1 22.0 - - + -
123E VAL* 4.0 15.0 - - + -
16F TRP* 3.9 35.0 - - + -
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Residues in contact with ASP 31 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27E GLU* 2.9 28.9 + - - +
28E ASP* 3.9 5.3 - - - +
30E LEU* 1.3 75.2 - - - +
32E ARG* 1.3 58.3 + - + +
34E LEU* 3.7 1.3 - - - +
35E GLN* 2.8 34.4 + - - +
40E MET 4.4 1.4 - - - +
41E PRO* 4.2 9.7 - - + +
42E HIS* 2.9 39.1 + - - +
43E VAL* 4.7 2.1 + - - +
14G T 5.2 8.5 + - - +
----------------------------------------------------------
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Residues in contact with ARG 32 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28E ASP* 3.1 23.2 + - - +
29E HIS* 3.8 4.9 - - - +
31E ASP* 1.3 77.5 - - + +
33E GLN* 1.3 68.0 + - - +
35E GLN* 3.8 4.8 - - - +
36E ARG* 3.1 31.4 + - + +
158F ASP* 2.8 46.0 + - - +
163F ARG* 3.4 42.6 - - - +
15G C 3.2 43.1 + - - +
16G A 5.2 6.7 + - - -
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Residues in contact with GLN 33 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29E HIS* 3.0 24.4 + - + +
30E LEU* 3.6 6.2 - - - +
32E ARG* 1.3 75.3 - - - +
34E LEU* 1.3 66.4 + - - +
36E ARG* 3.8 13.0 - - - +
37E ASP* 3.1 64.1 + - - +
115E THR* 4.9 2.2 + - - -
118E GLY* 3.7 5.5 - - - +
119E HIS* 3.2 54.5 + - - +
122E ALA* 3.9 20.7 - - + +
----------------------------------------------------------
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Residues in contact with LEU 34 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30E LEU 2.8 17.2 + - - +
31E ASP 4.0 1.6 - - - +
33E GLN* 1.3 91.5 - - - +
35E GLN* 1.3 59.9 + - - +
38E ALA* 3.0 20.6 + - + +
39E GLY 3.0 21.5 + - - -
40E MET 3.1 19.6 + - - +
41E PRO 4.6 1.6 - - - +
42E HIS* 3.6 35.0 - - + -
45E TYR* 3.6 38.1 - - + -
115E THR* 5.1 2.2 - - - +
119E HIS* 3.4 28.5 - - + +
----------------------------------------------------------
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Residues in contact with GLN 35 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31E ASP* 2.8 19.9 + - - +
32E ARG* 3.3 6.3 + - - +
34E LEU* 1.3 77.7 - - - +
36E ARG* 1.3 57.6 + - - +
39E GLY* 3.2 28.3 + - - -
40E MET* 3.1 34.5 + - - +
41E PRO* 3.5 25.0 - - - +
81E ARG* 3.9 8.5 - - - +
14G T 5.6 0.9 - - - +
15G C 4.4 20.0 - - - +
11H A 6.0 0.2 - - - -
12H T 4.5 5.8 + - - +
----------------------------------------------------------
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Residues in contact with ARG 36 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32E ARG* 3.1 21.2 + - - +
33E GLN* 3.8 11.0 - - - +
35E GLN* 1.3 80.0 - - - +
37E ASP* 1.3 91.4 + - - +
38E ALA 3.3 0.9 + - - -
39E GLY 4.3 1.6 + - - -
----------------------------------------------------------
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Residues in contact with ASP 37 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33E GLN* 3.1 41.2 + - - +
36E ARG* 1.3 113.2 + - - +
38E ALA* 1.3 59.1 + - + +
115E THR* 3.5 18.0 - - + +
118E GLY* 5.4 3.6 - - - -
----------------------------------------------------------
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Residues in contact with ALA 38 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34E LEU* 3.0 25.4 + - + +
36E ARG 3.3 0.2 - - - -
37E ASP* 1.3 79.7 - - + +
39E GLY* 1.3 63.1 + - - +
40E MET* 3.3 15.1 + - + +
87E TRP* 3.6 20.3 - - - -
111E VAL* 4.5 6.9 - - + +
115E THR* 3.4 29.4 - - + +
----------------------------------------------------------
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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