Contacts of the helix formed by residues 150 - 173 (chain F) 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 F).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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274E LEU* 5.5 7.6 - - - +
335E LEU* 3.9 9.4 - - + +
338E LEU* 3.6 11.3 - - + +
149F LYS* 1.3 70.2 - - - +
151F VAL* 1.3 59.2 + - - +
152F ARG* 3.3 13.4 + - - +
153F ALA* 2.7 41.6 + - + +
154F ALA* 2.9 27.0 + - - +
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Residues in contact with VAL 151 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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229E PRO 5.0 0.4 - - - +
230E HIS* 3.5 50.3 - - + +
233E ALA* 3.4 26.0 - - + -
234E GLN* 5.1 0.9 - - + -
274E LEU* 6.4 0.2 - - - +
149F LYS* 3.3 9.3 + - + +
150F ASP* 1.3 68.6 + - - +
152F ARG* 1.3 55.5 + - - +
154F ALA* 3.0 7.3 + - - +
155F LEU* 2.6 54.4 + - + +
192F LEU* 4.4 17.0 - - + -
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Residues in contact with ARG 152 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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233E ALA* 3.6 25.5 - - + +
236E LEU* 4.1 16.9 + - - +
237E TRP* 3.6 36.4 - - + +
274E LEU* 5.2 9.0 - - + +
277E SER 5.1 1.6 + - - -
278E ALA* 4.0 33.4 + - - +
150F ASP* 3.3 10.5 + - - +
151F VAL* 1.3 78.5 - - - +
153F ALA* 1.3 58.5 + - - +
155F LEU* 3.1 4.9 + - - +
156F ASP* 2.8 34.8 + - - +
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Residues in contact with ALA 153 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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335E LEU 5.9 0.2 - - - +
338E LEU* 4.0 22.7 - - + +
339E ALA* 4.4 14.4 - - + -
150F ASP* 2.7 30.4 + - + +
152F ARG* 1.3 71.5 - - - +
154F ALA* 1.3 62.0 + - - +
156F ASP* 3.1 15.3 + - - +
157F ARG* 3.0 29.0 + - - +
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Residues in contact with ALA 154 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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338E LEU* 4.1 10.3 - - - +
105F THR* 3.4 17.3 - - - +
149F LYS* 4.1 19.1 - - + -
150F ASP 2.9 14.5 + - - +
151F VAL* 3.3 10.3 - - - +
153F ALA* 1.3 76.3 - - - +
155F LEU* 1.3 58.1 + - - +
157F ARG* 3.0 3.1 + - - +
158F MET 2.8 24.6 + - - -
192F LEU* 3.7 25.4 - - + -
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Residues in contact with LEU 155 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234E GLN* 3.6 39.5 - - + +
237E TRP* 3.5 36.5 - - + -
151F VAL* 2.6 34.0 + - + +
152F ARG 3.5 4.3 - - - +
154F ALA* 1.3 73.1 - - + +
156F ASP* 1.3 57.5 + - - +
158F MET* 3.4 7.3 - - + +
159F LYS* 2.9 30.7 + - - +
192F LEU* 5.0 12.6 - - + -
193F LEU* 4.2 24.7 - - + +
202F PHE* 3.9 16.1 - - + -
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Residues in contact with ASP 156 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
237E TRP* 2.6 32.6 + - - +
152F ARG* 2.8 18.6 + - - +
153F ALA* 3.1 14.4 + - - +
155F LEU* 1.3 75.9 - - - +
157F ARG* 1.3 79.8 + - - +
159F LYS* 3.4 7.2 + - - +
160F GLU* 2.9 27.4 + - - +
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Residues in contact with ARG 157 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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338E LEU* 2.9 40.7 + - + +
339E ALA* 2.9 23.2 + - - +
340E GLU 3.2 20.3 + - - -
341E PRO* 4.0 10.7 - - - +
342E THR* 3.7 5.8 + - - +
104F PHE 3.5 19.6 - - - +
105F THR* 4.4 3.4 - - - -
112F ARG* 3.2 22.4 - - - +
153F ALA* 3.0 19.3 + - - +
154F ALA 3.5 6.5 - - - +
156F ASP* 1.3 95.7 + - - +
158F MET* 1.3 60.7 + - - +
160F GLU* 3.0 28.9 + - - +
161F ALA* 3.0 30.0 + - - +
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Residues in contact with MET 158 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104F PHE* 4.6 13.5 - - - -
105F THR* 3.9 19.7 - - + +
138F GLY* 5.8 1.8 - - - -
141F GLU* 4.3 16.6 - - + +
154F ALA 2.8 14.4 + - - +
155F LEU* 3.4 13.7 - - + +
157F ARG* 1.3 77.8 - - - +
159F LYS* 1.3 62.1 + - - +
161F ALA* 3.5 0.7 + - - +
162F PHE* 3.1 52.6 + - - -
192F LEU* 4.1 20.6 - - + +
193F LEU* 4.1 25.1 - - + -
202F PHE* 3.1 27.1 - - + -
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Residues in contact with LYS 159 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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237E TRP* 4.0 16.4 - - + -
155F LEU 2.9 16.4 + - - +
156F ASP* 3.8 7.0 - - - +
158F MET* 1.3 74.4 - - - +
160F GLU* 1.3 61.6 + - - +
163F ASP* 2.9 56.3 + - - +
202F PHE* 3.4 19.0 - - + -
205F ARG* 3.0 28.5 + - - +
206F LEU* 3.9 12.9 - - + +
207F GLU* 3.9 10.8 + - - +
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Residues in contact with GLU 160 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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341E PRO* 3.5 12.6 - - - +
342E THR* 2.7 32.7 + - - +
343E ALA* 2.8 28.6 + - - +
344E ALA* 4.9 0.2 - - - -
156F ASP 2.9 17.0 + - - +
157F ARG* 3.0 26.0 + - - +
159F LYS* 1.3 80.2 - - - +
161F ALA* 1.3 61.6 + - - +
163F ASP* 3.8 5.1 - - - +
164F LEU* 3.1 38.7 + - + +
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Residues in contact with ALA 161 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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342E THR* 5.8 2.7 - - + +
104F PHE* 3.6 30.7 - - + +
116F LEU* 3.5 28.5 - - + +
157F ARG 3.0 17.5 + - - +
158F MET 3.8 1.6 - - - +
160F GLU* 1.3 77.6 - - - +
162F PHE* 1.3 61.5 + - - +
164F LEU* 3.2 10.8 + - - +
165F LEU* 3.1 25.8 + - - +
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Residues in contact with PHE 162 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104F PHE* 4.0 16.2 - + - -
136F ALA* 3.7 32.5 - - + -
158F MET* 3.1 49.8 + - + +
159F LYS 4.1 2.0 - - - +
161F ALA* 1.3 76.0 - - - +
163F ASP* 1.3 60.8 + - - +
165F LEU* 3.1 24.4 + - + +
166F GLY 3.0 10.0 + - - -
178F PHE* 5.0 6.3 - + + -
180F ILE* 3.9 25.1 - - + -
193F LEU* 5.6 0.4 - - + -
202F PHE* 3.8 16.4 - + - -
206F LEU* 4.1 11.4 - - + -
212F TYR* 2.6 47.7 + + + -
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Residues in contact with ASP 163 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159F LYS* 2.9 43.9 + - - +
160F GLU* 3.8 6.6 - - - +
162F PHE* 1.3 77.0 - - - +
164F LEU* 1.3 58.7 + - + +
166F GLY* 3.3 1.9 + - - -
167F GLU* 3.0 26.7 + - - +
206F LEU* 3.4 14.0 - - - +
207F GLU* 2.6 52.3 + - + +
208F ARG* 3.9 5.4 + - - -
212F TYR* 3.9 5.1 + - - -
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Residues in contact with LEU 164 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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343E ALA* 3.8 26.9 - - + +
346E GLY* 4.6 1.6 - - - -
347E LEU* 4.0 36.8 - - + +
350E LEU* 4.6 3.6 - - + -
116F LEU* 3.8 30.7 - - + -
120F ILE* 5.9 1.8 - - + -
160F GLU* 3.1 32.6 + - + +
161F ALA 3.4 5.8 - - - +
163F ASP* 1.3 77.4 - - + +
165F LEU* 1.3 59.0 + - + +
167F GLU* 3.3 21.0 + - - +
168F TYR* 2.9 28.2 + - - +
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Residues in contact with LEU 165 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104F PHE* 4.1 21.1 - - + -
116F LEU* 4.3 11.4 - - + -
119F THR* 4.0 20.4 - - + -
120F ILE* 3.9 27.8 - - + -
123F ILE* 4.0 7.6 - - + -
161F ALA 3.1 17.8 + - - +
162F PHE* 3.1 31.1 + - + +
164F LEU* 1.3 75.6 - - + +
166F GLY* 1.3 63.4 + - - +
168F TYR* 3.4 4.8 + - - +
169F VAL* 3.1 29.5 + - - +
178F PHE* 3.5 26.0 - - + -
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Residues in contact with GLY 166 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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162F PHE 3.0 10.1 + - - -
163F ASP 3.3 2.2 + - - -
164F LEU 3.2 0.2 - - - -
165F LEU* 1.3 73.0 - - - +
167F GLU* 1.3 56.5 + - - +
169F VAL* 2.9 24.4 - - - +
170F THR* 2.7 25.6 + - - +
178F PHE* 4.3 3.8 - - - -
208F ARG* 3.8 8.7 - - - -
211F LEU* 4.6 6.7 - - - -
212F TYR* 3.4 18.1 + - - -
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Residues in contact with GLU 167 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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347E LEU* 3.8 32.2 + - + +
348E GLN* 5.7 0.9 + - - -
163F ASP 3.0 12.2 + - - +
164F LEU* 3.5 20.1 - - - +
166F GLY* 1.3 76.5 - - - +
168F TYR* 1.3 56.8 + - - +
170F THR* 2.7 19.4 + - - +
171F SER* 2.8 23.0 + - - -
208F ARG* 3.6 20.9 - - - +
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Residues in contact with TYR 168 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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347E LEU* 3.7 20.6 - - + +
351E LEU* 4.2 19.5 - - + -
120F ILE* 3.4 44.7 - - + +
123F ILE* 4.2 15.0 - - + -
124F ASP* 2.5 39.9 + - - -
164F LEU 2.9 17.1 + - - +
165F LEU* 3.6 7.6 - - - +
167F GLU* 1.3 75.2 - - - +
169F VAL* 1.3 69.0 + - - +
171F SER* 2.8 25.7 + - - -
172F GLN* 3.2 35.7 + - + +
174F TYR* 4.0 12.6 + + - -
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Residues in contact with VAL 169 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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123F ILE* 4.3 12.6 - - + -
165F LEU 3.1 13.7 + - - +
166F GLY* 2.9 29.8 - - - +
168F TYR* 1.3 79.7 - - + +
170F THR* 1.3 64.3 + - + +
172F GLN 3.3 1.9 + - - -
173F GLY 3.0 6.8 + - - -
174F TYR* 3.0 48.2 + - + +
176F ILE* 3.8 27.8 - - + +
178F PHE* 3.7 24.5 - - + -
211F LEU* 4.3 9.9 - - + -
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Residues in contact with THR 170 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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166F GLY 2.7 14.7 + - - +
167F GLU* 2.7 25.3 + - - +
169F VAL* 1.3 73.2 - - + +
171F SER* 1.3 59.7 + - - +
172F GLN 3.0 6.2 + - - -
173F GLY* 3.1 13.1 + - - +
174F TYR 5.7 0.7 - - - -
208F ARG* 4.0 19.6 + - - +
211F LEU* 3.8 24.9 - - + -
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Residues in contact with SER 171 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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347E LEU* 4.6 4.6 - - - +
348E GLN* 4.7 11.6 + - - -
167F GLU* 2.8 19.0 + - - -
168F TYR* 2.8 20.5 + - - -
170F THR* 1.3 75.9 + - - +
172F GLN* 1.3 73.4 + - - +
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Residues in contact with GLN 172 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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348E GLN* 6.1 0.6 - - - +
351E LEU* 6.0 1.4 - - - +
124F ASP* 4.9 0.2 - - - +
168F TYR* 3.2 45.0 + - + +
169F VAL 3.8 5.4 - - - +
170F THR 3.0 0.6 - - - -
171F SER* 1.3 92.6 + - - +
173F GLY* 1.3 63.9 + - - +
174F TYR* 3.5 37.5 + - + -
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Residues in contact with GLY 173 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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169F VAL 3.0 3.9 + - - -
170F THR* 3.1 11.5 + - - -
171F SER 3.6 0.2 - - - -
172F GLN* 1.3 80.4 - - - +
174F TYR* 1.3 66.8 + - - +
175F ASP* 3.6 2.9 + - - +
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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