Contacts of the helix formed by residues 209 - 238 (chain A) in PDB entry 6L8I
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 HIS 209 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206A PRO 3.3 22.8 + - - +
207A ALA 3.1 6.3 + - - -
208A LEU* 1.3 79.2 - - - +
210A GLN* 1.3 67.0 + - + +
211A LYS* 3.4 19.0 + - + +
212A TYR* 3.1 38.8 + - + +
213A VAL* 3.0 22.2 + - - +
341A GLU 3.4 22.2 - - - +
342A GLU* 3.6 17.9 - - + +
343A TYR 2.8 26.1 + - - -
344A MET* 4.2 7.8 - - + +
354A PHE* 3.7 10.2 - + - -
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Residues in contact with GLN 210 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209A HIS* 1.3 76.2 - - + +
211A LYS* 1.3 65.6 + - + +
213A VAL* 3.4 6.6 + - - +
214A ALA* 3.0 24.9 + - - +
342A GLU* 4.0 30.0 + - - +
418A ILE* 6.1 0.3 - - - +
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Residues in contact with LYS 211 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209A HIS* 3.3 9.7 + - - +
210A GLN* 1.3 82.1 - - + +
212A TYR* 1.3 62.1 + - - +
214A ALA* 3.4 7.2 + - - +
215A ALA* 3.1 22.0 + - - +
340A HIS* 4.5 9.1 + - - -
342A GLU* 2.7 42.7 + - - +
344A MET* 3.5 42.3 + - + +
346A GLU* 4.5 8.5 + - - +
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Residues in contact with TYR 212 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207A ALA 3.4 25.4 - - - +
208A LEU* 3.8 17.5 - - + -
209A HIS* 3.1 21.3 + - + +
211A LYS* 1.3 73.9 - - - +
213A VAL* 1.3 64.6 + - + +
215A ALA* 3.1 4.0 + - - +
216A MET* 2.9 54.5 + - + +
258A ALA* 2.8 36.8 + - - +
344A MET* 3.7 12.8 - - + -
349A PRO 3.0 29.8 - - - -
351A ILE* 3.3 27.4 - - + +
521A PHE* 3.7 16.0 - + - -
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Residues in contact with VAL 213 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208A LEU* 4.0 16.4 - - + +
209A HIS 3.0 19.4 + - - +
210A GLN* 3.9 6.7 - - - +
212A TYR* 1.3 86.9 - - + +
214A ALA* 1.3 63.3 + - - +
216A MET* 3.2 7.8 + - + +
217A ILE* 3.1 22.3 + - + +
220A PHE* 5.0 1.3 - - + -
418A ILE* 5.1 1.6 - - + -
520A MET* 4.9 8.1 - - + -
521A PHE* 4.8 24.5 - - + +
524A PHE* 3.4 38.1 - - + -
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Residues in contact with ALA 214 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210A GLN 3.0 18.8 + - - +
211A LYS* 3.6 7.6 - - - +
213A VAL* 1.3 78.0 - - - +
215A ALA* 1.3 61.1 + - - +
217A ILE* 3.3 18.8 + - - +
218A SER* 3.8 6.6 + - - -
418A ILE* 4.3 33.4 + - + +
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Residues in contact with ALA 215 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211A LYS 3.1 6.4 + - - +
212A TYR 3.1 7.6 + - - +
214A ALA* 1.3 73.4 - - - +
216A MET* 1.3 77.8 + - + +
218A SER* 3.2 22.1 + - - -
219A LEU* 3.6 3.6 + - - +
344A MET* 3.4 35.4 - - + -
346A GLU* 5.5 0.7 - - - +
349A PRO* 4.7 4.5 - - + -
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Residues in contact with MET 216 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
212A TYR* 2.9 56.9 + - + +
213A VAL* 3.2 9.6 + - - +
215A ALA* 1.3 81.9 - - + +
217A ILE* 1.3 60.8 + - - +
219A LEU* 2.9 17.8 + - + +
220A PHE* 2.8 49.9 + - + -
257A LYS 5.8 0.2 - - - +
258A ALA* 3.6 31.9 - - - -
349A PRO* 3.8 30.7 - - + +
521A PHE* 3.7 6.3 - - + -
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Residues in contact with ILE 217 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
213A VAL 3.1 13.0 + - - +
214A ALA* 3.5 9.2 - - - +
215A ALA 3.2 0.6 - - - -
216A MET* 1.3 76.5 - - - +
218A SER* 1.3 61.7 + - - +
220A PHE* 3.2 19.5 + - + +
221A GLY* 3.0 19.8 + - - -
416A PRO* 3.4 27.0 - - + +
417A THR* 3.9 10.8 - - - +
418A ILE* 3.6 44.0 - - + +
421A MET* 3.7 16.6 - - + -
524A PHE* 3.9 14.4 - - + -
528A VAL* 4.3 12.0 - - + +
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Residues in contact with SER 218 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214A ALA 3.8 6.3 + - - -
215A ALA* 3.2 13.7 + - - -
216A MET 3.2 0.4 - - - -
217A ILE* 1.3 78.8 - - - +
219A LEU* 1.3 57.3 + - - +
221A GLY* 3.2 2.2 + - - -
222A GLU* 3.0 28.6 + - - +
415A PHE* 5.5 4.1 - - - +
416A PRO 5.4 2.5 - - - -
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Residues in contact with LEU 219 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215A ALA 3.6 2.9 + - - +
216A MET* 2.9 26.5 + - + +
218A SER* 1.3 75.9 - - - +
220A PHE* 1.3 68.0 + - + +
222A GLU* 3.2 21.9 + - - +
223A ALA* 2.9 28.8 + - + +
226A ARG* 5.6 2.7 - - - +
253A ASP 5.0 1.1 - - - +
254A ILE* 3.5 40.8 - - + +
257A LYS* 3.9 25.6 - - + -
258A ALA* 3.8 24.0 - - + +
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Residues in contact with PHE 220 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
213A VAL* 5.0 1.3 - - + -
216A MET* 2.8 41.1 + - + -
217A ILE* 3.5 18.8 - - + +
219A LEU* 1.3 74.5 - - + +
221A GLY* 1.3 57.6 + - - +
223A ALA* 4.1 0.9 - - - +
224A SER* 2.9 34.6 + - - +
254A ILE* 3.5 39.2 - - + +
521A PHE* 3.5 44.2 - + - -
524A PHE* 4.0 11.7 - + + -
525A GLU* 3.4 38.4 - - + +
528A VAL* 3.8 16.6 - - + -
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Residues in contact with GLY 221 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217A ILE 3.0 13.6 + - - -
218A SER 3.2 2.7 + - - -
219A LEU 3.2 0.2 - - - -
220A PHE* 1.3 74.4 - - - +
222A GLU* 1.3 59.9 + - - +
224A SER 3.5 0.2 + - - -
225A ASP* 2.9 31.0 + - - +
415A PHE* 3.6 20.8 - - - -
416A PRO* 5.0 2.0 - - - -
528A VAL* 3.8 14.1 - - - +
532A MET* 3.7 11.3 - - - +
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Residues in contact with GLU 222 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218A SER 3.0 16.0 + - - +
219A LEU* 3.6 23.1 - - - +
221A GLY* 1.3 77.0 - - - +
223A ALA* 1.3 60.4 + - - +
225A ASP* 3.3 4.7 + - - +
226A ARG* 3.1 36.8 + - - +
415A PHE* 4.2 11.5 - - - -
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Residues in contact with ALA 223 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219A LEU* 2.9 15.3 + - + +
222A GLU* 1.3 74.2 + - - +
224A SER* 1.3 67.8 + - - +
226A ARG* 3.2 25.4 + - - +
227A LEU 3.1 17.2 + - - -
250A LEU* 3.3 16.5 - - + +
253A ASP* 5.2 2.5 - - + -
254A ILE* 3.5 34.5 - - + +
267A LEU* 3.7 3.6 - - + +
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Residues in contact with SER 224 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220A PHE* 2.9 24.5 + - - +
221A GLY 3.9 2.9 - - - -
223A ALA* 1.3 76.4 - - - +
225A ASP* 1.3 59.1 + - - +
227A LEU* 3.1 6.9 + - - +
228A CYS* 2.8 32.1 + - - -
250A LEU* 3.7 12.1 - - - +
254A ILE* 5.0 1.7 - - - +
525A GLU 5.1 0.2 + - - -
528A VAL* 4.0 0.5 - - - +
529A ALA* 3.4 35.6 + - - +
532A MET* 4.0 18.8 - - - -
533A LEU* 4.4 4.3 - - - +
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Residues in contact with ASP 225 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
221A GLY 2.9 19.5 + - - +
222A GLU* 3.6 5.6 - - - +
223A ALA 3.2 0.4 - - - -
224A SER* 1.3 76.6 - - - +
226A ARG* 1.3 55.7 + - - +
228A CYS* 3.1 10.9 + - - +
229A GLN* 2.8 56.4 + - - +
415A PHE* 3.8 23.5 - - + -
532A MET* 4.1 13.4 - - + +
536A ARG* 4.5 10.0 + - - -
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Residues in contact with ARG 226 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219A LEU* 5.6 3.2 - - - +
222A GLU* 3.1 29.0 + - - +
223A ALA* 3.2 33.0 + - - +
225A ASP* 1.3 76.9 + - - +
227A LEU* 1.3 62.5 + - - +
229A GLN* 3.4 21.1 + - - +
230A LYS* 3.3 23.7 + - + +
253A ASP* 3.4 28.5 + - - +
263A ASP* 5.8 2.6 + - - -
265A ASP* 3.6 22.0 + - - +
267A LEU* 4.0 18.0 - - + +
268A THR* 4.6 7.2 - - - +
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Residues in contact with LEU 227 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
223A ALA 3.1 11.7 + - - +
224A SER 3.1 8.3 + - - +
226A ARG* 1.3 76.1 - - - +
228A CYS* 1.3 64.8 + - - +
230A LYS* 3.0 11.4 + - + +
231A LEU* 2.9 37.8 + - + +
243A MET* 4.9 2.0 - - + -
246A LEU* 4.0 31.2 - - + +
247A PHE* 4.1 23.3 - - + -
250A LEU* 4.0 28.3 - - + -
267A LEU* 4.0 21.6 - - + +
533A LEU* 4.2 15.7 - - + -
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Residues in contact with CYS 228 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
224A SER 2.8 19.8 + - - -
225A ASP* 3.1 15.5 + - - +
227A LEU* 1.3 76.8 - - - +
229A GLN* 1.3 52.5 + - + +
231A LEU* 3.2 1.7 + - - -
232A ASP* 2.8 33.8 + - - +
532A MET* 3.9 13.5 - - - -
533A LEU* 3.7 22.4 - - - -
536A ARG* 3.6 35.9 - - - +
537A PHE* 3.4 18.1 - - + -
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Residues in contact with GLN 229 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
225A ASP* 2.8 43.5 + - - +
226A ARG* 3.5 18.2 - - - +
227A LEU 3.2 0.2 - - - -
228A CYS* 1.3 77.3 - - + +
230A LYS* 1.3 61.1 + - + +
232A ASP* 3.4 7.7 + - - +
233A ALA* 3.2 22.5 + - - +
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Residues in contact with LYS 230 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
226A ARG* 3.3 15.5 + - + +
227A LEU* 3.0 12.4 + - + +
229A GLN* 1.3 77.8 - - + +
231A LEU* 1.3 63.6 + - + +
233A ALA* 3.4 7.8 + - - +
234A ALA* 3.1 21.3 + - - +
241A VAL* 6.3 0.2 - - - -
246A LEU* 3.8 27.8 - - + -
267A LEU* 2.8 48.2 + - + +
268A THR* 4.8 5.1 + - - +
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Residues in contact with LEU 231 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
227A LEU* 2.9 25.8 + - + +
228A CYS* 3.6 6.7 - - - +
230A LYS* 1.3 73.0 - - - +
232A ASP* 1.3 60.7 + - - +
234A ALA* 3.3 4.6 + - - +
235A ALA* 2.8 30.1 + - - +
241A VAL* 4.1 16.4 - - + -
243A MET* 3.9 25.1 - - + -
246A LEU* 4.1 15.0 - - + -
533A LEU* 3.8 35.9 - - + -
537A PHE* 3.7 23.7 - - + -
539A PHE* 4.2 6.5 - - + -
566A VAL* 4.2 12.0 - - + +
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Residues in contact with ASP 232 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
228A CYS 2.8 20.1 + - - +
229A GLN* 3.6 9.4 - - - +
230A LYS 3.3 0.2 - - - -
231A LEU* 1.3 73.6 - - - +
233A ALA* 1.3 62.3 + - - +
235A ALA* 3.2 3.5 + - - +
236A LEU* 3.0 44.9 + - - +
537A PHE* 3.7 15.6 - - + -
568A LYS* 2.7 37.9 + - - +
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Residues in contact with ALA 233 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
229A GLN 3.2 11.0 + - - +
230A LYS* 3.7 10.3 - - - +
231A LEU 3.3 0.2 - - - -
232A ASP* 1.3 79.5 + - - +
234A ALA* 1.3 62.2 + - - +
236A LEU* 3.5 9.5 + - - +
237A LYS* 3.3 29.4 + - + +
239A GLU* 5.2 0.4 - - - -
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Residues in contact with ALA 234 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230A LYS 3.1 15.1 + - - +
231A LEU 3.5 8.5 - - - +
232A ASP 3.2 0.2 - - - -
233A ALA* 1.3 77.6 - - - +
235A ALA* 1.3 61.9 + - - +
237A LYS* 3.1 2.9 + - - -
238A GLY 3.0 3.5 + - - -
239A GLU* 2.9 53.4 + - + +
241A VAL* 3.7 29.8 - - + -
566A VAL* 5.6 1.6 - - + -
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Residues in contact with ALA 235 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231A LEU 2.8 17.0 + - - +
232A ASP* 3.2 5.6 + - - +
234A ALA* 1.3 76.6 - - - +
236A LEU* 1.3 63.0 + - - +
238A GLY* 3.1 14.6 + - - +
239A GLU 5.1 0.2 - - - -
537A PHE* 4.7 0.9 - - + -
566A VAL* 3.4 37.0 - - + +
567A THR* 4.3 3.7 - - - -
568A LYS* 3.9 23.1 - - + +
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Residues in contact with LEU 236 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232A ASP* 3.0 34.7 + - - +
233A ALA* 3.8 8.5 - - - +
234A ALA 3.3 0.2 - - - -
235A ALA* 1.3 75.1 - - - +
237A LYS* 1.3 62.5 + - + +
238A GLY 3.6 0.2 + - - -
568A LYS* 3.6 25.6 - - + -
572A PRO* 4.8 12.6 - - + -
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Residues in contact with LYS 237 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
233A ALA* 3.3 16.7 + - - +
234A ALA 3.1 5.7 + - - +
236A LEU* 1.3 79.1 - - + +
238A GLY* 1.3 61.7 + - - +
239A GLU* 3.4 32.3 + - + +
----------------------------------------------------------
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Residues in contact with GLY 238 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234A ALA 3.0 2.8 + - - -
235A ALA* 3.1 14.3 + - - -
236A LEU 3.3 0.8 + - - -
237A LYS* 1.3 77.7 - - - +
239A GLU* 1.3 62.9 + - - +
240A GLU* 3.8 4.9 + - - +
566A VAL 5.6 2.2 - - - -
----------------------------------------------------------
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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