Contacts of the helix formed by residues 278 - 317 (chain B) in PDB entry 2VRW
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 278 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
274B LYS 3.7 6.0 + - - +
275B GLU* 3.1 20.3 + - - +
276B ARG 3.1 1.8 - - - -
277B PHE* 1.3 77.4 - - - +
279B VAL* 1.3 56.2 + - - +
280B TYR 3.0 1.3 - - - -
281B GLY* 2.9 23.9 + - - +
282B ARG 4.3 1.0 + - - -
366B LEU* 3.8 14.1 - - + -
369B CYS* 3.7 31.0 - - + -
370B VAL* 5.4 2.9 - - + -
373B VAL* 5.7 4.6 - - + +
526B THR* 3.7 36.6 - - + +
535B LEU* 3.8 17.3 - - + -
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Residues in contact with VAL 279 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
239B ASN* 3.1 31.2 + - - +
242B GLU* 3.9 27.8 - - + +
243B LEU* 3.6 21.3 - - + -
246B VAL* 4.8 8.1 - - + -
275B GLU 5.8 0.2 - - - +
276B ARG 3.3 19.5 - - - +
277B PHE* 4.2 6.1 - - + -
278B LEU* 1.3 78.1 - - - +
280B TYR* 1.3 66.6 + - + +
281B GLY 3.3 0.5 + - - -
282B ARG* 3.4 5.5 + - - +
283B TYR* 3.3 9.9 + - - +
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Residues in contact with TYR 280 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209B TYR* 2.5 27.4 + - - -
243B LEU* 3.8 19.1 - - + +
247B HIS* 2.6 36.1 + + - -
277B PHE* 3.1 37.5 + + + +
278B LEU 3.0 1.2 - - - -
279B VAL* 1.3 76.5 - - + +
281B GLY* 1.3 60.7 + - - +
283B TYR* 3.7 7.9 - - + -
284B CYS* 2.9 38.7 + - - +
329B PRO* 3.3 33.0 - - + -
332B ARG* 4.9 0.9 - - - +
333B VAL* 3.8 33.0 - - + -
336B TYR* 5.7 0.9 - + - -
370B VAL* 3.7 20.4 - - + -
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Residues in contact with GLY 281 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
278B LEU 2.9 13.6 + - - -
280B TYR* 1.3 77.5 - - - +
282B ARG* 1.3 60.8 + - - +
284B CYS* 4.1 0.7 - - - +
285B SER* 2.9 30.1 + - - -
370B VAL* 4.1 13.8 - - - +
373B VAL* 3.5 31.4 - - - +
374B LYS 4.9 0.3 + - - -
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Residues in contact with ARG 282 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234B GLU* 4.5 20.8 + - - +
238B VAL* 3.5 31.0 + - + +
239B ASN* 3.6 31.5 - - - +
278B LEU 4.3 1.4 + - - -
279B VAL* 3.4 11.8 + - - +
281B GLY* 1.3 74.0 - - - +
283B TYR* 1.3 64.3 + - - +
285B SER* 3.2 5.2 + - - -
286B GLN* 3.2 52.5 + - - +
373B VAL* 4.4 1.7 - - - +
377B ASN* 5.6 0.7 - - - -
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Residues in contact with TYR 283 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236B ILE 5.8 0.7 - - - -
237B PHE 4.3 12.1 - - - -
238B VAL* 4.2 15.9 - - + -
239B ASN* 3.3 24.4 + - - +
240B ILE* 3.8 20.4 - - + +
243B LEU* 4.0 14.1 - - + -
279B VAL 3.3 9.5 + - - +
280B TYR* 3.3 13.0 + + + +
282B ARG* 1.3 77.5 - - - +
284B CYS* 1.3 68.7 + - - +
286B GLN* 3.2 3.1 + - - +
287B VAL* 3.0 43.7 + - + +
326B LEU* 2.5 53.6 + - + +
329B PRO* 3.7 24.2 - - + +
330B MET* 4.7 4.0 - - + -
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Residues in contact with CYS 284 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A LEU* 3.9 22.2 - - + -
70A LEU* 4.0 3.3 - - + +
280B TYR* 2.9 31.8 + - - +
281B GLY 4.5 0.9 - - - +
283B TYR* 1.3 79.4 - - - +
285B SER* 1.3 60.8 + - - +
286B GLN 3.5 0.3 + - - -
287B VAL* 3.7 18.3 - - - +
288B GLU* 4.9 0.9 - - - +
330B MET* 4.1 36.3 - - - -
333B VAL* 4.9 2.5 - - - -
370B VAL* 3.8 16.8 - - + +
374B LYS* 3.6 20.9 - - + +
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Residues in contact with SER 285 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
281B GLY 2.9 21.6 + - - -
282B ARG* 3.7 6.1 - - - -
283B TYR 3.2 0.4 - - - -
284B CYS* 1.3 76.0 - - - +
286B GLN* 1.3 64.8 + - - +
288B GLU* 5.0 8.0 + - - +
289B SER* 5.6 1.7 + - - -
373B VAL* 3.7 0.2 - - - +
374B LYS* 3.3 29.0 + - - -
377B ASN* 3.0 34.5 + - - +
381B ARG* 4.7 11.3 + - - -
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Residues in contact with GLN 286 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234B GLU 5.1 2.6 - - - +
235B THR* 4.9 4.5 - - - +
238B VAL* 3.8 30.4 - - + +
282B ARG* 3.2 48.9 + - + +
283B TYR 3.7 0.2 - - - -
285B SER* 1.3 85.0 - - - +
287B VAL* 1.3 58.4 + - - +
288B GLU 3.3 3.6 - - - -
289B SER* 3.3 14.0 + - - -
290B ALA* 2.9 27.6 + - - +
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Residues in contact with VAL 287 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A LEU* 4.0 23.8 - - + -
238B VAL* 5.2 1.8 - - - -
283B TYR* 3.0 31.0 + - + +
284B CYS* 3.7 19.3 - - - +
285B SER 3.7 0.2 - - - -
286B GLN* 1.3 77.2 - - - +
288B GLU* 1.3 60.3 + - - +
290B ALA* 3.5 7.8 - - + +
291B SER* 2.9 30.8 + - - -
326B LEU* 3.4 35.9 - - + +
327B MET* 4.4 16.8 - - + -
330B MET* 5.5 1.1 - - + -
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Residues in contact with GLU 288 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A PRO* 6.0 0.9 - - - +
70A LEU* 3.4 29.1 - - + +
73A PRO* 5.8 7.4 - - + +
284B CYS 4.9 1.9 + - - +
285B SER 5.0 6.3 + - - +
286B GLN 3.3 0.8 - - - -
287B VAL* 1.3 77.5 - - + +
289B SER* 1.3 56.9 + - - +
291B SER* 3.2 6.4 + - - -
292B LYS* 2.9 35.5 + - - +
374B LYS* 3.4 24.7 + - - -
378B GLU* 4.6 2.6 - - - +
381B ARG* 5.3 5.4 + - - -
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Residues in contact with SER 289 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
235B THR* 4.1 14.1 + - - +
285B SER 5.6 0.7 - - - -
286B GLN* 3.3 16.7 + - - +
288B GLU* 1.3 78.5 - - - +
290B ALA* 1.3 57.9 + - - +
292B LYS* 3.5 7.5 + - - +
293B HIS* 2.9 30.1 + - - +
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Residues in contact with ALA 290 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
235B THR 3.1 27.6 + - - +
236B ILE* 3.4 23.7 - - - +
238B VAL* 4.1 7.2 - - + -
283B TYR* 6.5 0.2 - - + -
286B GLN 2.9 17.0 + - - +
287B VAL* 3.5 9.0 - - + +
288B GLU 3.3 0.2 - - - -
289B SER* 1.3 75.7 + - - +
291B SER* 1.3 58.2 + - - +
293B HIS* 3.3 3.5 + - - +
294B LEU* 2.9 30.0 + - - +
326B LEU* 4.7 6.5 - - + -
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Residues in contact with SER 291 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A GLN* 5.2 4.7 + - - -
287B VAL* 2.9 20.2 + - - -
288B GLU* 3.6 6.3 - - - -
290B ALA* 1.3 72.7 - - - +
292B LYS* 1.3 66.7 + - - +
294B LEU* 3.4 6.2 + - - +
295B ASP* 3.0 29.7 + - - +
323B ARG* 3.6 29.4 - - - +
326B LEU* 4.9 9.3 - - - +
327B MET* 6.5 1.3 - - - -
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Residues in contact with LYS 292 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
288B GLU* 2.9 19.2 + - - +
289B SER* 3.6 8.1 - - - +
291B SER* 1.3 77.7 + - - +
293B HIS* 1.3 61.5 + - - +
295B ASP* 3.4 9.4 + - + +
296B GLN* 3.0 48.7 + - + +
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Residues in contact with HIS 293 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231B GLN 5.1 0.2 - - - -
232B ASP* 2.8 43.0 + - - -
235B THR* 3.7 28.5 - - + +
236B ILE* 3.8 12.7 - - + +
289B SER 2.9 18.3 + - - +
290B ALA 3.8 2.9 - - - +
292B LYS* 1.3 74.6 - - - +
294B LEU* 1.3 60.2 + - - +
296B GLN* 3.2 19.3 + - + +
297B VAL* 3.0 46.8 + - + +
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Residues in contact with LEU 294 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
224B LEU* 5.5 2.7 - - + -
228B LEU* 5.8 1.8 - - + -
236B ILE* 4.0 25.9 - - + +
290B ALA 2.9 17.6 + - - +
291B SER* 3.6 4.3 - - - +
292B LYS 3.4 0.2 - - - -
293B HIS* 1.3 76.7 - - - +
295B ASP* 1.3 59.7 + - - +
297B VAL* 4.0 2.3 - - + +
298B ALA* 3.0 32.6 + - + +
304B VAL* 5.5 3.8 - - + -
308B LEU* 3.9 24.2 - - + -
322B LEU* 3.8 35.0 - - + -
323B ARG* 3.8 35.0 - - + +
326B LEU* 4.1 10.3 - - + -
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Residues in contact with ASP 295 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A GLN* 4.8 6.6 + - - -
291B SER* 3.0 21.2 + - - +
292B LYS* 3.6 9.3 - - + +
294B LEU* 1.3 78.2 - - - +
296B GLN* 1.3 58.5 + - + +
298B ALA* 3.8 4.4 - - - +
299B THR* 2.9 37.4 + - - +
323B ARG* 3.5 41.7 + - - +
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Residues in contact with GLN 296 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
292B LYS* 3.0 39.9 + - + +
293B HIS* 3.2 26.3 + - + +
295B ASP* 1.3 73.6 - - + +
297B VAL* 1.3 60.0 + - + +
299B THR* 3.9 4.9 - - - -
300B ALA* 3.0 30.4 + - - +
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Residues in contact with VAL 297 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
228B LEU* 3.7 27.6 - - + -
232B ASP* 4.4 10.1 - - - +
236B ILE* 4.7 5.8 - - + -
293B HIS* 3.0 47.5 + - + +
294B LEU* 4.0 4.9 - - + +
296B GLN* 1.3 74.4 - - + +
298B ALA* 1.3 58.3 + - - +
300B ALA* 3.3 4.7 + - - +
301B ARG* 2.8 43.7 + - - +
304B VAL* 4.1 14.4 - - + -
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Residues in contact with ALA 298 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
294B LEU* 3.0 19.3 + - + +
295B ASP* 3.9 4.7 - - - +
297B VAL* 1.3 76.6 - - - +
299B THR* 1.3 63.3 + - - +
301B ARG 3.3 19.2 - - - +
302B GLU* 4.9 0.7 - - - -
304B VAL* 4.3 6.5 - - + +
305B GLN* 3.6 33.4 - - - +
308B LEU* 3.8 21.8 - - + -
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Residues in contact with THR 299 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
295B ASP* 2.9 23.9 + - - +
296B GLN* 4.0 4.9 - - - -
298B ALA* 1.3 78.4 - - - +
300B ALA* 1.3 62.5 + - - +
301B ARG 3.6 0.7 + - - -
302B GLU* 5.1 5.2 + - - +
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Residues in contact with ALA 300 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
296B GLN 3.0 19.3 + - - +
297B VAL* 3.8 5.6 - - - +
299B THR* 1.3 79.9 - - - +
301B ARG* 1.3 66.1 + - + +
302B GLU* 4.0 3.0 + - - +
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Residues in contact with ARG 301 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
227B PHE* 2.8 33.9 + - - +
228B LEU* 4.0 16.6 - - - +
229B LYS* 5.3 4.2 - - - +
232B ASP* 4.7 6.1 + - - -
297B VAL* 2.8 23.5 + - - +
298B ALA 3.3 8.6 - - - +
299B THR 3.4 0.8 - - - -
300B ALA* 1.3 86.5 - - + +
302B GLU* 1.3 65.1 + - - +
303B ASP* 3.2 31.1 + - - +
304B VAL* 3.1 19.0 + - + +
305B GLN 3.1 17.0 + - - -
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Residues in contact with GLU 302 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
298B ALA 4.9 0.7 - - - -
299B THR 5.1 4.6 + - - +
300B ALA 4.0 3.0 + - - +
301B ARG* 1.3 70.7 - - - +
303B ASP* 1.3 58.3 + - - +
305B GLN* 3.3 14.5 + - - +
306B MET* 2.9 42.4 + - - +
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Residues in contact with ASP 303 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
227B PHE* 3.7 24.2 - - + -
301B ARG* 3.3 42.1 + - - +
302B GLU* 1.3 75.2 + - - +
304B VAL* 1.3 60.2 + - - +
306B MET* 3.6 8.8 + - - +
307B LYS* 3.0 28.4 + - - +
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Residues in contact with VAL 304 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
224B LEU* 4.5 8.1 - - + -
227B PHE* 4.5 8.1 - - + -
228B LEU* 4.1 16.6 - - + -
294B LEU* 5.5 3.4 - - + -
297B VAL* 4.1 17.3 - - + +
298B ALA* 4.3 5.8 - - - +
301B ARG* 3.1 54.3 + - + +
303B ASP* 1.3 77.4 - - - +
305B GLN* 1.3 60.2 - - - +
307B LYS* 3.2 5.9 + - - +
308B LEU* 2.9 48.0 + - + +
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Residues in contact with GLN 305 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
298B ALA* 3.6 34.9 + - - +
301B ARG 3.1 6.7 + - - +
302B GLU* 3.3 18.4 + - - +
304B VAL* 1.3 78.4 - - - +
306B MET* 1.3 63.4 + - + +
308B LEU* 3.3 12.1 + - - +
309B GLU* 2.7 54.1 + - - +
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Residues in contact with MET 306 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
302B GLU* 2.9 31.0 + - - +
303B ASP* 3.9 7.9 - - - +
305B GLN* 1.3 77.7 - - + +
307B LYS* 1.3 63.7 + - - +
309B GLU* 3.3 14.7 + - - +
310B GLU* 3.0 21.7 + - - +
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Residues in contact with LYS 307 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
223B PRO* 3.7 27.7 - - - +
224B LEU* 4.1 18.2 - - + -
227B PHE* 3.7 38.2 - - + -
303B ASP 3.0 18.5 + - - +
304B VAL* 3.2 6.7 + - - +
306B MET* 1.3 75.8 - - - +
308B LEU* 1.3 57.7 + - - +
310B GLU* 2.8 37.3 + - - +
311B CYS* 2.8 41.1 + - - -
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Residues in contact with LEU 308 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220B PHE* 4.2 8.1 - - + -
224B LEU* 3.8 20.2 - - + -
294B LEU* 3.9 18.2 - - + -
298B ALA* 3.8 27.6 - - + -
304B VAL* 2.9 29.5 + - + +
305B GLN* 3.6 9.4 - - - +
307B LYS* 1.3 76.8 - - - +
309B GLU* 1.3 56.1 + - + +
311B CYS* 3.3 4.9 + - - +
312B SER* 3.0 30.7 + - - -
322B LEU* 3.8 38.7 + - + +
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Residues in contact with GLU 309 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
305B GLN* 2.7 46.1 + - - +
306B MET* 3.6 15.8 - - - +
308B LEU* 1.3 75.7 - - - +
310B GLU* 1.3 62.5 + - - +
312B SER* 3.5 6.5 + - - -
313B GLN* 3.1 28.3 + - + +
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Residues in contact with GLU 310 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
306B MET 3.0 12.6 + - - +
307B LYS* 2.8 44.7 + - - +
309B GLU* 1.3 74.5 - - - +
311B CYS* 1.3 59.8 + - - +
313B GLN* 3.1 9.5 + - + +
314B ARG* 2.9 50.7 + - + +
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Residues in contact with CYS 311 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219B HIS* 3.1 28.9 - - - +
220B PHE* 3.6 27.2 - - + -
223B PRO* 4.0 21.1 - - - -
224B LEU* 4.9 4.5 - - - -
307B LYS* 2.8 40.8 + - - +
308B LEU* 3.3 3.8 + - - +
310B GLU* 1.3 74.1 - - - +
312B SER* 1.3 58.2 + - - +
314B ARG* 3.3 7.7 + - - +
315B ALA* 2.9 31.7 + - - +
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Residues in contact with SER 312 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220B PHE* 3.7 14.9 - - - -
308B LEU 3.0 17.0 + - - -
309B GLU* 3.7 7.6 - - - -
311B CYS* 1.3 75.3 - - - +
313B GLN* 1.3 57.3 + - - +
316B ASN* 2.9 35.1 + - - +
318B GLY* 3.3 21.0 + - - -
320B PHE 2.8 27.4 + - - -
321B THR* 4.3 6.6 + - - +
322B LEU 5.4 0.2 - - - -
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Residues in contact with GLN 313 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
309B GLU 3.1 19.5 + - - +
310B GLU* 3.1 11.6 + - + +
312B SER* 1.3 77.4 - - - +
314B ARG* 1.3 59.6 + - + +
317B ASN* 3.1 48.0 + - - +
318B GLY* 3.7 19.0 - - - +
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Residues in contact with ARG 314 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219B HIS* 4.1 23.9 + - + +
310B GLU* 2.9 41.9 + - + +
311B CYS* 3.7 7.2 - - - +
313B GLN* 1.3 76.3 - - + +
315B ALA* 1.3 62.8 + - - +
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Residues in contact with ALA 315 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215B SER* 4.8 10.0 - - - +
219B HIS* 3.6 34.0 + - + -
220B PHE* 3.6 17.3 - - + -
311B CYS 2.9 17.5 + - - +
314B ARG* 1.3 80.7 - - - +
316B ASN* 1.3 68.1 + - - +
319B ARG* 5.3 0.2 + - - -
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Residues in contact with ASN 316 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
312B SER* 2.9 18.9 + - - +
315B ALA* 1.3 87.6 - - - +
317B ASN* 1.3 71.1 + - - +
318B GLY 3.3 0.5 + - - -
319B ARG* 2.9 67.1 + - - +
320B PHE* 2.9 43.3 + - + +
325B LEU* 4.1 13.1 - - - +
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Residues in contact with ASN 317 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
313B GLN* 3.1 39.1 + - - +
315B ALA 4.0 0.2 - - - -
316B ASN* 1.3 79.3 - - - +
318B GLY* 1.3 59.5 + - - +
319B ARG* 3.3 8.5 + - + +
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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