Contacts of the helix formed by residues 295 - 330 (chain C) in PDB entry 3X0Y
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 ASP 295 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
283C PRO* 6.4 0.4 - - + -
284C TRP* 5.3 6.9 + - - +
289C ILE* 3.6 30.6 - - + +
291C GLN 3.7 2.8 + - - -
292C ALA* 3.6 10.7 + - - +
293C THR 3.5 2.0 - - - -
294C GLU* 1.3 76.4 - - - +
296C PRO* 1.3 66.8 - - - +
297C TYR* 2.9 21.0 + - - +
298C THR* 2.8 40.5 + - - +
299C ILE* 3.0 30.3 + - - +
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Residues in contact with PRO 296 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
399B ALA* 6.0 0.5 - - - +
289C ILE* 4.3 13.9 - - + -
294C GLU 3.3 8.3 - - - +
295C ASP* 1.3 90.8 - - - +
297C TYR* 1.3 80.1 + - + +
299C ILE* 3.6 11.2 - - + +
300C ARG* 2.9 26.9 + - - +
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Residues in contact with TYR 297 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
295C ASP* 2.9 14.1 + - - +
296C PRO* 1.3 94.6 - - + +
298C THR* 1.3 62.0 + - - +
300C ARG* 3.4 18.0 + - - +
301C SER* 3.0 33.6 + - - -
365C GLU* 6.0 2.9 - - - +
366C VAL* 5.4 0.2 - - - -
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Residues in contact with THR 298 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
406B LEU* 3.9 11.7 - - + -
277C THR* 4.3 6.7 - - + -
292C ALA 4.1 10.4 + - - +
295C ASP* 2.8 32.6 + - - +
297C TYR* 1.3 76.4 - - - +
299C ILE* 1.3 61.5 + - - +
301C SER* 3.3 2.6 + - - -
302C TYR* 3.0 47.9 + - + -
366C VAL* 3.8 25.8 + - + +
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Residues in contact with ILE 299 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
398B ILE 4.6 0.5 - - - +
399B ALA* 3.4 35.9 - - + +
402B GLY* 3.3 12.7 - - - +
403B LYS* 3.8 34.5 - - + +
406B LEU* 4.4 11.0 - - + -
407B ASN* 4.6 4.7 - - - +
293C THR 3.6 23.1 - - - +
294C GLU* 3.8 12.8 - - - +
295C ASP 3.0 22.2 + - - +
296C PRO* 3.6 9.0 - - + +
297C TYR 3.3 0.2 - - - -
298C THR* 1.3 73.2 - - - +
300C ARG* 1.3 66.6 + - - +
302C TYR* 3.4 1.8 + - - +
303C GLY* 3.1 17.0 + - - -
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Residues in contact with ARG 300 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
395B SER* 4.0 31.5 + - - +
398B ILE* 3.7 28.8 - - + +
399B ALA* 5.1 5.6 - - + +
296C PRO 2.9 18.4 + - - +
297C TYR* 3.6 20.6 - - + +
299C ILE* 1.3 76.0 - - - +
301C SER* 1.3 64.0 + - - +
303C GLY* 3.1 3.8 + - - -
304C GLU* 2.9 47.5 + - - +
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Residues in contact with SER 301 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
297C TYR 3.0 20.4 + - - -
298C THR 3.5 5.2 - - - -
300C ARG* 1.3 76.4 - - - +
302C TYR* 1.3 57.1 + - - +
304C GLU* 3.2 16.5 + - - +
305C PHE* 3.0 46.2 + - - -
365C GLU* 4.6 14.6 + - - -
366C VAL* 3.7 21.4 - - - +
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Residues in contact with TYR 302 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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402B GLY* 4.1 14.4 - - - +
405B THR* 4.0 15.5 - - + +
406B LEU* 3.8 23.8 - - + -
270C LEU* 3.5 29.4 - - + -
273C ALA* 2.9 25.5 + - + +
274C ARG* 3.3 21.8 - - + -
277C THR* 2.7 26.6 + - - -
298C THR* 3.0 35.5 + - + +
299C ILE 3.9 4.0 - - - +
301C SER* 1.3 75.7 - - - +
303C GLY* 1.3 57.6 + - - +
305C PHE* 3.8 6.4 - + - +
306C THR* 2.8 34.6 + - - -
366C VAL* 3.6 25.0 - - + +
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Residues in contact with GLY 303 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
398B ILE* 3.7 9.4 - - - -
401B VAL* 4.1 4.3 - - - -
402B GLY* 3.4 23.9 - - - -
299C ILE 3.1 7.1 + - - -
300C ARG 3.1 8.0 + - - -
302C TYR* 1.3 77.0 - - - +
304C GLU* 1.3 56.4 + - - +
306C THR* 3.3 2.4 + - - -
307C ILE* 2.8 40.2 + - - +
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Residues in contact with GLU 304 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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398B ILE* 4.1 17.7 - - + +
300C ARG* 2.9 40.7 + - - +
301C SER* 3.5 23.0 + - - +
303C GLY* 1.3 72.2 - - - +
305C PHE* 1.3 70.0 + - + +
307C ILE* 3.8 6.6 - - - +
308C ALA* 2.9 27.8 + - - +
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Residues in contact with PHE 305 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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270C LEU* 3.7 33.7 - - + -
301C SER* 3.0 42.7 + - - +
302C TYR* 3.8 5.4 - + - +
304C GLU* 1.3 82.3 - - + +
306C THR* 1.3 63.1 + - - +
308C ALA* 4.8 0.9 - - - -
309C LEU* 3.2 17.8 + - - +
358C ASN* 4.1 16.6 - - - -
359C ILE* 3.4 41.1 - - + +
362C GLY* 3.4 34.5 - - - -
363C VAL* 3.6 18.6 - - + -
365C GLU* 6.1 0.4 - - - -
366C VAL* 4.4 10.5 - - + -
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Residues in contact with THR 306 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
343B VAL* 6.0 1.8 - - + -
401B VAL* 3.4 22.0 - - + -
405B THR* 2.5 33.7 + - - +
270C LEU* 4.1 10.6 - - + +
302C TYR 2.8 19.2 + - - -
303C GLY 3.5 4.3 - - - -
305C PHE* 1.3 75.6 - - - +
307C ILE* 1.3 52.7 + - - +
309C LEU* 3.1 7.7 + - - +
310C GLN* 2.8 38.4 + - + +
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Residues in contact with ILE 307 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
347B GLY* 3.8 20.4 - - - +
350B ALA* 4.0 14.8 - - + -
351B LEU* 3.5 34.9 - - + +
397B LYS 5.1 0.2 - - - +
398B ILE* 3.8 36.8 - - + -
401B VAL* 4.1 16.6 - - + -
303C GLY 2.8 28.9 + - - +
304C GLU* 3.8 6.3 - - - +
306C THR* 1.3 73.2 - - - +
308C ALA* 1.3 63.3 + - - +
310C GLN* 3.2 18.5 + - - +
311C GLY 3.2 10.6 + - - -
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Residues in contact with ALA 308 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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351B LEU* 4.9 5.3 - - - +
304C GLU 2.9 17.5 + - - +
305C PHE* 3.8 4.7 - - - +
307C ILE* 1.3 78.4 - - - +
309C LEU* 1.3 62.0 + - - +
311C GLY* 3.7 1.0 + - - -
312C ALA* 3.2 23.3 + - - +
351C LEU* 5.9 0.5 - - - +
354C ASN* 6.1 0.4 - - - +
355C ALA* 4.3 14.2 - - + +
358C ASN* 5.8 4.0 - - + +
359C ILE* 4.5 10.8 - - + -
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Residues in contact with LEU 309 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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263C LEU* 3.8 29.4 - - + +
266C ALA* 3.8 32.1 - - + +
267C HIS* 3.9 28.9 - - + +
270C LEU* 4.2 18.4 - - + -
305C PHE 3.2 5.8 + - - +
306C THR* 3.1 8.6 + - - +
308C ALA* 1.3 76.6 - - - +
310C GLN* 1.3 59.4 + - - +
312C ALA* 4.4 1.3 - - - -
313C ASP* 2.8 45.3 + - - +
355C ALA* 4.6 5.2 - - + -
359C ILE* 3.4 25.4 - - + -
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Residues in contact with GLN 310 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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315B ALA* 4.1 11.9 + - + +
318B GLU* 5.5 4.8 + - - +
319B ALA* 5.5 0.2 - - - +
343B VAL 4.6 2.4 - - - +
344B LYS* 2.9 55.3 + - + +
347B GLY* 3.3 25.8 - - - -
348B VAL* 3.5 19.2 - - - +
351B LEU* 4.5 1.1 - - + -
401B VAL* 5.4 1.4 - - - +
306C THR* 2.8 22.8 + - + +
307C ILE* 3.4 14.8 - - - +
309C LEU* 1.3 74.6 - - - +
311C GLY* 1.3 60.6 + - - +
313C ASP* 4.1 3.5 - - - +
314C ALA* 3.2 22.3 + - - +
317C ARG* 4.8 3.7 + - - +
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Residues in contact with GLY 311 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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311B GLY* 3.4 38.4 - - - +
315B ALA* 4.1 1.6 - - - -
351B LEU* 3.8 16.3 - - - +
307C ILE 3.2 8.1 + - - -
308C ALA 4.1 1.8 - - - -
310C GLN* 1.3 78.8 - - - +
312C ALA* 1.3 62.5 + - - +
314C ALA 3.5 0.7 + - - -
315C ALA* 3.2 17.5 + - - +
351C LEU* 4.9 0.7 - - - -
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Residues in contact with ALA 312 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263C LEU* 3.7 25.4 - - + +
308C ALA 3.2 18.4 + - - +
309C LEU* 3.3 3.3 + - - +
311C GLY* 1.3 74.1 - - - +
313C ASP* 1.3 61.3 + - - +
315C ALA* 3.5 3.5 + - - +
316C ALA* 3.1 26.9 + - - +
348C VAL* 4.8 2.8 - - - +
351C LEU* 3.9 37.8 - - + +
352C ALA 4.5 0.2 - - - +
355C ALA* 4.4 2.9 - - + -
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Residues in contact with ASP 313 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81C ARG* 2.9 31.4 + - - +
263C LEU* 3.5 17.5 - - - +
267C HIS* 2.7 31.0 + - - -
309C LEU* 2.8 25.1 + - - +
310C GLN* 4.1 2.8 - - - +
312C ALA* 1.3 68.9 - - - +
314C ALA* 1.3 60.1 + - - +
316C ALA* 3.3 5.7 + - - +
317C ARG* 2.8 55.6 + - - +
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Residues in contact with ALA 314 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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314B ALA* 3.4 36.3 - - + +
315B ALA* 3.4 8.1 - - - +
318B GLU* 3.9 20.6 - - - +
310C GLN 3.2 16.5 + - - +
311C GLY 3.7 2.5 - - - +
313C ASP* 1.3 78.5 - - - +
315C ALA* 1.3 56.8 + - - +
317C ARG* 3.3 5.5 + - - +
318C GLU* 2.9 32.1 + - - +
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Residues in contact with ALA 315 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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310B GLN* 4.1 20.8 + - + +
314B ALA* 3.5 8.4 - - - +
311C GLY 3.2 7.2 + - - +
312C ALA 3.7 7.9 - - - +
314C ALA* 1.3 75.8 - - - +
316C ALA* 1.3 65.2 + - - +
318C GLU* 3.3 6.2 + - - +
319C ALA* 3.0 24.4 + - - +
344C LYS* 5.0 1.8 + - - +
348C VAL* 3.6 14.2 - - + +
351C LEU* 3.7 26.0 - - + -
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Residues in contact with ALA 316 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77C ILE* 6.4 0.4 - - - -
81C ARG* 4.6 1.1 - - - +
256C LEU* 4.2 4.5 - - - +
260C ASN* 3.7 27.0 + - - +
263C LEU* 3.7 15.0 - - + -
312C ALA 3.1 14.2 + - - +
313C ASP* 3.3 8.5 + - - +
315C ALA* 1.3 76.5 - - - +
317C ARG* 1.3 56.9 + - + +
319C ALA* 3.1 3.8 + - - +
320C ALA* 2.9 28.5 + - - +
348C VAL* 3.7 20.7 - - + +
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Residues in contact with ARG 317 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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318B GLU* 3.0 41.1 + - - +
344B LYS* 5.2 4.6 - - - +
78C GLU* 4.5 19.0 + - - +
81C ARG* 4.5 9.3 - - - +
310C GLN* 4.8 3.2 + - - +
313C ASP* 2.8 48.7 + - - +
314C ALA* 3.5 8.7 - - - +
316C ALA* 1.3 73.1 - - + +
318C GLU* 1.3 61.0 + - + +
320C ALA* 3.4 8.4 + - - +
321C HIS* 3.2 33.8 + - + +
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Residues in contact with GLU 318 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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310B GLN* 5.2 0.9 - - - +
314B ALA* 3.6 18.9 - - + +
317B ARG* 2.7 49.6 + - - +
314C ALA 2.9 17.1 + - - +
315C ALA* 3.6 7.7 - - - +
317C ARG* 1.3 74.9 - - + +
319C ALA* 1.3 58.1 + - - +
321C HIS* 3.1 14.8 + - + +
322C LEU* 3.0 26.0 + - - +
344C LYS* 3.0 27.6 + - - +
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Residues in contact with ALA 319 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256C LEU* 3.6 16.4 - - + +
315C ALA 3.0 16.8 + - - +
316C ALA 3.7 3.8 - - - +
318C GLU* 1.3 73.1 - - - +
320C ALA* 1.3 60.1 + - - +
322C LEU* 3.8 10.0 - - - +
323C LEU* 3.0 26.2 + - - +
341C LEU* 4.1 3.9 - - + +
344C LYS* 4.5 21.0 - - + +
345C VAL* 4.6 7.4 - - + -
348C VAL* 4.0 16.6 - - + -
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Residues in contact with ALA 320 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73C TRP* 4.3 1.0 - - - +
74C PRO* 3.7 31.8 - - + +
77C ILE* 3.7 28.3 - - + -
256C LEU* 3.8 9.2 - - - +
316C ALA 2.9 13.2 + - - +
317C ARG* 3.6 12.3 - - - +
319C ALA* 1.3 74.0 - - - +
321C HIS* 1.3 65.1 + - - +
323C LEU* 3.4 4.7 + - - +
324C GLN 3.2 15.1 + - - -
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Residues in contact with HIS 321 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74C PRO* 3.7 26.4 - - + +
317C ARG* 3.2 25.7 + - + +
318C GLU* 3.1 11.5 + - + +
320C ALA* 1.3 76.0 - - - +
322C LEU* 1.3 63.3 + - - +
324C GLN* 3.2 8.9 + - - +
325C THR* 3.1 26.1 + - - -
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Residues in contact with LEU 322 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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318C GLU 3.0 14.7 + - - +
319C ALA* 4.0 7.9 - - - +
320C ALA 3.3 0.2 - - - -
321C HIS* 1.3 73.6 - - - +
323C LEU* 1.3 64.6 + - - +
325C THR* 4.5 11.9 - - + +
326C VAL* 3.2 38.6 + - + +
340C GLU* 4.7 5.6 - - + +
341C LEU* 3.9 25.4 - - + +
344C LYS* 4.0 33.2 - - + -
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Residues in contact with LEU 323 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73C TRP* 3.8 42.6 - - + +
77C ILE* 4.9 2.0 - - + -
249C LEU* 5.3 6.1 - - + +
252C PRO* 4.9 2.2 - - + +
253C ILE* 4.0 36.3 - - + +
256C LEU* 4.0 20.2 - - + -
319C ALA 3.0 19.5 + - - +
320C ALA 3.5 5.8 - - - +
321C HIS 3.3 0.4 - - - -
322C LEU* 1.3 76.6 - - - +
324C GLN* 1.3 56.4 + - - +
326C VAL* 3.5 1.0 + - - +
327C TRP* 2.8 35.4 + - + +
341C LEU* 3.7 28.6 - - + +
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Residues in contact with GLN 324 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72C ASP* 3.3 18.3 - - + +
73C TRP* 2.7 41.5 + - - -
74C PRO* 4.4 6.3 - - + -
320C ALA 3.2 9.0 + - - +
321C HIS* 3.2 11.9 + - - +
323C LEU* 1.3 77.3 - - - +
325C THR* 1.3 60.1 + - - +
327C TRP* 3.3 15.8 + - - +
328C ASP* 2.8 66.0 + - - +
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Residues in contact with THR 325 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
321C HIS 3.1 14.5 + - - -
322C LEU* 4.0 17.3 - - + +
324C GLN* 1.3 75.6 - - - +
326C VAL* 1.3 62.5 + - + +
328C ASP* 3.4 8.5 + - - +
329C LYS* 3.2 41.9 + - - +
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Residues in contact with VAL 326 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246C ARG* 5.5 0.3 + - - -
249C LEU* 3.7 33.2 - - + +
322C LEU* 3.2 27.0 + - + +
323C LEU* 3.8 3.6 - - + +
325C THR* 1.3 74.0 - - + +
327C TRP* 1.3 66.2 + - - +
329C LYS* 3.4 22.4 + - + +
330C GLY 3.9 3.3 + - - +
333C LEU* 3.7 21.0 - - + +
337C ASP* 4.1 31.0 - - + +
341C LEU* 4.1 16.2 - - + -
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Residues in contact with TRP 327 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73C TRP* 3.4 41.0 - + - +
102C PRO* 4.3 12.3 - - + -
105C GLU* 3.5 41.4 + - + -
106C LEU* 4.2 12.3 - - + -
246C ARG* 2.9 45.7 + - - +
249C LEU* 4.3 15.9 - - + +
253C ILE* 4.1 16.6 - - + -
323C LEU* 2.8 20.6 + - + +
324C GLN* 3.5 16.8 - - - +
325C THR 3.3 0.2 - - - -
326C VAL* 1.3 77.3 - - - +
328C ASP* 1.3 74.4 + - - +
330C GLY* 3.2 6.8 + - - -
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Residues in contact with ASP 328 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
324C GLN* 2.8 50.9 + - - +
325C THR* 3.9 7.3 + - - +
326C VAL 3.3 0.2 - - - -
327C TRP* 1.3 78.7 - - - +
329C LYS* 1.3 63.8 + - - +
330C GLY* 3.2 1.8 + - - -
----------------------------------------------------------
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Residues in contact with LYS 329 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
325C THR* 3.2 35.4 + - + +
326C VAL* 3.5 16.1 - - + +
327C TRP 3.2 0.4 - - - -
328C ASP* 1.3 77.8 - - - +
330C GLY* 1.3 61.5 + - - +
331C ASP 3.6 0.5 + - - -
332C ALA* 3.5 22.5 + - + +
333C LEU* 4.2 15.9 - - + +
334C THR* 6.1 0.2 - - - -
337C ASP* 3.6 36.5 + - + +
----------------------------------------------------------
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Residues in contact with GLY 330 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246C ARG* 3.5 28.7 + - - -
249C LEU* 6.0 0.2 - - - +
326C VAL 3.9 1.5 + - - +
327C TRP 3.2 7.4 + - - -
328C ASP 3.2 4.9 - - - -
329C LYS* 1.3 75.5 - - - +
331C ASP* 1.3 64.4 + - - -
332C ALA 3.3 0.9 + - - -
333C LEU* 3.4 21.8 + - - +
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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