Contacts of the helix formed by residues 54 - 83 (chain B) in PDB entry 1UMN
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 GLY 54 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53B ARG* 1.3 74.3 - - - +
55B PHE* 1.3 64.7 + - - +
56B MET 3.3 2.9 - - - -
57B ILE* 3.2 3.5 + - - +
58B TRP* 2.9 32.5 + - - +
111B ILE* 4.0 6.3 - - - -
165F GLU* 2.9 10.7 + - - -
53J ARG* 3.9 11.9 - - - -
1174J EPE 3.8 22.8 + - - -
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Residues in contact with PHE 55 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47B HIS 4.6 1.3 - - - -
48B TRP 5.5 0.9 - - - -
50B MET* 3.2 50.3 - - + -
52B GLY 3.0 18.5 + - - +
54B GLY* 1.3 77.7 - - - +
56B MET* 1.3 66.5 + - + +
59B HIS* 2.8 76.9 + + + +
111B ILE* 4.1 1.3 - - - +
160F TRP* 3.9 21.3 - + - -
161F MET* 3.7 40.8 - - + -
164F ALA* 3.6 15.9 - - + +
165F GLU* 3.3 14.3 + - - +
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Residues in contact with MET 56 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54B GLY 3.3 0.2 - - - -
55B PHE* 1.3 82.6 - - + +
57B ILE* 1.3 60.2 + - - +
59B HIS* 6.5 0.2 - - - -
60B PRO* 3.1 25.0 - - - +
57F ILE* 3.8 26.8 - - + +
58F TRP* 3.4 46.4 - - + +
61F LYS* 3.7 31.9 - - + +
65F TYR* 4.4 4.5 - - - +
161F MET* 4.0 36.8 - - + +
165F GLU* 3.0 7.6 + - - +
1174J EPE 6.0 0.4 - - - +
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Residues in contact with ILE 57 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54B GLY 3.2 6.8 + - - +
55B PHE 3.1 0.4 - - - -
56B MET* 1.3 77.9 - - - +
58B TRP* 1.3 73.4 + - + +
59B HIS 3.5 0.2 - - - -
60B PRO* 3.3 16.7 - - - +
61B LYS* 3.4 11.7 + - - +
57F ILE* 3.2 35.2 - - + -
56J MET* 3.7 35.7 - - + -
57J ILE* 3.1 31.2 - - + -
1174J EPE 3.8 22.4 - - - +
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Residues in contact with TRP 58 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50B MET* 3.7 19.3 - - + -
54B GLY* 2.9 32.2 + - - +
57B ILE* 1.3 86.9 - - + +
59B HIS* 1.3 64.8 + - - +
61B LYS* 3.6 23.7 - - + +
62B MET* 3.1 40.8 + - + +
65B TYR* 3.6 13.0 - + - -
111B ILE* 4.3 6.7 - - + -
115B LEU* 3.7 20.8 - - + +
162B LEU* 3.4 32.3 - - + -
165B GLU* 3.4 53.0 + - + +
53J ARG* 4.7 2.5 - - - -
56J MET* 3.3 33.2 - - + +
1174J EPE 5.5 1.9 + - - -
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Residues in contact with HIS 59 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47B HIS* 2.7 83.7 + + - -
48B TRP* 5.0 0.4 - + - -
50B MET* 3.4 10.4 - - - -
55B PHE* 2.8 47.1 + + + +
56B MET* 6.5 0.4 - - - -
58B TRP* 1.3 74.1 - - - +
60B PRO* 1.3 71.1 - - + +
62B MET* 3.2 6.7 + - - +
78D GLU* 4.9 2.8 + - - -
160F TRP* 3.5 33.8 - + - -
161F MET* 3.6 21.7 - - + +
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Residues in contact with PRO 60 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47B HIS* 4.6 1.3 - - + -
56B MET* 3.1 30.7 - - - +
57B ILE* 3.3 10.1 - - - +
59B HIS* 1.3 103.9 - - + +
61B LYS* 1.3 62.6 + - - +
63B ASP* 3.0 24.0 + - + +
64B GLU* 3.2 13.1 + - - +
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Residues in contact with LYS 61 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57B ILE* 3.4 18.2 + - + +
58B TRP* 3.3 26.4 + - + +
59B HIS 3.2 1.0 - - - -
60B PRO* 1.3 78.5 - - - +
62B MET* 1.3 59.8 + - - +
64B GLU* 2.9 53.4 + - + +
65B TYR* 2.9 45.0 + - + +
56J MET* 3.6 35.0 - - - -
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Residues in contact with MET 62 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43B LEU* 4.0 12.9 - - - +
46B VAL* 3.8 21.5 - - + -
47B HIS* 3.7 21.8 - - + +
50B MET* 3.9 13.7 - - + -
58B TRP* 3.1 43.6 + - + +
59B HIS 3.4 8.1 - - - +
60B PRO 3.2 0.4 - - - -
61B LYS* 1.3 76.4 - - - +
63B ASP* 1.3 56.7 + - - +
65B TYR* 3.3 36.5 + - + +
66B MET* 2.8 33.8 + - - +
115B LEU* 4.5 11.2 - - + -
118B VAL* 3.9 20.2 - - + -
162B LEU* 5.1 0.4 - - + -
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Residues in contact with ASP 63 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47B HIS* 4.3 16.1 + - + -
59B HIS 3.7 1.0 + - - -
60B PRO* 3.0 17.5 + - + +
62B MET* 1.3 76.3 - - - +
64B GLU* 1.3 65.3 + - + +
66B MET* 3.3 16.5 + - - +
67B GLU* 3.0 27.4 + - - +
2173B CA 2.5 29.3 - - - -
74D ASP* 5.6 0.3 - - - +
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Residues in contact with GLU 64 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60B PRO* 3.2 11.5 + - - +
61B LYS* 2.9 46.9 + - + +
63B ASP* 1.3 79.3 - - + +
65B TYR* 1.3 64.7 + - + +
67B GLU* 3.1 9.8 + - - +
68B GLU* 2.9 22.2 + - - +
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Residues in contact with TYR 65 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43B LEU* 4.0 16.2 - - + -
58B TRP* 3.6 11.1 - - - -
61B LYS* 2.9 32.2 + - + +
62B MET* 3.6 42.2 - - + +
64B GLU* 1.3 79.5 - - + +
66B MET* 1.3 56.8 + - - +
68B GLU* 3.1 6.6 + - + +
69B ILE* 2.9 33.3 + - - +
118B VAL* 4.2 3.6 - - + -
122B PHE* 3.8 25.7 - + + -
158B HIS* 3.6 41.2 + + + +
161B MET* 5.2 1.0 - - - +
162B LEU* 3.6 34.3 - - + +
56J MET* 4.3 6.4 - - - +
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Residues in contact with MET 66 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B HIS* 3.5 34.1 + - + +
43B LEU* 3.7 22.2 - - + +
44B HIS* 3.6 50.5 - - + +
47B HIS* 3.9 20.4 - - + -
62B MET 2.8 24.1 + - - +
63B ASP* 3.6 25.4 - - - +
64B GLU 3.2 0.2 - - - -
65B TYR* 1.3 77.0 - - - +
67B GLU* 1.3 57.4 + - - +
69B ILE* 3.2 1.3 + - - +
70B ASP* 2.9 32.3 + - - -
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Residues in contact with GLU 67 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63B ASP* 3.0 17.5 + - - +
64B GLU* 3.1 12.1 + - - +
66B MET* 1.3 77.2 - - - +
68B GLU* 1.3 63.3 + - - +
70B ASP* 3.3 11.0 + - + +
71B GLY* 3.0 19.2 + - - -
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Residues in contact with GLU 68 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64B GLU 2.9 12.6 + - - +
65B TYR* 3.5 11.2 - - - +
67B GLU* 1.3 77.2 - - - +
69B ILE* 1.3 64.5 + - + +
71B GLY* 3.0 12.1 + - - -
72B TYR* 2.7 52.3 + - + +
154B SER* 3.3 12.7 + - - -
155B ILE* 4.2 1.6 + - - +
158B HIS* 2.7 39.7 + - + -
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Residues in contact with ILE 69 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36B LEU* 3.3 42.2 - - + +
39B ALA* 4.7 2.0 - - + -
40B HIS* 4.0 16.4 - - + +
43B LEU* 3.5 19.7 - - + -
65B TYR 2.9 18.1 + - - +
66B MET 3.5 7.2 - - - +
68B GLU* 1.3 78.2 - - + +
70B ASP* 1.3 62.3 + - - +
72B TYR* 3.2 16.3 + - + +
73B LEU* 3.0 21.7 + - + +
122B PHE* 4.5 11.7 - - + -
125B LEU* 3.8 27.4 - - + -
155B ILE* 4.7 5.8 - - + -
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Residues in contact with ASP 70 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B HIS* 2.8 39.8 + - - +
66B MET 2.9 10.6 + - - +
67B GLU* 3.5 12.5 - - + +
69B ILE* 1.3 76.4 - - - +
71B GLY* 1.3 58.5 + - - +
73B LEU* 3.2 15.6 + - - +
74B ASP* 2.9 38.0 + - - +
40D HIS* 5.8 3.2 + - - -
70D ASP* 4.8 9.4 - - - +
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Residues in contact with GLY 71 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67B GLU 3.0 10.9 + - - -
68B GLU* 3.0 9.9 + - - -
70B ASP* 1.3 78.2 - - - +
72B TYR* 1.3 63.8 + - - +
74B ASP* 3.2 12.9 + - - +
75B GLU* 3.1 26.7 + - - +
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Residues in contact with TYR 72 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36B LEU* 3.7 16.2 - - + -
68B GLU* 2.7 48.2 + - + -
69B ILE* 3.2 17.0 + - + +
71B GLY* 1.3 73.7 - - - +
73B LEU* 1.3 60.8 + - - +
75B GLU* 3.3 10.5 + - + +
76B MET* 2.9 43.9 + - + +
129B PHE* 4.4 7.9 - + - -
147B ILE* 5.6 0.9 - - + -
150B VAL* 4.8 6.1 - - + -
151B ALA* 3.5 33.7 - - + -
154B SER* 1.8 35.6 + - - -
155B ILE* 4.3 13.5 - - + -
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Residues in contact with LEU 73 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33B VAL* 3.8 45.5 - - + +
36B LEU* 3.5 14.7 - - + +
37B SER* 4.1 19.7 - - - +
40B HIS* 6.4 1.1 - - + -
69B ILE* 3.0 14.0 + - + +
70B ASP* 3.5 19.3 - - - +
72B TYR* 1.3 76.8 - - - +
74B ASP* 1.3 53.2 + - - +
76B MET* 4.9 0.4 - - - -
77B SER* 2.6 41.9 + - - +
94B PHE* 6.0 0.4 - - + -
44D HIS* 4.1 23.6 - - + +
48D TRP* 4.0 16.4 - - + -
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Residues in contact with ASP 74 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70B ASP* 2.9 21.2 + - - +
71B GLY* 3.3 14.3 - - - +
72B TYR 3.2 0.2 - - - -
73B LEU* 1.3 77.3 - - - +
75B GLU* 1.3 68.3 + - - +
77B SER* 3.8 4.0 - - - -
78B GLU* 3.1 45.4 + - - +
44D HIS* 4.4 18.9 + - - -
47D HIS* 5.6 2.8 + - - -
48D TRP* 5.7 0.2 - - - +
63D ASP* 5.4 3.4 - - - +
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Residues in contact with GLU 75 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71B GLY 3.1 16.8 + - - +
72B TYR* 3.7 13.9 - - + +
74B ASP* 1.3 85.1 - - - +
76B MET* 1.3 57.5 + - - +
78B GLU* 4.0 6.8 - - - +
79B ARG* 3.0 28.6 + - - +
147B ILE* 3.9 32.6 - - + +
157G LYS* 4.7 16.7 + - - +
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Residues in contact with MET 76 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29B LEU* 3.7 36.0 - - + +
32B ALA* 3.7 25.4 - - + -
33B VAL* 4.6 4.0 - - + -
36B LEU* 3.9 16.2 - - + -
72B TYR* 2.9 24.0 + - + +
73B LEU* 4.4 1.3 - - - +
75B GLU* 1.3 71.5 - - - +
77B SER* 1.3 63.7 + - - +
79B ARG* 3.4 1.5 + - - -
80B LEU* 3.0 23.7 + - - +
129B PHE* 3.8 15.3 - - + -
147B ILE* 3.8 20.6 - - + +
148B PHE* 3.8 19.3 - - + -
151B ALA* 3.7 29.8 - - + -
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Residues in contact with SER 77 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33B VAL* 3.9 19.4 - - - +
73B LEU 2.6 28.6 + - - -
74B ASP* 3.3 5.7 + - - -
76B MET* 1.3 73.5 - - - +
78B GLU* 1.3 64.7 + - - +
80B LEU* 3.1 6.2 + - - +
81B ILE* 2.9 33.8 + - - +
87B PRO* 4.7 4.6 - - - +
48D TRP* 2.9 44.5 + - - -
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Residues in contact with GLU 78 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74B ASP* 3.1 32.5 + - - +
75B GLU* 4.0 3.8 - - - +
77B SER* 1.3 86.6 + - - +
79B ARG* 1.3 53.5 + - - +
81B ILE* 3.4 9.0 + - - +
82B THR* 2.7 38.3 + - - -
47D HIS* 4.8 10.7 + - - +
48D TRP* 5.2 7.0 - - + +
59D HIS* 4.9 2.1 + - - +
157G LYS* 2.8 37.1 + - - +
160G TRP* 3.7 29.7 - - + -
161G MET* 5.3 3.0 - - - +
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Residues in contact with ARG 79 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29B LEU* 3.9 10.3 - - + -
75B GLU 3.0 19.6 + - - +
76B MET* 3.8 5.8 - - - +
77B SER 3.2 0.2 - - - -
78B GLU* 1.3 76.5 - - - +
80B LEU* 1.3 63.5 + - - +
82B THR* 3.2 16.7 + - - +
83B LEU* 3.0 49.0 + - + +
141B ASP* 3.1 22.0 + - - -
143B VAL* 3.4 33.0 - - - +
144B THR* 3.2 24.1 + - - +
147B ILE* 3.8 17.7 - - + -
152G LYS* 4.0 6.3 - - - +
153G ALA 5.0 2.4 + - - -
156G GLU* 2.9 37.4 + - - +
157G LYS* 4.8 3.7 - - - +
172G LEU* 4.5 0.6 - - - +
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Residues in contact with LEU 80 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26B LYS* 3.5 42.8 - - + +
29B LEU* 3.9 12.1 - - + +
30B ASN* 3.5 41.3 - - + +
33B VAL* 4.9 2.5 - - + -
76B MET 3.0 14.7 + - - +
77B SER 3.1 7.8 + - - +
79B ARG* 1.3 77.6 - - - +
81B ILE* 1.3 59.5 + - - +
83B LEU* 3.2 8.6 + - - -
85B GLY* 2.8 40.3 + - - -
86B ALA 4.0 2.2 - - - +
87B PRO* 3.7 22.9 - - + -
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Residues in contact with ILE 81 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77B SER 2.9 19.5 + - - +
78B GLU* 3.7 7.0 - - - +
80B LEU* 1.3 74.8 - - - +
82B THR* 1.3 58.5 - - - +
84B GLY* 2.9 20.4 + - - -
85B GLY 3.9 8.5 + - - +
87B PRO* 3.8 13.5 - - + -
48D TRP* 3.5 55.9 - - + +
51D ARG* 5.8 1.3 + - - +
107D TYR* 3.6 24.3 + - + +
160G TRP* 3.2 41.7 - - + +
170G PRO* 3.5 10.6 - - + +
----------------------------------------------------------
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Residues in contact with THR 82 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78B GLU 2.7 23.0 + - - -
79B ARG* 3.2 22.3 + - - +
81B ILE* 1.3 78.0 - - - +
83B LEU* 1.3 57.0 + - - +
84B GLY 3.1 1.6 + - - -
156G GLU 3.5 28.7 - - - +
157G LYS* 4.3 6.8 + - - +
160G TRP* 3.7 22.6 - - + +
170G PRO* 3.3 25.5 - - + +
172G LEU* 3.7 27.4 + - + +
----------------------------------------------------------
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Residues in contact with LEU 83 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25B SER* 4.7 3.6 - - - -
26B LYS* 3.5 33.6 + - + +
29B LEU* 3.8 16.2 - - + -
79B ARG* 3.0 45.0 + - - +
80B LEU 3.2 5.5 + - - +
82B THR* 1.3 76.7 - - - +
84B GLY* 1.3 60.6 + - - +
85B GLY 3.4 0.2 - - - -
141B ASP* 3.5 22.7 - - - +
144B THR* 3.8 10.3 - - - +
172G LEU* 4.7 10.5 - - + -
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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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