Contacts of the helix formed by residues 189 - 213 (chain B) in PDB entry 6IY6
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 189 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81B ARG* 5.8 0.2 - - - +
185B ILE* 4.3 2.0 - - + +
186B ASP* 2.5 37.1 + - - +
188B ARG* 1.3 75.2 - - - +
190B SER* 1.3 57.5 + - - +
191B THR* 4.4 7.4 - - - -
192B SER* 2.9 32.6 + - - -
193B GLN 3.0 10.6 + - - -
331B GLN* 6.1 0.9 - - - -
602B PO4 4.2 20.1 + - - +
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Residues in contact with SER 190 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81B ARG* 6.2 1.5 - - - +
84B GLN* 3.4 30.5 - - - +
188B ARG 3.4 3.9 + - - -
189B THR* 1.3 69.1 - - - +
191B THR* 1.3 57.2 + - - +
193B GLN* 4.1 1.8 - - - -
194B ALA* 3.1 22.0 + - - +
327B THR* 3.1 31.1 + - - +
331B GLN* 5.7 0.3 + - - -
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Residues in contact with THR 191 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189B THR* 2.9 7.7 + - - -
190B SER* 1.3 75.9 + - - +
192B SER* 1.3 56.6 + - - +
194B ALA* 3.0 7.9 + - - +
195B VAL* 2.8 48.9 + - + +
327B THR* 4.1 10.3 + - - +
328B VAL* 3.9 7.3 - - + +
331B GLN* 3.2 36.5 + - - +
332B PHE* 4.1 26.9 - - + -
483B LEU* 6.0 0.9 - - + -
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Residues in contact with SER 192 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
262A PHE* 4.9 0.2 - - - -
183B ARG* 4.6 3.1 + - - -
186B ASP* 3.2 22.2 + - - -
187B LEU* 3.7 25.4 - - - +
189B THR* 2.9 25.7 + - - -
191B THR* 1.3 75.9 - - - +
193B GLN* 1.3 62.9 + - - -
195B VAL* 3.1 5.8 + - - +
196B PHE* 3.0 40.2 + - - -
488B GLN 5.5 1.7 + - - -
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Residues in contact with GLN 193 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260A ALA 2.8 29.7 + - - -
261A ASP* 3.8 11.0 - - + +
262A PHE* 3.3 23.6 - - - -
83B GLN* 3.7 9.0 - - - -
84B GLN* 3.5 26.2 - - + +
187B LEU 2.9 15.6 + - - +
188B ARG 3.6 18.8 - - - +
189B THR 3.0 8.4 + - - +
190B SER 3.8 2.5 - - - +
192B SER* 1.3 74.3 - - - +
194B ALA* 1.3 57.0 + - - +
197B ARG* 2.9 71.8 + - - +
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Residues in contact with ALA 194 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84B GLN* 3.0 16.4 + - - +
190B SER 3.1 16.2 + - - +
191B THR 3.0 5.2 + - - +
193B GLN* 1.3 72.2 - - - +
195B VAL* 1.3 66.0 + - - +
198B LEU* 3.1 26.2 + - - +
324B GLU* 3.3 38.0 - - - +
327B THR* 3.7 12.1 - - + -
328B VAL* 3.8 5.6 - - + -
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Residues in contact with VAL 195 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191B THR* 2.8 28.8 + - + +
192B SER* 3.5 9.6 - - - +
194B ALA* 1.3 72.1 - - - +
196B PHE* 1.3 62.9 + - + +
198B LEU* 3.3 5.9 + - - +
199B GLN* 2.9 29.8 + - - +
328B VAL* 3.6 24.2 - - + -
477B THR* 4.0 9.1 - - + +
481B LEU* 3.9 14.4 - - + -
483B LEU* 4.3 9.2 - - + -
488B GLN 3.9 21.5 - - - +
489B THR* 4.1 22.4 - - + -
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Residues in contact with PHE 196 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
216A VAL* 4.2 5.9 - - + +
217A GLU 4.7 1.7 - - - +
262A PHE* 3.9 11.0 - + + -
183B ARG* 4.0 5.6 - - - -
187B LEU* 3.7 27.4 - - + -
192B SER* 3.0 34.6 + - - +
195B VAL* 1.3 76.2 - - + +
197B ARG* 1.3 60.6 + - - +
198B LEU 3.3 0.4 - - - -
199B GLN* 3.5 21.1 - - - +
200B SER* 3.1 26.9 + - - -
488B GLN 3.8 18.6 - - - -
489B THR* 3.3 18.8 - - - -
490B SER 3.5 8.5 - - - -
491B MET* 3.2 62.8 - - + +
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Residues in contact with ARG 197 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
216A VAL* 3.4 32.1 - - + +
261A ASP 3.3 12.1 + - - -
262A PHE* 3.6 20.0 - - + +
263A GLU* 4.9 5.5 + - - +
83B GLN* 2.9 39.7 + - - +
84B GLN* 4.6 12.3 - - - +
193B GLN* 2.9 53.4 + - - +
194B ALA 4.1 2.9 - - - +
196B PHE* 1.3 75.7 - - - +
198B LEU* 1.3 60.8 + - - +
200B SER* 3.6 8.4 - - - -
201B GLY 3.4 8.7 + - - -
321B PHE* 3.2 20.4 - - + -
324B GLU* 4.3 14.6 - - + -
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Residues in contact with LEU 198 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194B ALA 3.1 19.1 + - - +
195B VAL* 3.4 3.8 - - - +
197B ARG* 1.3 75.8 - - - +
199B GLN* 1.3 61.0 + - - +
201B GLY* 2.9 15.8 + - - -
202B ILE* 3.0 18.1 + - + +
317B LEU* 3.9 30.3 - - + +
321B PHE* 3.8 23.1 - - + +
324B GLU* 4.3 8.5 - - + +
325B ILE* 3.6 32.3 - - + +
477B THR* 4.1 20.6 - - + -
480B PHE* 4.5 2.2 - - + -
481B LEU* 4.1 20.4 - - + -
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Residues in contact with GLN 199 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219A GLN* 4.9 8.1 - - + +
195B VAL 2.9 16.1 + - - +
196B PHE* 3.5 27.5 - - - +
197B ARG 3.4 0.2 - - - -
198B LEU* 1.3 72.5 - - - +
200B SER* 1.3 64.0 + - - +
202B ILE* 3.1 18.2 + - - +
203B CYS* 3.3 12.0 + - - -
473B LEU* 3.6 28.5 - - + +
474B GLU* 3.7 16.9 - - - +
477B THR* 3.3 32.6 + - + +
489B THR* 2.7 27.7 + - - +
491B MET* 5.2 3.6 + - - +
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Residues in contact with SER 200 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211A ILE* 5.6 5.0 - - - +
215A PHE 4.8 1.7 + - - -
216A VAL* 3.7 13.2 - - - +
217A GLU* 3.0 48.4 + - - +
219A GLN* 6.1 0.2 - - - +
196B PHE 3.1 15.6 + - - -
197B ARG 3.6 8.3 - - - -
199B GLN* 1.3 73.6 - - - +
201B GLY* 1.3 61.6 + - - +
203B CYS* 3.5 8.6 + - - +
204B HIS* 3.1 22.2 + - - +
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Residues in contact with GLY 201 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197B ARG 3.4 4.8 + - - -
198B LEU 2.9 10.2 + - - -
200B SER* 1.3 75.3 + - - +
202B ILE* 1.3 53.8 - - - +
204B HIS* 3.1 7.6 + - - +
205B LEU* 2.8 44.7 + - - +
317B LEU* 4.4 0.7 - - - -
321B PHE* 3.5 29.4 - - - -
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Residues in contact with ILE 202 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198B LEU* 3.0 23.6 + - + +
199B GLN* 3.1 7.8 + - - +
201B GLY* 1.3 72.8 - - - +
203B CYS* 1.3 54.6 + - - +
205B LEU* 3.2 7.7 + - - +
206B PHE* 2.7 36.0 + - - +
289B LEU* 4.1 12.8 - - + -
313B ILE* 4.2 21.4 - - + +
317B LEU* 3.7 24.8 - - + +
471B ILE* 5.6 0.9 - - + -
473B LEU* 3.6 16.6 - - + -
476B VAL* 4.0 20.4 - - + -
477B THR* 3.4 37.0 - - - +
480B PHE* 5.5 1.3 - - + -
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Residues in contact with CYS 203 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217A GLU* 3.1 20.9 - - - +
219A GLN* 3.4 28.5 - - - -
199B GLN 3.3 6.6 + - - +
200B SER* 3.6 7.2 - - - +
201B GLY 3.3 0.2 - - - -
202B ILE* 1.3 78.7 - - - +
204B HIS* 1.3 56.6 - - - +
206B PHE* 3.5 5.1 - - - +
207B ARG* 3.2 35.4 + - - +
268B ILE* 3.9 21.6 - - + +
289B LEU* 4.3 5.4 - - - -
473B LEU* 3.5 27.1 - - - -
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Residues in contact with HIS 204 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208A GLU* 3.5 27.3 + - - -
211A ILE* 3.3 47.4 - - + +
212A ASN* 5.9 0.9 + - - -
217A GLU* 4.8 0.6 + - - +
601A ZN 3.5 6.8 - - - -
200B SER* 3.1 12.9 + - - +
201B GLY* 3.1 11.7 + - - +
203B CYS* 1.3 73.5 - - - +
205B LEU* 1.3 59.2 + - + +
207B ARG* 3.3 8.2 + - - +
208B GLU* 2.8 57.6 + - + +
320B ARG* 3.8 25.9 + - - -
321B PHE* 6.3 2.5 - + - -
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Residues in contact with LEU 205 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201B GLY* 2.8 24.4 + - - +
202B ILE 3.7 2.9 - - - +
204B HIS* 1.3 71.8 - - + +
206B PHE* 1.3 59.7 + - - +
208B GLU* 4.3 5.5 - - + +
209B THR* 2.6 38.7 + - - +
312B GLN 4.6 4.0 - - - +
313B ILE* 3.3 40.1 - - + +
316B GLY* 3.7 13.5 - - - -
317B LEU* 3.7 28.7 - - + +
320B ARG* 3.9 35.2 - - - +
321B PHE* 4.8 5.6 - - + -
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Residues in contact with PHE 206 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202B ILE 2.7 20.4 + - - +
203B CYS 3.5 4.5 - - - +
204B HIS 3.2 0.2 - - - -
205B LEU* 1.3 73.6 - - - +
207B ARG* 1.3 61.9 + - - +
209B THR* 3.7 2.6 - - - -
210B LEU* 3.3 52.4 + - + +
266B PHE* 3.7 20.0 - + + -
268B ILE* 3.8 21.1 - - + -
289B LEU* 3.6 47.8 - - + -
290B ASP 4.1 2.2 - - - -
291B ILE* 3.7 30.1 - - + -
309B THR* 4.2 7.8 - - + +
310B MET* 5.7 0.9 - - - -
313B ILE* 4.0 22.1 - - + +
471B ILE* 4.3 9.9 - - + -
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Residues in contact with ARG 207 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207A ARG* 3.0 69.5 - - - +
211A ILE* 5.0 2.8 - - - +
217A GLU* 2.7 45.7 + - - +
266A PHE* 4.6 2.2 - - - -
268A ILE* 5.2 4.0 + - - +
601A ZN 3.9 13.0 - - - -
203B CYS* 3.2 15.8 + - - +
204B HIS* 3.7 6.2 - - - +
206B PHE* 1.3 73.2 - - - +
208B GLU* 1.3 59.6 + - - +
209B THR 3.1 1.6 - - - -
210B LEU* 3.0 4.1 + - - -
211B ILE* 2.7 45.6 + - + +
266B PHE* 3.8 22.4 - - + -
268B ILE* 3.3 31.5 - - + +
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Residues in contact with GLU 208 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204A HIS* 3.5 14.5 + - - -
208A GLU* 2.9 38.3 - - - +
601A ZN 3.7 1.6 - - - -
204B HIS* 2.8 38.5 + - + +
205B LEU* 4.3 6.7 - - + +
207B ARG* 1.3 70.7 - - - +
209B THR* 1.3 56.0 + - - +
211B ILE* 4.2 4.9 - - - +
212B ASN* 3.1 55.7 + - - +
320B ARG* 5.7 6.7 - - - +
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Residues in contact with THR 209 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205B LEU* 2.6 25.3 + - - +
206B PHE 3.7 4.5 - - - -
207B ARG 3.0 0.4 + - - -
208B GLU* 1.3 78.9 - - - +
210B LEU* 1.3 60.6 + - - +
212B ASN* 3.3 5.8 + - - +
213B LYS* 3.2 37.2 + - - +
309B THR* 3.4 40.4 + - - +
312B GLN* 3.7 25.6 - - + +
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Residues in contact with LEU 210 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206B PHE* 3.3 50.5 + - + +
207B ARG 3.0 5.8 + - - +
209B THR* 1.3 72.2 - - - +
211B ILE* 1.3 61.1 + - - +
213B LYS* 2.9 21.3 + - + +
214B GLY 3.1 8.8 + - - -
215B PHE* 3.2 47.5 + - + -
266B PHE* 3.7 23.3 - - + -
291B ILE* 3.7 16.6 - - + -
305B GLU* 6.2 1.8 - - + -
309B THR* 3.4 29.2 - - + +
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Residues in contact with ILE 211 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200A SER* 5.6 4.9 - - - +
204A HIS* 3.3 54.1 - - + +
207A ARG* 5.1 3.8 - - - +
207B ARG* 2.7 32.9 + - + +
208B GLU* 4.2 2.9 - - - +
210B LEU* 1.3 71.9 - - - +
212B ASN* 1.3 61.5 + - - +
214B GLY* 3.1 19.4 + - - -
215B PHE 3.8 14.7 + - - +
217B GLU* 5.6 2.7 - - + +
266B PHE* 3.8 28.7 - - + -
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Residues in contact with ASN 212 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204A HIS* 6.1 0.2 - - - -
208B GLU* 3.1 48.7 + - - +
209B THR* 3.5 6.6 - - - +
210B LEU 3.2 0.4 - - - -
211B ILE* 1.3 80.5 - - - +
213B LYS* 1.3 58.1 + - + +
214B GLY 3.2 1.5 + - - -
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Residues in contact with LYS 213 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A ARG* 4.9 1.6 + - - -
209B THR* 3.2 25.5 + - + +
210B LEU* 2.9 17.3 + - + +
212B ASN* 1.3 76.1 - - + +
214B GLY* 1.3 58.1 + - - +
215B PHE* 4.2 7.9 - - + -
264B LYS* 3.2 24.8 + - - +
305B GLU* 3.1 39.9 + - + +
308B ASP* 2.8 26.7 + - - -
309B THR* 3.5 24.2 - - - +
312B GLN* 5.4 0.4 - - - +
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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