Contacts of the helix formed by residues 166 - 192 (chain B) in PDB entry 3P9K
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 166 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132B VAL* 3.9 7.1 - - - +
162B TYR* 2.8 49.2 + - + +
163B HIS 3.2 5.0 + - - +
165B THR* 1.3 79.6 - - - +
167B PRO* 1.3 61.4 - - - +
168B ARG* 3.2 15.5 + - - +
169B PHE* 2.9 28.2 + - + +
170B ASN* 2.9 27.7 + - - +
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Residues in contact with PRO 167 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163B HIS 5.0 0.2 - - - +
164B GLY 6.0 0.7 - - - +
165B THR 3.5 11.0 - - - +
166B ASP* 1.3 83.3 - - - +
168B ARG* 1.3 64.2 + - - +
170B ASN* 3.2 7.7 + - + +
171B ARG* 3.1 41.4 + - - +
191C LEU* 6.0 6.3 - - + -
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Residues in contact with ARG 168 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130B ASP* 2.8 43.2 + - - -
131B LYS* 5.2 3.6 - - - +
132B VAL* 3.5 19.2 - - - +
166B ASP* 3.2 10.5 + - - +
167B PRO* 1.3 82.3 - - - +
169B PHE* 1.3 70.2 + - - +
171B ARG* 3.2 27.7 + - - +
172B VAL* 3.2 33.4 + - + +
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Residues in contact with PHE 169 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127B MET* 4.2 10.1 - - + -
130B ASP* 3.5 40.2 - - + -
132B VAL* 3.9 20.4 - - + -
133B LEU* 3.4 36.8 - - + -
151B PHE* 5.8 1.1 - + - -
162B TYR* 4.4 4.7 - + - -
163B HIS* 3.6 35.7 - + - -
166B ASP* 2.9 31.5 + - + +
168B ARG* 1.3 78.4 - - - +
170B ASN* 1.3 66.6 + - - +
172B VAL* 3.0 16.6 + - + +
173B PHE* 2.8 27.9 + + + +
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Residues in contact with ASN 170 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163B HIS* 3.5 38.8 + - - +
166B ASP 2.9 19.2 + - - +
167B PRO* 3.2 10.5 + - + +
169B PHE* 1.3 76.3 - - - +
171B ARG* 1.3 65.8 + - - +
173B PHE* 3.4 4.4 + - - +
174B ASN* 3.1 52.3 + - - +
231B HIS* 3.9 17.8 + - - -
232B VAL* 4.9 2.4 - - - +
235B GLU* 3.8 24.0 - - - +
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Residues in contact with ARG 171 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167B PRO* 3.1 38.1 + - - +
168B ARG* 3.5 31.1 + - - +
169B PHE 3.1 0.6 - - - -
170B ASN* 1.3 78.8 - - - +
172B VAL* 1.3 66.8 + - + +
173B PHE 3.1 0.2 + - - -
174B ASN* 3.1 7.8 + - - +
175B GLU* 2.8 28.6 + - + +
235B GLU* 5.2 9.6 - - - +
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Residues in contact with VAL 172 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123B ALA 4.7 1.7 - - - +
126B LEU* 4.1 11.4 - - + +
127B MET* 3.5 34.5 - - + +
130B ASP* 4.4 3.4 - - - +
168B ARG* 3.2 32.9 + - + +
169B PHE* 3.0 21.9 + - + +
171B ARG* 1.3 79.4 - - + +
173B PHE* 1.3 57.2 + - - +
175B GLU* 3.8 4.8 - - - +
176B GLY* 3.0 24.8 + - - -
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Residues in contact with PHE 173 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127B MET* 3.7 25.9 - - + +
133B LEU* 5.6 2.2 - - + -
160B PHE* 4.4 3.6 - + - -
163B HIS* 3.5 40.8 - + + +
169B PHE* 2.8 24.6 + + + +
170B ASN* 3.6 6.1 - - - +
171B ARG 3.1 0.2 - - - -
172B VAL* 1.3 75.6 - - - +
174B ASN* 1.3 73.8 + - - +
176B GLY* 3.1 2.8 + - - -
177B MET* 2.9 52.8 + - + +
402B SAH 3.9 25.6 - - - -
602B CIY 3.5 41.7 - + - -
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Residues in contact with ASN 174 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170B ASN* 3.1 43.5 + - - +
171B ARG* 3.9 5.1 - - - +
173B PHE* 1.3 88.7 - - - +
175B GLU* 1.3 57.1 + - - +
177B MET* 3.6 5.6 - - - +
178B LYS* 2.6 37.9 + - - +
207B GLY* 5.5 2.8 - - - -
208B VAL* 3.8 30.4 - - + +
232B VAL* 4.7 17.5 - - - +
235B GLU* 4.6 9.9 - - - +
402B SAH 5.2 2.9 + - - -
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Residues in contact with GLU 175 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119B VAL* 5.8 0.3 - - - +
123B ALA* 4.0 8.3 - - + -
171B ARG* 2.8 19.2 + - + +
172B VAL* 3.8 5.4 - - - +
174B ASN* 1.3 74.9 - - - +
176B GLY* 1.3 66.7 + - - +
178B LYS* 3.2 32.9 + - - +
179B ASN* 2.7 51.8 + - - +
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Residues in contact with GLY 176 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123B ALA* 3.6 26.2 - - - +
124B LEU* 3.7 23.5 - - - +
127B MET* 4.7 3.4 - - - -
172B VAL 3.0 15.6 + - - -
173B PHE 3.1 3.3 + - - -
175B GLU* 1.3 78.7 - - - +
177B MET* 1.3 61.0 + - - +
179B ASN* 3.5 2.8 + - - +
180B HIS* 3.3 15.4 + - - +
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Residues in contact with MET 177 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124B LEU* 3.6 16.6 - - + -
127B MET* 3.6 30.5 - - + -
173B PHE* 2.9 41.6 + - + +
174B ASN* 3.6 6.1 - - - +
176B GLY* 1.3 73.3 - - - +
178B LYS* 1.3 64.8 + - - +
180B HIS* 3.3 4.8 + - - +
181B SER* 2.9 26.2 + - - -
207B GLY* 6.3 0.9 - - - -
262B LYS* 4.9 0.2 + - - -
263B TRP* 3.8 28.7 - - + -
402B SAH 3.5 25.8 + - + +
602B CIY 3.9 26.2 - - + +
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Residues in contact with LYS 178 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174B ASN 2.6 21.4 + - - +
175B GLU* 3.2 38.1 + - - +
177B MET* 1.3 72.2 - - - +
179B ASN* 1.3 67.0 + - - +
181B SER* 3.1 6.3 + - - -
182B ILE* 2.9 42.8 + - + +
208B VAL* 4.0 23.5 - - + +
210B ALA* 3.9 21.8 - - + -
239B PHE* 6.4 1.6 - - + -
402B SAH 5.0 0.9 - - - -
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Residues in contact with ASN 179 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118B GLY 4.4 1.9 + - - +
119B VAL* 3.3 24.4 - - + +
120B SER* 3.2 36.5 + - - +
123B ALA* 3.7 16.6 + - + +
124B LEU* 5.7 0.9 - - + +
175B GLU* 2.7 55.9 + - - +
176B GLY 3.8 4.3 - - - +
178B LYS* 1.3 79.5 - - - +
180B HIS* 1.3 63.2 + - - +
182B ILE* 3.5 1.7 + - - +
183B ILE* 3.3 28.8 + - - +
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Residues in contact with HIS 180 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21A LEU* 4.2 19.9 - - + +
121B MET* 4.2 13.2 - - + -
124B LEU* 3.9 21.7 - - + +
176B GLY 3.3 10.3 + - - +
177B MET 3.3 7.6 + - - +
179B ASN* 1.3 80.2 - - - +
181B SER* 1.3 57.8 + - - +
183B ILE* 3.5 4.5 + - - +
184B ILE* 3.0 55.4 + - + +
262B LYS* 3.0 28.8 + - - +
263B TRP* 3.6 42.2 - + + -
351B ALA 5.5 2.0 + - - -
353B ALA* 5.4 5.2 - - + -
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Residues in contact with SER 181 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177B MET 2.9 9.3 + - - -
178B LYS* 3.5 6.5 - - - -
180B HIS* 1.3 74.7 - - - +
182B ILE* 1.3 60.9 + - - +
183B ILE 3.0 0.5 + - - -
184B ILE 3.0 0.5 + - - -
185B THR* 2.7 37.5 + - - -
210B ALA* 5.2 2.2 - - - -
211B THR* 3.3 25.5 + - - -
262B LYS* 3.4 17.0 + - - +
402B SAH 2.5 34.4 + - - -
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Residues in contact with ILE 182 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117B ASP* 4.0 25.4 - - + +
119B VAL* 3.8 34.3 - - + -
178B LYS* 2.9 40.7 + - + +
179B ASN 3.9 3.6 - - - +
181B SER* 1.3 74.4 - - - +
183B ILE* 1.3 62.3 + - - +
185B THR* 4.2 4.3 - - - -
186B LYS* 3.5 20.6 + - - +
210B ALA* 4.1 20.2 - - + +
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Residues in contact with ILE 183 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A CYS* 5.3 5.4 - - - -
111B PHE* 6.2 5.6 - - + -
115B ASN* 4.2 10.8 - - - +
119B VAL* 3.3 25.6 - - + +
120B SER* 3.8 22.2 - - - +
121B MET* 3.3 33.7 - - + -
179B ASN 3.3 17.4 + - - +
180B HIS 3.7 4.0 - - - +
181B SER 3.0 0.6 - - - -
182B ILE* 1.3 75.7 - - - +
184B ILE* 1.3 70.6 + - + +
186B LYS* 3.5 17.6 + - - +
187B LYS* 3.6 10.9 + - + +
350B TYR* 5.5 8.1 - - + -
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Residues in contact with ILE 184 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121B MET* 5.5 2.0 - - + -
180B HIS* 3.0 52.5 + - + +
181B SER 3.9 1.3 - - - +
183B ILE* 1.3 80.3 - - + +
185B THR* 1.3 62.8 + - - +
187B LYS* 3.2 6.6 + - - +
188B LEU* 2.8 27.7 + - + +
262B LYS* 4.0 9.9 - - + -
293B VAL* 4.1 26.7 - - + -
349B ILE* 4.2 7.8 - - + +
350B TYR* 3.9 29.4 - - + +
351B ALA* 4.5 11.4 - - + -
353B ALA* 4.3 11.0 - - + -
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Residues in contact with THR 185 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181B SER* 2.7 32.0 + - - -
182B ILE* 4.2 4.0 - - - -
184B ILE* 1.3 72.5 - - - +
186B LYS* 1.3 57.2 + - - +
188B LEU* 3.0 13.5 + - + +
189B LEU* 2.8 35.1 + - + +
211B THR* 3.6 27.4 + - + +
214B ALA* 4.0 22.2 - - + -
215B ILE* 4.0 28.9 - - + -
262B LYS* 5.1 2.4 - - - +
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Residues in contact with LYS 186 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116B GLU* 3.0 34.6 + - - +
117B ASP* 3.1 25.3 + - - +
182B ILE 3.5 11.7 + - - +
183B ILE* 3.5 12.8 - - - +
184B ILE 3.2 0.2 - - - -
185B THR* 1.3 80.6 - - - +
187B LYS* 1.3 64.1 + - + +
189B LEU* 3.3 13.7 + - - +
190B GLU* 3.1 34.9 + - + +
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Residues in contact with LYS 187 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A ALA* 6.2 1.8 - - - +
183B ILE* 3.6 9.3 + - + +
184B ILE* 3.2 9.9 + - - +
186B LYS* 1.3 80.8 - - + +
188B LEU* 1.3 62.1 + - - +
190B GLU* 3.2 30.9 + - - +
191B LEU* 3.2 24.7 + - + +
349B ILE* 3.7 17.3 - - + +
350B TYR* 3.7 55.2 - - + -
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Residues in contact with LEU 188 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184B ILE* 2.8 17.7 + - + +
185B THR* 3.0 19.5 + - + +
187B LYS* 1.3 77.2 - - - +
189B LEU* 1.3 56.8 + - + +
190B GLU 2.9 1.3 + - - -
191B LEU 3.2 0.5 + - - -
192B TYR* 2.8 64.7 + - + +
195B PHE* 4.0 27.4 - - + -
211B THR* 5.5 2.0 - - + -
215B ILE* 4.6 9.6 - - + -
260B LEU* 5.1 4.0 - - + -
262B LYS* 6.4 0.7 - - + -
291B VAL* 5.6 1.3 - - + -
293B VAL* 4.3 26.0 - - + -
349B ILE* 3.7 25.8 - - + +
355B ALA* 4.2 8.3 - - + -
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Residues in contact with LEU 189 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185B THR* 2.8 34.8 + - + +
186B LYS* 3.3 9.4 + - - +
188B LEU* 1.3 71.7 - - + +
190B GLU* 1.3 59.9 + - + +
192B TYR 4.3 9.5 - - - +
193B HIS* 4.9 6.2 + - - -
195B PHE* 4.3 11.0 - - + -
214B ALA* 3.9 23.8 - - + +
215B ILE* 3.8 23.1 - - + -
218B HIS* 4.0 35.6 + - + -
219B TYR* 4.1 27.8 + - + -
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Residues in contact with GLU 190 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186B LYS* 3.1 34.3 - - + +
187B LYS* 3.6 32.7 + - - +
188B LEU 3.0 1.0 - - - -
189B LEU* 1.3 82.4 - - + +
191B LEU* 1.3 71.2 + - + +
192B TYR 3.6 0.4 - - - -
193B HIS* 4.1 15.1 + - - -
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Residues in contact with LEU 191 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187B LYS* 3.2 18.6 + - + +
188B LEU 3.2 1.6 + - - -
190B GLU* 1.3 86.5 - - + +
192B TYR* 1.3 60.5 + - - +
193B HIS* 4.3 8.1 + - - -
347B THR* 4.1 15.6 - - + +
348B TYR* 3.7 8.7 - - + +
349B ILE* 3.1 49.6 - - + +
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Residues in contact with TYR 192 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188B LEU* 2.8 36.5 + - + +
189B LEU* 4.3 9.0 - - - +
190B GLU 3.6 0.4 - - - -
191B LEU* 1.3 80.0 - - - +
193B HIS* 1.3 68.9 + - - +
194B GLY* 3.3 33.4 - - - -
195B PHE* 3.6 36.7 - + - -
219B TYR* 4.4 5.4 + - - -
289B LYS* 3.4 6.4 + - - -
291B VAL* 3.3 20.7 - - + +
347B THR* 4.9 11.2 - - + -
349B ILE* 4.5 3.8 - - + -
355B ALA* 4.1 17.0 - - + -
357B GLU* 2.5 52.0 + - + +
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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