Contacts of the helix formed by residues 211 - 241 (chain B) in PDB entry 3N3B
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 SER 211 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210B ILE* 1.3 79.0 - - - +
212B LEU* 1.3 64.2 + - - +
213B GLY* 3.9 4.5 + - - -
214B GLN* 3.3 20.8 + - - +
215B ARG* 3.2 21.4 + - - +
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Residues in contact with LEU 212 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210B ILE 3.9 0.4 + - - -
211B SER* 1.3 74.1 - - - +
213B GLY* 1.3 64.5 + - - +
215B ARG* 3.3 35.7 + - + +
216B GLU* 3.2 48.7 + - + +
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Residues in contact with GLY 213 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211B SER* 3.2 6.9 + - - -
212B LEU* 1.3 83.0 - - - +
214B GLN* 1.3 54.9 + - - +
216B GLU* 3.7 5.4 + - - +
217B GLU* 3.2 24.4 + - - +
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Residues in contact with GLN 214 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B ASP* 4.8 11.5 + - - -
148B LEU* 4.1 10.1 - - - +
210B ILE* 3.7 33.8 - - + +
211B SER* 3.3 17.7 + - - +
213B GLY* 1.3 74.4 - - - +
215B ARG* 1.3 61.3 + - - +
217B GLU* 3.3 21.2 + - - +
218B LEU* 3.0 46.0 + - + +
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Residues in contact with ARG 215 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207B MET* 3.5 34.7 + - + +
208B GLU* 4.9 8.1 + - - +
210B ILE* 3.3 40.2 + - + -
211B SER* 3.2 10.1 + - - +
212B LEU* 3.3 41.3 + - + +
214B GLN* 1.3 78.0 - - - +
216B GLU* 1.3 59.6 + - - +
218B LEU* 3.3 3.1 + - - +
219B LYS* 2.9 29.3 + - - +
267B TYR* 4.4 3.5 + - - -
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Residues in contact with GLU 216 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
212B LEU* 3.2 40.4 + - + +
213B GLY* 4.0 6.1 - - - +
214B GLN 3.3 0.2 - - - -
215B ARG* 1.3 76.3 - - - +
217B GLU* 1.3 60.6 + - - +
219B LYS* 3.8 27.8 + - - +
220B SER* 3.0 33.7 + - - +
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Residues in contact with GLU 217 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B ASP* 5.3 4.2 - - - +
149B LYS* 5.7 4.6 - - - -
213B GLY 3.2 15.5 + - - +
214B GLN* 3.4 25.6 + - - +
216B GLU* 1.3 77.8 - - - +
218B LEU* 1.3 58.9 + - - +
220B SER* 3.9 4.9 - - - -
221B PHE* 3.1 26.7 + - - +
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Residues in contact with LEU 218 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B ASP* 4.2 7.0 - - - +
148B LEU* 3.6 41.3 - - + -
149B LYS* 4.0 33.7 - - + -
152B ILE* 4.2 10.8 - - + +
203B TYR* 3.8 11.0 - - - +
207B MET* 3.8 9.6 - - - -
210B ILE* 3.8 14.6 - - + -
214B GLN* 3.0 29.4 + - + +
215B ARG 3.8 4.0 - - - +
216B GLU 3.3 0.2 - - - -
217B GLU* 1.3 77.9 - - - +
219B LYS* 1.3 60.1 + - - +
221B PHE* 3.4 6.4 + - + +
222B ALA* 2.8 31.0 + - - +
267B TYR* 4.3 2.0 - - - -
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Residues in contact with LYS 219 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215B ARG 2.9 18.3 + - - +
216B GLU* 3.8 29.4 + - - +
217B GLU 3.4 0.2 - - - -
218B LEU* 1.3 76.5 - - - +
220B SER* 1.3 64.0 + - - +
222B ALA* 3.2 2.0 + - - +
223B PHE* 3.1 52.4 + - + -
267B TYR* 3.6 39.0 + - + +
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Residues in contact with SER 220 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
216B GLU* 3.0 19.8 + - - +
217B GLU* 3.9 6.1 - - - -
219B LYS* 1.3 75.7 - - - +
221B PHE* 1.3 61.0 + - - +
223B PHE* 3.7 4.6 + - - +
224B ASP* 3.1 35.3 + - - +
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Residues in contact with PHE 221 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141B HIS* 3.4 37.2 - + - -
149B LYS* 3.6 52.5 - - + +
152B ILE* 3.8 22.7 - - + -
217B GLU 3.1 19.0 + - - +
218B LEU* 3.5 6.7 - - + +
219B LYS 3.3 0.2 - - - -
220B SER* 1.3 77.2 - - - +
222B ALA* 1.3 57.4 + - - +
224B ASP* 3.3 5.7 + - + +
225B LEU* 2.8 59.9 + - + +
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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
----------------------------------------------------------
152B ILE* 4.2 24.2 - - + -
156B PHE* 3.2 19.3 - - + -
218B LEU 2.8 20.7 + - - +
219B LYS 3.2 5.6 + - - +
221B PHE* 1.3 80.4 - - - +
223B PHE* 1.3 58.6 + - + +
225B LEU* 3.5 0.4 + - - -
226B LEU* 2.9 24.8 + - - +
262B LEU* 5.6 1.1 - - + -
265B LEU* 5.1 0.9 - - + -
267B TYR* 4.3 23.1 - - + -
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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
----------------------------------------------------------
219B LYS* 3.1 55.7 + - + +
220B SER* 4.2 4.5 - - - +
222B ALA* 1.3 77.3 - - + +
224B ASP* 1.3 64.0 + - - +
226B LEU* 3.5 6.6 + - + +
227B LEU* 3.1 36.2 + - + +
262B LEU* 3.8 32.1 - - + -
267B TYR* 4.1 21.3 - + + -
268B GLU* 4.2 9.2 - - + -
270B LEU* 3.9 40.6 - - + -
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Residues in contact with ASP 224 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220B SER* 3.1 23.8 + - - +
221B PHE* 3.7 6.9 - - + +
223B PHE* 1.3 76.7 - - - +
225B LEU* 1.3 60.5 + - - +
227B LEU* 3.7 10.3 + - - +
228B GLU* 3.1 27.1 + - - +
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Residues in contact with LEU 225 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137B ILE* 3.8 22.0 - - + -
138B ILE* 5.7 0.4 - - + -
141B HIS* 3.7 28.5 - - + +
152B ILE* 3.9 22.0 - - + -
153B ALA* 4.6 11.0 - - + -
156B PHE* 3.9 8.5 - - + -
221B PHE* 2.8 42.2 + - + +
222B ALA 3.8 2.9 - - - +
224B ASP* 1.3 74.3 - - - +
226B LEU* 1.3 60.5 + - - +
228B GLU* 3.3 16.2 + - - +
229B LEU* 2.9 42.9 + - + +
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Residues in contact with LEU 226 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156B PHE* 3.7 31.1 - - + -
160B PHE* 3.9 29.4 - - + -
222B ALA 2.9 18.6 + - - +
223B PHE* 3.6 8.1 - - + +
224B ASP 3.4 0.2 - - - -
225B LEU* 1.3 76.3 - - - +
227B LEU* 1.3 57.3 + - + +
229B LEU* 3.5 3.5 + - - +
230B TYR* 2.9 31.2 + - - +
258B ALA* 4.4 13.9 - - + +
262B LEU* 3.8 32.5 - - + -
270B LEU* 4.4 13.5 - - + -
271B PHE* 4.1 21.1 - - + -
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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
----------------------------------------------------------
223B PHE* 3.1 21.2 + - + +
224B ASP* 4.1 10.3 - - - +
226B LEU* 1.3 77.1 - - + +
228B GLU* 1.3 59.9 + - - +
230B TYR* 3.7 18.8 - - + +
231B ASP* 3.0 31.0 + - - +
270B LEU* 4.5 22.4 - - + -
271B PHE* 5.0 8.3 - - + -
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Residues in contact with GLU 228 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133B ARG* 3.7 13.7 + - - -
137B ILE* 3.5 31.4 - - + +
141B HIS* 5.6 0.3 + - - -
224B ASP 3.1 17.7 + - - +
225B LEU* 3.5 25.2 - - - +
227B LEU* 1.3 77.9 - - - +
229B LEU* 1.3 60.7 + - - +
231B ASP* 4.0 4.0 - - - +
232B ASN* 3.3 22.5 + - - +
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Residues in contact with LEU 229 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134B LYS* 4.7 10.8 - - + +
137B ILE* 3.9 33.0 - - + -
138B ILE* 3.9 28.0 - - + -
156B PHE* 4.2 18.4 - - + -
160B PHE* 4.5 3.6 - - + -
161B LEU* 3.9 30.2 - - + +
225B LEU* 2.9 39.8 + - + +
226B LEU* 4.0 3.4 - - - +
228B GLU* 1.3 74.8 - - + +
230B TYR* 1.3 60.5 + - - +
232B ASN* 3.5 6.9 + - - +
233B GLU* 2.8 31.3 + - - +
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Residues in contact with TYR 230 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160B PHE* 3.9 27.5 - + + -
226B LEU* 2.9 19.3 + - + +
227B LEU* 3.7 17.5 - - + +
228B GLU 3.3 0.2 - - - -
229B LEU* 1.3 73.8 - - - +
231B ASP* 1.3 62.8 + - + +
233B GLU* 3.1 5.5 + - + +
234B LEU* 2.9 69.8 + - + +
251B LYS* 5.1 2.7 - - - +
254B LEU* 5.2 4.5 - - + -
255B CYS* 3.4 25.8 - - - -
271B PHE* 3.5 30.1 - + + -
275B MET* 3.4 24.7 - - + +
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Residues in contact with ASP 231 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
227B LEU 3.0 18.8 + - - +
228B GLU* 4.0 4.7 - - - +
230B TYR* 1.3 77.6 - - + +
232B ASN* 1.3 63.0 + - - +
234B LEU* 3.5 20.2 + - - +
235B GLN* 3.5 17.8 + - - +
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Residues in contact with ASN 232 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130B PRO* 2.8 41.7 - - - +
133B ARG* 4.0 20.1 - - + +
134B LYS* 3.7 15.1 + - - +
137B ILE* 5.7 4.3 - - + -
228B GLU 3.3 16.0 + - - +
229B LEU* 3.7 7.9 - - + +
230B TYR 3.2 0.4 - - - -
231B ASP* 1.3 79.3 + - - +
233B GLU* 1.3 60.6 + - - +
235B GLN* 3.3 9.4 + - - +
236B TYR* 3.1 23.6 + - - +
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Residues in contact with GLU 233 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134B LYS* 2.9 42.2 + - - +
160B PHE* 4.9 2.0 - - + -
161B LEU* 3.3 21.6 - - + +
164B SER* 2.6 25.5 + - - -
229B LEU 2.8 16.9 + - - +
230B TYR* 3.1 8.5 + - + +
232B ASN* 1.3 76.7 - - - +
234B LEU* 1.3 59.6 + - - +
236B TYR* 3.2 13.6 + - - +
237B THR* 2.8 34.3 + - - -
254B LEU* 3.9 27.6 - - + -
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Residues in contact with LEU 234 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230B TYR* 2.9 59.4 + - + +
231B ASP* 3.6 20.9 - - - +
232B ASN 3.3 0.2 - - - -
233B GLU* 1.3 75.5 - - - +
235B GLN* 1.3 56.9 + - - +
237B THR* 3.4 6.5 + - - -
238B ASP* 3.0 36.8 + - - +
251B LYS* 3.7 39.0 - - + +
254B LEU* 5.3 4.0 - - + -
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Residues in contact with GLN 235 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130B PRO* 3.9 18.2 - - + -
231B ASP 3.5 8.3 + - - +
232B ASN* 3.3 13.8 + - - +
233B GLU 3.2 0.4 - - - -
234B LEU* 1.3 77.2 - - - +
236B TYR* 1.3 63.8 + - - +
238B ASP* 3.4 16.0 + - - +
239B GLU* 3.1 48.2 + - - +
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Residues in contact with TYR 236 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58B ARG 4.2 7.1 + - - -
59B VAL* 4.8 2.3 + - - -
62B GLY* 4.0 14.6 - - - -
124B TRP* 4.6 5.6 - + - -
128B ASN* 3.2 32.8 - - - -
130B PRO* 3.7 12.5 - - + +
131B LEU* 3.7 32.5 - - + +
134B LYS* 3.6 16.8 - - - -
164B SER* 4.0 9.4 - - - -
165B GLY* 5.9 0.7 - - - -
232B ASN 3.1 13.8 + - - +
233B GLU* 3.2 31.8 + - - +
235B GLN* 1.3 77.1 - - - +
237B THR* 1.3 56.1 + - - +
239B GLU* 3.6 2.0 + - - +
240B LEU* 3.0 63.8 + - + +
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Residues in contact with THR 237 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164B SER* 4.1 8.6 - - - -
233B GLU 2.8 22.3 + - - -
234B LEU* 3.6 8.1 - - - -
236B TYR* 1.3 76.9 - - - +
238B ASP* 1.3 60.2 + - - +
240B LEU* 4.5 1.1 - - - -
241B TYR* 2.8 43.3 + - + +
247B ALA* 4.0 17.5 - - - +
250B VAL* 3.7 30.7 - - + -
251B LYS* 4.1 11.0 - - + -
254B LEU* 3.5 19.1 - - - +
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Residues in contact with ASP 238 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234B LEU* 3.0 25.3 + - - +
235B GLN* 3.7 20.9 + - - +
236B TYR 3.4 0.2 - - - -
237B THR* 1.3 76.7 - - - +
239B GLU* 1.3 60.5 + - + +
241B TYR 3.8 0.5 - - - -
242B ALA* 3.2 26.5 + - - +
247B ALA* 4.4 10.8 - - - +
251B LYS* 2.9 28.2 + - - -
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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
----------------------------------------------------------
58B ARG* 5.3 2.6 + - - -
124B TRP* 3.9 15.2 - - + -
128B ASN* 2.9 26.8 - - - +
129B ALA* 4.8 1.4 + - - +
130B PRO* 3.4 23.7 - - - +
235B GLN* 3.1 41.2 + - - +
236B TYR 4.1 3.6 - - - +
238B ASP* 1.3 74.8 - - - +
240B LEU* 1.3 64.1 + - - +
242B ALA* 3.8 13.4 - - - +
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Residues in contact with LEU 240 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55B LEU* 3.3 33.9 - - + +
58B ARG* 3.8 36.1 + - + -
59B VAL* 3.8 24.7 - - + +
124B TRP* 4.2 13.9 - - + -
164B SER* 5.0 5.6 - - - +
165B GLY* 5.6 1.1 - - - -
236B TYR* 3.0 55.3 + - + +
237B THR* 3.8 3.6 - - - +
239B GLU* 1.3 78.0 - - - +
241B TYR* 1.3 72.5 + - + +
242B ALA 3.3 2.7 + - - -
243B GLU* 5.1 1.9 + - - +
244B THR* 6.0 0.2 - - - +
----------------------------------------------------------
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Residues in contact with TYR 241 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55B LEU* 3.8 29.6 - - + -
59B VAL* 4.3 4.7 - - + +
164B SER* 2.8 28.7 + - - -
167B TRP* 3.9 18.8 - + - -
168B LEU* 3.8 20.7 + - + +
237B THR* 2.8 33.2 + - + +
238B ASP* 3.8 3.1 - - - -
240B LEU* 1.3 89.8 - - + +
242B ALA* 1.3 62.1 + - - +
243B GLU 3.3 2.9 - - - -
244B THR* 3.0 37.9 + - - +
246B TRP* 4.3 6.3 - + + -
247B ALA* 4.4 19.4 - - + +
250B VAL* 3.7 29.2 - - + -
----------------------------------------------------------
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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