Contacts of the helix formed by residues 54 - 83 (chain J) in PDB entry 2UX1
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 J).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165B GLU* 3.2 10.6 + - - -
53F ARG* 3.7 11.4 - - - -
53J ARG* 1.3 72.5 - - - +
55J PHE* 1.3 66.0 + - - +
56J MET 3.2 2.7 - - - -
57J ILE* 3.0 13.2 - - - +
58J TRP* 3.0 27.1 + - - +
111J ILE* 4.8 2.5 - - - -
173J EPE 3.6 21.2 + - - -
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Residues in contact with PHE 55 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160B TRP* 4.0 19.7 - + - -
161B MET* 3.7 39.3 - - + -
164B ALA* 3.7 14.6 - - + +
165B GLU* 3.2 14.7 + - - +
47J HIS 4.5 2.7 - - - -
48J TRP 5.6 0.7 - - - -
50J MET* 3.4 50.5 - - + -
52J GLY 3.0 18.6 + - - +
54J GLY* 1.3 75.7 - - - +
56J MET* 1.3 71.6 + - + +
59J HIS* 2.8 75.5 + + + +
111J ILE* 4.4 0.8 - - - +
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Residues in contact with MET 56 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57B ILE* 3.9 27.3 - - + +
58B TRP* 3.2 35.0 - - + -
61B LYS* 3.9 31.6 - - + +
65B TYR* 4.5 5.2 - - - +
161B MET* 3.9 39.9 - - + +
165B GLU* 3.0 14.3 + - - +
54J GLY 3.1 0.4 + - - -
55J PHE* 1.3 88.2 - - + +
57J ILE* 1.3 56.8 + - - +
59J HIS* 6.3 0.4 - - - -
60J PRO* 3.3 23.8 - - - +
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Residues in contact with ILE 57 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57B ILE* 4.2 26.3 - - + +
56F MET* 3.9 45.5 - - + +
57F ILE* 4.4 11.7 - - + +
54J GLY* 3.0 24.9 - - - +
56J MET* 1.3 78.3 - - - +
58J TRP* 1.3 78.5 + - + +
59J HIS 3.5 0.4 - - - -
60J PRO* 3.5 6.1 - - - +
61J LYS* 3.3 21.6 + - + +
173J EPE 4.4 14.6 - - - +
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Residues in contact with TRP 58 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53F ARG* 4.6 1.4 - - - +
56F MET* 3.5 41.1 - - + -
50J MET* 3.7 22.2 - - + -
54J GLY* 3.0 21.0 + - - +
57J ILE* 1.3 103.7 - - + +
59J HIS* 1.3 67.0 + - - +
61J LYS* 3.5 20.3 - - + +
62J MET* 3.0 33.6 + - + +
65J TYR* 3.7 13.9 - + - -
111J ILE* 4.5 6.5 - - + -
115J LEU* 3.7 28.4 - - + +
162J LEU* 3.6 28.9 - - + -
165J GLU* 3.5 41.6 + - + -
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Residues in contact with HIS 59 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160B TRP* 3.7 14.4 - + - -
161B MET* 3.8 26.1 - - + +
47J HIS* 2.8 81.2 + + - -
50J MET* 3.4 9.4 - - - -
55J PHE* 2.8 46.7 + + + +
56J MET* 6.3 0.7 - - - -
58J TRP* 1.3 80.6 - - - +
60J PRO* 1.4 69.4 - - + +
62J MET* 3.3 6.6 + - - +
78L GLU* 3.5 11.3 + - - -
1173L ZN 3.8 2.0 - - - -
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Residues in contact with PRO 60 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56J MET* 3.3 30.1 - - - +
57J ILE* 3.5 9.2 - - - +
59J HIS* 1.4 101.1 - - + +
61J LYS* 1.3 62.5 + - - +
63J ASP* 3.0 30.7 + - - +
64J GLU* 3.4 11.1 + - - +
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Residues in contact with LYS 61 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56F MET* 4.0 30.6 - - + -
57J ILE* 3.3 20.3 + - + +
58J TRP* 3.1 35.0 + - + +
60J PRO* 1.3 79.6 - - - +
62J MET* 1.3 61.5 + - - +
64J GLU* 2.7 44.4 + - + +
65J TYR* 3.0 44.9 + - + -
158J HIS* 6.3 0.6 - - - -
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Residues in contact with MET 62 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43J LEU* 3.8 32.9 - - - +
46J VAL* 3.8 21.1 - - + -
47J HIS* 3.8 28.7 - - + +
50J MET* 4.3 2.9 - - + -
58J TRP* 3.0 36.4 + - + +
59J HIS 3.5 8.5 - - - +
60J PRO 3.2 0.2 - - - -
61J LYS* 1.3 75.9 - - - +
63J ASP* 1.3 56.1 + - - +
65J TYR* 3.3 31.3 + - + +
66J MET* 2.8 38.7 + - + +
115J LEU* 4.3 9.0 - - + -
118J VAL* 4.0 11.4 - - + -
162J LEU* 5.4 0.2 - - + -
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Residues in contact with ASP 63 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44J HIS* 5.4 1.0 + - - -
47J HIS* 3.3 32.4 + - - -
59J HIS* 5.5 0.2 - - - -
60J PRO* 3.0 18.6 + - - +
62J MET* 1.3 77.6 - - - +
64J GLU* 1.3 56.8 + - + +
66J MET* 3.3 16.2 + - - +
67J GLU* 2.9 30.9 + - - +
74L ASP* 5.1 4.4 - - - +
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Residues in contact with GLU 64 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60J PRO* 3.4 10.1 + - - +
61J LYS* 2.7 51.0 + - + +
63J ASP* 1.3 79.1 - - + +
65J TYR* 1.3 64.5 + - + +
67J GLU* 3.5 14.0 + - - +
68J GLU* 3.1 23.1 + - - +
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Residues in contact with TYR 65 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56F MET* 4.8 5.4 - - - +
43J LEU* 3.9 17.9 - - + -
58J TRP* 3.7 11.4 - + - -
61J LYS* 3.0 33.0 + - + +
62J MET* 3.6 40.8 - - + +
64J GLU* 1.3 77.0 - - + +
66J MET* 1.3 60.1 + - - +
68J GLU* 3.2 6.0 + - - +
69J ILE* 2.9 32.7 + - - +
118J VAL* 4.4 6.3 - - + -
122J PHE* 3.8 28.3 - + + -
158J HIS* 3.6 43.3 + + - +
161J MET* 5.4 1.2 - - - +
162J LEU* 3.7 22.9 - - + +
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Residues in contact with MET 66 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40J HIS* 3.8 29.2 - - + +
43J LEU* 3.6 22.7 - - + +
44J HIS* 3.7 37.0 - - + -
47J HIS* 3.8 24.9 - - + -
62J MET* 2.8 41.6 + - + +
63J ASP* 3.6 21.8 - - - +
65J TYR* 1.3 71.8 - - - +
67J GLU* 1.3 57.8 + - - +
69J ILE* 3.4 2.5 + - - +
70J ASP* 2.9 37.7 + - - +
1173J ZN 4.3 0.2 - - - -
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Residues in contact with GLU 67 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63J ASP 2.9 17.2 + - - +
64J GLU* 3.7 14.2 - - - +
66J MET* 1.3 76.5 - - - +
68J GLU* 1.3 63.2 + - - +
70J ASP* 3.8 7.0 - - - +
71J GLY* 3.1 18.4 + - - -
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Residues in contact with GLU 68 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64J GLU 3.1 14.8 + - - +
65J TYR* 3.2 10.2 + - - +
67J GLU* 1.3 75.3 - - - +
69J ILE* 1.3 67.3 + - + +
71J GLY* 3.2 4.7 + - - -
72J TYR* 2.7 53.2 + - + +
154J SER* 2.4 28.5 + - - -
155J ILE* 4.4 2.9 + - - +
158J HIS* 2.8 31.7 + - - -
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Residues in contact with ILE 69 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36J LEU* 3.3 43.3 - - + +
39J ALA* 4.7 2.0 - - + -
40J HIS* 4.1 8.1 - - + +
43J LEU* 3.8 18.8 - - + -
65J TYR 2.9 19.7 + - - +
66J MET* 3.8 5.8 - - - +
68J GLU* 1.3 76.6 - - + +
70J ASP* 1.3 66.8 + - - +
72J TYR* 3.2 12.7 + - + +
73J LEU* 2.8 28.1 + - + +
122J PHE* 4.6 5.6 - - + -
125J LEU* 4.1 17.5 - - + -
155J ILE* 3.9 27.8 - - + -
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Residues in contact with ASP 70 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40J HIS* 2.7 45.3 + - - +
66J MET* 2.9 17.9 + - - +
67J GLU* 3.8 6.6 - - - +
69J ILE* 1.3 76.6 - - - +
71J GLY* 1.3 56.6 + - - +
73J LEU* 3.4 13.4 - - + +
74J ASP* 2.9 31.9 + - - +
40L HIS* 5.7 4.6 - - - -
44L HIS* 5.5 3.4 - - + -
70L ASP* 5.1 5.7 - - - +
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Residues in contact with GLY 71 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67J GLU 3.1 14.6 + - - -
68J GLU* 3.2 5.8 + - - -
70J ASP* 1.3 73.8 - - - +
72J TYR* 1.3 66.0 + - - +
74J ASP* 3.5 3.2 + - - +
75J GLU* 3.1 26.6 + - - +
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Residues in contact with TYR 72 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36J LEU* 4.0 14.8 - - + -
68J GLU* 2.7 57.0 + - + +
69J ILE* 3.2 14.6 + - + +
71J GLY* 1.3 74.7 - - - +
73J LEU* 1.3 55.4 + - - +
75J GLU* 3.2 19.5 + - - -
76J MET* 2.8 47.3 + - + +
129J PHE* 4.5 7.6 - + - -
147J ILE 5.5 0.2 - - - -
150J VAL* 4.2 9.2 + - + +
151J ALA* 3.6 40.9 - - + -
154J SER* 3.1 18.4 - - - -
155J ILE* 4.3 10.5 - - + -
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Residues in contact with LEU 73 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33J VAL* 3.4 45.3 - - + +
36J LEU* 3.7 16.5 - - + +
37J SER* 3.6 31.9 - - - +
40J HIS* 5.4 1.1 - - + -
69J ILE 2.8 16.1 + - - +
70J ASP* 3.4 19.7 - - - +
72J TYR* 1.3 75.8 - - - +
74J ASP* 1.3 58.2 + - - +
76J MET* 4.1 1.0 - - - +
77J SER* 3.0 31.9 + - - -
44L HIS* 4.9 10.1 - - + +
48L TRP* 4.5 11.2 - - + -
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Residues in contact with ASP 74 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70J ASP 2.9 16.2 + - - +
71J GLY* 4.2 3.8 - - - +
73J LEU* 1.3 76.1 - - - +
75J GLU* 1.3 59.1 + - - +
77J SER* 3.9 0.2 - - - -
78J GLU* 2.9 41.7 + - - +
1174J ZN 1.9 35.7 - - - -
44L HIS* 2.7 31.9 + - + +
47L HIS* 3.4 0.6 - - - -
48L TRP* 2.8 20.7 + - - -
63L ASP* 5.4 2.0 - - - -
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Residues in contact with GLU 75 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71J GLY 3.1 17.6 + - - +
72J TYR* 3.6 24.3 - - - +
74J ASP* 1.3 79.1 - - - +
76J MET* 1.3 58.6 + - - +
78J GLU* 3.5 5.1 + - - +
79J ARG* 3.0 27.4 + - - +
147J ILE* 3.7 41.3 - - + +
150J VAL* 5.7 3.1 - - - +
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Residues in contact with MET 76 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29J LEU* 3.8 31.2 - - + +
32J ALA* 3.7 25.8 - - + -
33J VAL* 4.5 3.8 - - + -
36J LEU* 3.8 15.3 - - + -
72J TYR* 2.8 27.9 + - + +
73J LEU* 4.2 2.2 - - - +
75J GLU* 1.3 70.6 - - - +
77J SER* 1.3 64.3 + - - +
79J ARG* 3.3 4.8 + - - +
80J LEU* 3.1 21.7 + - - +
129J PHE* 4.0 12.3 - - + -
147J ILE* 3.8 29.4 - - + -
148J PHE* 4.0 15.3 - - + -
151J ALA* 3.9 26.9 - - + -
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Residues in contact with SER 77 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33J VAL* 3.7 20.7 - - - +
73J LEU 3.0 19.7 + - - -
74J ASP 3.9 0.4 - - - -
76J MET* 1.3 76.2 - - - +
78J GLU* 1.3 57.4 + - - +
80J LEU* 3.1 7.5 + - - +
81J ILE* 3.0 28.2 + - - +
87J PRO* 3.2 16.0 - - - +
48L TRP* 3.1 42.0 + - - -
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Residues in contact with GLU 78 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157C LYS* 4.0 17.2 + - + -
160C TRP* 3.5 35.9 - - + -
74J ASP* 2.9 27.3 + - - +
75J GLU* 4.0 4.9 - - - +
77J SER* 1.3 72.6 - - - +
79J ARG* 1.3 59.4 + - - +
81J ILE* 3.5 9.4 + - + +
82J THR* 2.8 32.5 + - - -
1174J ZN 2.0 36.9 - - - -
47L HIS* 2.9 12.0 + - - -
48L TRP* 3.5 14.4 - - + -
59L HIS* 3.5 3.5 + - - -
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Residues in contact with ARG 79 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152C LYS* 4.5 3.4 - - - +
153C ALA 4.9 2.6 + - - -
156C GLU* 2.9 35.1 + - - +
157C LYS 5.5 0.2 - - - +
22J LEU* 5.8 0.2 - - - +
29J LEU* 3.9 9.9 - - + -
75J GLU 3.0 17.2 + - - +
76J MET* 3.6 7.2 - - - +
77J SER 3.2 0.4 - - - -
78J GLU* 1.3 76.3 - - - +
80J LEU* 1.3 59.9 + - - +
82J THR* 3.3 24.7 + - - +
83J LEU* 3.0 53.2 + - + +
141J ASP* 3.1 21.8 + - - -
143J VAL* 3.6 23.5 - - - +
144J THR* 3.2 24.2 + - - +
147J ILE* 3.8 25.6 - - + -
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Residues in contact with LEU 80 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26J LYS* 3.6 46.0 - - + +
29J LEU* 4.0 11.2 - - + +
30J ASN* 3.5 46.0 - - + +
33J VAL* 5.2 1.8 - - + -
76J MET 3.1 12.6 + - - +
77J SER* 3.3 8.1 - - - +
79J ARG* 1.3 75.7 - - - +
81J ILE* 1.3 64.9 + - - +
83J LEU* 3.1 9.0 + - - -
85J GLY* 2.9 35.4 + - - -
86J ALA 4.2 3.1 - - - +
87J PRO* 3.7 19.3 - - + -
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Residues in contact with ILE 81 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160C TRP* 3.3 33.4 - - + +
170C PRO* 3.4 13.8 - - + +
77J SER 3.0 15.2 + - - +
78J GLU* 3.6 15.3 - - + +
80J LEU* 1.3 75.7 - - - +
82J THR* 1.3 57.3 + - - +
84J GLY* 3.0 18.7 + - - -
85J GLY 3.9 8.0 - - - +
87J PRO* 3.8 9.6 - - + -
48L TRP* 3.5 49.6 - - + +
51L ARG* 5.4 1.4 + - - +
107L TYR* 3.4 30.9 + - + +
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Residues in contact with THR 82 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156C GLU 3.5 24.7 - - - +
157C LYS* 4.2 6.1 - - - +
160C TRP* 3.4 22.7 - - + +
170C PRO* 3.5 21.3 - - - +
171C LYS 5.2 0.2 + - - -
172C LEU* 3.3 30.5 + - + +
78J GLU 2.8 21.9 + - - -
79J ARG* 3.4 27.5 - - - +
81J ILE* 1.3 76.1 - - - +
83J LEU* 1.3 56.9 + - - +
84J GLY 3.4 2.8 + - - -
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Residues in contact with LEU 83 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172C LEU* 4.3 14.8 - - + -
22J LEU* 3.8 27.0 - - + +
25J SER* 5.2 1.6 - - - -
26J LYS* 3.4 33.1 + - + +
29J LEU* 4.1 13.7 - - + -
79J ARG* 3.0 46.0 + - - +
80J LEU 3.1 5.5 + - - +
82J THR* 1.3 74.9 - - - +
84J GLY* 1.3 59.3 + - - +
85J GLY 3.4 1.8 - - - -
141J ASP* 3.3 21.8 - - - +
144J THR* 3.7 11.0 - - - +
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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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