Contacts of the helix formed by residues 109 - 138 (chain C) in PDB entry 2EHO
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 LYS 109 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C VAL* 4.7 5.8 - - + +
107C ILE 2.9 7.6 + - - -
108C PRO* 1.3 81.1 - - - +
110C ALA* 1.3 60.3 + - - +
111C ASP* 4.8 16.0 + - - +
112C GLU* 3.8 36.0 - - + +
113C ILE* 3.1 17.9 + - - +
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Residues in contact with ALA 110 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100C LEU* 4.4 9.6 - - + -
104C SER* 4.0 23.3 + - - +
107C ILE* 4.0 9.8 + - + +
108C PRO 3.9 0.2 - - - -
109C LYS* 1.3 70.9 - - - +
111C ASP* 1.3 60.6 + - - +
112C GLU 2.6 16.2 + - - -
113C ILE* 2.7 24.1 + - + -
114C ARG* 2.8 31.6 + - - +
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Residues in contact with ASP 111 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109C LYS* 3.8 17.4 + - - +
110C ALA* 1.3 75.5 + - - +
112C GLU* 1.3 60.9 + - - +
114C ARG* 3.0 31.0 + - - +
115C THR* 3.5 21.1 + - - +
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Residues in contact with GLU 112 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C VAL* 2.8 34.3 - - + +
72C GLU* 4.4 5.5 - - - +
109C LYS* 3.8 33.2 + - + +
110C ALA 2.6 5.5 + - - -
111C ASP* 1.3 74.1 - - - +
113C ILE* 1.3 61.2 + - - +
115C THR* 2.9 26.3 - - + +
116C LEU* 3.3 8.6 + - + +
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Residues in contact with ILE 113 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66C MSE 4.1 29.8 - - + +
68C VAL* 4.6 15.0 - - + +
71C LEU* 3.3 35.4 - - + -
100C LEU* 4.2 9.6 - - + -
107C ILE* 3.8 14.6 - - + -
108C PRO 4.7 0.4 - - - +
109C LYS 3.1 17.0 + - - +
110C ALA* 2.7 34.8 + - - +
112C GLU* 1.3 74.0 - - - +
114C ARG* 1.3 67.8 + - - +
116C LEU* 3.3 17.6 + - + +
117C VAL* 3.1 29.1 + - + +
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Residues in contact with ARG 114 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96C THR* 4.9 1.9 - - + +
100C LEU* 3.5 50.2 + - + +
101C ASN* 5.0 6.2 - - - +
104C SER* 5.0 2.6 - - - -
110C ALA* 2.8 31.7 + - - +
111C ASP* 3.0 38.7 + - - +
113C ILE* 1.3 77.1 - - - +
115C THR* 1.3 68.2 + - - +
117C VAL* 2.9 18.3 + - - +
118C LYS* 3.5 4.4 + - + +
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Residues in contact with THR 115 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111C ASP 3.5 11.6 + - - +
112C GLU* 2.9 21.8 - - + +
114C ARG* 1.3 79.5 - - - +
116C LEU* 1.3 74.6 + - + +
117C VAL 2.9 1.6 + - - -
118C LYS* 3.0 21.8 + - - +
119C ASP* 2.6 35.0 + - - +
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Residues in contact with LEU 116 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C VAL* 3.3 25.8 - - + +
71C LEU* 3.6 14.6 - - + -
72C GLU* 3.3 51.8 - - + +
75C ARG* 3.4 25.6 - - + +
112C GLU* 3.5 9.4 - - + +
113C ILE* 3.3 18.6 - - + +
114C ARG 3.2 0.4 - - - -
115C THR* 1.3 83.5 - - + +
117C VAL* 1.3 62.2 + - - +
119C ASP* 3.6 15.2 + - - +
120C MSE 3.8 8.5 + - + +
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Residues in contact with VAL 117 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65C TRP* 6.0 0.7 - - + -
66C MSE 5.8 0.4 - - + -
71C LEU* 3.9 14.4 - - + -
92C TYR* 4.0 25.7 - - + -
93C MSE 4.6 7.9 - - - -
96C THR* 3.6 42.6 - - + +
113C ILE* 3.1 32.3 + - + +
114C ARG 2.9 8.6 + - - +
116C LEU* 1.3 73.3 - - - +
118C LYS* 1.3 59.7 + - - +
120C MSE 2.9 30.9 + - + +
121C TRP* 3.4 4.7 + - - +
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Residues in contact with LYS 118 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C MSE 5.1 6.3 - - - -
114C ARG* 3.5 3.4 + - + +
115C THR* 3.0 25.3 + - - +
117C VAL* 1.3 74.5 - - - +
119C ASP* 1.3 63.5 + - - +
120C MSE 2.8 5.4 - - - -
121C TRP* 2.7 32.5 + - + +
122C ASP* 2.7 45.3 + - - +
190D GLU* 3.8 27.9 + - - +
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Residues in contact with ASP 119 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75C ARG* 3.5 29.2 + - - -
79C ARG* 5.2 0.2 - - - -
115C THR* 2.6 38.1 + - - +
116C LEU* 3.7 6.7 - - - +
117C VAL 3.2 0.4 - - - -
118C LYS* 1.3 80.9 - - - +
120C MSE 1.3 50.3 + - - +
122C ASP* 4.1 9.2 - - - -
123C THR* 2.6 35.2 + - - +
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Residues in contact with MSE 120 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71C LEU* 3.7 22.0 - - + +
74C MSE 3.5 16.4 - - + -
75C ARG* 3.1 41.5 - - + +
78C GLU* 4.5 16.4 - - + +
87C MSE 3.5 37.5 - - - +
88C PRO* 5.4 3.1 - - - -
92C TYR* 4.1 9.9 - - + +
116C LEU 4.2 5.4 - - - +
117C VAL* 2.9 16.7 + - - +
118C LYS 2.8 0.8 - - - -
119C ASP* 1.3 80.7 - - - +
121C TRP* 1.3 58.0 + - - +
122C ASP 3.4 0.2 - - - -
123C THR* 4.0 4.5 + - - -
124C ARG* 2.8 27.7 + - - +
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Residues in contact with TRP 121 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92C TYR* 3.4 19.1 - - - +
93C MSE 3.1 40.6 - - + -
117C VAL 3.4 1.7 + - - +
118C LYS* 2.7 19.8 + - + +
120C MSE 1.3 77.9 - - - +
122C ASP* 1.3 77.1 + - - +
124C ARG* 3.5 2.8 - - - +
125C ILE* 2.9 47.4 + - + +
151C MSE 3.0 34.3 - - + -
152C GLU* 3.2 28.5 - - + -
155C THR* 3.7 15.5 - - - -
186D PHE* 3.4 45.6 - + - -
190D GLU* 5.5 1.1 - - - -
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Residues in contact with ASP 122 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118C LYS* 2.7 46.6 + - - +
119C ASP* 4.1 7.6 + - - +
121C TRP* 1.3 86.3 - - - +
123C THR* 1.3 59.9 + - + +
124C ARG 2.8 5.5 + - - -
125C ILE* 3.0 5.5 + - - +
126C ALA* 2.8 31.1 + - - +
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Residues in contact with THR 123 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75C ARG* 4.8 0.9 - - - +
78C GLU* 4.6 7.5 - - - +
79C ARG* 3.9 36.6 - - + +
119C ASP 2.6 25.5 + - - +
120C MSE 4.0 4.9 - - - -
122C ASP* 1.3 79.4 - - + +
124C ARG* 1.3 56.5 + - - +
126C ALA* 4.2 9.9 - - + -
127C LYS* 3.0 31.1 - - - +
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Residues in contact with ARG 124 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78C GLU* 3.3 26.3 + - - +
84C PHE* 3.2 41.5 - - + +
85C THR 2.9 20.6 + - - +
87C MSE 3.5 27.5 - - - +
92C TYR* 4.0 1.6 - - - -
120C MSE 2.8 24.4 + - - +
121C TRP* 3.5 6.7 - - - +
122C ASP 2.9 0.4 - - - -
123C THR* 1.3 78.6 - - - +
125C ILE* 1.3 67.1 + - + +
127C LYS* 3.9 4.3 - - - -
128C LEU* 3.2 6.9 + - - +
147C ASN 2.6 28.7 + - - -
148C LEU* 3.4 13.3 - - + +
152C GLU* 2.5 54.8 + - - +
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Residues in contact with ILE 125 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121C TRP* 2.9 58.8 + - + +
122C ASP* 3.6 5.8 - - - +
124C ARG* 1.3 74.6 - - + +
126C ALA* 1.3 59.2 + - - +
128C LEU* 2.4 42.4 + - + +
129C ARG* 2.8 35.6 + - + +
152C GLU* 4.8 7.6 - - + +
155C THR* 4.5 3.6 - - - +
156C SER* 4.0 19.1 - - - +
154D GLN* 5.2 7.6 - - + +
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Residues in contact with ALA 126 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122C ASP 2.8 16.2 + - - +
123C THR* 4.2 11.4 - - + +
125C ILE* 1.3 76.0 - - - +
127C LYS* 1.3 59.5 + - + +
129C ARG* 2.9 43.4 + - - +
130C VAL* 3.1 19.1 + - + +
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Residues in contact with LYS 127 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78C GLU* 2.5 37.6 + - + +
79C ARG* 5.7 2.5 - - - -
81C GLU 3.5 2.5 + - - -
82C GLU 3.1 23.3 - - - +
83C THR 2.3 32.4 + - - -
84C PHE* 3.5 19.7 - - + +
123C THR* 3.0 22.4 - - - +
124C ARG* 3.7 3.2 + - - +
125C ILE 3.1 0.6 - - - -
126C ALA* 1.3 81.6 - - + +
128C LEU* 1.3 58.2 + - - +
129C ARG 3.3 0.2 - - - -
130C VAL* 4.2 6.6 - - - +
131C SER* 3.2 26.0 + - - -
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Residues in contact with LEU 128 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84C PHE* 3.4 26.5 - - + -
124C ARG 3.2 12.5 + - - +
125C ILE* 2.4 45.2 + - + +
127C LYS* 1.3 70.0 - - - +
129C ARG* 1.3 61.5 + - + -
131C SER* 4.0 4.1 - - - -
132C ALA* 3.3 20.1 + - - +
148C LEU* 4.3 13.9 - - + -
152C GLU* 4.1 27.4 - - + +
153C ILE* 5.3 3.1 - - + +
156C SER* 4.2 15.0 - - - +
160C LEU* 5.0 14.0 - - + +
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Residues in contact with ARG 129 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125C ILE* 2.8 25.1 + - + +
126C ALA* 2.9 27.9 + - - +
128C LEU* 1.3 77.7 - - + +
130C VAL* 1.3 65.8 + - - +
131C SER 3.2 0.9 - - - -
132C ALA* 3.0 19.3 + - - +
133C ASP* 3.1 11.4 + - - +
150D MSE 3.3 34.2 - - + +
151D ASP* 4.0 18.8 + - - +
154D GLN* 3.7 45.7 + - + +
----------------------------------------------------------
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Residues in contact with VAL 130 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126C ALA* 3.1 15.8 + - + +
127C LYS* 4.6 5.4 - - - +
129C ARG* 1.3 80.6 - - + +
131C SER* 1.3 62.1 + - - +
132C ALA 3.3 0.5 + - - -
133C ASP* 3.6 18.4 + - + +
134C SER* 3.7 6.8 + - - -
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Residues in contact with SER 131 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84C PHE* 5.2 6.5 - - - -
127C LYS 3.2 20.3 + - - -
128C LEU* 4.0 7.4 - - - -
129C ARG 3.2 0.6 - - - -
130C VAL* 1.3 79.0 - - - +
132C ALA* 1.3 60.5 + - - +
134C SER* 3.7 8.2 - - - -
135C PHE* 3.7 16.6 + - - +
----------------------------------------------------------
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Residues in contact with ALA 132 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128C LEU 3.3 14.7 + - - +
129C ARG 3.0 10.9 + - - +
131C SER* 1.3 76.7 - - - +
133C ASP* 1.3 65.9 + - - +
134C SER 2.7 6.7 + - - -
135C PHE* 3.1 15.5 + - - +
136C VAL* 3.2 16.4 + - + +
160C LEU* 4.1 28.5 - - + -
146D PHE* 3.9 6.7 - - + -
150D MSE 4.1 8.5 - - - -
----------------------------------------------------------
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Residues in contact with ASP 133 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129C ARG 3.1 8.2 + - - +
130C VAL* 3.6 15.3 - - + +
132C ALA* 1.3 77.1 - - - +
134C SER* 1.3 56.0 + - - +
136C VAL* 3.8 1.4 - - - +
137C ARG* 2.9 58.9 + - - +
143D ILE 5.6 0.2 - - - +
146D PHE* 3.7 15.1 - - + +
147D ARG* 2.8 66.9 + - + +
150D MSE 5.3 2.0 - - + +
----------------------------------------------------------
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Residues in contact with SER 134 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130C VAL 3.7 5.8 + - - -
131C SER* 3.7 14.8 - - - -
132C ALA 2.7 1.2 + - - -
133C ASP* 1.3 76.1 - - - +
135C PHE* 1.3 67.8 + - - -
136C VAL 2.9 1.6 - - - -
137C ARG* 2.8 17.4 + - - +
138C GLN* 2.6 56.3 + - - +
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Residues in contact with PHE 135 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170A TYR* 4.8 8.3 - + - -
205A LEU* 4.4 29.8 - - + -
206A ILE* 5.9 4.9 - - + -
131C SER 3.7 9.1 + - - +
132C ALA* 3.1 8.7 + - - +
134C SER* 1.3 78.6 + - - +
136C VAL* 1.3 57.8 + - + +
138C GLN* 3.9 12.5 - - - +
139C GLN* 2.8 39.0 - - - +
164C LEU* 3.8 29.6 - - + +
----------------------------------------------------------
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Residues in contact with VAL 136 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132C ALA* 3.2 9.0 + - + +
133C ASP 3.8 4.0 - - - +
134C SER 2.8 1.4 + - - -
135C PHE* 1.3 76.8 - - + +
137C ARG* 1.3 65.4 - - + +
139C GLN* 3.0 23.2 + - - +
164C LEU* 4.2 12.8 - - + -
167C MSE 3.2 45.7 - - + +
143D ILE* 3.9 18.6 - - + +
146D PHE* 3.4 47.6 - - + -
----------------------------------------------------------
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Residues in contact with ARG 137 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133C ASP* 2.9 42.2 + - - +
134C SER* 2.8 26.9 + - - +
136C VAL* 1.3 74.0 - - + +
138C GLN* 1.3 60.1 + - - +
139C GLN* 2.7 19.1 + - - +
143D ILE* 3.4 37.3 - - + +
146D PHE* 5.9 0.7 - - + -
147D ARG* 4.8 4.5 - - - +
----------------------------------------------------------
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Residues in contact with GLN 138 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134C SER* 2.6 43.2 + - - +
135C PHE* 3.9 12.0 - - - +
137C ARG* 1.3 76.5 - - - +
139C GLN* 1.3 69.0 + - - +
----------------------------------------------------------
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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).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il