Contacts of the helix formed by residues 33 - 64 (chain D) in PDB entry 5HZZ
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 PRO 33 (chain D).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B GLN* 3.9 0.2 - - - +
30D THR* 6.5 0.2 - - + -
31D PRO 4.3 2.7 - - - +
32D PRO* 1.3 90.8 - - + +
34D PRO* 1.3 76.6 - - + +
35D GLU* 3.2 14.4 - - + +
36D LEU* 3.1 31.9 + - + +
37D LEU* 3.4 8.1 + - - +
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Residues in contact with PRO 34 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B LEU* 3.6 16.1 - - + +
62B GLN* 3.4 33.4 - - + +
33D PRO* 1.3 87.8 - - + +
35D GLU* 1.3 68.2 + - - +
37D LEU* 3.1 2.9 + - + +
38D ARG* 2.9 48.8 + - - +
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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
----------------------------------------------------------
120B ASP 4.7 4.4 - - - +
33D PRO* 3.6 20.3 - - + +
34D PRO* 1.3 83.3 - - - +
36D LEU* 1.3 62.7 + - - +
38D ARG* 3.5 27.3 + - - +
39D LEU* 3.1 23.2 + - - +
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Residues in contact with LEU 36 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24D ALA* 4.8 9.2 - - + -
32D PRO* 3.7 24.2 - - + -
33D PRO* 3.1 24.9 + - + +
35D GLU* 1.3 77.0 - - - +
37D LEU* 1.3 70.3 + - + +
39D LEU* 3.2 6.9 + - - +
40D ARG* 2.9 45.8 + - + +
93D GLN* 3.6 52.0 - - + +
94D LEU* 4.4 11.7 - - + -
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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
----------------------------------------------------------
55B ILE* 3.9 18.4 - - + +
58B LEU* 3.8 26.9 - - + -
59B LEU* 3.7 17.7 - - + -
62B GLN* 3.6 24.9 - - - +
68B LEU* 4.6 0.4 - - + -
76B LEU* 4.0 27.8 - - + -
32D PRO* 3.6 31.0 - - + -
33D PRO 3.4 2.6 + - - +
34D PRO 3.1 7.9 + - - +
36D LEU* 1.3 83.9 - - + +
38D ARG* 1.3 61.6 + - - +
40D ARG* 3.3 6.8 + - + +
41D GLN* 3.1 22.9 + - - +
94D LEU* 4.5 1.8 - - + -
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Residues in contact with ARG 38 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B LEU* 3.9 25.5 - - + +
34D PRO* 2.9 34.6 + - - +
35D GLU* 3.7 35.9 + - - +
36D LEU 3.2 0.2 - - - -
37D LEU* 1.3 76.2 - - - +
39D LEU* 1.3 63.6 + - - +
41D GLN* 3.3 8.1 + - - +
42D THR* 3.0 26.3 + - - +
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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
----------------------------------------------------------
118B ARG* 4.8 0.9 - - - +
120B ASP* 3.6 51.1 - - - +
121B GLY* 3.9 17.3 - - - +
122B LYS* 3.8 12.8 - - + +
35D GLU 3.1 15.1 + - - +
36D LEU* 3.2 5.4 + - - +
38D ARG* 1.3 77.1 - - - +
40D ARG* 1.3 64.1 + - - +
42D THR* 3.1 5.0 + - - -
43D LEU* 2.9 49.5 + - + +
93D GLN* 4.5 15.7 - - - +
201D UMP 4.9 2.0 - - - +
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Residues in contact with ARG 40 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55B ILE* 4.8 7.6 - - + -
18D HIS* 3.9 13.1 + - - -
36D LEU* 2.9 38.4 + - + +
37D LEU* 3.3 8.3 + - + +
39D LEU* 1.3 82.7 - - - +
41D GLN* 1.3 61.4 + - - +
43D LEU* 3.4 29.8 + - - +
44D LEU* 3.0 30.8 + - + +
86D VAL* 3.2 33.1 + - - +
89D GLY* 3.5 17.7 - - - -
90D ALA* 3.5 31.7 - - + +
93D GLN* 3.0 33.5 + - - -
94D LEU* 6.3 0.2 - - + -
201D UMP 4.7 6.5 + - - -
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Residues in contact with GLN 41 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48B SER 5.3 1.2 + - - -
51B VAL* 5.4 0.2 - - - +
52B ARG* 3.3 46.8 - - + +
55B ILE* 3.4 29.7 - - + +
56B ASP* 4.7 4.1 - - - +
59B LEU* 6.0 0.7 - - + -
37D LEU 3.1 12.8 + - - +
38D ARG* 3.6 10.3 - - - +
40D ARG* 1.3 77.3 - - - +
42D THR* 1.3 63.2 + - - +
44D LEU* 3.3 10.6 + - - +
45D ASP* 2.9 57.9 + - - +
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Residues in contact with THR 42 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118B ARG* 3.6 27.8 - - - +
120B ASP* 4.0 10.3 + - - +
38D ARG* 3.0 15.1 + - - +
39D LEU* 3.1 9.1 + - + -
41D GLN* 1.3 76.1 - - - +
43D LEU* 1.3 58.6 + - + +
45D ASP* 3.3 8.0 + - - +
46D GLU* 2.9 32.3 + - + +
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Residues in contact with LEU 43 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118B ARG* 5.0 2.2 - - - +
122B LYS* 4.0 36.3 - - + -
39D LEU* 2.9 34.7 + - + +
40D ARG* 3.7 37.5 - - - +
42D THR* 1.3 76.3 - - - +
44D LEU* 1.3 58.3 + - - +
46D GLU* 3.9 9.3 - - - +
47D ALA* 3.0 30.5 + - - +
86D VAL* 3.8 21.2 - - + +
201D UMP 3.8 28.5 - - + +
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Residues in contact with LEU 44 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48B SER* 6.6 0.4 - - - -
51B VAL* 3.7 27.4 - - + -
55B ILE* 4.1 13.7 - - + -
80B LEU* 4.3 9.9 - - + -
83B LEU* 3.8 18.2 - - + -
40D ARG* 3.0 25.5 + - + +
41D GLN* 3.6 11.2 - - - +
43D LEU* 1.3 77.5 - - - +
45D ASP* 1.3 56.8 + - - +
47D ALA* 3.4 1.4 + - - +
48D SER* 2.9 35.9 + - - +
83D LEU* 4.2 4.6 - - + +
86D VAL* 4.0 19.5 - - + +
87D THR* 3.5 30.5 - - - +
90D ALA* 5.1 2.0 - - + -
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Residues in contact with ASP 45 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52B ARG* 2.6 35.5 + - - +
41D GLN* 2.9 42.3 + - - +
42D THR* 3.7 6.5 - - - +
44D LEU* 1.3 76.5 - - - +
46D GLU* 1.3 62.4 + - - +
48D SER* 3.3 5.2 + - - -
49D ALA* 3.0 25.3 + - - +
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Residues in contact with GLU 46 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118B ARG* 4.6 7.5 + - - -
122B LYS* 2.7 33.2 + - - +
42D THR* 2.9 18.5 + - + +
43D LEU* 3.9 12.1 - - - +
45D ASP* 1.3 77.2 - - - +
47D ALA* 1.3 62.8 + - - +
49D ALA* 3.3 7.2 + - - +
50D GLU* 3.2 33.6 + - + +
201D UMP 2.9 1.3 + - - -
202D MN 2.2 29.3 + - - +
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Residues in contact with ALA 47 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43D LEU 3.0 18.2 + - - +
44D LEU 3.9 2.7 - - - +
46D GLU* 1.3 75.9 - - - +
48D SER* 1.3 63.4 + - - +
50D GLU* 3.2 15.5 + - - +
51D VAL* 3.0 27.4 + - - +
79D GLU* 4.6 0.7 - - - +
82D ASP* 4.3 6.7 - - + +
83D LEU* 3.9 33.2 - - + +
86D VAL* 4.0 11.2 - - + -
203D MN 4.5 0.2 - - - -
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Residues in contact with SER 48 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41B GLN* 5.3 1.6 + - - -
45B ASP* 5.8 0.7 - - - -
48B SER* 3.6 23.4 + - - -
52B ARG* 6.1 1.6 - - - -
44D LEU* 2.9 21.0 + - - +
45D ASP* 3.8 6.5 - - - -
47D ALA* 1.3 76.7 - - - +
49D ALA* 1.3 62.3 + - - +
51D VAL* 3.3 8.8 + - - +
52D ARG* 3.0 37.7 + - - +
83D LEU* 3.8 16.0 - - - +
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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 ASP 3.0 17.4 + - - +
46D GLU* 3.7 7.0 - - - +
48D SER* 1.3 77.1 - - - +
50D GLU* 1.3 57.0 + - + +
52D ARG* 3.4 17.7 + - - +
53D ALA* 3.0 28.1 + - - +
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Residues in contact with GLU 50 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57C HIS* 5.5 12.8 - - + -
46D GLU* 3.2 25.0 + - + +
47D ALA* 3.6 8.0 - - - +
49D ALA* 1.3 75.7 - - + +
51D VAL* 1.3 65.6 + - - +
53D ALA* 3.4 7.8 + - - +
54D GLU* 3.1 27.5 + - - +
79D GLU* 3.5 20.9 - - - +
202D MN 2.1 31.0 + - - -
203D MN 2.0 34.2 + - - -
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Residues in contact with VAL 51 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41B GLN* 5.0 2.2 - - - +
44B LEU* 3.8 28.0 - - + -
47D ALA 3.0 15.1 + - - +
48D SER* 3.6 8.7 - - - +
50D GLU* 1.3 76.6 - - - +
52D ARG* 1.3 58.7 + - - +
54D GLU* 3.0 4.5 + - - +
55D ILE* 2.9 39.9 + - + +
76D LEU* 4.1 6.7 - - + +
79D GLU* 3.3 39.5 - - + +
80D LEU* 3.8 18.6 - - + +
83D LEU* 4.3 11.7 - - + -
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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
----------------------------------------------------------
41B GLN* 3.3 28.9 - - - +
45B ASP* 2.6 36.0 + - - -
48D SER* 3.0 21.1 + - - +
49D ALA* 3.7 25.2 - - - +
50D GLU 3.3 0.2 - - - -
51D VAL* 1.3 76.4 - - - +
53D ALA* 1.3 63.0 + - - +
55D ILE* 3.4 0.9 + - - +
56D ASP* 2.9 45.6 + - - +
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Residues in contact with ALA 53 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49D ALA 3.0 16.7 + - - +
50D GLU* 3.6 9.2 - - - +
51D VAL 3.2 0.4 - - - -
52D ARG* 1.3 78.5 - - - +
54D GLU* 1.3 63.8 + - - +
56D ASP* 3.4 7.9 + - - +
57D HIS* 3.1 26.3 + - - +
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Residues in contact with GLU 54 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50D GLU 3.1 13.4 + - - +
51D VAL 3.0 7.3 + - - +
53D ALA* 1.3 80.2 - - - +
55D ILE* 1.3 66.8 + - - +
57D HIS* 3.4 17.3 + - - +
58D LEU* 3.2 28.1 + - - +
75D PRO* 3.5 28.0 - - - +
76D LEU* 3.9 21.5 - - + +
79D GLU* 3.7 23.7 - - + +
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Residues in contact with ILE 55 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37B LEU* 4.1 28.7 - - + +
38B ARG* 5.6 0.2 - - - -
40B ARG* 5.2 3.1 - - + -
41B GLN* 3.4 47.1 - - + +
44B LEU* 4.7 4.7 - - + -
51D VAL* 2.9 30.4 + - + +
52D ARG 3.9 0.2 - - - +
54D GLU* 1.3 74.6 - - - +
56D ASP* 1.3 65.3 + - - +
58D LEU* 3.2 9.0 + - - +
59D LEU* 3.0 40.2 + - + +
76D LEU* 3.7 23.3 - - + -
80D LEU* 5.9 0.2 - - + -
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Residues in contact with ASP 56 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41B GLN* 5.0 1.0 - - - +
52D ARG* 2.9 37.8 + - - +
53D ALA* 3.6 7.6 - - - +
55D ILE* 1.3 80.3 - - - +
57D HIS* 1.3 61.4 + - - +
59D LEU* 3.4 14.8 + - - +
60D ALA* 3.0 24.8 + - - +
----------------------------------------------------------
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Residues in contact with HIS 57 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125A LYS* 6.4 0.2 - - - -
46C GLU* 4.7 12.4 + - - -
50C GLU* 5.2 4.9 + - - -
53D ALA 3.1 16.2 + - - +
54D GLU* 3.9 18.3 + - - +
55D ILE 3.3 0.2 - - - -
56D ASP* 1.3 76.3 - - - +
58D LEU* 1.3 64.7 + - + +
60D ALA* 3.4 8.2 + - + +
61D ARG* 3.0 60.7 + - + +
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Residues in contact with LEU 58 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32B PRO* 5.6 0.2 - - + -
37B LEU* 4.0 19.1 - - + -
54D GLU 3.2 13.9 + - - +
55D ILE* 3.2 6.7 + - - +
57D HIS* 1.3 78.2 - - + +
59D LEU* 1.3 57.1 + - - +
61D ARG* 3.3 14.9 + - - +
62D GLN* 2.9 34.8 + - - +
68D LEU* 4.3 27.7 - - + +
72D ASP 3.6 24.0 - - - +
73D LEU* 4.1 18.4 - - + -
76D LEU* 3.8 35.9 - - + -
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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
----------------------------------------------------------
34B PRO* 3.7 42.8 - - + +
37B LEU* 3.7 15.9 - - + -
38B ARG* 4.1 26.7 - - + +
55D ILE* 3.0 36.9 + - + +
56D ASP* 3.7 12.3 - - - +
58D LEU* 1.3 75.4 - - - +
60D ALA* 1.3 57.9 + - - +
62D GLN* 3.3 5.6 + - - +
63D ALA* 2.9 29.9 + - - +
----------------------------------------------------------
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Residues in contact with ALA 60 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A ARG* 5.5 0.4 + - - -
56D ASP 3.0 18.1 + - - +
57D HIS* 3.8 10.3 - - + +
59D LEU* 1.3 74.3 - - - +
61D ARG* 1.3 66.8 + - + +
63D ALA* 3.3 8.3 + - - +
64D ALA* 3.3 21.0 + - - +
----------------------------------------------------------
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Residues in contact with ARG 61 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A ARG* 5.4 0.7 - - - +
125A LYS* 6.0 4.0 - - - +
57D HIS* 3.0 50.6 + - + +
58D LEU* 3.7 14.0 - - - +
60D ALA* 1.3 77.0 - - + +
62D GLN* 1.3 62.6 + - - +
64D ALA* 3.1 10.2 + - - -
66D GLU* 2.9 67.7 + - + +
67D ALA 5.3 1.6 + - - -
68D LEU* 4.1 11.8 - - + +
72D ASP* 3.2 47.6 + - - +
----------------------------------------------------------
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Residues in contact with GLN 62 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31B PRO* 5.4 0.8 - - - +
32B PRO* 2.8 28.7 + - - +
33B PRO* 4.5 0.2 - - - +
34B PRO* 3.4 38.3 - - + +
37B LEU* 3.9 8.0 - - - +
58D LEU 2.9 16.6 + - - +
59D LEU* 3.6 15.4 - - - +
61D ARG* 1.3 75.9 - - - +
63D ALA* 1.3 61.6 + - - +
65D GLY* 3.0 15.2 + - - -
66D GLU 4.5 9.0 - - - +
68D LEU* 3.4 31.4 - - + +
----------------------------------------------------------
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Residues in contact with ALA 63 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59D LEU 2.9 17.5 + - - +
60D ALA* 3.3 9.4 + - - +
62D GLN* 1.3 77.1 - - - +
64D ALA* 1.3 58.7 + - + +
65D GLY 3.7 0.5 + - - -
----------------------------------------------------------
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Residues in contact with ALA 64 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A ARG* 3.1 53.9 - - - +
119A ALA* 4.4 8.7 + - - +
120A ASP* 5.4 2.4 + - - +
60D ALA 3.3 9.6 + - - +
61D ARG 3.1 7.2 + - - +
62D GLN 3.0 1.2 - - - -
63D ALA* 1.3 75.8 - - - +
65D GLY* 1.3 58.3 + - - +
66D GLU 3.4 1.6 - - - -
----------------------------------------------------------
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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
------------------------------------------------------------
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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