Contacts of the helix formed by residues 148 - 170 (chain E) in PDB entry 2HAK
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 148 (chain E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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146E ARG* 3.4 54.0 + - - +
147E MET* 1.3 78.6 - - - +
149E GLU* 1.3 64.8 + - - +
150E LYS* 3.3 5.8 - - + +
151E GLU* 3.0 13.0 + - + +
152E ALA 3.0 15.1 + - - -
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Residues in contact with GLU 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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147E MET 3.4 1.3 + - - -
148E LYS* 1.3 71.4 - - - +
150E LYS* 1.3 51.9 + - - +
152E ALA* 3.7 4.2 - - - +
153E ARG* 2.7 43.6 + - - +
244E VAL* 3.8 21.2 - - + +
272E TYR* 3.9 5.4 - - - +
273E MET* 3.6 9.2 - - - -
274E SER* 2.7 50.2 + - - -
277E CYS* 4.1 5.6 - - - -
303E TRP* 2.9 29.9 + - + +
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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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148E LYS* 3.3 4.8 - - + +
149E GLU* 1.3 75.4 - - - +
151E GLU* 1.3 66.1 + - + +
153E ARG* 3.4 17.7 + - - +
154E ALA* 3.2 20.8 + - - +
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Residues in contact with GLU 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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140E TYR* 4.6 11.9 + - - -
147E MET* 3.5 37.0 - - + +
148E LYS* 3.0 15.4 + - + +
150E LYS* 1.3 83.6 - - + +
152E ALA* 1.3 68.4 + - - +
154E ALA* 3.1 13.3 + - + -
155E LYS* 3.3 30.2 + - + +
187E MET* 4.7 12.6 - - - +
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Residues in contact with ALA 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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147E MET* 3.9 16.3 - - + +
148E LYS 3.0 12.9 + - - +
149E GLU* 3.7 6.7 - - - +
151E GLU* 1.3 74.2 - - - +
153E ARG* 1.3 57.7 + - - +
155E LYS* 3.4 2.5 + - - +
156E PHE* 2.9 29.3 + - - +
243E LEU* 4.0 27.5 - - + +
244E VAL* 4.1 23.8 - - + -
303E TRP* 3.9 6.1 - - + -
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Residues in contact with ARG 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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149E GLU* 2.7 18.2 + - - +
150E LYS* 3.4 29.3 - - - +
151E GLU 3.2 0.2 - - - -
152E ALA* 1.3 72.4 - - - +
154E ALA* 1.3 61.9 + - - +
156E PHE* 3.9 0.2 - - - +
157E ARG* 2.9 30.5 + - + +
303E TRP* 2.6 65.2 + - + +
304E MET 3.5 18.6 - - - +
306E VAL* 3.2 56.1 - - - +
308E HIS* 3.9 9.0 - - - +
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Residues in contact with ALA 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 3.2 12.6 + - - +
151E GLU* 3.1 10.3 + - + +
153E ARG* 1.3 75.6 - - - +
155E LYS* 1.3 80.1 + - - +
157E ARG* 3.6 9.7 + - - +
158E GLN* 3.2 27.3 + - - +
308E HIS* 5.6 4.9 - - + +
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Residues in contact with LYS 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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137E VAL* 6.0 0.2 - - + -
147E MET* 4.3 16.4 - - + -
151E GLU* 3.3 35.5 + - + +
152E ALA* 3.7 3.8 - - - +
154E ALA* 1.3 91.2 - - - +
156E PHE* 1.3 58.5 + - - +
158E GLN* 2.9 23.5 + - - +
159E ILE* 2.8 33.9 + - - +
183E LEU* 4.1 8.5 - - + -
186E ASP 5.4 0.2 - - - -
187E MET* 2.7 34.7 + - + -
188E ASN* 4.4 3.8 + - - -
189E ILE* 3.6 28.6 - - + +
243E LEU* 4.7 14.1 - - + -
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Residues in contact with PHE 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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152E ALA 2.9 21.0 + - - +
153E ARG 3.2 2.9 + - - +
155E LYS* 1.3 68.7 - - - +
157E ARG* 1.3 66.7 + - - +
159E ILE* 3.3 11.1 + - + +
160E VAL* 3.1 42.6 + - + +
236E LEU* 3.3 50.3 - - + -
239E ILE* 4.7 2.5 - - + -
240E LEU* 4.0 19.7 - - + -
243E LEU* 4.0 19.2 - - + +
280E LEU* 4.1 12.6 - - + -
284E LEU* 4.0 16.8 - - + -
298E ILE* 4.4 5.4 - - + -
303E TRP* 4.1 18.6 - + + -
304E MET* 3.6 23.8 - - - -
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Residues in contact with ARG 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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153E ARG* 2.9 26.1 + - + +
154E ALA* 3.9 5.8 - - - +
156E PHE* 1.3 75.5 - - - +
158E GLN* 1.3 63.1 + - + +
160E VAL* 4.1 0.5 - - - +
161E SER* 3.1 26.2 + - - -
304E MET* 2.6 66.4 + - + +
305E ASN* 2.7 24.0 + - - +
308E HIS* 3.5 39.9 + - - +
311E GLU 3.3 24.9 + - - -
313E LEU* 3.5 37.2 - - + +
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Residues in contact with GLN 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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111E ASN* 3.2 39.6 + - - +
154E ALA* 3.2 15.0 + - - +
155E LYS* 2.9 19.4 + - - +
157E ARG* 1.3 78.7 - - + +
159E ILE* 1.3 64.8 + - - +
161E SER* 4.0 3.2 - - - -
162E ALA* 3.1 23.7 + - - +
188E ASN* 3.2 22.2 + - - -
189E ILE* 2.7 37.7 + - + +
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Residues in contact with ILE 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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137E VAL* 5.5 1.6 - - + -
155E LYS 2.8 23.6 + - - +
156E PHE* 3.7 9.9 - - + +
157E ARG 3.3 0.2 - - - -
158E GLN* 1.3 75.9 - - - +
160E VAL* 1.3 56.8 + - - +
162E ALA* 3.2 4.0 + - - +
163E VAL* 2.9 41.8 + - + +
176E LEU* 4.9 1.6 - - + -
181E LEU* 4.4 16.6 - - + -
189E ILE* 3.9 33.2 - - + -
191E ILE* 4.6 10.3 - - + +
236E LEU* 3.6 26.7 - - + -
239E ILE* 3.9 26.0 - - + -
243E LEU* 4.4 11.9 - - + -
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Residues in contact with VAL 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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156E PHE* 3.1 48.3 + - + +
157E ARG 4.1 2.0 - - - +
159E ILE* 1.3 74.8 - - - +
161E SER* 1.3 62.9 + - - +
163E VAL* 3.2 5.4 + - - +
164E GLN* 2.9 27.7 + - - +
236E LEU* 4.5 11.7 - - + -
295E LEU* 4.4 22.7 - - + +
298E ILE* 4.6 11.9 - - + -
299E MET* 4.0 28.0 - - + -
304E MET* 4.6 2.7 - - - -
313E LEU* 4.7 5.2 - - + -
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Residues in contact with SER 161 (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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109E HIS* 2.8 27.1 + - - -
111E ASN* 5.7 0.2 - - - -
157E ARG 3.1 16.4 + - - -
158E GLN* 4.0 4.3 - - - -
160E VAL* 1.3 81.8 - - - +
162E ALA* 1.3 62.9 + - - +
164E GLN* 3.8 1.6 - - - +
165E TYR* 2.9 26.3 + - - +
299E MET* 3.9 18.6 - - - -
313E LEU* 4.6 13.4 - - - +
314E LYS 5.0 1.0 + - - -
316E TYR* 3.7 15.8 + - - +
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Residues in contact with ALA 162 (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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109E HIS* 3.7 16.5 - - + -
111E ASN 3.8 11.7 - - - +
112E ILE* 3.8 8.9 - - + +
158E GLN 3.1 19.0 + - - +
159E ILE 3.5 4.7 - - - +
161E SER* 1.3 80.3 - - - +
163E VAL* 1.3 57.5 + - - +
165E TYR* 3.4 2.6 + - - +
166E CYS* 2.9 33.9 + - - -
191E ILE* 3.5 26.9 - - + -
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Residues in contact with VAL 163 (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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159E ILE* 2.9 27.3 + - + +
160E VAL* 3.8 5.2 - - - +
161E SER 3.2 0.2 - - - -
162E ALA* 1.3 76.0 - - + +
164E GLN* 1.3 69.5 + - - +
166E CYS* 3.1 17.2 + - - +
167E HIS* 3.4 8.2 - - + -
176E LEU* 4.1 27.1 - - + -
191E ILE* 5.0 5.6 - - + -
194E PHE* 3.7 22.7 - - + -
232E ASP* 3.6 28.9 - - + +
236E LEU* 4.7 8.3 - - + -
295E LEU* 4.1 14.8 - - + -
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Residues in contact with GLN 164 (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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160E VAL 2.9 18.2 + - - +
161E SER 3.8 1.1 - - - +
163E VAL* 1.3 77.4 - - - +
165E TYR* 1.3 62.9 + - - +
167E HIS* 3.0 22.3 + - - +
168E GLN* 3.4 32.4 + - - +
295E LEU* 4.0 26.7 - - + +
296E GLU* 3.0 30.0 + - - +
299E MET* 3.7 17.8 - - + +
315E PRO* 3.5 39.4 - - - +
316E TYR 4.3 4.5 + - - +
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Residues in contact with TYR 165 (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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107E LEU* 4.0 16.2 - - + -
108E ASN* 2.9 29.1 + - - -
109E HIS* 3.6 21.8 - + + -
112E ILE* 3.3 26.0 - - + -
161E SER 2.9 18.5 + - - +
162E ALA 3.4 1.8 - - - +
164E GLN* 1.3 82.1 + - - +
166E CYS* 1.3 70.5 + - - +
168E GLN* 2.9 24.3 + - + +
169E LYS* 3.3 24.7 - - + +
316E TYR* 3.8 35.2 - + + -
318E GLU* 2.6 34.5 + - + -
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Residues in contact with CYS 166 (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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107E LEU* 4.6 4.3 - - - -
112E ILE* 3.8 20.4 - - - -
162E ALA 2.9 22.7 + - - -
163E VAL 3.3 9.9 - - - +
165E TYR* 1.3 74.9 - - - +
167E HIS* 1.3 54.3 + - - +
169E LYS* 2.7 26.4 + - - +
170E TYR* 3.1 42.8 + - + +
172E VAL* 4.4 2.2 - - + -
191E ILE* 5.3 2.2 - - - -
194E PHE* 3.6 35.0 - - + -
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Residues in contact with HIS 167 (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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163E VAL* 3.4 24.9 + - + -
164E GLN* 3.0 11.2 + - - +
166E CYS* 1.3 78.0 - - - +
168E GLN* 1.4 66.5 + - - +
169E LYS 3.1 1.1 + - - -
170E TYR 3.5 12.6 + - - +
171E ILE* 5.7 2.1 - - - +
172E VAL* 3.5 28.5 + - + +
194E PHE* 3.7 6.7 - + - -
226E TYR* 3.3 20.6 - + - -
228E GLY* 4.3 2.4 - - - -
229E PRO* 4.1 25.5 - - + +
232E ASP* 2.6 26.5 + - - -
295E LEU* 4.3 11.9 - - + -
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Residues in contact with GLN 168 (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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164E GLN* 3.4 37.2 + - - +
165E TYR* 2.9 15.9 + - + +
167E HIS* 1.4 88.0 - - - +
169E LYS* 1.3 66.5 + - + +
296E GLU* 4.9 2.6 - - - +
315E PRO* 5.8 1.8 - - + -
316E TYR 5.9 2.9 - - - +
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Residues in contact with LYS 169 (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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106E ILE* 3.6 42.1 + - + +
107E LEU* 4.1 6.1 - - + -
165E TYR* 3.3 47.1 - - + +
166E CYS 2.7 9.3 + - - +
168E GLN* 1.3 88.9 - - + +
170E TYR* 1.3 71.6 + - + +
318E GLU* 3.0 25.2 + - - -
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Residues in contact with TYR 170 (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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103E ILE* 3.6 51.4 - - + -
106E ILE* 5.0 2.5 - - + -
107E LEU* 3.5 32.0 - - + +
166E CYS* 3.1 36.4 + - + +
167E HIS* 3.5 16.6 + - - +
169E LYS* 1.3 79.8 - - + +
171E ILE* 1.3 83.9 + - - +
172E VAL* 3.7 18.7 + - + -
194E PHE* 2.7 44.7 + - - +
195E GLY* 5.3 0.9 - - - -
196E PHE* 4.2 5.1 - + - -
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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
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Atomic class I II III IV V VI VII VIII
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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