Contacts of the helix formed by residues 190 - 219 (chain A) in PDB entry 3BJI
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 190 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189A MET* 1.3 75.8 - - - +
191A GLU* 1.3 72.0 + - + +
192A TYR* 3.4 21.8 - - + +
193A ASP* 2.7 30.5 + - - +
194A LYS* 3.0 26.7 + - - +
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Residues in contact with GLU 191 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189A MET 5.2 0.7 - - - +
190A THR* 1.3 78.3 - - + +
192A TYR* 1.3 53.3 + - - +
194A LYS* 3.3 23.6 + - - +
195A ARG* 2.7 36.2 + - - +
345A LYS 3.4 9.4 - - - +
346A HIS* 2.9 42.8 + - - +
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Residues in contact with TYR 192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190A THR* 3.2 15.5 - - + +
191A GLU* 1.3 80.0 - - - +
193A ASP* 1.3 68.1 + - - +
195A ARG* 3.4 21.1 + - - +
196A CYS* 3.3 42.2 + - - +
346A HIS 5.1 0.4 - - - -
348A GLN* 4.0 22.2 - - + -
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Residues in contact with ASP 193 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189A MET* 3.9 19.0 - - + -
190A THR* 2.7 39.2 + - - +
191A GLU 3.3 0.6 - - - -
192A TYR* 1.3 79.9 - - - +
194A LYS* 1.3 60.7 + - - +
196A CYS* 3.1 7.2 + - - +
197A CYS* 2.8 31.5 + - - +
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Residues in contact with LYS 194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189A MET* 3.6 32.5 - - + +
190A THR 3.0 18.6 + - - +
191A GLU* 3.4 29.2 - - - +
193A ASP* 1.3 77.4 - - - +
195A ARG* 1.3 60.7 + - - +
196A CYS 3.2 0.7 + - - -
197A CYS* 3.5 8.2 + - - +
198A CYS* 3.2 23.0 + - - +
346A HIS* 3.8 32.2 - - + -
32D TYR* 4.4 13.2 - - + -
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Residues in contact with ARG 195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191A GLU 2.7 21.4 + - - +
192A TYR* 3.5 23.8 + - + +
193A ASP 3.2 0.2 - - - -
194A LYS* 1.3 71.9 - - - +
196A CYS* 1.3 61.6 + - - +
198A CYS* 3.5 4.7 - - - +
199A LEU* 3.3 44.6 + - + +
262A GLY 4.7 3.6 + - - -
263A ALA* 3.6 29.7 + - - +
264A ALA* 5.9 0.2 - - - +
266A LEU* 6.3 0.2 - - - +
343A LEU* 3.9 15.2 - - + +
346A HIS* 3.4 27.6 - - + +
347A THR* 3.7 17.3 + - - +
348A GLN* 3.5 40.2 + - - +
352A GLU* 5.6 4.6 - - - +
356A LEU* 5.3 5.9 - - - +
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Residues in contact with CYS 196 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192A TYR* 3.3 40.6 + - - +
193A ASP* 3.1 10.3 + - - +
194A LYS 3.1 0.4 - - - -
195A ARG* 1.3 85.8 - - - +
197A CYS* 1.3 63.0 + - - +
198A CYS 3.5 0.4 - - - -
199A LEU* 4.3 10.0 - - - +
200A ARG* 3.7 22.3 + - - +
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Residues in contact with CYS 197 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189A MET* 4.9 6.7 - - - -
193A ASP 2.8 14.9 + - - +
194A LYS 3.5 9.2 - - - +
196A CYS* 1.3 76.8 - - - +
198A CYS* 1.3 57.8 + - - +
200A ARG* 3.5 33.5 + - - +
201A GLU* 3.4 15.4 + - - +
32D TYR* 3.6 37.7 - - + -
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Residues in contact with CYS 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194A LYS 3.2 17.5 - - - +
195A ARG 3.5 4.9 - - - +
197A CYS* 1.3 74.1 - - - +
199A LEU* 1.3 63.4 + - - +
200A ARG 3.2 0.4 - - - -
201A GLU* 3.5 11.3 - - - +
202A ILE* 3.1 31.8 + - - +
339A LEU* 4.8 4.4 - - - +
342A GLU* 3.9 8.1 - - - -
343A LEU* 3.9 35.0 - - - -
346A HIS* 4.7 2.7 - - - -
32D TYR* 3.0 25.1 - - + +
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Residues in contact with LEU 199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195A ARG* 3.3 47.9 + - + +
196A CYS* 4.1 10.5 + - - +
197A CYS 3.7 0.4 - - - -
198A CYS* 1.3 77.8 - - - +
200A ARG* 1.3 61.2 + - - +
202A ILE* 3.5 5.8 + - + +
203A GLN* 3.2 16.1 + - - +
258A LEU* 3.2 35.9 - - + +
263A ALA* 4.0 15.5 - - + -
266A LEU* 3.2 34.5 - - + -
343A LEU* 3.5 17.7 - - + -
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Residues in contact with ARG 200 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196A CYS 3.7 15.0 + - - +
197A CYS* 3.5 36.1 + - - +
199A LEU* 1.3 75.0 - - - +
201A GLU* 1.3 60.7 + - - +
203A GLN* 3.0 8.0 + - - +
204A GLN* 2.8 60.5 + - - +
258A LEU* 5.4 0.2 - - - -
210B THR* 6.1 0.4 - - - +
211B ASP* 3.6 39.7 + - - +
214B GLY* 5.5 7.3 - - - -
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Residues in contact with GLU 201 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197A CYS 3.4 6.8 + - - +
198A CYS* 3.5 13.7 - - - +
200A ARG* 1.3 78.2 - - - +
202A ILE* 1.3 60.8 + - - +
204A GLN* 4.9 4.9 - - - +
205A THR* 2.8 47.0 + - + +
339A LEU* 4.1 15.3 - - + +
32D TYR* 2.7 36.4 + - + -
34D PRO* 3.3 14.6 - - + +
35D THR* 2.6 29.7 + - - -
36D VAL* 3.0 14.4 + - - +
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Residues in contact with ILE 202 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198A CYS* 3.1 19.1 + - - +
199A LEU* 3.6 14.1 - - + +
200A ARG 3.2 0.4 - - - -
201A GLU* 1.3 74.5 - - - +
203A GLN* 1.3 58.0 + - - +
205A THR* 3.2 5.4 + - - -
206A GLU* 3.1 30.0 + - - +
254A MET* 3.3 32.8 - - + -
258A LEU* 5.5 1.6 - - + -
266A LEU* 4.7 6.1 - - + -
270A PHE* 4.4 12.1 - - + -
332A ARG* 3.8 3.1 + - - +
336A TYR* 6.1 0.9 - - + -
339A LEU* 3.8 34.3 - - + +
340A LEU* 4.6 9.0 - - + -
343A LEU* 4.0 32.5 - - + -
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Residues in contact with GLN 203 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199A LEU 3.2 13.2 + - - +
200A ARG* 3.0 10.5 + - - +
202A ILE* 1.3 78.7 - - - +
204A GLN* 1.3 57.2 + - + +
206A GLU* 3.6 1.7 + - - +
207A GLU* 2.7 67.2 + - - +
251A LEU* 4.4 3.2 - - + +
254A MET* 4.0 20.4 - - + -
255A LYS* 3.5 30.8 - - + +
258A LEU* 4.4 15.2 - - + +
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Residues in contact with GLN 204 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200A ARG* 2.8 53.8 + - - +
201A GLU* 4.3 4.0 - - - +
203A GLN* 1.3 72.0 - - + +
205A THR* 1.3 57.0 + - + +
207A GLU* 3.4 17.0 + - + +
208A LYS* 2.7 34.5 + - - +
211B ASP* 3.6 19.6 - - - +
219B HIS* 6.1 1.2 + - - -
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Residues in contact with THR 205 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201A GLU* 2.8 33.2 + - + +
202A ILE* 3.2 3.8 + - - -
204A GLN* 1.3 72.0 - - + +
206A GLU* 1.3 62.6 + - - +
208A LYS* 3.3 8.1 + - - +
209A TYR* 2.7 29.1 + - - +
332A ARG* 3.0 30.2 + - - -
339A LEU* 4.4 2.4 - - - +
36D VAL* 3.9 31.6 - - + -
38D ASP* 5.9 0.9 - - - +
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Residues in contact with GLU 206 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202A ILE 3.1 18.0 + - - +
203A GLN 3.7 3.6 - - - +
205A THR* 1.3 79.6 + - - +
207A GLU* 1.3 65.1 + - - +
209A TYR* 3.1 6.9 + - - +
210A THR* 2.9 29.9 + - - +
247A HIS* 2.7 34.7 + - - +
250A PHE* 3.6 15.7 - - + -
251A LEU* 4.0 18.4 - - + -
254A MET* 4.0 17.4 - - + +
332A ARG* 2.6 26.1 + - - +
336A TYR* 2.6 24.4 + - - -
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Residues in contact with GLU 207 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203A GLN* 2.7 43.0 + - - +
204A GLN* 3.4 21.5 - - + +
205A THR 3.3 0.2 - - - -
206A GLU* 1.3 74.0 - - - +
208A LYS* 1.3 66.8 + - - +
209A TYR 3.2 0.3 + - - -
210A THR* 3.3 1.9 + - - -
211A ASP* 3.0 21.7 + - - +
251A LEU* 4.2 15.9 - - + +
255A LYS* 2.6 32.2 + - - +
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Residues in contact with LYS 208 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204A GLN 2.7 20.8 + - - +
205A THR* 3.6 8.3 - - - +
207A GLU* 1.3 72.0 - - - +
209A TYR* 1.3 58.8 + - - +
211A ASP* 3.0 13.1 - - + +
212A THR* 3.0 38.2 + - - +
320A PHE* 6.3 0.8 - - - -
313B GLN* 4.1 13.1 + - - +
316B ASN* 3.1 44.5 + - - +
317B ASN* 5.8 2.7 - - - +
38D ASP* 3.2 34.6 + - - +
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Residues in contact with TYR 209 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205A THR 2.7 21.1 + - - +
206A GLU* 3.1 8.7 + - - +
208A LYS* 1.3 72.7 - - - +
210A THR* 1.3 65.0 + - - +
212A THR* 3.2 8.2 + - - -
213A LEU* 3.0 58.7 + - + +
243A LEU* 3.9 2.1 - - - +
247A HIS* 3.5 23.3 - + - -
280A TYR* 2.9 27.5 + - - -
328A VAL* 3.6 29.8 - - + -
329A PRO* 3.1 23.5 - - + +
332A ARG* 3.6 38.8 - - + +
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Residues in contact with THR 210 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206A GLU* 2.9 21.3 + - - -
207A GLU 4.1 2.7 - - - -
209A TYR* 1.3 73.5 - - - +
211A ASP* 1.3 55.9 + - - +
213A LEU* 3.4 9.2 + - - +
214A GLY* 2.8 27.7 + - - -
244A LEU* 3.8 8.2 - - + +
247A HIS* 4.0 22.2 + - + +
248A THR* 3.1 39.5 - - + +
251A LEU* 4.1 16.5 - - + +
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Residues in contact with ASP 211 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207A GLU 3.0 13.8 + - - +
208A LYS* 3.0 19.6 - - - +
210A THR* 1.3 76.2 - - - +
212A THR* 1.3 48.9 + - - +
214A GLY* 3.1 3.9 + - - -
215A SER* 2.7 35.9 + - - -
316B ASN* 5.0 7.1 + - - +
317B ASN* 4.5 13.2 + - - -
319B ARG* 3.6 27.6 + - - -
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Residues in contact with THR 212 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208A LYS* 3.0 24.7 + - - +
209A TYR* 3.4 9.5 + - - -
211A ASP* 1.3 71.9 + - - +
213A LEU* 1.3 68.9 + - + +
215A SER* 3.1 10.4 + - - -
216A ILE* 2.8 37.3 + - + +
325A LEU* 4.6 12.6 - - + -
328A VAL* 4.4 30.7 - - + +
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Residues in contact with LEU 213 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209A TYR* 3.0 66.0 + - + +
210A THR* 3.7 5.4 - - - +
212A THR* 1.3 80.5 - - + +
214A GLY* 1.3 64.9 + - - +
216A ILE* 2.9 28.1 + - + +
217A GLN* 3.0 11.8 + - - +
240A ILE* 4.8 12.1 - - + +
243A LEU* 4.1 27.1 - - + +
244A LEU* 3.7 27.4 - - + +
247A HIS* 4.3 6.7 - - + -
329A PRO* 4.2 13.7 - - + -
----------------------------------------------------------
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Residues in contact with GLY 214 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210A THR 2.8 18.9 + - - -
211A ASP* 3.1 4.7 + - - -
213A LEU* 1.3 70.6 - - - +
215A SER* 1.3 61.0 + - - +
217A GLN* 3.1 2.3 + - - +
218A GLN* 2.9 35.4 + - - +
244A LEU* 3.5 18.2 - - - +
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Residues in contact with SER 215 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211A ASP* 2.7 16.6 + - - -
212A THR* 3.1 15.2 + - - -
214A GLY* 1.3 73.8 - - - +
216A ILE* 1.3 58.4 + - - +
218A GLN* 4.5 1.8 - - - +
219A HIS* 2.9 43.7 + - - +
220A PHE* 3.7 2.1 - - - -
315A ALA* 3.8 25.7 + - - +
325A LEU* 4.6 9.3 - - - +
----------------------------------------------------------
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Residues in contact with ILE 216 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
212A THR* 2.8 30.1 + - + +
213A LEU* 2.9 13.4 + - + +
215A SER* 1.3 71.2 - - - +
217A GLN* 1.3 62.1 + - - +
220A PHE* 3.0 27.3 - - - +
221A LEU* 3.2 5.2 + - - +
237A PHE* 3.6 29.8 - - + -
240A ILE* 3.9 35.0 - - + -
322A LEU* 4.3 7.4 - - + -
325A LEU* 3.6 51.6 - - + +
326A LEU* 5.0 1.3 - - + +
329A PRO* 5.6 0.7 - - + -
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Residues in contact with GLN 217 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
213A LEU 3.0 10.5 + - - +
214A GLY 3.1 7.8 + - - +
216A ILE* 1.3 79.6 - - - +
218A GLN* 1.3 74.6 + - + +
221A LEU* 3.5 13.4 - - + +
222A LYS* 3.1 37.2 + - + +
240A ILE* 5.5 4.2 - - + +
241A GLU* 2.8 40.0 + - + +
244A LEU* 3.0 29.7 - - + +
----------------------------------------------------------
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Residues in contact with GLN 218 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214A GLY* 2.9 26.4 + - - +
215A SER* 3.2 0.6 + - - -
217A GLN* 1.3 98.5 + - + +
219A HIS* 1.3 82.2 - - + +
220A PHE 3.3 1.8 - - - -
222A LYS* 4.3 11.4 - - - +
223A PRO* 3.2 16.5 - - - +
314A ARG* 3.9 8.9 + - - +
----------------------------------------------------------
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Residues in contact with HIS 219 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215A SER* 2.9 23.3 + - - +
218A GLN* 1.3 90.6 + - + +
220A PHE* 1.3 59.3 + - + +
223A PRO* 3.4 8.7 - - - -
311A CYS* 2.7 32.6 - - - +
314A ARG* 3.5 46.2 + - - +
315A ALA* 3.4 36.5 - - + +
43C ASN* 4.6 14.3 + - + +
----------------------------------------------------------
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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