Contacts of the helix formed by residues 205 - 239 (chain B) in PDB entry 3TQ7
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 205 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198A GLN 5.4 2.7 - - - +
199A GLN* 3.8 32.3 - - + +
204B GLU* 1.3 74.8 - - - +
206B ASN* 1.3 65.1 + - - +
207B GLN 3.1 2.5 - - - -
208B GLN* 3.0 53.3 + - + +
209B LEU* 3.6 12.3 + - + +
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Residues in contact with ASN 206 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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204B GLU* 3.1 6.1 - - - +
205B LEU* 1.3 76.8 - - - +
207B GLN* 1.3 68.0 + - - +
209B LEU* 2.7 41.2 + - + +
210B VAL* 2.8 26.9 + - - +
213B LYS* 5.8 2.6 - - - +
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Residues in contact with GLN 207 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204B GLU* 3.8 13.7 + - - +
205B LEU 3.1 0.8 - - - -
206B ASN* 1.3 77.9 - - - +
208B GLN* 1.3 64.3 + - - +
210B VAL* 3.3 20.4 + - - +
211B ASP* 2.8 64.6 + - - +
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Residues in contact with GLN 208 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201A ASN* 5.7 1.9 + - - -
204A LYS* 4.6 19.2 + - - +
205B LEU* 3.0 40.9 + - + +
207B GLN* 1.3 80.7 - - - +
209B LEU* 1.3 65.6 + - + +
211B ASP* 3.0 7.9 + - - -
212B LEU* 2.9 35.8 - - + +
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Residues in contact with LEU 209 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199A GLN* 5.6 4.0 - - + -
200A VAL* 4.2 37.7 - - + +
203A LEU* 4.5 7.1 - - + +
205B LEU* 4.3 11.4 - - + +
206B ASN* 2.7 42.4 + - - +
208B GLN* 1.3 76.9 - - + +
210B VAL* 1.3 63.9 + - - +
212B LEU* 3.0 21.4 + - + +
213B LYS* 3.0 34.1 + - - +
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Residues in contact with VAL 210 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206B ASN* 2.8 41.9 + - - +
207B GLN* 3.6 25.6 - - - +
208B GLN 3.2 0.2 - - - -
209B LEU* 1.3 72.9 - - - +
211B ASP* 1.3 63.3 + - - +
213B LYS* 3.6 14.1 + - + +
214B LEU* 3.1 28.9 + - + +
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Residues in contact with ASP 211 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207B GLN* 2.8 48.0 + - - +
208B GLN* 3.0 5.9 + - - +
210B VAL* 1.3 76.4 - - - +
212B LEU* 1.3 66.8 + - + +
214B LEU* 3.9 9.0 - - - +
215B THR* 2.8 35.5 + - - +
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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
----------------------------------------------------------
200A VAL 4.5 6.7 - - - +
203A LEU* 3.9 35.2 - - + -
204A LYS* 4.3 26.2 - - + -
207A VAL* 5.0 10.1 - - + -
208B GLN* 2.9 30.3 - - + +
209B LEU* 3.0 11.5 + - + +
211B ASP* 1.3 82.0 - - + +
213B LYS* 1.3 68.3 + - - +
215B THR* 3.0 8.8 + - - +
216B VAL* 2.7 27.6 + - - +
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Residues in contact with LYS 213 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203A LEU* 4.4 15.8 - - + +
206B ASN* 5.8 2.8 - - - +
209B LEU* 3.0 31.0 + - - +
210B VAL* 3.7 12.0 - - + +
212B LEU* 1.3 72.2 - - - +
214B LEU* 1.3 55.4 + - - +
216B VAL* 2.7 30.5 + - - +
217B ASP* 2.9 14.5 + - - +
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Residues in contact with LEU 214 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210B VAL* 3.1 19.9 + - + +
211B ASP* 3.9 8.7 - - - +
213B LYS* 1.3 79.5 - - - +
215B THR* 1.3 65.1 + - - +
217B ASP* 3.4 10.2 + - + +
218B GLY* 3.1 19.5 + - - -
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Residues in contact with THR 215 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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207A VAL* 4.3 16.4 - - + -
211B ASP* 2.8 27.3 + - - +
212B LEU* 3.0 8.2 + - - +
214B LEU* 1.3 75.7 - - - +
216B VAL* 1.3 58.3 + - - +
218B GLY* 3.3 2.3 + - - +
219B LEU* 3.0 45.4 + - + +
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Residues in contact with VAL 216 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203A LEU* 4.5 9.0 - - + +
206A THR* 4.1 26.9 - - + -
207A VAL* 3.6 27.4 - - + +
210A LEU* 4.6 2.9 - - + -
212B LEU 2.7 18.6 + - - +
213B LYS* 2.7 11.6 + - - +
215B THR* 1.3 69.8 - - - +
217B ASP* 1.3 67.1 + - - +
219B LEU* 3.3 7.0 + - - +
220B GLU* 2.9 50.1 + - + +
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Residues in contact with ASP 217 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
213B LYS 2.9 10.8 + - - +
214B LEU* 3.6 13.2 - - + +
216B VAL* 1.3 79.0 - - - +
218B GLY* 1.3 59.9 + - - +
220B GLU* 3.5 15.7 + - - +
221B LYS* 3.2 59.3 + - - +
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Residues in contact with GLY 218 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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214B LEU* 3.1 14.5 + - - -
215B THR* 3.7 3.8 - - - -
216B VAL 3.2 0.2 - - - -
217B ASP* 1.3 74.5 + - - +
219B LEU* 1.3 64.6 + - - +
220B GLU 3.2 0.2 + - - -
221B LYS* 3.4 6.5 + - - +
222B GLU* 3.0 28.4 + - - +
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Residues in contact with LEU 219 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207A VAL* 3.7 34.3 - - + +
210A LEU* 3.5 34.0 - - + +
211A GLU* 3.9 17.7 - - + +
214A ARG* 3.9 30.8 - - + +
215B THR* 3.0 28.3 + - + +
216B VAL* 3.3 4.9 + - - +
218B GLY* 1.3 74.8 - - - +
220B GLU* 1.3 51.6 + - - +
222B GLU* 3.4 10.4 - - - +
223B ARG* 2.7 36.6 + - - +
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Residues in contact with GLU 220 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206A THR* 5.8 0.3 - - - +
210A LEU* 4.2 19.0 - - + +
216B VAL* 2.9 38.4 + - + +
217B ASP* 3.7 17.6 - - - +
218B GLY 3.2 0.4 - - - -
219B LEU* 1.3 74.6 - - - +
221B LYS* 1.3 64.9 + - + +
223B ARG* 3.7 23.1 + - - +
224B ASP* 2.8 39.5 + - - +
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Residues in contact with LYS 221 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217B ASP* 3.2 44.0 + - - +
218B GLY* 3.9 5.6 - - - +
220B GLU* 1.3 77.2 - - + +
222B GLU* 1.3 56.8 + - - +
224B ASP* 3.6 9.4 - - + +
225B PHE* 2.7 38.0 + - - +
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Residues in contact with GLU 222 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214A ARG* 2.6 46.1 + - + -
218B GLY 3.0 19.6 + - - +
219B LEU* 3.4 11.6 - - - +
221B LYS* 1.3 75.2 - - - +
223B ARG* 1.3 66.9 + - - +
225B PHE* 3.1 8.0 + - + +
226B TYR* 2.9 51.9 + - + +
51Q LEU* 3.9 15.0 - - - +
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Residues in contact with ARG 223 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210A LEU* 4.0 20.9 - - + +
213A GLU* 3.0 43.9 + - + +
214A ARG* 4.6 19.5 - - + +
217A TYR* 3.9 15.2 - - + -
219B LEU 2.7 22.2 + - - +
220B GLU* 3.7 22.8 + - - +
221B LYS 3.4 0.2 - - - -
222B GLU* 1.3 73.6 - - - +
224B ASP* 1.3 93.4 + - - +
226B TYR* 3.9 2.8 - - - -
227B PHE* 3.0 27.4 + - - +
51P LEU* 4.0 18.6 - - - +
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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 GLU* 2.8 30.7 + - - +
221B LYS* 3.7 11.6 - - + +
223B ARG* 1.3 102.1 + - - +
225B PHE* 1.3 58.9 + - - +
227B PHE* 3.2 5.6 + - - +
228B SER* 2.8 36.6 + - - +
51P LEU* 3.9 12.6 - - - +
76P ARG* 4.4 11.0 + - - +
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Residues in contact with PHE 225 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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248A ALA* 3.5 14.4 - - + -
249A THR 4.3 0.9 - - - -
250A ASP* 3.0 49.6 - - + -
221B LYS 2.7 21.3 + - - +
222B GLU* 3.4 8.1 - - + +
224B ASP* 1.3 74.6 - - - +
226B TYR* 1.3 83.9 + + - +
228B SER* 3.4 7.3 + - - -
229B LYS* 3.4 54.2 + - + +
54Q THR* 3.9 22.0 - - + -
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Residues in contact with TYR 226 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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214A ARG* 4.0 21.1 - - + -
217A TYR* 3.9 13.7 - - + -
218A PHE* 3.8 20.7 - + + -
221A LEU* 3.6 25.3 - - + +
222B GLU* 2.9 41.5 + - + +
223B ARG* 4.0 1.8 - - - +
225B PHE* 1.3 103.8 - + - +
227B PHE* 1.3 63.4 + - - +
229B LYS* 3.2 17.0 + - + +
230B LEU* 3.3 17.4 + - - +
49Q MET* 5.4 2.9 - - + -
50Q THR 4.1 3.9 + - - -
51Q LEU* 3.4 45.1 + - + +
54Q THR* 6.1 1.1 - - + -
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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
----------------------------------------------------------
217A TYR* 4.0 23.1 - + + +
223B ARG 3.0 18.1 + - - +
224B ASP* 3.6 5.4 - - - +
226B TYR* 1.3 79.5 - - - +
228B SER* 1.3 59.1 + - - +
230B LEU* 3.2 10.1 + - - +
231B ARG* 2.9 38.0 + - + +
46P TYR* 5.1 2.0 - - - -
49P MET* 3.6 49.8 - - + -
50P THR* 3.7 26.2 - - - -
51P LEU* 3.9 18.8 - - + -
76P ARG* 3.5 39.9 - - - -
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Residues in contact with SER 228 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
224B ASP* 2.8 22.9 + - - +
225B PHE* 3.7 8.4 - - - -
226B TYR 3.3 0.4 - - - -
227B PHE* 1.3 79.8 - - - +
229B LYS* 1.3 55.8 + - - +
231B ARG* 3.4 8.1 + - - +
232B ASP* 2.8 38.9 + - - -
76P ARG* 5.0 10.4 + - - +
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Residues in contact with LYS 229 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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221A LEU* 3.7 24.0 - - + -
245A ILE* 2.7 42.1 + - + +
246A LEU* 3.1 20.1 + - - +
248A ALA* 2.8 31.7 + - - +
225B PHE* 3.4 44.0 + - + +
226B TYR* 3.2 10.6 + - + +
227B PHE 3.2 0.2 - - - -
228B SER* 1.3 75.3 - - - +
230B LEU* 1.3 65.6 + - - +
232B ASP* 3.1 4.7 + - - +
233B ILE* 2.9 30.6 + - - +
49Q MET* 4.6 4.7 - - + -
54Q THR* 6.2 0.2 - - - -
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Residues in contact with LEU 230 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217A TYR* 3.7 44.2 - - + +
220A LYS* 3.8 19.5 - - + -
221A LEU* 3.3 27.1 - - + -
224A ILE* 4.1 5.6 - - + -
226B TYR 3.3 10.5 + - - +
227B PHE* 3.2 8.5 + - - +
229B LYS* 1.3 75.6 - - - +
231B ARG* 1.3 54.7 + - - +
233B ILE* 3.0 5.9 + - - +
234B GLU* 2.7 35.0 + - - +
255B LEU* 3.7 23.1 - - + +
49P MET* 3.8 28.0 - - + -
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Residues in contact with ARG 231 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
227B PHE* 2.9 30.9 + - + +
228B SER* 3.5 10.1 - - - +
230B LEU* 1.3 76.6 - - - +
232B ASP* 1.3 59.8 + - - +
234B GLU* 2.8 38.4 + - - +
235B LEU* 3.0 56.4 + - + +
238B GLN* 4.5 1.4 - - - +
46P TYR* 3.4 46.3 + - - -
47P VAL 2.9 26.3 + - - +
48P GLY* 3.7 2.0 - - - -
49P MET* 4.6 5.8 - - - -
76P ARG* 5.5 3.8 - - - +
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Residues in contact with ASP 232 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
245A ILE* 4.0 22.0 - - + +
228B SER* 2.8 26.9 + - - +
229B LYS* 3.1 6.9 + - - +
231B ARG* 1.3 79.7 - - - +
233B ILE* 1.3 62.7 + - - +
235B LEU* 3.5 18.8 + - - +
236B ILE* 3.4 25.8 + - - +
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Residues in contact with ILE 233 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
221A LEU* 4.2 21.1 - - + -
224A ILE* 4.7 9.0 - - + -
242A ILE* 3.8 37.9 - - + +
245A ILE* 4.0 24.2 - - + -
246A LEU* 4.2 13.0 - - + -
229B LYS 2.9 20.0 + - - +
230B LEU* 3.6 5.6 - - - +
232B ASP* 1.3 74.1 - - - +
234B GLU* 1.3 67.0 + - - +
236B ILE* 3.3 9.4 + - - +
237B CYS* 2.9 25.2 + - - -
251B ILE* 4.0 24.9 - - + -
255B LEU* 4.6 3.6 - - + -
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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
----------------------------------------------------------
230B LEU 2.7 17.4 + - - +
231B ARG* 2.8 37.5 + - - +
233B ILE* 1.3 74.2 - - - +
235B LEU* 1.3 56.6 + - - +
237B CYS* 3.1 5.3 + - + +
238B GLN* 2.9 44.4 + - + +
252B ILE* 5.9 1.1 - - + -
255B LEU* 3.5 19.9 - - + +
256B TYR* 2.4 40.1 + - - +
48P GLY* 3.0 19.2 - - - -
49P MET* 3.1 16.9 + - - +
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Residues in contact with LEU 235 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231B ARG* 3.0 45.5 + - + +
232B ASP* 3.6 23.6 - - - +
233B ILE 3.1 0.2 - - - -
234B GLU* 1.3 77.4 - - - +
236B ILE* 1.3 63.6 + - + +
238B GLN* 3.2 33.1 + - - +
239B GLU* 3.2 11.8 + - - +
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Residues in contact with ILE 236 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238A VAL* 4.7 6.2 - - + +
241A ARG* 3.0 47.8 - - + +
242A ILE* 3.9 24.7 - - + -
245A ILE* 3.4 33.2 - - + -
232B ASP 3.4 6.7 - - - +
233B ILE* 3.3 13.9 - - - +
235B LEU* 1.3 78.6 - - + +
237B CYS* 1.3 56.5 + - - +
239B GLU* 3.5 11.0 + - - +
240B HIS* 2.6 35.7 + - + -
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Residues in contact with CYS 237 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242A ILE* 4.5 10.1 - - - -
233B ILE* 2.9 23.8 + - - +
234B GLU* 3.1 11.0 + - - +
236B ILE* 1.3 74.6 - - - +
238B GLN* 1.3 67.0 + - - +
240B HIS* 3.0 25.7 + - - +
248B ILE* 3.9 24.6 - - + +
251B ILE* 3.7 29.8 - - - -
252B ILE* 3.4 28.3 - - + +
255B LEU* 4.8 0.9 - - - -
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Residues in contact with GLN 238 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231B ARG* 4.5 0.4 + - - +
234B GLU* 2.9 34.9 + - + +
235B LEU* 3.2 31.0 + - - +
237B CYS* 1.3 72.9 - - - +
239B GLU* 1.3 53.6 + - - +
240B HIS 2.7 21.5 + - - -
252B ILE* 5.8 2.9 - - + -
256B TYR* 4.6 4.4 + - - +
47P VAL* 3.0 44.7 + - + +
48P GLY* 4.3 0.6 - - - -
56P LYS* 5.5 1.5 - - - +
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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
----------------------------------------------------------
241A ARG* 3.7 22.6 + - - -
235B LEU 3.2 8.4 + - - +
236B ILE* 3.8 14.2 - - - +
237B CYS 3.2 1.0 - - - -
238B GLN* 1.3 76.9 - - - +
240B HIS* 1.3 76.2 + - + +
----------------------------------------------------------
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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