Contacts of the helix formed by residues 216 - 244 (chain B) in PDB entry 4PHZ
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 216 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63B ARG* 5.0 1.6 + - - -
211B ARG 5.5 0.2 - - - +
212B THR* 3.7 16.3 - - - +
213B PHE* 3.1 36.8 + - - +
214B GLY* 3.2 1.0 - - - -
215B LYS* 1.3 78.6 - - - +
217B VAL* 1.3 69.1 + - - +
218B VAL 3.5 1.8 - - - -
219B PRO* 3.4 11.7 - - + +
220B VAL* 3.1 44.3 + - + +
140K THR* 5.6 3.1 + - - -
141K ASP* 5.5 3.1 + - - +
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Residues in contact with VAL 217 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B ARG* 3.4 39.0 - - + +
63B ARG* 3.7 33.3 - - + +
206B GLU* 3.4 21.8 - - - +
212B THR* 3.9 17.0 - - + -
215B LYS 3.6 0.2 - - - -
216B ASP* 1.3 80.1 - - - +
218B VAL* 1.3 62.6 + - - +
220B VAL* 3.5 4.8 - - - +
221B ALA* 3.2 20.1 + - - +
382I TYR* 2.8 26.2 + - + +
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Residues in contact with VAL 218 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B ARG* 3.7 44.2 - - + +
66B PRO* 5.6 2.2 - - + -
162B TYR* 3.7 50.3 - - + -
163B PRO* 5.8 1.1 - - + -
217B VAL* 1.3 71.1 - - - +
219B PRO* 1.3 70.9 - - + +
221B ALA* 3.1 2.9 + - - +
222B ALA* 2.8 31.4 + - + +
382I TYR* 4.4 1.2 + - - +
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Residues in contact with PRO 219 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215B LYS 4.5 6.5 - - - +
216B ASP* 3.4 21.3 - - + +
218B VAL* 1.3 95.8 - - + +
220B VAL* 1.3 63.8 + - + +
222B ALA* 3.4 5.6 + - + +
223B PHE* 3.1 40.4 + - + -
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Residues in contact with VAL 220 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63B ARG* 5.2 11.4 - - - +
216B ASP* 3.1 39.8 + - + +
217B VAL* 3.5 13.2 - - - +
219B PRO* 1.3 76.0 - - + +
221B ALA* 1.3 62.2 + - + +
223B PHE* 3.9 4.9 - - - +
224B PHE* 2.8 32.8 + - + +
141K ASP* 4.7 13.2 - - - +
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Residues in contact with ALA 221 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B ARG 3.7 16.2 - - - +
63B ARG* 4.1 12.3 - - + +
66B PRO* 4.1 10.3 - - + +
67B THR* 3.9 20.8 + - - +
217B VAL 3.2 14.1 + - - +
218B VAL 3.1 4.9 + - - +
220B VAL* 1.3 83.7 - - + +
222B ALA* 1.3 56.9 + - - +
224B PHE* 3.3 5.8 + - - +
225B SER* 2.8 31.5 + - - -
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Residues in contact with ALA 222 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66B PRO* 4.8 6.0 - - + +
158B GLY 3.9 8.6 - - - +
159B LEU* 4.0 32.3 + - + +
162B TYR* 5.7 5.8 - - + +
163B PRO* 6.0 0.4 - - + -
218B VAL* 2.8 23.1 + - + +
219B PRO* 3.7 6.7 - - + +
221B ALA* 1.3 76.9 - - - +
223B PHE* 1.3 55.8 + - - +
225B SER* 2.8 23.9 + - - -
226B GLY* 3.0 11.3 + - - -
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Residues in contact with PHE 223 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155B LEU* 4.6 10.0 - - + +
159B LEU* 3.5 36.8 - - + -
219B PRO* 3.1 35.4 + - + +
220B VAL* 3.9 4.3 - - - +
222B ALA* 1.3 72.7 - - - +
224B PHE* 1.3 62.3 + - - +
226B GLY* 3.1 2.9 + - - +
227B PHE* 2.8 65.2 + + + -
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Residues in contact with PHE 224 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67B THR* 3.6 33.4 - - + -
71B ILE* 4.0 5.4 - - + -
220B VAL 2.8 23.4 + - - +
221B ALA* 3.5 5.4 - - - +
223B PHE* 1.3 71.8 - - - +
225B SER* 1.3 64.1 + - - +
227B PHE* 3.6 8.2 + - + +
228B VAL* 3.1 48.1 + - + +
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Residues in contact with SER 225 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66B PRO 3.4 26.2 + - - -
67B THR* 4.1 9.9 - - - -
70B PRO* 3.7 15.9 - - - +
71B ILE* 4.0 11.5 - - - +
158B GLY* 3.4 16.2 + - - -
221B ALA 2.8 11.9 + - - -
222B ALA* 2.8 15.9 + - - -
224B PHE* 1.3 70.7 - - - +
226B GLY* 1.3 53.6 + - - +
228B VAL* 3.3 0.7 + - - -
229B SER* 2.6 44.4 + - - -
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Residues in contact with GLY 226 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154B SER 4.0 8.7 - - - +
155B LEU* 4.0 22.0 - - - -
158B GLY* 4.0 14.1 - - - -
222B ALA 3.0 8.8 + - - -
223B PHE 3.1 4.4 + - - -
225B SER* 1.3 85.5 + - - +
227B PHE* 1.3 61.4 + - - +
229B SER* 3.1 9.4 + - - -
230B MET* 3.4 14.1 + - - +
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Residues in contact with PHE 227 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155B LEU* 4.2 16.4 - - + -
223B PHE* 2.8 55.7 + + + +
224B PHE* 4.1 7.4 - - + +
226B GLY* 1.3 71.9 - - - +
228B VAL* 1.3 62.6 + - + +
230B MET* 3.5 35.3 + - + +
231B MET* 4.1 1.2 + - - +
194K ILE* 3.5 49.6 - - + -
195K PRO* 3.5 29.2 - - + +
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Residues in contact with VAL 228 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71B ILE* 3.7 34.5 - - + -
224B PHE* 3.1 47.6 + - + +
225B SER 4.0 0.2 - - - +
227B PHE* 1.3 76.8 - - + +
229B SER* 1.3 66.3 + - - +
231B MET* 3.2 21.0 + - + +
232B VAL* 3.3 14.6 + - + +
195K PRO* 5.0 11.7 - - + -
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Residues in contact with SER 229 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70B PRO* 3.9 0.7 - - - +
71B ILE* 3.8 20.5 + - - -
74B VAL* 4.1 11.6 - - - +
154B SER* 3.7 20.9 - - - -
157B TRP* 3.8 17.1 - - - -
225B SER 2.6 30.2 + - - -
226B GLY 3.1 6.2 + - - -
228B VAL* 1.3 74.7 - - - +
230B MET* 1.3 52.1 + - - +
232B VAL* 3.9 2.8 - - - +
233B TYR* 2.6 38.1 + - - +
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Residues in contact with MET 230 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150B ALA 3.4 16.9 - - - +
151B VAL* 3.7 34.8 - - + +
154B SER* 3.2 12.1 + - - +
155B LEU* 3.8 21.5 - - + +
226B GLY 3.5 8.5 - - - +
227B PHE* 3.5 41.7 - - + +
228B VAL 3.2 0.4 - - - -
229B SER* 1.3 77.7 - - - +
231B MET* 1.3 61.1 + - - +
233B TYR* 3.4 2.4 + - - +
234B PHE* 3.2 27.9 + - - +
191K PHE 3.7 23.3 - - - +
192K MET* 4.1 14.8 - - - +
194K ILE* 5.1 1.6 - - + -
195K PRO* 5.8 0.2 - - - -
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Residues in contact with MET 231 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
227B PHE 4.1 1.3 + - - +
228B VAL* 3.2 16.4 + - + +
230B MET* 1.3 75.4 - - - +
232B VAL* 1.3 70.2 + - + +
233B TYR 3.2 0.2 + - - -
234B PHE* 3.2 5.4 + - - +
235B LEU* 3.1 21.1 + - - +
192K MET* 3.7 30.5 - - + +
195K PRO* 4.3 26.2 - - + -
196K ASN* 6.4 0.4 - - - +
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Residues in contact with VAL 232 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71B ILE* 3.8 24.5 - - + +
74B VAL* 3.7 16.4 - - + -
75B THR* 3.5 20.4 - - + -
228B VAL* 3.3 17.1 + - + +
229B SER 3.9 4.7 - - - +
231B MET* 1.3 77.2 - - + +
233B TYR* 1.3 58.2 + - - +
235B LEU* 3.2 7.3 + - + -
236B TRP* 2.8 52.4 + - + +
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Residues in contact with TYR 233 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74B VAL* 4.1 18.1 - - + +
78B ALA* 3.5 27.1 - - + +
81B GLN* 2.8 29.6 + - - -
136B LEU* 4.1 11.4 - - + -
140B LEU* 4.6 0.7 - - - +
146B TYR* 3.6 11.6 - + + +
149B THR* 3.4 25.3 - - + +
150B ALA* 3.4 31.2 - - + -
154B SER* 4.1 10.3 - - - +
229B SER 2.6 22.1 + - - +
230B MET 3.6 4.5 - - - +
231B MET 3.2 0.2 - - - -
232B VAL* 1.3 72.2 - - - +
234B PHE* 1.3 55.0 + - - +
236B TRP 3.1 1.0 + - - -
237B TRP* 2.7 66.1 + + + +
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Residues in contact with PHE 234 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B TYR* 4.2 7.9 - + - -
147B VAL* 3.8 29.2 - - + -
150B ALA* 3.5 31.0 - - + -
151B VAL* 5.8 1.8 - - + -
230B MET 3.2 9.9 + - - +
231B MET 3.4 9.2 - - - +
233B TYR* 1.3 82.5 - - - +
235B LEU* 1.3 65.9 + - - +
237B TRP* 3.2 3.3 + - - +
238B PHE* 3.2 57.5 + + - -
188K ILE* 5.0 15.7 - - + -
192K MET* 4.3 24.0 - - + -
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Residues in contact with LEU 235 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231B MET 3.1 9.6 + - - +
232B VAL* 3.6 11.2 - - + +
234B PHE* 1.3 79.9 - - - +
236B TRP* 1.3 65.1 + - + +
238B PHE* 3.4 5.7 + - + +
239B MET* 3.2 56.8 + - + +
242B TRP* 5.0 11.4 - - + -
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Residues in contact with TRP 236 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45B HIS* 4.2 15.5 - + - -
75B THR* 3.2 52.1 - - + +
76B PHE* 3.6 35.4 - + - -
78B ALA* 3.7 9.4 - - + -
79B ALA* 3.3 23.3 - - + +
232B VAL* 2.8 44.0 + - + +
235B LEU* 1.3 82.5 - - + +
237B TRP* 1.3 60.7 + - - +
239B MET* 3.2 35.3 - - + +
240B GLY 2.8 23.2 + - - -
243B TYR* 5.6 6.5 - + - -
226C TRP* 5.8 7.9 - + - -
227C MET* 5.2 7.9 - - + -
229C LEU* 5.4 3.6 - - + -
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Residues in contact with TRP 237 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78B ALA* 3.7 15.5 - - - +
81B GLN* 3.8 9.2 - - + -
82B ALA* 3.1 55.7 - - + +
85B TRP* 4.4 17.3 - + - -
86B VAL* 3.6 25.6 - - + -
140B LEU* 4.2 6.1 - - + -
146B TYR* 3.6 52.7 - + + -
233B TYR* 2.7 48.6 + - + +
234B PHE* 3.4 7.2 - - - +
236B TRP* 1.3 74.0 - - - +
238B PHE* 1.3 87.1 + + + +
240B GLY 3.1 4.9 + - - -
241B ARG* 3.1 21.9 + - + +
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Residues in contact with PHE 238 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B TYR* 3.2 33.9 - + - -
234B PHE* 3.2 53.3 + + - +
235B LEU* 3.9 5.8 - - + +
236B TRP 3.2 0.2 - - - -
237B TRP* 1.3 93.8 - + - +
239B MET* 1.3 57.2 + - - +
241B ARG* 3.2 18.4 - - + +
242B TRP* 2.9 50.8 + + + -
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Residues in contact with MET 239 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79B ALA* 5.0 0.4 - - + -
235B LEU* 3.2 32.4 + - + +
236B TRP* 3.2 62.6 - - + +
238B PHE* 1.3 75.3 - - - +
240B GLY* 1.3 54.7 + - - +
241B ARG 3.2 0.2 - - - -
242B TRP* 3.6 30.6 - - + +
243B TYR* 2.8 57.9 + - + -
226C TRP* 4.1 29.6 - - + -
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Residues in contact with GLY 240 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79B ALA* 3.8 21.9 - - - +
82B ALA* 3.8 11.9 - - - -
236B TRP 2.8 16.1 + - - -
237B TRP 3.1 6.0 + - - -
239B MET* 1.3 75.8 - - - +
241B ARG* 1.3 54.9 + - - +
243B TYR* 3.3 6.2 + - - +
244B SER* 2.9 33.6 + - - -
232C PHE* 4.0 4.8 - - - -
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Residues in contact with ARG 241 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82B ALA* 3.6 18.3 + - - -
86B VAL* 3.8 32.4 - - - +
87B ASN* 5.1 2.8 + - - -
146B TYR* 6.3 0.6 - - - -
237B TRP* 3.1 38.1 + - + +
238B PHE* 3.2 24.9 - - + +
239B MET 3.2 0.2 - - - -
240B GLY* 1.3 72.7 - - - +
242B TRP* 1.3 71.3 + - + +
244B SER* 2.9 23.7 + - - -
245B THR* 3.4 7.3 + - - -
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Residues in contact with TRP 242 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
235B LEU* 5.0 10.5 - - + -
238B PHE* 2.9 35.1 + + + +
239B MET* 3.2 36.0 + - + +
241B ARG* 1.3 75.8 - - + +
243B TYR* 1.3 60.3 + - + +
245B THR* 3.0 33.2 + - - +
226C TRP* 6.5 0.7 - + - -
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Residues in contact with TYR 243 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79B ALA* 5.9 0.2 - - + -
236B TRP* 5.6 7.0 - + - -
239B MET* 2.8 44.4 + - + +
240B GLY 3.7 4.0 - - - +
242B TRP* 1.3 74.1 - - + +
244B SER* 1.3 57.7 + - - +
245B THR* 3.1 11.2 + - - +
182C ALA* 4.4 3.1 - - - +
185C ILE* 4.8 19.5 - - + -
226C TRP* 3.9 19.5 - + - +
227C MET* 2.7 44.6 + - + -
229C LEU* 3.5 35.6 - - + +
230C GLY* 3.9 25.1 - - - -
232C PHE* 3.6 7.5 - - + +
233C GLY* 3.2 17.0 + - - -
----------------------------------------------------------
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Residues in contact with SER 244 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82B ALA 4.7 1.1 + - - -
83B PHE* 3.8 27.9 - - - +
87B ASN* 4.6 3.4 - - - -
240B GLY 2.9 20.0 + - - -
241B ARG* 2.9 21.3 + - - -
243B TYR* 1.3 74.6 - - - +
245B THR* 1.3 64.9 + - - +
246B THR* 3.5 6.4 + - - +
232C PHE* 3.8 8.9 - - - +
233C GLY* 3.8 4.2 - - - +
236C LEU* 3.5 28.1 - - - +
----------------------------------------------------------
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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
------------------------------------------------------------
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