Contacts of the helix formed by residues 150 - 173 (chain E) in PDB entry 4HHM
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 150 (chain E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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149E LYS* 1.3 73.2 - - - +
151E VAL* 1.3 51.3 + - - +
152E ARG* 3.3 12.0 + - - +
153E ALA* 2.6 43.5 + - + +
154E ALA* 2.8 32.9 + - - +
274F LEU* 5.8 4.1 - - - +
335F LEU* 3.8 10.7 - - + +
338F LEU* 3.6 11.6 - - + +
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Residues in contact with VAL 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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149E LYS* 3.3 10.4 + - + +
150E ASP* 1.3 71.0 - - - +
152E ARG* 1.3 51.5 + - - +
154E ALA* 3.0 8.5 + - - +
155E LEU* 2.7 52.4 + - + +
192E LEU* 3.8 22.2 - - + -
229F PRO 5.1 0.4 - - - +
230F HIS* 3.5 50.7 - - + +
233F ALA* 3.4 26.5 - - + -
234F GLN* 5.5 0.7 - - + -
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Residues in contact with ARG 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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150E ASP* 3.3 9.8 + - - +
151E VAL* 1.3 76.8 - - - +
153E ALA* 1.3 64.5 + - - +
155E LEU* 3.2 6.6 + - - +
156E ASP* 3.0 28.3 + - - +
233F ALA* 3.5 25.8 - - + +
236F LEU* 3.9 24.5 + - - +
237F TRP* 3.7 33.3 - - + +
274F LEU* 4.8 10.3 - - + +
277F SER 4.8 2.2 + - - -
278F ALA* 3.5 37.7 + - - +
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Residues in contact with ALA 153 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150E ASP* 2.6 34.6 + - + +
152E ARG* 1.3 72.1 - - - +
154E ALA* 1.3 61.7 + - - +
156E ASP* 3.2 14.2 + - - +
157E ARG* 3.2 28.7 + - - +
335F LEU 5.8 0.7 - - - +
338F LEU* 4.0 20.2 - - + +
339F ALA* 4.4 15.7 - - + +
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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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105E THR* 3.2 20.1 - - + +
149E LYS* 4.1 17.9 - - + -
150E ASP 2.8 13.4 + - - +
151E VAL* 3.2 12.8 - - - +
153E ALA* 1.3 77.4 - - - +
155E LEU* 1.3 56.3 + - - +
157E ARG* 3.3 2.6 + - - +
158E MET* 2.8 22.9 + - - -
192E LEU* 3.7 25.4 - - + -
338F LEU* 4.3 9.1 - - - +
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Residues in contact with LEU 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 VAL* 2.7 36.6 + - + +
152E ARG 3.7 2.2 - - - +
154E ALA* 1.3 71.0 - - - +
156E ASP* 1.3 56.6 + - - +
158E MET* 3.3 16.6 - - + +
159E LYS* 2.7 36.2 + - - +
192E LEU* 4.9 7.4 - - + -
193E LEU* 4.4 23.3 - - + +
202E PHE* 4.0 8.7 - - + -
233F ALA 4.4 0.4 - - - +
234F GLN* 3.7 32.1 - - + +
237F TRP* 3.6 46.1 - - + -
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Residues in contact with ASP 156 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152E ARG* 3.0 20.1 + - - +
153E ALA* 3.2 14.5 + - - +
155E LEU* 1.3 76.9 - - - +
157E ARG* 1.3 80.2 + - - +
159E LYS* 3.3 7.6 + - - +
160E GLU* 2.9 27.0 + - - +
205E ARG* 5.7 1.4 + - - -
237F TRP* 2.7 30.4 + - - +
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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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104E PHE 3.6 20.7 - - - +
105E THR* 4.6 2.2 - - - -
112E ARG* 3.5 21.1 - - - +
153E ALA* 3.2 15.5 + - - +
154E ALA 3.6 5.8 - - - +
156E ASP* 1.3 95.9 + - - +
158E MET* 1.3 61.5 + - - +
160E GLU* 3.1 22.4 + - - +
161E ALA* 2.9 29.8 + - - +
338F LEU* 2.9 42.2 + - + +
339F ALA* 3.3 22.0 + - - +
340F GLU 3.3 20.3 + - - -
341F PRO* 4.2 10.5 - - - +
342F THR* 3.8 6.7 + - - +
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Residues in contact with MET 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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104E PHE* 4.7 7.6 - - - -
105E THR* 4.0 12.7 - - + +
138E GLY* 6.3 0.4 - - - -
141E GLU* 4.7 14.8 - - + -
154E ALA 2.8 13.8 + - - +
155E LEU* 3.1 16.6 + - + +
157E ARG* 1.3 76.7 - - - +
159E LYS* 1.3 59.8 + - - +
161E ALA* 3.5 5.3 + - - +
162E PHE* 3.1 46.1 + - + -
192E LEU* 3.6 41.1 - - + +
193E LEU* 3.9 22.2 - - + -
202E PHE* 3.2 24.2 - - + -
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Residues in contact with LYS 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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155E LEU 2.7 19.2 + - - +
156E ASP* 3.6 7.4 - - - +
158E MET* 1.3 72.4 - - - +
160E GLU* 1.3 60.0 + - - +
162E PHE 3.5 0.5 + - - -
163E ASP* 2.9 60.2 + - - +
202E PHE* 3.7 12.1 - - + -
205E ARG* 2.8 39.9 + - - +
206E LEU* 3.7 12.8 - - + +
207E GLU* 3.5 16.6 - - - +
237F TRP* 4.1 21.5 - - + -
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Residues in contact with GLU 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 ASP 2.9 13.2 + - - +
157E ARG* 3.1 26.2 + - - +
159E LYS* 1.3 77.9 - - - +
161E ALA* 1.3 63.4 + - - +
163E ASP* 3.9 6.5 - - - +
164E LEU* 3.0 39.5 + - + +
341F PRO* 3.6 10.2 - - - +
342F THR* 2.9 31.8 + - - +
343F ALA* 2.9 34.5 + - - +
344F ALA* 4.9 0.3 - - - -
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Residues in contact with ALA 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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104E PHE* 3.4 41.5 - - + +
116E LEU* 3.8 21.2 - - + +
157E ARG 2.9 16.0 + - - +
158E MET 3.7 2.2 - - - +
159E LYS 3.3 0.2 - - - -
160E GLU* 1.3 78.1 - - - +
162E PHE* 1.3 58.1 + - - +
164E LEU* 3.2 6.4 + - - +
165E LEU* 3.0 32.5 + - - +
342F THR* 5.9 1.5 + - - -
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Residues in contact with PHE 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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104E PHE* 4.1 16.2 - + - -
136E ALA* 3.7 32.1 - - + -
158E MET* 3.1 46.1 + - + +
161E ALA* 1.3 75.8 - - - +
163E ASP* 1.3 60.6 + - - +
165E LEU* 3.2 19.4 + - + +
166E GLY 2.9 11.1 + - - -
178E PHE* 5.0 6.3 - + + -
180E ILE* 3.8 24.5 - - + -
202E PHE* 3.9 17.3 - + - -
206E LEU* 3.9 14.8 - - + -
212E TYR* 2.5 52.0 + + + -
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Residues in contact with ASP 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 LYS* 2.9 54.5 + - - +
160E GLU* 3.9 6.5 + - - +
162E PHE* 1.3 75.6 - - - +
164E LEU* 1.3 59.0 + - + +
166E GLY* 3.0 4.2 + - - -
167E GLU* 2.9 26.9 + - - +
206E LEU* 3.7 8.8 - - - +
207E GLU* 2.8 47.3 + - + +
208E ARG* 3.9 5.5 + - - +
212E TYR* 3.7 4.7 + - - -
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Residues in contact with LEU 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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116E LEU* 3.8 30.1 - - + -
120E ILE* 6.1 2.5 - - + -
160E GLU* 3.0 42.4 + - + +
161E ALA 3.4 4.3 - - - +
163E ASP* 1.3 74.4 - - + +
165E LEU* 1.3 60.0 + - + +
167E GLU* 3.1 22.6 + - - +
168E TYR* 2.9 30.0 + - - +
342F THR* 5.3 0.2 - - + -
343F ALA* 4.3 20.9 - - + +
346F GLY* 4.9 2.9 - - - -
347F LEU* 4.3 33.6 - - + +
350F LEU* 4.7 3.6 - - + -
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Residues in contact with LEU 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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104E PHE* 4.0 28.7 - - + -
116E LEU* 4.3 14.6 - - + -
119E THR* 4.1 21.5 - - + -
120E ILE* 4.0 25.8 - - + -
123E ILE* 4.1 6.5 - - + +
161E ALA 3.0 18.0 + - - +
162E PHE* 3.2 23.8 + - + +
164E LEU* 1.3 75.8 - - - +
166E GLY* 1.3 61.2 + - - +
168E TYR* 3.4 5.4 + - - +
169E VAL* 3.1 28.8 + - - +
178E PHE* 3.7 25.8 - - + -
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Residues in contact with GLY 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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162E PHE 2.9 10.7 + - - -
163E ASP 3.0 4.9 + - - -
165E LEU* 1.3 74.7 - - - +
167E GLU* 1.3 59.9 + - - +
169E VAL* 3.1 11.3 - - - +
170E THR* 2.8 32.3 + - - -
178E PHE* 4.2 4.7 - - - -
208E ARG* 3.6 9.6 - - - -
211E LEU* 4.3 7.4 - - - -
212E TYR* 3.4 14.6 - - - -
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Residues in contact with GLU 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 ASP 2.9 13.1 + - - +
164E LEU* 3.5 19.9 - - - +
166E GLY* 1.3 75.2 - - - +
168E TYR* 1.3 58.2 + - - +
170E THR* 3.3 1.9 + - - -
171E SER* 2.9 32.2 + - - -
208E ARG* 3.3 25.6 - - - +
347F LEU* 3.8 30.3 + - + +
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Residues in contact with TYR 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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120E ILE* 3.6 44.7 - - + +
123E ILE* 4.6 7.6 - - + -
124E ASP* 2.6 39.8 + - - -
164E LEU 2.9 13.8 + - - +
165E LEU* 3.6 10.8 - - - +
166E GLY 3.1 0.2 - - - -
167E GLU* 1.3 77.0 - - - +
169E VAL* 1.3 74.3 + - + +
171E SER* 2.8 20.4 + - - -
172E GLN* 3.1 41.4 + - + +
174E TYR* 3.7 12.6 - + - -
347F LEU* 3.5 22.4 - - + +
351F LEU* 4.1 20.2 - - + -
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Residues in contact with VAL 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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123E ILE* 4.1 12.6 - - + -
165E LEU 3.1 13.4 + - - +
166E GLY* 3.1 20.9 - - - +
168E TYR* 1.3 78.1 - - + +
170E THR* 1.3 60.4 + - - +
172E GLN 3.4 0.7 + - - -
173E GLY* 3.0 6.1 + - - -
174E TYR* 2.9 43.6 + - + +
176E ILE* 3.5 42.8 - - + +
178E PHE* 3.7 19.3 - - + -
211E LEU* 4.3 10.5 - - + -
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Residues in contact with THR 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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166E GLY 2.8 23.1 + - - -
167E GLU* 3.6 7.2 - - - -
169E VAL* 1.3 74.8 - - - +
171E SER* 1.3 59.7 + - - +
172E GLN 3.0 4.0 - - - -
173E GLY* 2.8 21.0 + - - -
174E TYR 5.7 0.2 - - - -
208E ARG* 4.0 22.1 + - - +
211E LEU* 4.1 11.6 - - - +
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Residues in contact with SER 171 (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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167E GLU* 2.9 18.1 + - - -
168E TYR* 2.8 24.9 + - - -
170E THR* 1.3 76.2 - - - +
172E GLN* 1.3 72.5 + - - +
173E GLY 3.4 0.4 + - - -
347F LEU* 4.5 4.8 - - - +
348F GLN* 4.7 12.1 + - - -
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Residues in contact with GLN 172 (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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168E TYR* 3.1 48.8 + - + +
169E VAL 3.9 0.2 - - - +
170E THR 3.0 0.8 - - - -
171E SER* 1.3 91.8 + - - +
173E GLY* 1.3 64.5 + - - +
174E TYR* 3.3 47.0 + - + -
348F GLN* 6.2 0.2 - - - +
351F LEU* 6.1 0.6 - - - +
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Residues in contact with GLY 173 (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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169E VAL 3.0 1.3 + - - -
170E THR* 2.8 16.4 + - - -
171E SER 3.4 0.4 - - - -
172E GLN* 1.3 79.3 - - - +
174E TYR* 1.3 65.8 + - - +
175E ASP* 3.7 2.1 + - - +
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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
------------------------------------------------------------
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