Contacts of the helix formed by residues 312 - 345 (chain C) in PDB entry 5TIN
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 312 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
310C ALA* 2.7 22.0 + - + +
311C GLY* 1.3 76.5 - - - +
313C LYS* 1.3 66.9 + - - +
314C VAL* 3.9 7.5 - - - +
315C PHE* 3.0 31.9 + - - -
316C ILE* 3.0 22.2 + - - +
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Residues in contact with LYS 313 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
311C GLY 4.2 1.0 + - - -
312C THR* 1.3 70.9 - - - +
314C VAL* 1.3 56.6 + - - +
316C ILE* 3.8 6.9 - - - +
317C ASP* 2.9 43.7 + - - +
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Residues in contact with VAL 314 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
312C THR* 3.9 7.9 - - - +
313C LYS* 1.3 78.6 - - - +
315C PHE* 1.3 84.3 + - + +
317C ASP* 3.7 7.8 + - - +
318C ARG* 3.2 23.7 + - - +
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Residues in contact with PHE 315 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
307C VAL* 3.4 35.2 - - + +
308C SER* 4.2 2.5 - - - -
310C ALA* 3.8 23.8 - - + +
312C THR* 3.0 25.1 + - - +
314C VAL* 1.3 93.5 - - + +
316C ILE* 1.3 65.8 + - - +
317C ASP 3.2 0.9 - - - -
318C ARG* 3.4 9.2 + - + +
319C ALA* 3.1 22.9 + - - +
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Residues in contact with ILE 316 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246C MET* 4.0 19.3 - - + +
247C ASP* 5.9 2.0 - - - +
308C SER* 4.1 26.7 - - - +
310C ALA 4.8 0.2 - - - +
311C GLY* 4.0 17.7 - - - +
312C THR 3.0 24.6 + - - +
313C LYS* 3.8 6.7 - - - +
315C PHE* 1.3 76.0 - - - +
317C ASP* 1.3 62.2 + - - +
319C ALA* 3.4 6.3 + - - +
320C LYS* 2.9 28.7 + - + +
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Residues in contact with ASP 317 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
313C LYS* 2.9 28.2 + - - +
314C VAL* 3.8 8.3 - - - +
316C ILE* 1.3 78.6 - - - +
318C ARG* 1.3 58.7 + - - +
320C LYS* 3.3 8.1 + - - +
321C LYS* 3.0 28.6 + - - +
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Residues in contact with ARG 318 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
307C VAL* 4.5 10.1 - - + -
314C VAL 3.2 14.8 + - - +
315C PHE* 3.7 13.5 - - + +
316C ILE 3.3 0.4 - - - -
317C ASP* 1.3 77.3 - - - +
319C ALA* 1.3 62.1 + - - +
321C LYS* 3.3 8.5 + - - +
322C ILE* 3.2 27.2 + - + +
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Residues in contact with ALA 319 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246C MET* 3.8 13.3 - - + +
304C VAL* 3.7 24.8 - - + +
307C VAL* 3.6 25.2 - - + +
308C SER* 3.8 10.8 - - - -
315C PHE 3.1 13.6 + - - +
316C ILE 3.6 4.9 - - - +
318C ARG* 1.3 73.7 - - - +
320C LYS* 1.3 63.6 + - - +
322C ILE* 3.3 9.8 + - - +
323C ASP* 3.3 17.5 + - - +
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Residues in contact with LYS 320 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246C MET* 3.6 13.2 - - + +
316C ILE* 2.9 20.4 + - + +
317C ASP* 3.3 10.7 + - - +
319C ALA* 1.3 76.5 - - - +
321C LYS* 1.3 56.1 + - - +
323C ASP* 3.4 7.5 + - - +
324C THR* 3.1 33.9 + - + +
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Residues in contact with LYS 321 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
317C ASP 3.0 14.0 + - - +
318C ARG* 3.6 12.1 - - - +
319C ALA 3.2 0.6 - - - -
320C LYS* 1.3 73.4 - - - +
322C ILE* 1.3 66.2 + - + +
324C THR* 3.0 9.0 + - - -
325C ILE* 3.0 38.2 + - + +
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Residues in contact with ILE 322 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
300C GLU* 3.5 28.5 - - + +
303C ALA* 4.6 14.4 - - + -
304C VAL* 3.7 11.9 - - + -
307C VAL* 4.2 28.7 - - + -
318C ARG* 3.2 16.5 + - + +
319C ALA* 3.3 8.7 + - - +
321C LYS* 1.3 77.3 - - + +
323C ASP* 1.3 55.7 + - - +
325C ILE* 3.6 6.8 + - - +
326C SER* 2.8 33.2 + - - +
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Residues in contact with ASP 323 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242C PHE* 4.0 10.9 - - - +
244C ILE 4.6 3.3 - - - +
246C MET* 4.5 11.6 + - - +
252C ARG* 2.6 34.2 + - - -
300C GLU* 2.8 25.7 - - - +
304C VAL* 3.7 17.2 - - - +
319C ALA 3.3 6.7 + - - +
320C LYS* 3.6 10.1 - - - +
321C LYS 3.2 0.6 - - - -
322C ILE* 1.3 79.0 - - - +
324C THR* 1.3 62.4 + - - +
326C SER* 3.2 2.8 + - - -
327C ARG* 3.0 44.4 + - - +
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Residues in contact with THR 324 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
320C LYS* 3.1 19.8 + - + +
321C LYS* 3.0 17.7 + - - -
323C ASP* 1.3 75.7 - - - +
325C ILE* 1.3 63.9 + - - +
327C ARG* 3.6 40.3 + - - +
328C ALA* 3.8 6.8 + - - +
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Residues in contact with ILE 325 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
321C LYS* 3.0 29.8 + - + +
322C ILE* 3.9 6.3 - - - +
324C THR* 1.3 78.8 - - - +
326C SER* 1.3 55.2 + - - +
328C ALA* 3.0 8.1 + - - +
329C CYS* 2.8 54.5 + - + +
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Residues in contact with SER 326 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242C PHE* 3.8 21.3 - - - -
300C GLU* 3.0 30.4 + - - +
322C ILE* 2.8 22.4 + - - +
323C ASP 3.2 4.5 + - - -
325C ILE* 1.3 78.2 - - - +
327C ARG* 1.3 63.3 + - - +
329C CYS* 4.4 1.8 - - - +
330C PHE* 3.2 41.5 + - - +
331C PRO* 3.6 0.7 - - - +
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Residues in contact with ARG 327 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
306B PHE* 3.9 32.0 - - - -
309B ARG* 5.1 7.5 - - - +
242C PHE* 2.9 42.3 + - + -
243C TRP* 3.6 50.4 - - + +
244C ILE 5.6 1.0 + - - -
323C ASP* 3.0 29.1 + - - +
324C THR* 3.6 35.2 - - - +
326C SER* 1.3 76.1 - - - +
328C ALA* 1.3 57.6 + - - +
331C PRO* 3.4 20.7 - - - +
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Residues in contact with ALA 328 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
324C THR 3.8 6.0 + - - +
325C ILE* 3.0 9.6 + - - +
327C ARG* 1.3 80.8 - - - +
329C CYS* 1.3 63.7 + - - +
330C PHE 3.5 0.4 - - - -
331C PRO* 3.5 3.6 - - - +
332C LEU* 3.1 32.5 + - + +
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Residues in contact with CYS 329 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
325C ILE* 2.8 42.1 + - + +
326C SER* 4.7 2.0 - - - +
328C ALA* 1.3 77.0 - - - +
330C PHE* 1.3 60.4 + - + +
332C LEU* 3.7 11.3 - - - +
333C ALA* 2.7 38.0 + - + +
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Residues in contact with PHE 330 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
239C TRP* 3.7 22.2 - + - +
242C PHE* 3.7 20.6 - + + -
293C PHE* 3.5 38.9 - + - -
296C SER* 3.7 29.4 - - - -
297C ALA* 3.6 13.9 - - - -
300C GLU* 4.4 5.8 - - + -
326C SER* 3.2 33.7 + - - +
329C CYS* 1.3 81.0 - - + +
331C PRO* 1.4 66.4 - - + +
333C ALA* 4.7 2.7 - - - -
334C PHE* 3.0 31.5 + - - +
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Residues in contact with PRO 331 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
239C TRP* 3.6 41.7 - - + -
242C PHE* 5.3 0.7 - - + -
243C TRP* 5.4 5.2 - - + -
326C SER 3.6 2.2 - - - +
327C ARG* 3.4 27.4 - - - +
328C ALA 3.5 5.2 - - - +
330C PHE* 1.4 94.9 - - + +
332C LEU* 1.3 56.1 + - - +
334C PHE* 3.5 1.7 + - - +
335C LEU* 3.0 28.2 + - - +
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Residues in contact with LEU 332 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
328C ALA* 3.1 22.9 + - + +
329C CYS* 3.7 12.6 - - - +
330C PHE 3.3 0.2 - - - -
331C PRO* 1.3 77.9 - - - +
333C ALA* 1.3 56.0 + - - +
335C LEU* 3.3 19.5 + - + +
336C ILE* 3.0 47.9 + - + +
----------------------------------------------------------
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Residues in contact with ALA 333 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
293C PHE* 3.7 17.8 - - + -
329C CYS 2.7 22.1 + - - +
330C PHE* 4.0 2.7 - - - +
332C LEU* 1.3 73.9 - - - +
334C PHE* 1.3 57.3 + - - +
336C ILE* 3.4 12.3 + - - +
337C PHE* 3.0 27.9 + - - +
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Residues in contact with PHE 334 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232C LEU* 3.5 32.8 - - + -
235C VAL* 4.1 20.6 - - + -
236C ILE* 6.1 0.2 - - + -
239C TRP* 3.7 26.0 - + + -
286C TRP* 4.3 4.9 - + - -
289C VAL* 5.1 0.2 - - + -
290C CYS* 4.1 27.6 - - - -
293C PHE* 3.5 35.4 - + + -
330C PHE 3.0 17.9 + - - +
331C PRO 3.8 2.2 - - - +
333C ALA* 1.3 75.2 - - - +
335C LEU* 1.3 59.9 + - - +
337C PHE* 3.5 16.1 + + - +
338C ASN* 3.0 44.3 + - - +
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Residues in contact with LEU 335 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
331C PRO 3.0 18.3 + - - +
332C LEU* 3.3 19.0 + - + +
334C PHE* 1.3 75.8 - - - +
336C ILE* 1.3 66.4 + - + +
338C ASN* 3.3 11.3 + - + +
339C ILE* 3.0 42.7 + - + +
----------------------------------------------------------
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Residues in contact with ILE 336 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
332C LEU* 3.0 39.2 + - + +
333C ALA* 3.6 11.7 - - - +
334C PHE 3.3 0.2 - - - -
335C LEU* 1.3 76.7 - - + +
337C PHE* 1.3 64.1 + - - +
339C ILE* 3.2 10.0 + - + +
340C PHE* 3.1 42.8 + - + -
----------------------------------------------------------
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Residues in contact with PHE 337 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
285C ILE* 4.7 5.4 - - + -
286C TRP* 3.7 33.9 - + - -
289C VAL* 3.5 51.1 - - + -
293C PHE* 4.7 4.5 - - + -
333C ALA 3.0 17.1 + - - +
334C PHE* 3.7 17.9 - + - +
335C LEU 3.3 0.2 - - - -
336C ILE* 1.3 77.8 - - - +
338C ASN* 1.3 66.6 + - - +
340C PHE* 3.2 9.6 + - + +
341C TYR* 2.8 54.7 + + + +
----------------------------------------------------------
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Residues in contact with ASN 338 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232C LEU* 5.1 5.4 - - - +
286C TRP* 3.6 20.2 - - - -
334C PHE* 3.0 41.3 + - - +
335C LEU* 3.4 16.8 - - + +
337C PHE* 1.3 76.7 - - - +
339C ILE* 1.3 69.8 + - + +
341C TYR* 4.4 2.5 - - - -
342C TRP* 3.1 57.2 + - + +
----------------------------------------------------------
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Residues in contact with ILE 339 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
335C LEU* 3.0 41.0 + - + +
336C ILE* 3.2 10.1 + - - +
338C ASN* 1.3 78.9 - - + +
340C PHE* 1.3 71.2 + - + +
342C TRP* 4.4 0.8 - - - +
343C VAL* 3.1 40.1 + - + +
----------------------------------------------------------
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Residues in contact with PHE 340 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
336C ILE* 3.1 38.1 + - + +
337C PHE* 3.2 11.4 + - + +
339C ILE* 1.3 86.0 - - + +
341C TYR* 1.3 62.5 + - - +
343C VAL* 4.0 2.6 - - - +
344C ILE* 2.9 43.1 + - + +
----------------------------------------------------------
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Residues in contact with TYR 341 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147C MET* 3.6 17.6 - - + +
228C TYR* 2.7 40.7 + + - -
282C ALA 2.8 30.5 + - - -
285C ILE* 4.3 8.1 - - + -
286C TRP* 3.7 26.1 - + + +
337C PHE* 2.8 45.4 + + + +
338C ASN* 3.8 6.1 - - - +
339C ILE 3.4 0.2 - - - -
340C PHE* 1.3 75.5 - - - +
342C TRP* 1.3 81.8 + + - +
344C ILE* 3.7 2.7 - - - +
345C TYR* 3.3 48.4 + + - -
----------------------------------------------------------
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Residues in contact with TRP 342 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147C MET* 3.8 18.6 - - - -
220C MET* 3.5 34.3 - - + -
224C LEU* 4.5 8.7 - - + -
228C TYR* 3.8 35.9 - + + -
286C TRP* 4.1 8.0 - + - -
338C ASN* 3.1 53.2 + - + +
339C ILE* 4.4 1.1 - - - +
341C TYR* 1.3 86.7 - + - +
343C VAL* 1.3 67.0 + - + +
345C TYR* 3.2 18.8 + - - +
----------------------------------------------------------
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Residues in contact with VAL 343 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
339C ILE* 3.1 36.1 + - + +
340C PHE* 4.0 3.1 - - - +
342C TRP* 1.3 80.1 - - + +
344C ILE* 1.3 67.7 + - + +
345C TYR 4.1 2.8 - - - +
----------------------------------------------------------
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Residues in contact with ILE 344 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
340C PHE* 2.9 40.7 + - + +
341C TYR* 3.7 5.8 - - - +
343C VAL* 1.3 81.5 - - + +
345C TYR* 1.3 80.4 + - + +
----------------------------------------------------------
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Residues in contact with TYR 345 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143C LYS 4.8 1.6 + - - -
144C ASN* 3.6 31.0 - - + -
147C MET* 3.7 34.3 - - + +
281C LYS 5.0 0.3 - - - -
282C ALA* 3.5 31.8 + - + -
285C ILE* 4.0 15.4 - - + +
341C TYR* 3.3 60.1 + + - +
342C TRP 3.2 15.7 - - - +
343C VAL 4.1 2.1 - - - +
344C ILE* 1.3 93.7 - - + +
----------------------------------------------------------
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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