Contacts of the helix formed by residues 213 - 249 (chain B) in PDB entry 4NSW
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 LEU 213 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196A VAL* 4.7 1.3 - - + -
82B LYS* 4.3 32.3 - - + +
83B PHE* 4.0 22.7 - - + -
86B SER* 3.8 20.2 - - - +
209B GLU* 3.4 30.5 + - - +
210B LEU* 3.2 18.2 + - + +
211B SER 3.1 0.6 - - - -
212B ARG* 1.3 78.6 - - + +
214B SER* 1.3 66.5 + - - +
215B GLN 3.0 3.7 + - - -
216B TYR* 3.1 10.1 + - + +
217B ARG* 2.9 29.8 + - + +
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Residues in contact with SER 214 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210B LEU 3.3 6.3 + - - -
211B SER* 3.2 22.6 + - - -
212B ARG 3.3 0.2 - - - -
213B LEU* 1.3 76.7 - - - +
215B GLN* 1.3 62.5 + - - +
217B ARG* 3.4 21.1 + - - +
218B LYS* 3.3 40.4 + - - +
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Residues in contact with GLN 215 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211B SER 5.0 0.2 + - - -
212B ARG 4.8 4.2 + - - +
213B LEU 3.2 0.8 - - - -
214B SER* 1.3 74.1 - - - +
216B TYR* 1.3 66.2 + - - +
217B ARG 3.2 0.2 + - - -
218B LYS* 3.3 17.4 + - - +
219B GLU* 3.1 43.1 + - - +
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Residues in contact with TYR 216 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75B MET 4.5 1.7 + - - -
78B GLU* 3.8 18.6 + - + +
79B CYS* 3.1 34.9 + - - +
82B LYS* 3.6 42.6 - - + +
83B PHE* 3.2 43.3 - + - -
212B ARG 5.4 0.8 + - - +
213B LEU* 3.1 16.1 + - + +
215B GLN* 1.3 78.1 - - - +
217B ARG* 1.3 56.3 + - - +
219B GLU* 3.6 13.5 + - + +
220B LEU* 3.0 43.8 + - + +
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Residues in contact with ARG 217 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193A LEU* 3.7 18.3 - - + +
196A VAL* 3.6 21.7 - - + +
197A GLU* 2.7 57.9 + - - +
200A ALA* 3.5 29.0 - - - +
83B PHE* 3.9 24.0 - - + -
210B LEU* 3.1 30.5 + - - +
211B SER* 4.8 1.0 - - - +
213B LEU* 2.9 11.8 + - + +
214B SER* 3.4 26.2 + - - +
215B GLN 3.1 0.2 - - - -
216B TYR* 1.3 80.5 - - - +
218B LYS* 1.3 57.7 + - + +
220B LEU* 3.7 0.4 + - - -
221B GLY* 3.2 21.3 + - - -
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Residues in contact with LYS 218 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214B SER* 3.3 28.8 + - - +
215B GLN* 3.3 17.5 + - - +
217B ARG* 1.3 74.4 - - + +
219B GLU* 1.3 62.2 + - + +
221B GLY* 3.3 2.5 + - - -
222B ALA* 2.9 29.3 + - - +
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Residues in contact with GLU 219 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215B GLN* 3.1 35.3 + - - +
216B TYR* 3.8 15.2 - - + +
218B LYS* 1.3 78.9 - - + +
220B LEU* 1.3 55.8 + - - +
222B ALA* 3.4 6.7 + - - +
223B GLN* 2.9 30.0 + - - +
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Residues in contact with LEU 220 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189A MET* 4.4 15.3 - - - +
193A LEU* 4.3 14.8 - - + -
75B MET* 4.8 14.6 - - + -
79B CYS* 3.9 12.6 - - + -
83B PHE* 3.5 31.0 - - + -
216B TYR* 3.0 42.3 + - + +
217B ARG* 3.9 4.5 - - - +
219B GLU* 1.3 72.3 - - - +
221B GLY* 1.3 57.7 + - - +
223B GLN* 3.2 5.6 + - + +
224B LEU* 2.7 53.5 + - + +
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Residues in contact with GLY 221 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193A LEU* 3.8 19.2 - - - +
217B ARG 3.2 11.6 + - - -
218B LYS* 3.3 3.8 + - - -
220B LEU* 1.3 79.6 - - - +
222B ALA* 1.3 60.2 + - - +
224B LEU* 4.0 3.2 - - - +
225B HIS* 3.2 25.8 + - - +
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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
----------------------------------------------------------
218B LYS 2.9 18.2 + - - +
219B GLU* 3.7 7.0 - - - +
220B LEU 3.2 0.2 - - - -
221B GLY* 1.3 75.5 - - - +
223B GLN* 1.3 64.1 + - - +
225B HIS* 3.5 7.0 + - - +
226B GLN* 3.2 23.6 + - - +
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Residues in contact with GLN 223 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75B MET* 3.4 35.7 - - - +
219B GLU 2.9 18.6 + - - +
220B LEU* 3.4 9.7 - - + +
222B ALA* 1.3 75.0 - - - +
224B LEU* 1.3 57.7 + - - +
226B GLN* 3.1 7.5 + - - +
227B LEU* 2.9 45.6 + - + +
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Residues in contact with LEU 224 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186A PHE* 3.9 32.3 - - + +
189A MET* 3.8 29.8 - - + +
190A GLU* 3.4 50.0 - - + +
193A LEU* 4.2 13.2 - - + -
75B MET* 4.8 4.0 - - + -
220B LEU* 2.7 30.1 + - + +
221B GLY* 4.0 5.2 - - - +
223B GLN* 1.3 73.1 - - - +
225B HIS* 1.3 58.1 + - - +
227B LEU* 3.4 3.8 + - + +
228B VAL* 2.9 37.6 + - + +
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Residues in contact with HIS 225 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
221B GLY 3.2 16.2 + - - +
222B ALA* 3.9 6.1 + - - +
224B LEU* 1.3 79.4 - - - +
226B GLN* 1.3 67.4 + - - +
228B VAL* 3.6 7.9 + - + +
229B LEU* 3.2 49.3 + - + +
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Residues in contact with GLN 226 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222B ALA 3.2 14.1 + - - +
223B GLN* 3.1 10.0 + - - +
225B HIS* 1.3 81.9 + - - +
227B LEU* 1.3 62.4 + - + +
229B LEU* 3.3 19.3 + - - +
230B ASN* 2.8 59.0 + - - +
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Residues in contact with LEU 227 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185A LYS* 5.2 2.2 - - - +
186A PHE* 3.5 29.6 - - + -
75B MET* 3.1 43.1 - - + -
223B GLN* 2.9 33.8 + - + +
224B LEU* 3.7 5.6 - - + +
226B GLN* 1.3 78.6 - - + +
228B VAL* 1.3 57.6 + - - +
230B ASN* 3.8 16.2 - - + +
231B SER* 2.9 30.1 + - - -
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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
----------------------------------------------------------
186A PHE* 4.1 30.1 - - + -
224B LEU* 2.9 30.7 + - + +
225B HIS* 3.8 9.0 - - + +
226B GLN 3.3 0.2 - - - -
227B LEU* 1.3 74.6 - - - +
229B LEU* 1.3 63.1 + - + +
231B SER* 3.5 7.0 + - - -
232B ALA* 3.0 28.2 + - + +
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Residues in contact with LEU 229 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
225B HIS* 3.2 42.2 + - + +
226B GLN* 3.3 24.7 + - - +
228B VAL* 1.3 81.6 - - + +
230B ASN* 1.3 65.4 + - - +
232B ALA* 3.3 6.5 + - + +
233B ARG* 3.1 23.7 + - - +
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Residues in contact with ASN 230 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
226B GLN* 2.8 49.7 + - - +
227B LEU* 3.4 17.6 + - + +
229B LEU* 1.3 72.8 - - - +
231B SER* 1.3 57.1 + - - +
233B ARG* 3.4 34.9 + - - +
234B GLU* 2.9 30.6 + - - +
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Residues in contact with SER 231 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A ASP* 2.4 40.0 + - - +
186A PHE* 3.9 11.9 - - - -
227B LEU 2.9 18.2 + - - -
228B VAL* 3.6 5.8 - - - -
230B ASN* 1.3 78.0 - - - +
232B ALA* 1.3 57.2 + - - +
234B GLU* 3.3 7.5 + - - +
235B LYS* 2.9 31.1 + - - +
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Residues in contact with ALA 232 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
228B VAL* 3.0 18.3 + - + +
229B LEU* 3.3 8.9 + - + +
231B SER* 1.3 75.3 - - - +
233B ARG* 1.3 57.2 + - - +
235B LYS* 3.4 11.4 + - - +
236B ARG* 3.0 26.2 + - - +
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Residues in contact with ARG 233 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
229B LEU 3.1 11.7 + - - +
230B ASN* 3.5 46.1 + - - +
232B ALA* 1.3 73.8 - - - +
234B GLU* 1.3 65.3 + - - +
236B ARG* 3.0 20.2 + - - +
237B ASP* 3.0 30.3 + - - +
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Residues in contact with GLU 234 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
-3A PRO* 4.2 24.3 - - - +
178A ASN* 4.6 9.2 + - - +
182A ASP* 4.1 16.4 - - - +
230B ASN 2.9 20.2 + - - +
231B SER* 3.3 6.4 + - - +
233B ARG* 1.3 75.2 - - - +
235B LYS* 1.3 60.7 + - - +
237B ASP* 3.5 12.5 + - - +
238B MET* 3.1 42.5 + - + +
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Residues in contact with LYS 235 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175A LEU* 4.3 14.2 - - + +
176A GLN* 4.0 15.0 + - - +
179A VAL* 3.5 38.9 - - + +
231B SER* 2.9 17.7 + - - +
232B ALA* 3.5 9.9 - - - +
234B GLU* 1.3 73.8 - - - +
236B ARG* 1.3 65.5 + - - +
238B MET* 3.8 13.5 - - + +
239B GLU* 3.0 38.7 + - - +
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Residues in contact with ARG 236 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232B ALA 3.0 12.2 + - - +
233B ARG* 3.0 15.3 + - - +
235B LYS* 1.3 78.3 - - - +
237B ASP* 1.3 66.0 + - - +
239B GLU* 3.4 6.5 + - - +
240B GLN* 3.0 66.9 + - + +
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Residues in contact with ASP 237 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
233B ARG* 3.0 31.4 + - - +
234B GLU* 3.6 13.9 - - + +
235B LYS 3.3 0.2 - - - -
236B ARG* 1.3 81.1 + - - +
238B MET* 1.3 65.5 + - + +
240B GLN* 3.2 18.2 + - - +
241B ARG* 2.9 48.4 + - - +
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Residues in contact with MET 238 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175A LEU* 3.7 28.9 - - + -
178A ASN* 4.1 35.7 - - + +
179A VAL* 5.7 1.3 - - + -
234B GLU* 3.1 37.3 + - + +
235B LYS* 3.8 12.6 - - + +
236B ARG 3.4 0.2 - - - -
237B ASP* 1.3 77.6 - - + +
239B GLU* 1.3 59.2 + - - +
241B ARG* 3.1 9.9 + - + +
242B HIS* 2.8 46.5 + - - +
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Residues in contact with GLU 239 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175A LEU* 3.9 24.0 - - + +
235B LYS* 3.0 34.0 + - + +
236B ARG* 3.8 6.4 - - - +
238B MET* 1.3 75.9 - - - +
240B GLN* 1.3 63.1 + - + +
242B HIS* 3.3 8.6 + - + +
243B VAL* 3.1 35.3 + - + +
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Residues in contact with GLN 240 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236B ARG* 3.0 60.8 + - + +
237B ASP* 3.6 15.2 + - - +
239B GLU* 1.3 75.7 - - - +
241B ARG* 1.3 63.5 + - - +
243B VAL* 3.2 11.3 + - - +
244B LEU* 3.1 26.7 + - + +
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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
----------------------------------------------------------
237B ASP* 2.9 49.5 + - - +
238B MET* 3.4 9.9 - - + +
240B GLN* 1.3 73.1 - - - +
242B HIS* 1.3 56.9 + - + +
244B LEU* 3.1 15.8 + - - +
245B LEU* 2.8 41.2 + - + +
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Residues in contact with HIS 242 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171A LEU* 3.2 59.7 + - + +
172A ASP* 4.6 3.2 + - - +
174A ALA* 5.0 2.7 - - + -
175A LEU* 3.9 32.1 - - + +
238B MET* 2.8 31.3 + - + +
239B GLU* 3.5 11.4 - - + +
241B ARG* 1.3 81.9 - - + +
243B VAL* 1.3 57.1 + - + +
245B LEU* 3.5 11.2 - - + +
246B LYS* 2.9 46.2 + - - +
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Residues in contact with VAL 243 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
239B GLU* 3.1 25.5 + - + +
240B GLN* 3.2 9.6 + - - +
242B HIS* 1.3 76.3 - - + +
244B LEU* 1.3 64.9 + - + +
246B LYS* 3.4 9.1 + - + +
247B GLN* 3.0 38.0 + - + +
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Residues in contact with LEU 244 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
240B GLN* 3.1 19.1 + - + +
241B ARG* 3.1 18.4 + - - +
243B VAL* 1.3 77.3 - - + +
245B LEU* 1.3 66.5 + - - +
247B GLN* 4.9 1.6 - - - -
248B LYS* 3.1 55.1 + - + +
249B GLU* 4.2 3.3 - - + +
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Residues in contact with LEU 245 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A PHE* 4.7 21.3 - - + -
171A LEU* 4.1 32.5 - - + -
241B ARG* 2.8 22.7 + - + +
242B HIS* 3.5 16.6 - - + +
244B LEU* 1.3 70.5 - - - +
246B LYS* 1.3 58.1 + - - +
249B GLU* 3.0 34.0 + - + +
250B LEU* 3.0 33.4 + - + -
----------------------------------------------------------
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Residues in contact with LYS 246 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168A GLY* 3.5 29.8 - - - -
171A LEU* 4.1 18.8 - - + -
172A ASP* 2.6 36.3 + - - -
242B HIS* 2.9 31.9 + - - +
243B VAL* 4.1 8.3 - - - +
245B LEU* 1.3 71.9 - - - +
247B GLN* 1.3 69.3 + - + +
248B LYS 3.5 0.4 + - - -
249B GLU 4.9 0.2 - - - -
250B LEU* 4.2 16.0 + - + +
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Residues in contact with GLN 247 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243B VAL* 3.0 34.7 + - + +
244B LEU* 4.2 2.9 - - + +
246B LYS* 1.3 85.2 + - + +
248B LYS* 1.3 67.0 + - + +
----------------------------------------------------------
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Residues in contact with LYS 248 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
244B LEU* 3.1 41.2 + - + +
246B LYS 3.5 0.6 - - - -
247B GLN* 1.3 88.8 - - + +
249B GLU* 1.3 81.1 + - - +
250B LEU 3.9 0.2 - - - -
----------------------------------------------------------
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Residues in contact with GLU 249 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
244B LEU* 4.2 8.3 - - + +
245B LEU* 3.0 28.8 + - + +
248B LYS* 1.3 104.2 + - + +
250B LEU* 1.3 67.8 + - - +
251B GLY 4.0 0.2 - - - -
253B GLU* 5.3 0.3 - - - +
----------------------------------------------------------
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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