Contacts of the helix formed by residues 306 - 337 (chain B) in PDB entry 6KJV
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 TRP 306 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
284B TRP* 5.2 1.8 - - - +
300B ASN* 4.0 35.4 - - + +
301B SER* 6.0 0.4 - - - -
302B ASN 6.2 0.2 - - - +
303B MET 3.6 9.0 + - - +
304B ASN 3.2 1.0 - - - -
305B TYR* 1.3 79.0 - - - +
307B LEU* 1.3 80.9 + - + +
309B ILE* 3.3 14.4 - - + +
310B ARG* 3.3 56.4 - - + +
367B PHE 5.3 0.9 - - - -
368B ALA 4.3 9.4 - - - -
369B PHE* 4.5 12.1 - - - -
370B VAL 3.5 35.4 - - - -
371B MET* 4.0 26.1 + - + -
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Residues in contact with LEU 307 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
303B MET 5.0 0.2 + - - -
304B ASN* 2.9 38.4 + - - +
306B TRP* 1.3 96.0 - - + +
308B ILE* 1.3 57.0 + - + +
309B ILE 3.2 5.4 - - - -
310B ARG* 4.0 3.4 - - + +
311B LEU* 3.1 64.0 + - + +
369B PHE* 4.4 21.5 - - + -
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Residues in contact with ILE 308 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
280B PHE* 3.9 16.8 - - + +
283B PRO* 4.4 6.1 - - + -
284B TRP* 3.6 34.5 - - + +
287B VAL* 3.7 19.3 - - + -
304B ASN* 3.7 22.4 - - - +
305B TYR* 3.3 23.8 - - + +
307B LEU* 1.3 77.3 - - + +
309B ILE* 1.3 56.8 + - - +
311B LEU* 5.3 0.4 - - - -
312B PRO* 3.6 20.8 - - - +
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Residues in contact with ILE 309 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234B GLN* 3.8 27.4 - - - +
238B ALA* 6.1 0.2 - - + -
280B PHE* 4.0 14.2 - - + -
281B VAL* 3.9 34.8 - - + -
284B TRP* 4.0 40.8 - - + +
306B TRP* 3.3 21.8 - - + +
308B ILE* 1.3 80.8 - - - +
310B ARG* 1.3 77.2 + - + +
311B LEU 3.7 0.2 - - - -
312B PRO* 3.9 4.7 - - - +
313B ILE* 3.6 24.3 - - + +
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Residues in contact with ARG 310 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234B GLN* 4.7 18.2 + - - +
237B VAL* 5.1 5.3 - - - +
241B TYR* 6.0 0.4 - - - -
306B TRP* 3.3 66.5 + - + +
307B LEU* 3.6 3.6 + - + +
309B ILE* 1.3 94.5 + - + +
311B LEU* 1.3 59.7 + - - +
312B PRO 3.5 0.7 - - - -
313B ILE* 3.3 31.0 - - - +
314B LEU* 3.1 26.3 + - - +
364B GLU* 3.5 32.4 + - - +
368B ALA 5.4 3.8 - - - +
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Residues in contact with LEU 311 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
307B LEU* 3.1 48.6 + - + +
308B ILE* 5.3 0.4 - - - -
310B ARG* 1.3 76.3 - - - +
312B PRO* 1.3 69.4 - - + +
314B LEU* 3.4 13.1 + - + +
315B PHE* 2.9 22.2 + - - +
369B PHE* 3.9 30.1 - - + -
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Residues in contact with PRO 312 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242B TYR* 3.3 14.2 + - - +
280B PHE* 3.5 51.6 - - + -
308B ILE* 3.6 22.9 - - - +
309B ILE 3.9 0.9 - - - -
310B ARG 3.8 2.9 - - - +
311B LEU* 1.3 93.0 - - + +
313B ILE* 1.3 63.9 + - - +
315B PHE* 3.0 11.0 + - + +
316B ALA 2.9 18.0 + - - -
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Residues in contact with ILE 313 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234B GLN* 5.4 2.2 - - - +
237B VAL* 4.4 18.6 - - + -
238B ALA* 4.9 9.0 - - + +
241B TYR* 4.1 36.8 - - + -
242B TYR* 5.1 2.2 - - + -
280B PHE* 4.6 14.4 - - + -
309B ILE* 3.6 17.5 - - + +
310B ARG* 3.3 34.0 + - - +
311B LEU 3.3 0.2 - - - -
312B PRO* 1.3 74.9 - - - +
314B LEU* 1.3 65.3 + - - +
316B ALA* 3.0 9.5 + - - +
317B CYS* 2.8 21.2 + - - +
364B GLU* 3.9 23.1 - - + +
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Residues in contact with LEU 314 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
310B ARG 3.1 20.2 + - - +
311B LEU* 3.6 15.0 - - + +
313B ILE* 1.3 74.7 - - - +
315B PHE* 1.3 52.6 + - - +
317B CYS* 3.0 3.6 + - - +
318B ILE* 2.7 55.1 + - + +
364B GLU* 3.7 32.2 - - + +
365B VAL* 4.0 23.8 - - + -
368B ALA* 4.2 14.1 - - + +
369B PHE* 4.2 30.1 - - + -
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Residues in contact with PHE 315 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242B TYR* 4.0 18.4 - + - -
245B LEU* 5.4 4.0 - - + -
311B LEU 2.9 14.4 + - - +
312B PRO* 3.1 11.0 - - + +
314B LEU* 1.3 74.7 - - - +
316B ALA* 1.3 66.4 + - - +
318B ILE* 3.0 23.6 + - + +
319B VAL* 3.0 41.2 + - + +
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Residues in contact with ALA 316 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241B TYR* 4.5 18.6 - - + +
242B TYR* 3.7 38.1 - - + -
245B LEU* 4.9 2.5 - - + -
312B PRO 2.9 10.8 + - - +
313B ILE* 3.0 8.9 + - - +
315B PHE* 1.3 76.3 - - - +
317B CYS* 1.3 58.0 + - - +
319B VAL* 3.1 11.7 - - + +
320B ASN* 3.1 34.5 + - - +
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Residues in contact with CYS 317 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241B TYR* 3.9 14.1 - - - -
313B ILE* 2.8 14.7 + - - +
314B LEU* 3.0 8.9 + - - +
316B ALA* 1.3 75.3 - - - +
318B ILE* 1.3 58.5 - - - +
320B ASN* 3.0 2.4 + - - +
321B PHE* 2.7 35.3 + - - -
361B CYS* 2.0 58.3 - - + -
364B GLU* 4.1 11.9 - - + -
365B VAL* 4.0 16.2 - - + -
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Residues in contact with ILE 318 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
314B LEU* 2.7 48.7 + - + +
315B PHE* 3.5 12.8 - - + +
317B CYS* 1.3 70.0 - - - +
319B VAL* 1.3 69.3 + - + +
321B PHE* 3.0 9.8 + - - +
322B LEU* 2.9 39.0 + - + +
365B VAL* 4.9 7.9 - - + -
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Residues in contact with VAL 319 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
245B LEU* 3.6 28.0 - - + -
315B PHE* 3.0 41.1 + - + +
316B ALA* 3.1 20.6 - - - +
318B ILE* 1.3 78.7 - - + +
320B ASN* 1.3 60.7 + - - +
322B LEU* 2.9 13.9 + - + +
323B ILE* 2.8 39.1 + - + +
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Residues in contact with ASN 320 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241B TYR* 3.9 20.2 + - - +
244B LEU* 3.8 23.0 - - - +
245B LEU* 3.5 30.3 - - - +
248B GLY* 5.0 2.8 - - - -
316B ALA* 3.1 26.0 + - - +
317B CYS* 3.0 9.0 + - - +
319B VAL* 1.3 77.0 - - - +
321B PHE* 1.3 58.0 + - - +
323B ILE* 3.8 5.1 + - - +
324B PHE* 2.9 25.8 + - - +
357B ILE* 3.4 30.1 - - + +
361B CYS* 4.1 8.7 - - - -
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Residues in contact with PHE 321 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
317B CYS 2.7 25.8 + - - -
318B ILE* 3.6 7.6 - - - +
320B ASN* 1.3 72.4 - - - +
322B LEU* 1.3 60.4 + - + +
324B PHE* 3.0 20.7 + + + +
325B VAL* 2.7 35.5 + - + +
357B ILE* 4.4 3.1 - - + -
358B PRO* 3.9 38.4 - - + -
361B CYS* 3.5 30.5 - - + -
362B THR* 3.9 18.6 - - - -
365B VAL* 4.0 18.2 - - + -
2002B OLC 4.2 15.0 - - + -
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Residues in contact with LEU 322 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
318B ILE* 2.9 34.7 + - + +
319B VAL* 2.9 13.0 + - + +
321B PHE* 1.3 76.8 - - + +
323B ILE* 1.3 66.8 + - + +
325B VAL* 3.0 11.6 + - + +
326B ARG* 2.8 25.8 + - - +
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Residues in contact with ILE 323 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
245B LEU* 5.0 10.8 - - + -
248B GLY* 3.8 29.8 - - - +
249B VAL* 5.3 8.7 - - + -
251B LEU* 6.1 0.4 - - + -
252B TYR* 4.8 15.5 - - + -
319B VAL* 2.8 30.1 + - + +
320B ASN* 3.9 8.3 - - - +
322B LEU* 1.3 71.8 - - + +
324B PHE* 1.3 66.5 + - - +
326B ARG* 3.0 7.2 + - + +
327B VAL* 2.8 45.8 + - + +
357B ILE* 5.1 4.7 - - + -
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Residues in contact with PHE 324 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
320B ASN 2.9 18.0 + - - +
321B PHE* 3.0 25.4 - + - +
323B ILE* 1.3 77.2 - - - +
325B VAL* 1.3 71.8 + - + +
328B ILE* 3.1 44.9 + - + +
354B LEU* 3.2 52.1 - - + +
357B ILE* 4.0 12.1 - - + -
358B PRO* 3.7 20.2 - - + -
2002B OLC 3.3 52.7 - - + -
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Residues in contact with VAL 325 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
321B PHE* 2.7 22.5 + - + +
322B LEU* 3.0 12.5 + - + +
324B PHE* 1.3 83.1 - - + +
326B ARG* 1.3 70.1 + - - +
328B ILE* 3.0 18.4 + - - +
329B CYS* 3.2 21.0 + - - -
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Residues in contact with ARG 326 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
252B TYR* 3.3 33.2 - - + +
322B LEU 2.8 19.2 + - - +
323B ILE* 3.8 7.0 - - + +
325B VAL* 1.3 75.8 - - - +
327B VAL* 1.3 65.1 + - - +
329B CYS* 3.0 42.8 + - - +
330B ILE* 3.1 32.2 + - - +
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Residues in contact with VAL 327 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
251B LEU* 4.1 20.4 - - + -
252B TYR* 4.2 18.6 - - + -
255B LEU* 4.0 15.7 - - + -
323B ILE* 2.8 42.1 + - + +
324B PHE 4.1 3.1 - - - +
326B ARG* 1.3 70.6 - - - +
328B ILE* 1.3 58.7 + - - +
330B ILE* 2.9 9.7 + - - +
331B VAL* 2.8 43.3 + - + +
350B ALA* 4.6 0.7 - - + -
354B LEU* 3.9 24.2 - - + -
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Residues in contact with ILE 328 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
324B PHE* 3.1 48.6 + - + +
325B VAL* 3.0 11.4 + - + +
327B VAL* 1.3 75.7 - - - +
329B CYS* 1.3 66.2 + - - +
331B VAL* 3.0 15.8 + - - +
332B VAL* 3.1 29.8 + - + +
354B LEU* 4.0 17.7 - - + -
2001B 97Y 4.5 11.0 - - - -
2002B OLC 4.4 15.0 - - - +
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Residues in contact with CYS 329 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
325B VAL* 3.2 21.8 + - - -
326B ARG* 3.0 39.6 + - - +
328B ILE* 1.3 76.2 - - - +
330B ILE* 1.3 63.0 + - + +
332B VAL* 3.5 8.9 - - - +
333B SER* 2.9 28.8 + - - -
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Residues in contact with ILE 330 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
252B TYR* 4.6 13.0 - - + +
255B LEU* 4.1 26.0 - - + +
326B ARG* 3.3 39.7 - - - +
327B VAL* 2.9 8.2 + - - +
329B CYS* 1.3 78.3 - - - +
331B VAL* 1.3 66.2 + - - +
333B SER* 3.0 8.8 + - - +
334B LYS* 2.8 43.1 + - + +
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Residues in contact with VAL 331 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
255B LEU* 4.4 14.4 - - + -
327B VAL* 2.8 40.3 + - + +
328B ILE 3.0 3.1 + - - +
330B ILE* 1.3 70.9 - - - +
332B VAL* 1.3 57.8 + - - +
334B LYS* 3.0 7.9 + - - +
335B LEU* 2.9 40.2 + - + +
340B MET* 4.9 8.5 - - + -
347B PHE* 3.9 15.9 - - + -
350B ALA* 4.3 15.7 - - + -
354B LEU* 5.0 0.2 - - + -
2001B 97Y 3.2 33.7 - - - -
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Residues in contact with VAL 332 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
328B ILE* 3.4 24.7 - - + +
329B CYS* 3.5 11.9 - - - +
331B VAL* 1.3 74.4 - - - +
333B SER* 1.3 65.1 + - - +
335B LEU* 4.0 9.1 - - + +
336B LYS* 3.1 24.6 + - - +
2001B 97Y 3.7 30.3 - - - -
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Residues in contact with SER 333 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
329B CYS 2.9 18.8 + - - -
330B ILE* 3.0 15.9 + - - +
332B VAL* 1.3 78.5 - - - +
334B LYS* 1.3 61.6 + - - +
336B LYS* 3.0 6.0 + - - +
337B ALA* 2.9 31.5 + - - +
339B LEU* 5.9 0.2 - - - -
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Residues in contact with LYS 334 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
255B LEU* 4.3 20.5 + - + +
257B PHE 5.6 1.4 + - - -
330B ILE* 2.8 39.9 + - + +
331B VAL 3.8 3.1 - - - +
333B SER* 1.3 74.6 - - - +
335B LEU* 1.3 58.6 + - - +
337B ALA 4.7 0.2 - - - +
338B ASN 3.5 0.3 + - - -
339B LEU* 2.8 65.9 + - + +
340B MET* 3.1 45.9 + - + -
1001B ASN* 5.5 10.7 - - - +
----------------------------------------------------------
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Residues in contact with LEU 335 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
331B VAL* 2.9 38.8 + - + +
332B VAL* 4.2 5.6 - - - +
334B LYS* 1.3 76.6 - - - +
336B LYS* 1.3 64.4 + - - +
338B ASN* 3.2 12.6 + - - -
340B MET* 3.3 32.2 - - + +
341B CYS* 4.3 4.7 - - - -
342B LYS* 4.2 30.7 - - + -
347B PHE* 3.8 17.9 - - + -
2001B 97Y 3.8 9.4 - - - -
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Residues in contact with LYS 336 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
332B VAL 3.1 19.7 + - - +
333B SER* 3.0 5.6 + - - +
335B LEU* 1.3 77.8 - - - +
337B ALA* 1.3 59.0 + - + +
338B ASN* 3.1 6.3 + - - +
----------------------------------------------------------
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Residues in contact with ALA 337 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
333B SER 2.9 16.1 + - - +
336B LYS* 1.3 73.8 - - - +
338B ASN* 1.3 83.5 + - - +
339B LEU* 3.0 28.2 + - + +
----------------------------------------------------------
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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