Contacts of the helix formed by residues 120 - 148 (chain E) in PDB entry 2FJC
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 ILE 120 (chain E).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63B ILE* 4.2 15.0 - - + -
60E ILE* 4.1 22.4 - - + -
61E TYR 3.3 23.6 + - - +
62E GLY* 3.9 2.5 - - - -
64E GLU* 3.2 30.7 - - + +
65E PHE* 3.5 29.2 - - - +
68E VAL* 3.7 22.2 - - + -
119E THR* 1.3 70.7 - - - +
121E VAL* 1.3 68.4 + - + +
123E ALA* 3.2 2.3 + - - +
124E LEU* 2.9 36.0 + - + +
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Residues in contact with VAL 121 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63B ILE* 4.3 24.2 - - + -
119E THR* 3.8 12.6 - - + +
120E ILE* 1.3 78.5 - - + +
122E SER* 1.3 62.6 + - - +
124E LEU* 4.6 0.7 - - - -
125E ALA* 2.9 30.8 + - - +
174E THR 6.0 0.2 - - - +
175E LEU* 3.7 22.6 - - + +
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Residues in contact with SER 122 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118E ILE* 3.9 11.0 - - - -
119E THR* 2.9 21.8 + - - -
121E VAL* 1.3 85.5 - - - +
123E ALA* 1.3 61.4 + - - +
125E ALA* 3.4 5.9 + - - +
126E ARG* 3.1 51.6 + - - +
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Residues in contact with ALA 123 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56E TYR* 3.8 25.4 - - + -
60E ILE* 3.6 25.4 - - + -
68E VAL* 5.9 0.2 - - + -
72E LEU* 5.5 1.1 - - + -
118E ILE* 3.7 11.1 - - + +
119E THR 2.9 17.9 + - - +
120E ILE 3.7 2.2 - - - +
122E SER* 1.3 77.2 - - - +
124E LEU* 1.3 65.8 + - + +
126E ARG* 3.1 4.5 + - - +
127E VAL* 3.0 28.1 + - + +
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Residues in contact with LEU 124 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63B ILE* 4.7 5.8 - - + -
68E VAL* 3.8 27.4 - - + -
71E LEU* 4.4 10.1 - - + -
72E LEU* 4.4 15.9 - - + -
120E ILE* 2.9 37.3 + - + +
123E ALA* 1.3 76.3 - - + +
125E ALA* 1.3 62.9 + - - +
127E VAL* 3.2 9.1 + - + +
128E LYS* 2.9 25.1 + - - +
171E LEU* 3.9 22.0 - - + +
174E THR* 3.8 21.5 - - + +
175E LEU* 3.8 20.3 - - + +
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Residues in contact with ALA 125 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121E VAL 2.9 19.3 + - - +
122E SER* 3.7 7.0 - - - +
123E ALA 3.2 0.2 - - - -
124E LEU* 1.3 76.1 - - - +
126E ARG* 1.3 57.4 + - - +
128E LYS* 3.4 4.2 + - - +
129E ARG* 3.0 40.4 + - - +
175E LEU* 3.5 18.7 - - + +
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Residues in contact with ARG 126 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52E LYS* 5.3 3.6 - - - +
56E TYR* 3.3 24.9 - - - +
113E GLU* 2.7 39.8 + - - -
115E GLU* 3.4 25.2 + - - -
118E ILE* 3.3 20.2 - - - +
122E SER* 3.1 30.8 + - - +
123E ALA 3.1 6.8 + - - +
125E ALA* 1.3 75.2 - - - +
127E VAL* 1.3 65.8 + - - +
129E ARG* 3.2 32.3 + - - +
130E ASP* 3.0 27.4 + - - +
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Residues in contact with VAL 127 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49E LEU* 5.6 2.0 - - + -
53E LEU* 3.8 22.2 - - + -
56E TYR* 3.5 25.6 - - + -
72E LEU* 4.5 8.7 - - + -
75E TYR* 4.3 11.9 - - + -
123E ALA 3.0 16.2 + - - +
124E LEU* 3.3 15.9 - - + +
126E ARG* 1.3 75.8 - - - +
128E LYS* 1.3 61.1 + - - +
130E ASP* 3.1 7.4 + - - +
131E PHE* 2.7 40.3 + - + -
171E LEU* 3.3 23.3 - - + -
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Residues in contact with LYS 128 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124E LEU 2.9 18.3 + - - +
125E ALA* 3.6 6.3 - - - +
127E VAL* 1.3 78.8 - - - +
129E ARG* 1.3 56.3 + - - +
131E PHE* 3.3 4.1 + - - +
132E GLU* 2.9 64.7 + - + +
168E ILE* 3.7 15.2 - - + +
171E LEU* 3.7 22.2 - - + -
172E GLY* 3.5 37.0 - - - +
175E LEU* 4.2 11.7 - - + -
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Residues in contact with ARG 129 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125E ALA* 3.0 21.3 + - - +
126E ARG* 3.4 43.3 - - - +
127E VAL 3.2 0.2 - - - -
128E LYS* 1.3 77.9 - - - +
130E ASP* 1.3 59.7 + - - +
132E GLU* 3.2 15.4 + - - +
133E TYR* 2.9 28.1 + - - +
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Residues in contact with ASP 130 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49E LEU* 4.2 20.3 - - + +
52E LYS* 2.7 44.0 + - - +
56E TYR* 5.4 0.3 - - - -
110E ILE* 3.8 19.6 - - + +
111E ALA 5.5 0.3 + - - -
126E ARG 3.0 16.1 + - - +
127E VAL* 3.1 9.4 + - - +
129E ARG* 1.3 76.4 - - - +
131E PHE* 1.3 60.8 - - - +
133E TYR* 3.3 9.5 + - - +
134E LEU* 2.9 32.8 + - - +
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Residues in contact with PHE 131 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49E LEU* 3.7 29.6 - - + -
53E LEU* 4.8 3.6 - - + -
75E TYR* 3.8 46.0 - + + -
79E VAL* 4.5 9.9 - - + -
127E VAL* 2.7 24.4 + - + +
128E LYS 3.5 5.2 - - - +
130E ASP* 1.3 74.1 - - + +
132E GLU* 1.3 57.4 + - - +
134E LEU* 3.3 4.1 + - + +
135E SER* 2.8 28.6 + - - -
164E LEU* 3.8 24.3 - - + +
167E ALA* 3.8 28.7 - - + -
168E ILE* 3.6 17.6 - - + +
171E LEU* 3.8 18.4 - - + -
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Residues in contact with GLU 132 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128E LYS* 2.9 53.0 + - - +
129E ARG* 3.6 18.1 - - - +
131E PHE* 1.3 74.3 - - - +
133E TYR* 1.3 65.8 + - - +
135E SER* 3.1 3.9 + - - -
136E THR* 3.0 29.7 + - + +
168E ILE* 3.8 28.5 - - + +
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Residues in contact with TYR 133 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41E GLN* 4.1 8.5 + - - -
45E ASP* 3.2 28.3 + - - -
109E GLY* 3.4 30.1 + - - -
110E ILE* 3.7 28.7 - - + -
129E ARG 2.9 13.8 + - - +
130E ASP* 3.6 10.5 - - - +
131E PHE 3.3 0.2 - - - -
132E GLU* 1.3 76.3 - - - +
134E LEU* 1.3 69.2 + - + +
136E THR* 3.0 24.5 + - - -
137E ARG* 3.0 41.8 + - + +
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Residues in contact with LEU 134 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42E HIS* 5.2 3.4 - - - +
45E ASP* 3.7 33.7 - - + +
46E LEU* 3.6 21.8 - - + -
49E LEU* 3.5 31.6 - - + -
79E VAL* 5.6 0.9 - - + -
110E ILE* 4.3 7.6 - - + -
130E ASP 2.9 17.8 + - - +
131E PHE* 3.6 9.9 - - + +
133E TYR* 1.3 78.9 - - + +
135E SER* 1.3 52.9 + - - +
137E ARG* 3.2 5.9 + - + +
138E PHE* 2.7 66.1 + - + -
164E LEU* 4.0 8.3 - - + -
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Residues in contact with SER 135 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131E PHE 2.8 14.5 + - - -
132E GLU* 3.1 9.8 + - - -
134E LEU* 1.3 76.7 - - - +
136E THR* 1.3 57.9 + - - +
139E SER* 2.9 35.2 + - - -
161E LEU* 3.6 14.5 + - - +
164E LEU* 3.9 14.4 - - - +
165E GLY* 5.7 1.4 + - - -
168E ILE* 4.0 17.6 - - - +
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Residues in contact with THR 136 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132E GLU* 3.0 15.3 + - + +
133E TYR* 3.0 15.9 + - - -
135E SER* 1.3 75.5 - - - +
137E ARG* 1.3 72.2 + - - +
139E SER* 3.3 7.9 + - - -
140E GLN* 3.2 30.1 + - - +
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Residues in contact with ARG 137 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38E GLN* 2.8 41.8 + - - +
41E GLN* 2.8 30.2 + - + -
42E HIS* 3.7 15.2 - - + +
45E ASP* 4.9 2.5 - - - +
133E TYR* 3.0 52.4 + - + +
134E LEU* 3.5 9.0 - - + +
136E THR* 1.3 85.8 + - - +
138E PHE* 1.3 61.8 + - - +
140E GLN* 2.6 44.7 + - - +
141E THR* 3.4 8.5 + - - -
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Residues in contact with PHE 138 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42E HIS* 3.3 38.4 - + + -
46E LEU* 3.9 21.1 - - + -
86E ILE* 3.4 25.4 - - + -
134E LEU* 2.7 48.1 + - + +
137E ARG* 1.3 70.4 - - - +
139E SER* 1.3 61.6 + - - +
141E THR* 3.0 3.6 + - - -
142E GLN 2.9 23.9 + - - -
157E ILE* 3.3 26.6 - - + +
160E ILE* 3.9 19.7 - - + -
161E LEU* 3.4 17.7 - - + -
164E LEU* 3.5 28.0 - - + -
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Residues in contact with SER 139 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135E SER* 2.9 24.7 + - - -
136E THR* 3.5 8.5 - - - -
137E ARG 3.3 0.2 - - - -
138E PHE* 1.3 76.6 - - - +
140E GLN* 1.3 62.8 + - - +
142E GLN* 3.2 5.9 + - - +
143E VAL* 2.9 30.5 + - - +
161E LEU* 4.0 19.8 - - - +
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Residues in contact with GLN 140 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38E GLN* 3.7 9.8 + - - +
136E THR* 3.2 18.4 + - - +
137E ARG* 2.6 48.8 + - - +
138E PHE 3.2 0.4 - - - -
139E SER* 1.3 77.0 - - - +
141E THR* 1.3 58.7 + - - +
143E VAL* 3.2 8.5 + - - +
144E LEU* 3.0 34.9 + - + +
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Residues in contact with THR 141 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35E ILE* 4.5 8.1 - - + -
38E GLN* 3.0 24.7 + - + +
39E LEU* 3.8 28.0 - - + -
42E HIS* 2.6 27.3 + - - +
137E ARG 3.4 0.2 + - - -
138E PHE 3.0 9.3 + - - -
140E GLN* 1.3 76.5 - - - +
142E GLN* 1.3 59.4 + - - +
144E LEU* 3.1 8.7 + - - +
145E ALA* 2.8 27.5 + - - +
153E THR* 4.4 7.9 - - + -
157E ILE* 4.1 13.2 - - + -
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Residues in contact with GLN 142 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149C GLY* 4.2 16.2 + - - +
151C ALA* 3.6 31.1 - - + +
138E PHE 2.9 7.8 + - - +
139E SER* 3.2 9.4 + - - +
141E THR* 1.3 77.1 - - - +
143E VAL* 1.3 75.0 + - + +
145E ALA* 3.8 6.4 - - - +
146E ALA* 2.8 33.2 + - - +
154E ASP* 2.9 33.9 - - - +
157E ILE* 3.6 26.6 - - + +
158E THR* 4.5 2.0 - - - +
161E LEU* 4.2 8.5 - - + -
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Residues in contact with VAL 143 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149C GLY* 5.6 7.2 - - - +
139E SER* 2.9 21.6 + - - +
140E GLN* 3.5 10.8 - - - +
142E GLN* 1.3 93.6 - - + +
144E LEU* 1.3 65.7 + - + +
146E ALA* 3.3 2.2 + - - +
147E GLU* 2.9 55.3 + - + +
----------------------------------------------------------
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Residues in contact with LEU 144 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31E ALA* 5.6 0.2 - - - +
34E ALA* 4.1 29.8 - - + +
35E ILE* 4.0 12.8 - - + +
38E GLN* 4.1 26.5 - - + -
140E GLN* 3.0 20.2 + - + +
141E THR* 3.5 7.9 - - - +
143E VAL* 1.3 80.9 - - + +
145E ALA* 1.3 62.4 + - - +
147E GLU* 3.4 11.5 + - - +
148E SER* 3.0 27.5 + - - -
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Residues in contact with ALA 145 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35E ILE* 3.7 7.6 - - + +
141E THR 2.8 20.5 + - - +
142E GLN* 3.8 4.0 - - - +
144E LEU* 1.3 72.8 - - - +
146E ALA* 1.3 63.3 + - - +
148E SER* 3.7 6.1 - - - -
149E GLY 3.1 4.0 + - - -
150E ASP* 2.8 50.6 + - + +
153E THR* 4.0 12.3 - - + -
154E ASP* 3.8 17.5 - - - +
----------------------------------------------------------
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Residues in contact with ALA 146 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142E GLN* 2.8 30.9 + - - +
143E VAL* 3.7 4.3 - - - +
145E ALA* 1.3 78.4 - - - +
147E GLU* 1.3 63.2 + - + +
149E GLY* 3.4 11.1 + - - -
154E ASP* 3.5 20.4 + - - +
----------------------------------------------------------
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Residues in contact with GLU 147 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143E VAL* 2.9 41.2 + - + +
144E LEU* 4.0 10.9 - - - +
146E ALA* 1.3 78.2 - - + +
148E SER* 1.3 59.3 + - - +
149E GLY 3.7 0.3 + - - -
----------------------------------------------------------
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Residues in contact with SER 148 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28E ASP* 5.7 2.6 - - - +
31E ALA* 3.6 29.1 - - - +
35E ILE* 3.5 17.3 - - - +
144E LEU 3.0 17.7 + - - -
145E ALA 3.4 6.1 + - - -
147E GLU* 1.3 76.6 - - - +
149E GLY* 1.3 60.3 + - - +
150E ASP* 3.4 5.2 + - - +
----------------------------------------------------------
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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