Contacts of the helix formed by residues 150 - 176 (chain C) in PDB entry 1NU9
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 THR 150 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148C PRO 3.9 0.8 + - - +
149C PHE* 1.3 77.9 - - - +
151C ASP* 1.3 58.9 + - - +
152C GLU* 3.8 7.2 + - - +
153C MET* 3.1 25.8 + - - +
154C GLU* 2.8 26.7 + - - +
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Residues in contact with ASP 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149C PHE 5.4 0.3 - - - +
150C THR* 1.3 72.9 - - - +
152C GLU* 1.3 64.3 + - - +
154C GLU* 3.3 13.8 + - - +
155C GLU* 2.9 25.1 + - - +
204C ARG* 4.9 7.1 + - - -
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Residues in contact with GLU 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150C THR* 3.3 7.2 + - - +
151C ASP* 1.3 79.6 - - - +
153C MET* 1.3 65.8 + - - +
155C GLU* 3.2 11.2 + - + +
156C LYS* 3.0 55.6 + - + +
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Residues in contact with MET 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149C PHE* 3.5 35.2 - - + -
150C THR* 3.1 22.7 + - - +
152C GLU* 1.3 83.7 - - - +
154C GLU* 1.3 61.9 + - - +
156C LYS* 3.3 28.7 + - + +
157C ALA* 3.0 23.7 + - - +
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Residues in contact with GLU 154 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149C PHE* 3.5 21.8 - - + +
150C THR 2.8 20.0 + - - +
151C ASP* 3.7 11.3 - - - +
153C MET* 1.3 72.7 - - - +
155C GLU* 1.3 60.0 + - - +
157C ALA* 3.3 1.1 + - - +
158C THR* 2.8 42.4 + - - +
204C ARG* 2.9 58.6 + - - +
205C ILE 3.4 16.8 + - - +
206C SER* 4.4 9.7 - - - -
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Residues in contact with GLU 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151C ASP 2.9 18.2 + - - +
152C GLU* 3.2 9.7 + - + +
154C GLU* 1.3 76.6 - - - +
156C LYS* 1.3 60.3 + - + +
158C THR* 3.4 5.5 + - - -
159C ALA* 3.0 30.0 + - + +
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Residues in contact with LYS 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152C GLU* 3.0 47.8 + - + +
153C MET* 3.8 28.5 - - + +
155C GLU* 1.3 79.6 - - + +
157C ALA* 1.3 60.5 + - - +
159C ALA* 3.4 7.0 + - - +
160C ARG* 3.3 26.3 + - - +
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Residues in contact with ALA 157 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149C PHE* 3.6 26.2 - - + -
153C MET 3.0 16.6 + - - +
154C GLU 3.8 3.1 - - - +
156C LYS* 1.3 73.1 - - - +
158C THR* 1.3 66.3 + - - +
160C ARG* 3.1 5.8 + - - +
161C VAL* 3.1 24.3 + - - +
205C ILE* 3.8 11.7 - - + -
211C GLU* 3.6 27.5 - - - +
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Residues in contact with THR 158 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154C GLU* 2.8 33.4 + - - +
155C GLU* 3.8 5.8 - - - -
157C ALA* 1.3 77.4 - - - +
159C ALA* 1.3 57.3 + - - +
161C VAL* 3.3 2.0 + - + +
162C ASP* 2.9 45.0 + - - +
204C ARG* 5.5 0.4 - - - -
205C ILE* 3.5 31.8 + - + +
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Residues in contact with ALA 159 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155C GLU* 3.0 18.3 + - + +
156C LYS* 3.8 7.9 - - - +
157C ALA 3.2 0.4 - - - -
158C THR* 1.3 74.5 - - - +
160C ARG* 1.3 65.8 + - - +
162C ASP* 3.9 6.5 - - - +
163C ASP* 3.0 25.8 + - - +
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Residues in contact with ARG 160 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156C LYS 3.3 14.1 + - - +
157C ALA 3.1 7.9 + - - +
159C ALA* 1.3 77.9 - - + +
161C VAL* 1.3 63.6 + - - +
163C ASP* 3.7 4.8 - - - +
164C LEU* 3.1 22.9 + - - +
211C GLU* 2.5 50.5 + - - +
212C LYS* 5.9 0.2 - - - +
215C ILE* 3.8 34.6 - - + +
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Residues in contact with VAL 161 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157C ALA 3.1 11.3 + - - +
158C THR 3.6 6.5 - - - +
160C ARG* 1.3 78.6 - - - +
162C ASP* 1.3 62.3 + - - +
164C LEU* 3.2 4.3 + - - +
165C ALA* 2.9 27.4 + - - +
196C LEU* 3.8 20.4 - - + -
205C ILE* 4.1 26.2 - - + -
211C GLU* 4.5 2.9 - - + +
214C MET* 3.7 36.1 - - + -
215C ILE* 3.9 24.5 - - + -
218C LEU* 3.6 3.6 - - + +
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Residues in contact with ASP 162 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158C THR* 2.9 37.2 + - - +
159C ALA* 4.0 5.9 - - - +
161C VAL* 1.3 84.5 - - - +
163C ASP* 1.3 57.4 + - - +
165C ALA* 3.3 6.7 + - - +
166C ASN* 2.9 38.5 + - - +
196C LEU* 4.8 10.7 - - - +
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Residues in contact with ASP 163 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159C ALA 3.0 19.5 + - - +
160C ARG* 3.7 6.1 - - - +
162C ASP* 1.3 78.9 - - - +
164C LEU* 1.3 62.3 + - - +
166C ASN* 3.3 6.8 + - - +
167C LYS* 3.2 34.7 + - - +
239C SER* 2.6 32.8 + - - -
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Residues in contact with LEU 164 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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160C ARG 3.1 12.9 + - - +
161C VAL 3.6 7.2 - - - +
163C ASP* 1.3 76.5 + - - +
165C ALA* 1.3 64.9 + - - +
167C LYS* 3.0 22.7 + - + +
168C ALA* 3.1 11.4 + - - +
215C ILE* 3.7 22.7 - - + +
218C LEU* 3.2 34.5 - - + -
219C GLU* 3.7 23.1 - - + +
222C ILE* 3.8 19.7 - - + -
2003C IMD 4.5 15.3 - - + -
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Residues in contact with ALA 165 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161C VAL 2.9 16.3 + - - +
162C ASP* 3.6 7.9 - - - +
164C LEU* 1.3 78.4 - - - +
166C ASN* 1.3 56.0 + - - +
168C ALA* 2.9 12.1 + - - +
169C TYR* 2.8 34.8 + - + -
192C VAL* 4.0 8.0 - - + +
196C LEU* 3.6 31.4 - - + -
218C LEU* 4.1 11.8 - - + +
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Residues in contact with ASN 166 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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162C ASP* 2.9 26.2 + - - +
163C ASP* 3.7 7.0 - - - +
164C LEU 3.2 0.4 - - - -
165C ALA* 1.3 73.2 - - - +
167C LYS* 1.3 65.2 + - - +
169C TYR* 3.3 22.8 + - - -
170C SER 3.0 14.4 + - - -
239C SER* 4.1 5.4 - - - -
240C TYR* 2.9 58.2 + - - +
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Residues in contact with LYS 167 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163C ASP* 3.3 21.9 + - - +
164C LEU* 3.0 19.0 + - + +
166C ASN* 1.3 73.6 - - - +
168C ALA* 1.3 68.9 + - - +
170C SER* 3.0 12.7 + - - -
171C VAL* 3.1 13.0 + - - +
222C ILE* 4.8 1.6 - - + -
237C ILE* 2.7 53.3 + - + +
238C THR* 4.6 0.4 - - - +
239C SER* 2.8 34.6 + - - +
2003C IMD 4.1 21.8 - - + -
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Residues in contact with ALA 168 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164C LEU 3.1 5.7 + - - +
165C ALA* 2.9 17.6 + - - +
167C LYS* 1.3 77.9 - - - +
169C TYR* 1.3 54.9 + - - +
171C VAL* 3.1 9.7 + - - +
172C TYR* 2.9 27.1 + - - +
188C LEU* 3.7 7.1 - - + +
192C VAL* 3.7 28.5 - - + -
218C LEU* 5.5 1.8 - - + -
222C ILE* 3.8 29.5 - - + +
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Residues in contact with TYR 169 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165C ALA* 2.8 27.2 + - + -
166C ASN* 3.5 28.0 - - - +
167C LYS 3.2 0.4 - - - -
168C ALA* 1.3 77.1 - - - +
170C SER* 1.3 56.4 + - - +
172C TYR* 3.3 9.5 + + + +
173C PHE* 2.9 41.5 + + + -
189C LYS* 4.1 28.5 - - + -
192C VAL* 3.4 28.5 - - + +
193C ASP* 2.3 33.0 + - - -
196C LEU* 3.9 11.9 - - + +
199C GLU* 4.7 11.5 + - - +
240C TYR* 4.1 17.7 - + + -
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Residues in contact with SER 170 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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166C ASN 3.0 3.0 + - - -
167C LYS 3.0 10.1 + - - -
169C TYR* 1.3 74.3 - - - +
171C VAL* 1.3 66.9 + - - +
173C PHE* 3.1 4.6 + - - +
174C ALA* 2.8 24.4 + - - +
237C ILE* 3.9 7.9 - - - -
238C THR 2.6 28.3 + - - -
240C TYR* 3.1 16.6 + - - +
257C LEU* 3.4 30.0 - - - +
258C VAL* 5.8 0.3 - - - -
261C THR* 4.3 5.5 + - - +
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Residues in contact with VAL 171 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167C LYS 3.1 14.0 + - - +
168C ALA* 3.1 8.7 + - - +
170C SER* 1.3 74.4 - - - +
172C TYR* 1.3 65.1 + - - +
174C ALA* 3.0 10.6 + - - -
175C PHE* 3.2 19.5 + - + +
188C LEU* 3.7 10.8 - - + -
222C ILE* 5.0 5.2 - - + -
225C PHE* 3.5 38.6 - - + -
226C PHE* 4.0 16.4 - - + -
237C ILE* 3.7 29.2 - - + -
261C THR* 4.3 13.2 - - + +
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Residues in contact with TYR 172 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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168C ALA 2.9 12.7 + - - +
169C TYR* 3.4 17.0 - + + +
170C SER 3.2 0.2 - - - -
171C VAL* 1.3 77.0 - - - +
173C PHE* 1.3 92.3 + + - +
175C PHE 3.3 0.7 + - - -
176C VAL* 3.0 56.1 + - + +
185C ALA* 3.3 26.7 - - + +
186C LEU* 4.1 13.0 - - + +
188C LEU* 3.5 18.5 - - + +
189C LYS* 3.4 45.0 - - + +
2005C IMD 4.8 7.3 + - - -
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Residues in contact with PHE 173 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169C TYR* 2.9 30.5 + + + +
170C SER* 3.7 5.6 - - - +
172C TYR* 1.3 108.1 - + - +
174C ALA* 1.3 61.7 + - - +
175C PHE 3.2 0.9 + - - -
176C VAL* 3.7 15.3 + - + +
177C ARG* 4.5 4.3 - - - -
240C TYR* 3.4 53.4 - + - -
247C TYR* 5.7 4.0 - - + -
254C PHE* 3.6 35.0 - + + -
257C LEU* 5.1 4.3 - - + -
258C VAL* 3.8 15.8 - - + +
2005C IMD 4.6 15.9 - + - -
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Residues in contact with ALA 174 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170C SER 2.8 15.7 + - - +
171C VAL 3.0 5.6 + - - +
173C PHE* 1.3 76.6 - - - +
175C PHE* 1.3 68.0 + - + +
177C ARG* 5.3 1.5 + - - -
178C ASP* 4.9 0.2 - - - +
258C VAL* 3.8 22.5 - - - +
261C THR* 3.6 31.0 - - + -
262C ARG* 2.9 31.0 + - + +
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Residues in contact with PHE 175 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171C VAL* 3.2 21.1 + - + +
173C PHE 3.1 0.2 - - - -
174C ALA* 1.3 89.3 - - + +
176C VAL* 1.3 65.0 + - - +
177C ARG 3.1 2.9 - - - -
178C ASP* 3.1 33.9 + - - +
181C HIS* 4.1 15.7 - + + -
182C LYS* 3.8 9.4 + - - -
185C ALA* 3.7 9.6 - - + -
225C PHE* 3.6 30.7 - + + -
231C LEU* 3.8 23.6 - - + -
261C THR* 5.0 1.3 - - + -
262C ARG* 3.4 34.1 - - + -
265C VAL* 4.0 33.0 - - + -
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Residues in contact with VAL 176 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172C TYR* 3.0 44.6 + - + +
173C PHE* 3.7 19.5 - - + +
175C PHE* 1.3 78.3 - - - +
177C ARG* 1.3 75.3 + - + +
178C ASP 3.4 0.7 - - - -
182C LYS* 3.7 26.9 + - + +
185C ALA* 3.9 6.7 - - - -
186C LEU* 3.8 21.5 - - + -
254C PHE* 5.5 0.2 - - + -
2005C IMD 4.5 19.7 - - + +
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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