Contacts of the helix formed by residues 68 - 92 (chain C) in PDB entry 2QW4
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 ASP 68 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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66C LYS 4.2 0.2 + - - -
67C GLU* 1.3 73.5 - - - +
69C ALA* 1.3 65.9 + - - +
70C GLY* 3.1 17.0 + - - -
71C ASP* 3.3 25.1 + - - +
72C VAL* 3.3 22.9 + - - +
146C ARG* 5.1 0.9 + - - +
250C LEU* 3.9 10.1 - - - -
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Residues in contact with ALA 69 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68C ASP* 1.3 76.5 + - - +
70C GLY* 1.3 55.9 + - - +
71C ASP 2.9 0.5 + - - -
72C VAL* 3.1 3.1 + - - +
73C GLN* 2.6 38.6 + - + +
250C LEU* 4.3 16.4 - - + +
251C VAL* 4.1 20.6 - - + +
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Residues in contact with GLY 70 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C ASP* 3.1 16.4 + - - -
69C ALA* 1.3 76.5 - - - +
71C ASP* 1.3 57.6 + - - +
73C GLN* 3.8 5.3 - - - +
74C GLN* 3.0 25.8 + - - +
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Residues in contact with ASP 71 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67C GLU* 3.2 28.4 - - + +
68C ASP* 3.3 11.9 + - - +
69C ALA 2.9 0.8 + - - -
70C GLY* 1.3 72.2 - - - +
72C VAL* 1.3 69.3 + - - +
73C GLN 3.0 1.3 - - - -
74C GLN* 3.1 25.9 + - - +
75C PHE* 3.1 12.0 + - - +
146C ARG* 2.9 55.2 + - + +
147C GLY* 4.2 2.6 - - - -
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Residues in contact with VAL 72 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67C GLU* 4.0 17.0 - - + +
68C ASP 3.3 14.8 + - - +
69C ALA* 3.1 6.9 + - - +
71C ASP* 1.3 79.0 - - - +
73C GLN* 1.3 60.8 + - - +
75C PHE* 3.2 10.4 + - - +
76C TYR* 3.2 33.3 + - + -
146C ARG 5.5 0.2 + - - -
147C GLY* 5.4 1.3 - - - -
245C LEU* 4.1 35.4 - - + +
248C GLU* 6.0 2.0 - - + -
250C LEU* 4.4 16.8 - - + +
251C VAL* 3.4 30.5 - - + +
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Residues in contact with GLN 73 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69C ALA* 2.6 24.6 + - + +
70C GLY* 3.8 5.4 - - - +
72C VAL* 1.3 70.3 - - - +
74C GLN* 1.4 64.9 + - - +
75C PHE 3.1 1.3 - - - -
76C TYR* 3.3 8.9 + - - +
77C ASP* 2.7 68.1 + - - +
251C VAL* 3.3 32.9 - - + +
252C PRO 5.2 1.4 - - - +
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Residues in contact with GLN 74 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70C GLY 3.0 17.7 + - - +
71C ASP* 3.1 12.9 + - - +
73C GLN* 1.4 70.3 - - - +
75C PHE* 1.3 69.3 + - - +
77C ASP* 3.4 7.4 + - - +
78C LEU* 2.9 45.9 + - + +
139C LEU* 4.2 15.8 - - + +
143C GLN 4.1 9.0 + - - -
144C CYS* 3.9 9.1 - - - -
146C ARG* 4.4 1.6 - - - +
147C GLY* 3.4 29.0 - - - +
148C PHE* 3.4 30.7 - - - -
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Residues in contact with PHE 75 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71C ASP 3.1 10.6 + - - +
72C VAL* 3.3 9.9 - - - +
73C GLN 3.1 0.4 - - - -
74C GLN* 1.3 82.4 - - - +
76C TYR* 1.3 69.4 + + - +
78C LEU* 3.6 4.7 - - - +
79C LEU* 3.0 53.3 + - + +
147C GLY* 3.9 18.2 - - - +
148C PHE* 3.9 35.0 - + - -
151C TRP* 3.8 33.2 - + - -
241C ARG* 5.1 4.3 - - + -
242C ILE* 3.8 24.7 - - + -
245C LEU* 3.5 26.9 - - + -
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Residues in contact with TYR 76 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72C VAL* 3.2 17.2 + - + +
73C GLN* 3.3 11.2 + - - +
75C PHE* 1.3 96.7 - + - +
77C ASP* 1.3 67.0 - - - +
79C LEU* 3.2 16.0 + - + +
80C SER* 2.9 28.8 + - - -
242C ILE* 4.2 19.5 + - + +
245C LEU* 4.2 18.2 - - + +
246C LYS* 4.5 5.0 - - - +
251C VAL* 3.5 36.1 - - + -
252C PRO 4.4 0.9 - - - -
253C PRO* 3.6 39.4 - - + +
254C PRO* 3.8 19.8 - - + +
257C ILE* 4.8 6.1 - - + -
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Residues in contact with ASP 77 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73C GLN* 2.7 55.0 + - - +
74C GLN* 3.4 7.1 + - - +
76C TYR* 1.3 75.2 - - - +
78C LEU* 1.3 69.2 + - + +
80C SER* 3.5 5.6 + - - -
81C GLY* 2.9 22.9 + - - -
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Residues in contact with LEU 78 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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74C GLN* 2.9 47.9 + - + +
75C PHE 3.6 4.3 - - - +
77C ASP* 1.3 78.2 - - + +
79C LEU* 1.3 64.3 + - - +
81C GLY* 3.2 5.6 + - - -
82C SER* 2.8 19.6 + - - -
116C PHE* 4.7 4.7 - - + -
133C PHE* 3.5 53.6 - - + -
135C SER* 4.6 10.3 - - - +
137C LEU* 3.8 25.4 - - + -
139C LEU* 4.2 3.1 - - + -
148C PHE* 4.5 3.8 - - + -
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Residues in contact with LEU 79 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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75C PHE* 3.0 50.6 + - + +
76C TYR* 3.5 13.9 - - + +
78C LEU* 1.3 73.1 - - - +
80C SER* 1.3 59.0 + - - +
82C SER* 3.0 21.1 + - - -
112C PHE* 3.2 35.2 - - + -
113C LEU* 5.0 5.6 - - + -
116C PHE* 3.6 32.3 - - + -
148C PHE* 5.5 0.2 - - + -
151C TRP* 5.1 1.6 - - + -
242C ILE* 3.9 14.6 - - + -
257C ILE* 3.5 31.2 - - + -
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Residues in contact with SER 80 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76C TYR 2.9 16.1 + - - -
77C ASP* 3.5 9.7 + - - -
79C LEU* 1.3 74.0 - - - +
81C GLY* 1.3 63.2 + - - +
83C LEU* 3.5 14.9 + - - +
84C GLU* 3.8 10.9 + - - +
254C PRO* 4.0 10.5 - - - +
256C ILE* 3.7 25.5 - - - +
257C ILE* 3.8 16.8 - - - -
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Residues in contact with GLY 81 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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77C ASP 2.9 17.2 + - - -
78C LEU 3.7 1.8 - - - -
79C LEU 3.1 0.2 - - - -
80C SER* 1.3 78.6 + - - +
82C SER* 1.3 62.8 + - - +
84C GLU* 3.6 13.1 + - - +
85C VAL* 3.5 15.8 - - - +
134C CYS* 5.0 1.6 - - - -
135C SER* 6.5 1.3 - - - -
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Residues in contact with SER 82 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78C LEU 2.8 16.9 + - - -
79C LEU 3.0 5.7 + - - -
81C GLY* 1.3 73.7 - - - +
83C LEU* 1.3 67.2 + - - +
84C GLU 3.0 2.2 - - - -
85C VAL* 2.7 14.7 + - - +
86C ILE* 2.7 26.2 + - - +
112C PHE* 4.2 0.9 - - - -
116C PHE* 3.3 30.6 - - - -
133C PHE* 5.7 0.2 - - - -
134C CYS* 3.7 26.3 - - - -
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Residues in contact with LEU 83 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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79C LEU 3.3 4.6 + - - -
80C SER 3.5 13.2 - - - +
81C GLY 3.4 0.2 - - - -
82C SER* 1.3 76.7 - - - +
84C GLU* 1.3 57.1 + - - +
86C ILE* 3.4 3.4 + - + +
87C ARG* 3.0 60.2 + - - +
108C LEU* 4.9 18.2 - - + +
109C GLU* 5.9 3.6 - - + -
112C PHE* 3.4 34.6 - - + -
256C ILE* 3.9 28.5 - - + -
257C ILE* 3.8 20.9 - - + -
260C ILE* 4.1 11.4 - - + -
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Residues in contact with GLU 84 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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80C SER 3.8 10.5 + - - +
81C GLY* 3.6 11.2 + - - +
82C SER 2.8 1.4 + - - -
83C LEU* 1.3 77.1 - - - +
85C VAL* 1.3 64.8 + - + +
87C ARG* 2.6 40.7 + - - +
88C LYS* 3.1 40.3 + - - +
256C ILE* 5.9 1.6 - - - +
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Residues in contact with VAL 85 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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44C SER* 3.3 36.9 - - - +
81C GLY 3.5 17.3 - - - +
82C SER 2.7 9.3 + - - +
84C GLU* 1.3 72.7 - - + +
86C ILE* 1.3 62.6 + - + +
88C LYS* 3.2 9.5 + - + +
89C TRP* 3.0 22.2 + - - +
119C ARG* 3.6 14.1 - - - +
134C CYS* 3.7 26.9 - - + +
135C SER* 6.1 0.7 - - - -
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Residues in contact with ILE 86 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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82C SER* 2.7 32.1 + - - +
83C LEU* 3.9 4.3 - - - +
85C VAL* 1.3 73.1 - - + +
87C ARG* 1.3 56.1 + - - +
89C TRP* 3.2 14.3 + - + -
90C ALA* 2.8 26.7 + - - +
108C LEU* 3.8 15.5 - - + -
112C PHE* 3.9 30.3 - - + -
115C LEU* 3.5 29.6 - - + -
116C PHE* 4.0 20.4 - - - +
119C ARG* 3.7 29.2 - - - +
134C CYS* 6.0 0.4 - - - -
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Residues in contact with ARG 87 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83C LEU* 3.0 46.9 + - - +
84C GLU* 2.6 37.9 + - - +
85C VAL 3.3 0.2 - - - -
86C ILE* 1.3 77.2 - - - +
88C LYS* 1.3 62.9 + - + +
90C ALA* 3.1 6.1 + - - +
91C GLU* 3.0 41.2 + - + +
105C ASP* 5.2 9.9 + - - -
108C LEU* 3.9 30.6 - - + +
109C GLU* 5.4 6.9 + - - +
256C ILE* 5.4 7.3 - - - +
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Residues in contact with LYS 88 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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44C SER* 6.2 0.9 - - - -
84C GLU* 3.1 27.6 + - - +
85C VAL* 3.7 10.1 - - + +
87C ARG* 1.3 77.7 - - + +
89C TRP* 1.3 60.0 + - - +
91C GLU* 3.5 15.3 + - - +
92C LYS* 3.3 29.6 + - + +
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Residues in contact with TRP 89 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37C LEU 5.1 0.8 + - - -
40C ALA* 3.4 34.5 - - + +
41C HIS* 3.7 19.9 + - - +
44C SER* 3.8 19.0 - - - +
85C VAL 3.0 12.8 + - - +
86C ILE* 3.2 33.2 - - + +
88C LYS* 1.3 72.9 - - - +
90C ALA* 1.3 73.4 + - - +
92C LYS* 3.2 15.6 + - - +
93C ILE* 3.5 31.6 + - + +
115C LEU* 3.7 24.2 - - + -
119C ARG* 4.2 14.2 - - - +
173C ALA 4.9 2.3 + - - -
176C SER* 3.4 40.4 + - - -
177C ALA* 3.9 9.4 - - + -
180C LEU* 3.7 22.4 - - + -
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Residues in contact with ALA 90 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86C ILE 2.8 14.2 + - - +
87C ARG* 3.1 17.0 - - - +
89C TRP* 1.3 82.3 - - + +
91C GLU* 1.3 55.4 + - - +
93C ILE* 2.9 30.0 + - - +
96C PHE* 3.4 34.2 - - + +
108C LEU* 4.3 5.2 - - + -
180C LEU* 3.8 20.0 - - + -
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Residues in contact with GLU 91 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87C ARG* 3.0 42.4 + - + +
88C LYS* 3.5 9.2 + - - +
89C TRP 3.2 0.8 - - - -
90C ALA* 1.3 75.2 - - - +
92C LYS* 1.3 59.3 + - + +
93C ILE 3.1 11.8 + - - +
96C PHE* 3.5 21.0 - - - -
97C ALA* 3.6 30.0 - - + +
104C GLN* 3.4 19.6 - - - +
108C LEU* 4.4 1.4 - - - +
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Residues in contact with LYS 92 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36C SER* 4.5 7.1 + - - +
40C ALA* 3.8 33.3 - - + +
43C ASP* 3.9 30.2 + - + +
88C LYS* 3.3 26.4 + - - +
89C TRP* 3.2 8.1 + - - +
91C GLU* 1.3 76.0 - - + +
93C ILE* 1.3 60.2 + - - +
94C PRO* 3.7 8.7 - - - +
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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