Contacts of the helix formed by residues 19 - 60 (chain D) in PDB entry 1S77
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 ILE 19 (chain D).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18D ALA* 1.3 84.2 - - + +
20D PRO* 1.3 73.0 - - + +
21D PHE* 4.2 9.0 - - + +
22D ASN* 2.9 63.3 + - + +
23D THR* 3.3 5.7 + - - -
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Residues in contact with PRO 20 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18D ALA 3.0 10.0 - - - +
19D ILE* 1.3 86.1 - - + -
21D PHE* 1.3 64.4 + - - +
23D THR* 3.1 7.6 + - - +
24D LEU* 2.9 29.8 + - - +
37D LEU* 4.3 18.4 - - + -
287D TRP* 3.5 29.2 - - + +
288D ALA* 4.4 1.1 - - - -
289D ASN* 3.3 31.4 - - + +
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Residues in contact with PHE 21 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19D ILE* 3.3 8.1 + - + +
20D PRO* 1.3 78.7 - - - +
22D ASN* 1.3 79.7 + - - +
24D LEU* 3.9 3.7 - - - +
25D ALA* 3.1 28.8 + - + +
30D GLU* 3.3 32.3 - - + -
33D ALA* 4.0 7.3 - - + +
34D ARG* 3.1 50.5 - - + -
37D LEU* 3.8 27.4 - - + +
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Residues in contact with ASN 22 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19D ILE* 2.9 52.2 + - + +
21D PHE* 1.3 92.5 - - - +
23D THR* 1.3 60.2 + - - +
25D ALA* 4.2 1.6 - - - +
26D ASP* 3.0 31.8 + - - +
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Residues in contact with THR 23 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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12D SER 5.1 1.6 - - - +
16D LEU* 2.8 55.0 + - + +
18D ALA* 4.4 5.4 + - - +
19D ILE 3.3 8.3 + - - -
20D PRO* 3.1 9.3 + - - -
22D ASN* 1.3 77.4 - - - +
24D LEU* 1.3 67.0 + - - +
26D ASP* 3.4 7.2 + - - +
27D HIS* 3.0 31.6 + - + -
287D TRP* 4.0 22.9 - - + -
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Residues in contact with LEU 24 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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20D PRO 2.9 18.5 + - - +
21D PHE 3.9 0.7 - - - +
23D THR* 1.3 76.9 - - - +
25D ALA* 1.3 51.0 + - - +
27D HIS* 2.8 5.8 + - - +
28D TYR* 2.5 55.1 + - + -
33D ALA* 3.6 26.0 - - + +
36D GLN* 3.7 30.5 - - + -
37D LEU* 4.2 11.0 - - + -
273D VAL* 4.1 3.4 - - + -
287D TRP* 3.4 58.3 - - + +
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Residues in contact with ALA 25 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21D PHE* 3.1 24.4 + - + +
22D ASN* 4.2 2.5 - - - +
24D LEU* 1.3 77.8 - - - +
26D ASP* 1.3 61.8 + - - +
29D GLY* 2.6 37.0 + - - -
30D GLU* 3.4 29.8 - - + +
33D ALA* 3.4 3.9 - - + +
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Residues in contact with ASP 26 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16D LEU* 5.7 5.3 - - - +
22D ASN 3.0 21.6 + - - +
23D THR* 3.4 8.6 - - - +
25D ALA* 1.3 77.9 - - - +
27D HIS* 1.3 65.4 + - + +
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Residues in contact with HIS 27 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12D SER* 3.9 25.7 + - - -
16D LEU* 3.1 33.3 - - + +
23D THR* 3.0 25.7 + - + +
24D LEU 2.8 7.3 + - - +
26D ASP* 1.3 86.4 - - + +
28D TYR* 1.3 88.6 + + + +
29D GLY 3.8 0.4 - - - -
287D TRP* 6.3 0.7 - + - -
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Residues in contact with TYR 28 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24D LEU* 2.5 41.4 + - + +
27D HIS* 1.3 99.9 + + + +
29D GLY* 1.3 63.5 + - - +
31D ARG* 5.9 0.2 - - - +
32D LEU* 4.0 21.3 + - + +
33D ALA 5.2 0.9 - - - +
273D VAL* 3.7 38.4 - - + -
274D PRO* 3.5 39.6 + - + +
287D TRP* 4.9 8.2 - + - -
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Residues in contact with GLY 29 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25D ALA* 2.6 25.7 + - - -
27D HIS 3.8 0.4 - - - -
28D TYR* 1.3 76.3 - - - +
30D GLU* 1.3 67.0 + - - -
31D ARG* 3.0 5.5 + - - -
32D LEU 3.3 0.9 + - - -
33D ALA* 3.0 19.6 + - - +
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Residues in contact with GLU 30 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21D PHE* 3.3 17.9 - - + -
25D ALA* 3.4 19.2 - - + +
29D GLY* 1.3 71.6 - - - -
31D ARG* 1.3 62.8 + - - +
33D ALA* 3.6 0.8 - - - +
34D ARG* 2.6 70.0 + - - +
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Residues in contact with ARG 31 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29D GLY* 3.0 2.1 + - - -
30D GLU* 1.3 82.0 - - - +
32D LEU* 1.3 91.0 + - - +
34D ARG* 3.1 8.5 + - - +
35D GLU* 3.0 37.8 + - + +
411D HIS* 5.8 2.2 - - - -
412D LYS* 6.4 0.2 - - - +
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Residues in contact with LEU 32 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28D TYR* 4.0 24.4 + - + +
29D GLY 3.3 2.0 + - - -
31D ARG* 1.3 101.2 - - - +
33D ALA* 1.3 69.2 + - - +
34D ARG 3.0 1.6 - - - -
35D GLU* 2.8 26.6 + - - +
36D GLN* 2.7 25.8 + - - +
272D VAL* 3.7 33.3 - - + +
273D VAL* 3.8 16.6 - - + -
411D HIS* 5.1 3.4 - - + -
415D TRP* 6.3 0.9 - - + -
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Residues in contact with ALA 33 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21D PHE* 4.0 13.7 - - + +
24D LEU* 3.6 18.7 - - + +
25D ALA* 3.4 37.0 - - + +
28D TYR* 5.2 1.2 - - - +
29D GLY 3.0 13.4 + - - +
30D GLU* 3.6 5.6 - - - +
32D LEU* 1.3 78.2 - - - +
34D ARG* 1.3 61.6 + - - +
36D GLN* 3.4 2.4 + - - +
37D LEU* 3.3 28.1 + - - +
273D VAL* 5.0 1.0 - - - +
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Residues in contact with ARG 34 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21D PHE* 3.1 33.2 - - + -
30D GLU* 2.6 60.3 + - - +
31D ARG* 3.3 9.9 - - - +
32D LEU 3.0 0.4 - - - -
33D ALA* 1.3 74.6 - - - +
35D GLU* 1.3 56.4 + - - +
37D LEU* 4.0 3.2 - - - +
38D ALA* 2.7 39.5 + - + +
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Residues in contact with GLU 35 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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31D ARG* 3.0 24.3 + - + +
32D LEU* 2.8 29.4 + - - +
34D ARG* 1.3 72.2 - - - +
36D GLN* 1.3 63.0 + - - +
38D ALA* 3.5 5.8 - - - +
39D LEU* 2.7 34.0 + - + +
272D VAL* 3.4 17.1 - - + +
408D PHE* 5.5 0.3 - - - -
411D HIS* 2.6 39.0 + - - -
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Residues in contact with GLN 36 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24D LEU* 3.7 14.1 - - + -
32D LEU 2.7 12.8 + - - +
33D ALA 3.6 8.5 - - - +
35D GLU* 1.3 70.4 - - - +
37D LEU* 1.3 52.9 + - - +
39D LEU* 2.6 34.2 + - - +
40D GLU* 2.7 51.3 + - - +
270D PRO 4.3 0.8 + - - -
271D CYS* 3.1 27.0 - - - +
272D VAL* 2.8 36.0 - - + +
273D VAL* 3.3 30.1 - - + -
287D TRP* 4.3 3.5 - - + -
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Residues in contact with LEU 37 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20D PRO* 4.3 8.3 - - + -
21D PHE* 3.8 43.7 - - + +
24D LEU* 4.2 14.1 - - + -
33D ALA 3.3 15.5 + - - +
34D ARG* 4.0 2.9 - - - +
36D GLN* 1.3 79.3 - - - +
38D ALA* 1.3 65.0 + - - +
40D GLU* 3.8 9.0 - - - +
41D HIS* 2.8 27.1 + - - +
287D TRP* 4.4 0.4 - - + -
288D ALA* 3.9 35.7 - - + +
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Residues in contact with ALA 38 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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34D ARG 2.7 25.7 + - - +
35D GLU* 3.5 6.1 - - - +
37D LEU* 1.3 72.8 - - - +
39D LEU* 1.3 52.4 + - - +
41D HIS* 3.3 10.0 + - - +
42D GLU* 2.8 34.4 + - - +
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Residues in contact with LEU 39 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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35D GLU* 2.7 18.3 + - + +
36D GLN* 2.6 25.5 + - - +
38D ALA* 1.3 69.3 - - - +
40D GLU* 1.3 63.5 + - + +
42D GLU* 3.1 24.2 + - - +
43D SER* 3.1 24.8 + - - -
269D GLN* 3.6 14.9 + - + +
270D PRO 3.7 23.8 - - - +
272D VAL* 3.7 20.0 - - + -
407D LYS* 4.3 7.0 - - - -
408D PHE* 3.7 30.5 - - + -
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Residues in contact with GLU 40 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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36D GLN* 2.7 39.2 + - - +
37D LEU* 3.8 10.5 - - - +
39D LEU* 1.3 72.1 - - + +
41D HIS* 1.3 63.3 + - - +
43D SER* 3.1 22.9 + - - -
44D TYR* 3.3 6.9 + - - +
286D TYR* 3.2 30.0 - - + +
287D TRP* 2.6 31.8 + - - +
288D ALA* 2.5 42.3 + - + +
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Residues in contact with HIS 41 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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37D LEU 2.8 17.6 + - - +
38D ALA* 3.5 7.7 + - - +
40D GLU* 1.3 76.9 - - - +
42D GLU* 1.3 68.8 + - - +
44D TYR* 3.1 17.8 + + + +
45D GLU* 3.0 39.3 + - + +
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Residues in contact with GLU 42 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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38D ALA 2.8 20.2 + - - +
39D LEU* 3.1 14.2 + - - +
41D HIS* 1.3 75.0 - - - +
43D SER* 1.3 54.2 + - - +
45D GLU* 3.0 25.2 + - - +
46D MET* 2.6 55.2 + - + +
269D GLN* 3.4 7.7 + - - +
407D LYS* 2.9 36.0 + - - -
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Residues in contact with SER 43 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39D LEU 3.1 14.4 + - - -
40D GLU* 3.2 13.0 - - - -
42D GLU* 1.3 77.3 - - - +
44D TYR* 1.3 56.1 + - - +
46D MET* 3.9 3.7 - - - +
47D GLY 2.9 22.3 + - - -
266D PRO* 3.4 7.7 - - - +
267D MET 3.0 34.1 + - - -
268D PHE* 4.0 8.1 - - - -
269D GLN* 3.2 31.1 + - - +
286D TYR* 5.9 1.0 - - - -
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Residues in contact with TYR 44 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40D GLU 3.3 5.9 + - - +
41D HIS* 3.1 21.3 + + + +
43D SER* 1.3 76.4 - - - +
45D GLU* 1.3 63.3 + - - +
47D GLY* 3.1 2.3 + - - -
48D GLU* 2.8 51.7 + - - +
259D GLY 5.6 0.7 + - - -
262D ALA 4.8 0.9 - - - +
263D GLY* 3.0 41.5 + - - -
266D PRO* 3.9 18.9 - - + +
292D ARG* 6.3 0.9 - - + -
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Residues in contact with GLU 45 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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41D HIS* 3.0 26.1 + - + +
42D GLU* 3.2 33.1 - - - +
44D TYR* 1.3 82.5 - - - +
46D MET* 1.3 70.2 + - - +
48D GLU* 3.0 10.1 + - - +
49D ALA* 2.9 23.2 + - + +
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Residues in contact with MET 46 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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42D GLU* 2.6 52.4 + - + +
43D SER* 3.9 5.4 - - - +
45D GLU* 1.3 79.4 - - - +
47D GLY* 1.3 63.2 + - - +
49D ALA* 3.2 9.2 + - - +
50D ARG* 3.0 24.1 + - - +
267D MET* 3.9 32.1 - - + +
269D GLN* 3.7 23.1 - - + +
400D PHE* 4.9 11.4 - - + -
404D GLN* 5.3 4.3 - - - +
407D LYS* 4.6 1.3 - - - +
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Residues in contact with GLY 47 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43D SER 2.9 15.2 + - - -
44D TYR 3.6 3.6 - - - -
46D MET* 1.3 77.2 - - - +
48D GLU* 1.3 62.4 + - - +
50D ARG* 3.0 24.0 - - - +
51D PHE* 3.0 6.8 + - - +
262D ALA 4.1 4.5 - - - -
265D SER* 3.5 25.5 + - - -
266D PRO* 4.1 1.3 - - - -
267D MET* 3.9 10.3 - - - +
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Residues in contact with GLU 48 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44D TYR* 2.8 40.9 + - - +
45D GLU* 3.0 11.9 + - - +
47D GLY* 1.3 71.4 - - - +
49D ALA* 1.3 65.3 + - - +
51D PHE* 3.2 3.9 + - - +
52D ARG* 3.0 29.0 + - + +
259D GLY* 5.0 5.0 - - - +
262D ALA* 3.3 34.4 + - + +
263D GLY* 3.5 11.1 + - - -
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Residues in contact with ALA 49 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45D GLU* 2.9 13.4 + - + +
46D MET* 3.4 12.1 - - - +
48D GLU* 1.3 76.2 - - - +
50D ARG* 1.3 57.2 + - - +
52D ARG* 2.8 29.6 + - - +
53D LYS* 2.9 15.9 + - - +
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Residues in contact with ARG 50 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46D MET 3.0 3.7 + - - +
47D GLY 3.0 17.0 + - - +
49D ALA* 1.3 77.9 - - - +
51D PHE* 1.3 64.1 + - - +
53D LYS* 4.2 10.4 - - - +
54D MET* 3.5 18.9 + - - +
265D SER* 2.8 44.7 + - - +
266D PRO 4.8 1.0 + - - -
267D MET* 3.1 54.7 - - + +
431D MET* 4.1 13.3 - - - +
114T G 2.7 32.2 + - - +
115T C 4.1 17.9 + - - -
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Residues in contact with PHE 51 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47D GLY 3.0 7.3 + - - +
48D GLU 3.3 8.1 - - - +
49D ALA 2.8 1.2 + - - -
50D ARG* 1.3 82.7 - - + +
52D ARG* 1.3 61.4 + - - +
54D MET* 2.8 32.1 + - + +
55D PHE* 2.6 46.4 + + + +
67D ASN* 3.9 23.6 - - - -
68D ALA* 5.6 2.2 - - + -
258D ALA* 3.9 21.5 - - + -
261D LEU* 4.1 29.8 - - + -
262D ALA* 3.2 36.8 - - + +
265D SER* 5.0 7.2 - - - +
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Residues in contact with ARG 52 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48D GLU* 3.0 18.2 + - + +
49D ALA* 2.8 14.8 + - - +
51D PHE* 1.3 79.0 - - + +
53D LYS* 1.3 66.0 + - - +
54D MET 2.8 0.3 + - - -
55D PHE* 2.9 36.5 + - - -
56D GLU* 2.6 46.7 + - - +
255D ALA* 4.4 4.2 + - - +
258D ALA* 3.8 10.1 - - - +
259D GLY* 3.4 33.1 - - - +
262D ALA* 4.7 6.9 - - - +
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Residues in contact with LYS 53 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49D ALA 2.9 17.1 + - - +
50D ARG* 4.2 9.9 - - - +
52D ARG* 1.3 71.8 - - - +
54D MET* 1.3 75.3 + - + +
56D GLU* 3.3 9.6 + - - +
57D ARG* 2.9 64.8 + - - +
113T T 3.4 33.5 + - - +
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Residues in contact with MET 54 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50D ARG* 3.5 11.8 + - - +
51D PHE* 2.8 34.6 + - + +
52D ARG 2.8 0.4 + - - -
53D LYS* 1.3 83.0 - - + +
55D PHE* 1.3 59.7 + - - +
56D GLU 2.8 4.5 + - - -
57D ARG* 2.8 17.0 - - + +
58D GLN* 2.7 52.1 + - + +
67D ASN* 3.1 31.9 - - - +
113T T 4.7 24.5 - - + +
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Residues in contact with PHE 55 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51D PHE* 2.6 36.4 + + + +
52D ARG* 3.5 33.9 - - - +
54D MET* 1.3 78.1 - - + +
56D GLU* 1.3 66.6 + - + +
58D GLN* 3.4 13.0 - - + +
59D LEU* 3.5 34.8 + - + +
64D VAL* 4.8 8.3 - - + -
67D ASN* 3.2 40.6 - - + +
69D ALA* 4.1 15.0 - - + -
254D ILE* 4.5 17.3 - - + -
255D ALA* 5.5 2.5 - - - -
258D ALA* 4.3 8.5 - - + -
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Residues in contact with GLU 56 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52D ARG* 2.6 43.3 + - - +
53D LYS* 3.5 7.7 + - - +
54D MET 2.8 0.6 + - - -
55D PHE* 1.3 78.0 - - + +
57D ARG* 1.3 51.1 + - - +
58D GLN 2.7 7.6 + - - -
59D LEU* 2.9 11.0 + - + +
60D LYS* 2.6 73.3 + - - +
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Residues in contact with ARG 57 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53D LYS* 2.9 40.9 + - - +
54D MET* 2.8 23.8 - - + +
56D GLU* 1.3 75.4 - - - +
58D GLN* 1.3 93.7 + - - +
60D LYS* 3.8 13.1 - - - +
61D ALA* 3.4 25.2 + - - +
63D GLU* 4.2 5.9 + - - -
111T T 4.2 4.7 + - - -
112T G 3.0 80.1 + - - +
113T T 4.0 5.4 - - - +
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Residues in contact with GLN 58 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54D MET* 2.7 39.8 + - + +
55D PHE* 3.4 12.8 - - + +
56D GLU 2.7 1.4 + - - -
57D ARG* 1.3 114.1 + - - +
59D LEU* 1.3 60.2 + - - +
61D ALA* 3.4 7.8 - - - +
63D GLU* 3.0 53.0 + - - +
64D VAL* 5.1 1.6 - - - +
66D ASP* 4.7 10.7 + - - +
67D ASN* 4.5 19.4 - - + +
112T G 5.0 12.4 + - - -
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Residues in contact with LEU 59 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55D PHE* 3.5 39.3 - - + +
56D GLU* 2.9 16.6 + - + +
58D GLN* 1.3 75.2 - - - +
60D LYS* 1.3 84.0 + - + +
61D ALA 2.7 15.1 + - - -
62D GLY 3.0 9.8 + - - +
63D GLU 4.3 0.2 - - - +
64D VAL* 3.2 29.2 - - + -
127D THR* 2.8 33.6 - - + +
128D SER* 3.8 2.8 - - - -
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Residues in contact with LYS 60 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56D GLU* 2.6 65.7 + - + +
57D ARG* 4.0 9.2 - - - +
59D LEU* 1.3 81.5 - - + +
61D ALA* 1.3 59.6 + - - +
128D SER* 5.4 4.7 - - - -
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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