Contacts of the helix formed by residues 136 - 160 (chain E) in PDB entry 6BAA
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 LEU 136 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68E PHE* 5.3 8.1 - - + -
74E ARG* 5.9 0.7 - - - +
123E TYR* 4.4 1.6 - - - -
124E TYR* 5.7 9.2 - - + -
127E ILE* 3.6 18.7 - - + +
133E PRO* 3.2 40.6 - - + +
135E LEU* 1.3 74.6 - - - +
137E ILE* 1.3 58.2 + - - +
138E ALA 3.3 1.8 - - - -
139E LEU* 3.1 25.9 + - + +
140E LEU* 3.0 28.7 + - + +
186E GLU* 4.4 23.3 - - + -
189E VAL* 4.7 17.0 - - + -
190E ILE* 5.0 7.4 - - + -
195E TYR* 3.7 16.4 - - + +
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Residues in contact with ILE 137 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133E PRO 3.6 3.4 - - - +
134E LYS* 3.5 32.5 - - + +
135E LEU 3.2 1.4 - - - -
136E LEU* 1.3 74.5 - - - +
138E ALA* 1.3 66.6 + - - +
140E LEU* 3.3 10.5 + - + +
141E ILE* 3.0 36.5 + - + +
195E TYR* 3.5 31.6 - - + +
196E ILE* 5.5 4.5 - - + -
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Residues in contact with ALA 138 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38E PHE* 5.0 1.2 - - + -
42E ILE* 4.1 33.7 - - + -
43E THR* 5.6 2.0 - - + -
123E TYR* 4.2 15.7 - - + +
135E LEU 4.0 2.3 + - - +
137E ILE* 1.3 79.3 - - - +
139E LEU* 1.3 58.3 + - - +
141E ILE* 3.2 14.1 - - + +
142E TYR* 2.8 32.0 + - - +
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Residues in contact with LEU 139 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39E LEU* 6.4 0.7 - - - -
74E ARG* 4.3 13.7 - - - +
120E SER* 4.2 17.7 - - - +
123E TYR* 3.7 32.2 - - + -
124E TYR* 4.5 19.3 - - + -
127E ILE* 5.8 0.7 - - + -
135E LEU 4.5 0.4 + - - -
136E LEU* 3.1 30.2 + - + +
138E ALA* 1.3 78.9 - - - +
140E LEU* 1.3 60.2 + - - +
142E TYR* 3.1 9.3 + - + +
143E TRP* 2.9 60.5 + - + +
186E GLU* 4.2 16.4 - - + -
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Residues in contact with LEU 140 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136E LEU* 3.0 16.9 + - + +
137E ILE* 3.7 13.2 - - + +
139E LEU* 1.3 76.8 - - - +
141E ILE* 1.3 78.6 + - + +
143E TRP 3.2 0.2 + - - -
144E THR* 3.0 32.0 + - + +
183E LEU* 3.7 7.7 - - + +
186E GLU* 3.4 34.3 - - + +
187E VAL* 4.9 9.2 - - + -
190E ILE* 4.2 30.7 - - + -
195E TYR* 5.1 1.8 - - - +
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Residues in contact with ILE 141 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38E PHE* 4.0 28.9 - - + -
42E ILE* 6.1 0.2 - - + -
137E ILE* 3.0 26.9 + - + +
138E ALA* 3.2 18.6 - - - +
140E LEU* 1.3 90.9 - - + +
142E TYR* 1.3 60.6 + - - +
144E THR* 3.3 11.7 - - + +
145E LEU* 2.9 39.6 + - + +
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Residues in contact with TYR 142 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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35E PRO* 3.2 44.2 - - + -
36E HIS* 3.2 21.3 + - - -
38E PHE* 4.8 11.9 - + + -
39E LEU* 3.4 41.4 - - + +
113E ALA 5.4 0.2 + - - -
116E ALA* 4.0 11.8 - - - +
117E ALA* 5.1 0.9 + - - -
138E ALA 2.8 17.7 + - - +
139E LEU* 3.4 9.2 - - + +
141E ILE* 1.3 82.6 - - - +
143E TRP* 1.3 104.0 + + - +
145E LEU* 3.4 4.2 + - - +
146E ALA* 3.0 28.9 + - + +
179E TYR* 4.4 3.8 + - - -
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Residues in contact with TRP 143 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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74E ARG* 5.4 6.5 - - - +
78E THR* 5.7 6.3 - - + -
81E LEU* 4.8 9.9 - - + -
117E ALA* 5.5 1.6 - - - -
120E SER* 3.6 35.2 - - - -
139E LEU* 2.9 50.6 + - + +
140E LEU 3.2 0.6 + - - -
142E TYR* 1.3 101.9 - + - +
144E THR* 1.3 60.5 + - - +
146E ALA* 3.5 2.1 + - - +
147E PHE* 2.9 28.8 + - - +
179E TYR* 3.8 47.8 - + - +
182E LEU* 3.4 31.7 - - + +
183E LEU* 3.7 13.6 - - + +
186E GLU* 3.3 30.0 + - - +
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Residues in contact with THR 144 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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140E LEU* 3.0 20.4 + - + +
141E ILE* 3.3 20.6 - - + +
143E TRP* 1.3 77.5 - - - +
145E LEU* 1.3 60.3 + - - +
147E PHE* 3.4 4.4 + - - +
148E ILE* 2.9 37.6 + - - +
183E LEU* 3.6 25.7 - - - +
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Residues in contact with LEU 145 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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34E VAL* 4.7 9.6 - - + -
35E PRO* 3.7 29.4 - - + -
38E PHE* 6.5 1.8 - - + -
141E ILE* 2.9 28.6 + - + +
142E TYR* 4.0 4.7 - - - +
144E THR* 1.3 77.1 - - + +
146E ALA* 1.3 59.4 + - - +
148E ILE* 3.2 9.2 + - + +
149E THR* 3.0 40.5 + - + +
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Residues in contact with ALA 146 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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35E PRO* 3.7 20.7 - - + +
36E HIS* 4.6 4.5 - - + -
142E TYR* 3.0 26.4 + - + +
143E TRP* 3.9 1.3 - - - +
145E LEU* 1.3 76.1 - - - +
147E PHE* 1.3 57.6 + - - +
149E THR* 2.7 21.5 + - - -
150E LYS* 3.0 21.2 + - + +
179E TYR* 3.6 29.6 - - + -
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Residues in contact with PHE 147 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143E TRP 2.9 19.7 + - - +
144E THR* 3.5 9.4 - - - +
146E ALA* 1.3 77.1 - - - +
148E ILE* 1.3 65.6 + - + +
150E LYS* 3.8 3.1 - - - +
151E THR* 2.3 51.8 + - + -
176E VAL* 3.2 44.1 - - + +
177E ILE* 4.9 2.7 - - + -
179E TYR* 4.2 10.7 - - + -
180E GLY* 3.6 22.7 - - - -
183E LEU* 4.6 13.2 - - + -
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Residues in contact with ILE 148 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144E THR* 2.9 28.4 + - - +
145E LEU* 3.2 8.9 + - + +
147E PHE* 1.3 88.9 - - + +
149E THR* 1.3 62.4 + - + +
151E THR* 3.2 9.3 + - + +
152E ILE* 2.9 39.1 + - + +
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Residues in contact with THR 149 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28E VAL* 5.3 1.9 - - - +
31E LEU* 3.7 34.9 - - + +
32E ASN* 3.1 20.6 + - - +
34E VAL* 5.6 0.2 - - + -
35E PRO* 3.7 11.9 - - + +
36E HIS* 6.1 0.3 - - - -
145E LEU* 3.0 27.2 + - + +
146E ALA* 2.7 25.3 + - - -
148E ILE* 1.3 80.5 - - + +
150E LYS* 1.3 55.8 + - - +
152E ILE* 3.2 8.9 + - - +
153E LYS* 3.0 25.6 + - - +
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Residues in contact with LYS 150 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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32E ASN* 3.3 19.5 - - - +
36E HIS* 6.1 4.9 - - + +
146E ALA* 3.0 9.4 + - + +
147E PHE* 4.3 1.8 - - - +
149E THR* 1.3 79.6 + - - +
151E THR* 1.3 60.5 + - - +
153E LYS* 3.3 11.6 + - + +
154E PHE* 2.8 29.5 + - - +
172E THR* 4.4 4.2 - - + +
175E LEU* 2.7 65.7 + - + +
176E VAL* 3.6 16.8 - - + +
179E TYR* 3.2 43.7 - - + -
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Residues in contact with THR 151 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147E PHE* 2.3 51.0 + - + -
148E ILE* 3.3 13.2 - - + -
149E THR 3.2 0.2 - - - -
150E LYS* 1.3 77.2 - - - +
152E ILE* 1.3 62.1 + - + +
154E PHE* 3.2 6.2 + - + +
155E VAL* 2.9 40.8 + - + +
176E VAL* 4.1 8.6 - - + +
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Residues in contact with ILE 152 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28E VAL* 4.1 20.2 - - + -
31E LEU* 4.8 10.8 - - + -
148E ILE* 2.9 29.7 + - + +
149E THR* 3.5 9.4 - - - +
151E THR* 1.3 79.7 - - + +
153E LYS* 1.3 64.4 + - - +
155E VAL* 3.3 12.0 - - + +
156E LYS* 3.0 37.7 + - + +
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Residues in contact with LYS 153 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28E VAL* 4.4 19.4 - - + +
29E ASP* 3.6 20.5 + - - +
32E ASN* 3.2 27.6 + - - +
109E PRO* 5.8 5.9 - - - +
149E THR 3.0 13.6 + - - +
150E LYS* 3.5 13.4 - - + +
152E ILE* 1.3 77.6 - - - +
154E PHE* 1.3 56.8 + - - +
156E LYS* 3.5 2.2 + - - +
157E PHE* 2.9 66.8 + - + -
168E ARG* 5.0 8.1 - - - +
172E THR* 4.3 15.3 + - + +
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Residues in contact with PHE 154 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150E LYS 2.8 17.0 + - - +
151E THR* 3.8 5.2 - - + +
153E LYS* 1.3 73.8 - - - +
155E VAL* 1.3 70.8 + - + +
157E PHE* 3.2 8.1 + - + +
158E TYR* 2.9 27.5 + + + +
169E PHE* 3.2 58.1 - + - -
170E CYS* 5.4 0.4 - - - -
172E THR* 4.1 9.0 - - + -
173E GLY* 3.5 28.9 - - - -
176E VAL* 4.3 11.2 - - + -
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Residues in contact with VAL 155 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151E THR* 2.9 30.5 + - + +
152E ILE* 3.3 28.5 - - + +
154E PHE* 1.3 85.2 - - + +
156E LYS* 1.3 65.0 + - + +
158E TYR* 3.2 9.5 + - + +
159E ASP* 2.8 34.4 + - - +
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Residues in contact with LYS 156 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21E VAL* 5.4 6.6 - - - +
23E ASN* 3.8 47.0 - - + +
28E VAL* 4.8 8.5 - - + -
152E ILE* 3.0 34.5 + - + +
153E LYS* 4.0 3.8 - - - +
155E VAL* 1.3 79.0 - - + +
157E PHE* 1.3 64.0 + - + +
159E ASP* 3.2 22.0 + - + +
160E HIS* 3.0 36.5 + - + -
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Residues in contact with PHE 157 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25E GLY 6.0 0.9 - - - -
28E VAL* 5.6 5.8 - - + -
29E ASP* 5.3 2.2 - - - -
153E LYS* 2.9 55.2 + - + -
154E PHE* 3.3 9.6 - - - +
156E LYS* 1.3 79.0 - - + +
158E TYR* 1.3 58.0 + - - +
160E HIS* 3.1 8.7 - - + +
161E ALA* 3.0 26.7 + - - +
166E GLN* 3.8 12.3 + - - +
168E ARG* 4.1 22.2 - - + -
169E PHE* 3.6 24.5 - + + -
172E THR* 3.6 30.1 - - + -
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Residues in contact with TYR 158 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154E PHE* 2.9 18.7 + + + +
155E VAL* 3.6 10.8 - - + +
157E PHE* 1.3 74.1 - - - +
159E ASP* 1.3 71.1 + - - +
161E ALA* 3.3 22.1 + - + +
169E PHE* 3.7 25.7 - + + -
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Residues in contact with ASP 159 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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23E ASN* 5.8 0.9 - - + -
155E VAL* 2.8 23.7 + - - +
156E LYS* 3.2 37.1 + - + +
158E TYR* 1.3 83.7 - - - +
160E HIS* 1.3 70.0 + - + +
161E ALA 3.8 0.9 + - - -
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Residues in contact with HIS 160 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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23E ASN* 3.7 27.0 - - + +
156E LYS* 3.0 28.2 + - + +
157E PHE* 3.1 8.3 + - + +
159E ASP* 1.3 86.2 + - + +
161E ALA* 1.3 62.9 + - - +
162E ILE* 3.8 4.0 + - - +
166E GLN* 3.5 10.4 + - - -
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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) + - + + + + + -
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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