Contacts of the helix formed by residues 290 - 316 (chain C) in PDB entry 1U3Q
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 290 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
288C PRO* 3.5 14.6 - - + +
289C PHE* 1.3 76.4 - - - +
291C GLU* 1.3 66.7 + - - +
292C ALA* 2.7 12.9 + - - +
293C SER* 2.7 34.8 + - - -
294C MET* 3.0 9.5 + - - +
369C CYS* 4.5 2.2 - - - -
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Residues in contact with GLU 291 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
290C THR* 1.3 71.5 - - - +
292C ALA* 1.3 60.6 + - - +
295C MET* 3.4 25.1 + - - +
369C CYS 3.4 25.4 + - - +
370C VAL* 4.0 21.7 - - + +
371C GLU* 3.9 20.3 + - - +
479C MET* 4.9 7.2 - - - +
482C LYS* 3.8 25.0 + - - -
484C VAL* 3.2 28.3 - - + +
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Residues in contact with ALA 292 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
290C THR* 2.7 14.0 + - - +
291C GLU* 1.3 75.5 - - - +
293C SER* 1.3 66.2 + - - +
294C MET 3.2 0.2 + - - -
295C MET* 3.4 2.8 + - - +
296C MET* 3.2 23.0 + - - +
484C VAL* 4.9 19.2 - - + +
485C VAL* 5.0 1.4 - - - +
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Residues in contact with SER 293 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
285C PRO* 3.8 24.9 - - - -
287C ALA* 5.6 1.1 - - - -
288C PRO 4.0 2.6 + - - -
289C PHE* 3.2 11.9 - - - -
290C THR* 2.7 43.5 + - - -
292C ALA* 1.3 76.6 - - - +
294C MET* 1.3 55.9 + - - +
296C MET* 3.5 10.6 + - - +
297C SER* 2.7 33.5 + - - -
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Residues in contact with MET 294 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
289C PHE* 3.6 28.7 - - + -
290C THR 3.0 12.3 + - - +
293C SER* 1.3 76.0 + - - +
295C MET* 1.3 66.2 + - - +
297C SER* 3.0 5.0 + - - -
298C LEU* 2.9 42.7 + - + +
362C LEU* 3.7 24.2 - - + -
366C GLU* 3.4 25.4 - - - +
367C GLY* 3.8 16.8 - - - +
369C CYS* 3.9 9.4 - - + -
370C VAL* 3.3 35.9 - - + -
373C ILE* 4.2 5.2 - - + -
377C PHE* 4.4 5.4 - - + -
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Residues in contact with MET 295 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
291C GLU* 3.4 18.2 + - + +
292C ALA 3.4 1.8 + - - +
294C MET* 1.3 78.9 - - - +
296C MET* 1.3 50.4 + - - +
298C LEU* 4.1 10.0 - - + +
299C THR* 2.5 42.5 + - - +
370C VAL* 3.7 11.9 - - + -
373C ILE* 3.6 20.0 - - + -
475C HIS* 3.3 28.5 - - + -
476C LEU* 4.4 10.3 - - - -
479C MET* 3.7 31.0 - - - -
484C VAL* 5.4 0.7 - - + -
485C VAL* 3.0 31.2 - - + -
501C 272 3.8 11.9 - - - +
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Residues in contact with MET 296 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
282C ILE* 6.1 0.4 - - + -
285C PRO* 5.2 11.9 - - + -
292C ALA 3.2 15.7 + - - +
293C SER* 3.6 8.7 - - - +
294C MET 3.1 0.6 - - - -
295C MET* 1.3 74.9 - - - +
297C SER* 1.3 74.6 + - - +
299C THR* 2.9 5.7 + - - -
300C LYS* 2.8 51.0 + - + +
485C VAL* 4.4 6.4 - - + +
486C PRO* 5.8 5.6 - - + -
488C TYR* 3.3 16.7 + - + +
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Residues in contact with SER 297 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
282C ILE* 2.9 36.9 - - - +
283C SER 4.9 2.1 + - - -
285C PRO* 3.9 11.1 - - - +
289C PHE* 3.6 20.8 - - - -
293C SER 2.7 18.4 + - - -
294C MET* 3.0 8.9 + - - -
296C MET* 1.3 87.5 - - - +
298C LEU* 1.3 63.2 + - - +
301C LEU* 3.1 10.2 + - - +
360C LEU* 4.6 13.0 - - - +
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Residues in contact with LEU 298 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
294C MET* 2.9 33.5 + - + +
295C MET* 4.1 12.1 - - + +
297C SER* 1.3 80.5 - - - +
299C THR* 1.3 51.5 + - - +
301C LEU* 3.3 6.7 + - + +
302C ALA* 2.7 35.4 + - - +
356C PHE* 3.8 40.8 - - + -
360C LEU* 4.5 9.9 - - + -
362C LEU* 4.8 6.5 - - + -
373C ILE* 3.9 28.0 - - + -
377C PHE* 4.6 6.7 - - + -
501C 272 4.0 27.7 - - + -
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Residues in contact with THR 299 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
295C MET* 2.5 30.4 + - - +
296C MET* 2.9 12.3 + - - -
298C LEU* 1.3 73.3 - - + +
300C LYS* 1.3 52.6 + - - -
302C ALA* 3.6 6.9 - - - +
303C ASP* 2.7 36.4 + - - +
476C LEU* 3.8 29.8 - - + -
485C VAL* 3.8 13.8 - - + +
486C PRO 5.2 0.9 - - - +
488C TYR* 3.1 23.4 + - - -
491C LEU* 4.0 16.8 - - + +
501C 272 5.2 1.8 - - + -
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Residues in contact with LYS 300 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
281C LEU 5.5 0.8 + - - -
282C ILE* 4.0 22.3 - - + +
296C MET* 2.8 37.0 + - + +
297C SER 4.1 2.0 - - - +
299C THR* 1.3 72.9 + - - +
301C LEU* 1.3 56.9 + - - +
303C ASP* 3.4 1.8 - - - +
304C LYS* 2.9 64.3 + - + +
488C TYR* 3.2 19.0 - - + +
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Residues in contact with LEU 301 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
280C VAL* 3.6 31.2 - - + +
282C ILE* 3.9 16.5 - - + +
297C SER 3.1 17.4 + - - +
298C LEU* 3.3 4.7 - - - +
300C LYS* 1.3 80.0 - - - +
302C ALA* 1.3 64.3 + - - +
304C LYS* 3.2 7.8 + - - +
305C GLU* 2.9 36.2 + - - +
356C PHE* 3.6 45.3 - - + +
360C LEU* 4.4 8.5 - - + -
501C 272 3.8 17.7 - - + +
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Residues in contact with ALA 302 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
298C LEU 2.7 19.8 + - - +
299C THR* 3.6 8.3 - - - +
301C LEU* 1.3 72.3 - - - +
303C ASP* 1.3 58.1 + - - +
305C GLU* 3.1 13.5 + - - +
306C LEU* 2.8 34.9 + - - +
335C TRP* 4.7 3.8 - - + -
339C LEU* 3.9 18.3 - - + +
476C LEU* 6.2 1.8 - - + -
491C LEU* 4.5 14.6 - - + -
501C 272 4.0 12.6 - - + -
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Residues in contact with ASP 303 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
299C THR 2.7 21.7 + - - +
300C LYS* 3.4 5.1 - - - +
302C ALA* 1.3 73.9 - - - +
304C LYS* 1.3 66.3 + - - +
306C LEU* 3.3 16.4 + - - +
307C VAL* 3.7 13.2 + - - +
488C TYR* 3.5 23.0 - - + +
489C ASP* 3.1 26.9 - - - +
490C LEU* 3.5 5.9 + - - +
491C LEU* 3.1 35.9 + - + +
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Residues in contact with LYS 304 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
280C VAL* 4.0 22.2 - - + +
281C LEU 3.4 23.8 + - - +
282C ILE* 5.7 1.3 - - + -
300C LYS* 2.9 49.0 + - + +
301C LEU* 3.7 4.5 - - - +
303C ASP* 1.3 80.7 - - - +
305C GLU* 1.3 60.8 + - - +
307C VAL* 3.5 14.5 + - - +
308C HIS* 3.0 25.7 + - - +
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Residues in contact with GLU 305 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
278C PRO 5.9 1.8 - - - +
280C VAL* 4.0 18.7 + - + +
301C LEU* 2.9 22.1 + - - +
302C ALA* 3.1 6.8 + - - +
304C LYS* 1.3 77.0 - - - +
306C LEU* 1.3 64.2 - - - +
308C HIS* 2.9 21.2 + - + +
309C MET* 3.0 13.4 + - - +
339C LEU* 3.3 23.5 - - + +
346C ARG* 3.5 23.0 + - - -
501C 272 2.4 40.0 - - - +
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Residues in contact with LEU 306 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
302C ALA 2.8 16.3 + - - +
303C ASP* 3.3 9.1 + - - +
305C GLU* 1.3 77.0 - - - +
307C VAL* 1.3 60.4 + - - +
309C MET* 3.6 18.2 + - + +
310C ILE* 3.1 28.8 + - + +
335C TRP* 3.3 40.6 - - + -
339C LEU* 4.6 2.5 - - + -
490C LEU* 3.8 12.8 - - + -
491C LEU* 3.5 42.6 - - + +
494C MET* 3.6 28.9 - - + -
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Residues in contact with VAL 307 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
303C ASP* 3.8 16.6 - - - +
304C LYS* 3.8 10.3 - - - +
305C GLU 3.1 1.0 + - - -
306C LEU* 1.3 76.9 - - - +
308C HIS* 1.3 70.4 + - + +
310C ILE* 3.4 9.4 + - + +
311C SER* 3.0 26.0 + - - +
490C LEU* 4.0 19.3 - - + -
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Residues in contact with HIS 308 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
277C PRO* 4.0 22.4 - - + +
278C PRO* 4.3 28.6 - - + +
280C VAL* 3.4 27.3 - - + +
304C LYS* 3.0 26.9 + - - +
305C GLU* 2.9 8.0 + - + +
307C VAL* 1.3 83.6 - - + +
309C MET* 1.3 58.8 + - - +
311C SER* 3.2 10.9 + - - -
312C TRP* 2.9 27.5 + - - +
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Residues in contact with MET 309 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
277C PRO* 4.9 3.8 - - - +
305C GLU 3.0 10.3 + - - +
306C LEU* 3.7 16.2 - - + +
308C HIS* 1.3 76.1 - - - +
310C ILE* 1.3 52.3 + - + +
312C TRP* 2.8 29.3 + - + +
313C ALA* 2.7 34.6 + - - +
331C LEU* 4.1 21.3 - - + -
334C CYS* 4.9 0.4 - - - -
335C TRP* 3.4 49.8 - - + +
338C VAL* 3.5 25.1 - - + -
339C LEU* 3.8 21.5 - - + -
494C MET* 5.6 0.4 - - - -
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Residues in contact with ILE 310 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
306C LEU* 3.1 17.3 - - + +
307C VAL* 3.6 8.5 - - - +
308C HIS 3.3 0.2 - - - -
309C MET* 1.3 76.7 - - + +
311C SER* 1.3 61.2 + - - +
313C ALA* 3.4 6.8 + - - +
314C LYS* 3.2 39.9 + - + +
331C LEU* 4.5 25.1 - - + -
490C LEU* 3.7 28.7 - - + -
494C MET* 5.5 9.2 - - + -
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Residues in contact with SER 311 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
307C VAL* 3.0 17.7 + - - +
308C HIS* 3.2 12.4 + - - -
309C MET 3.2 0.4 - - - -
310C ILE* 1.3 77.5 - - - +
312C TRP* 1.3 62.6 + - - +
314C LYS* 3.7 8.0 + - - +
315C LYS* 3.3 42.4 + - - +
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Residues in contact with TRP 312 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
272C LEU* 4.8 9.5 + - - +
275C ALA* 3.4 39.5 - - + +
276C GLU* 4.2 8.1 + - - -
277C PRO* 4.1 16.4 - - + -
308C HIS 2.9 12.3 + - - +
309C MET* 2.8 34.9 + - + +
311C SER* 1.3 75.9 - - - +
313C ALA* 1.3 68.1 + - + +
315C LYS* 3.1 15.2 + - - +
316C ILE* 3.4 23.5 + - + +
338C VAL* 3.8 22.9 - - + -
398C LEU 5.1 1.7 + - - -
401C LYS* 3.5 42.6 - - + +
402C ALA* 3.8 25.1 - - + -
405C LEU* 3.7 23.1 - - + -
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Residues in contact with ALA 313 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
309C MET 2.7 16.8 + - - +
310C ILE 3.7 5.4 - - - +
312C TRP* 1.3 73.5 - - + +
314C LYS* 1.3 58.8 + - - +
316C ILE* 2.9 37.3 + - - +
319C PHE* 3.2 34.9 - - + +
331C LEU* 4.1 13.9 - - + -
405C LEU* 3.8 18.2 - - + -
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Residues in contact with LYS 314 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
310C ILE* 3.2 33.3 + - + +
311C SER* 4.1 7.2 - - - +
312C TRP 3.3 0.4 - - - -
313C ALA* 1.3 75.2 - - - +
315C LYS* 1.3 60.1 + - + +
316C ILE 3.2 4.3 + - - +
319C PHE* 3.9 13.0 - - + -
320C VAL* 3.3 38.7 - - + +
327C GLN* 4.8 5.8 - - - +
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Residues in contact with LYS 315 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
271C THR* 5.2 4.5 - - - -
274C GLU* 5.2 2.9 - - + -
275C ALA* 3.6 37.3 - - + +
311C SER* 3.3 29.4 + - - +
312C TRP 3.1 10.5 + - - +
314C LYS* 1.3 76.1 - - + +
316C ILE* 1.3 60.4 + - - +
317C PRO* 3.1 16.5 - - - +
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Residues in contact with ILE 316 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268C LEU* 5.4 3.1 - - + -
272C LEU* 4.3 19.5 - - + -
275C ALA* 5.5 1.6 - - + -
312C TRP* 3.4 37.0 - - + +
313C ALA 2.9 11.3 + - - +
314C LYS 4.1 3.6 - - - +
315C LYS* 1.3 78.0 - - - +
317C PRO* 1.3 73.2 - - + +
318C GLY 3.1 0.3 + - - -
319C PHE* 2.9 25.4 + - + +
320C VAL* 4.5 0.5 + - - +
402C ALA* 4.4 13.5 - - + +
405C LEU* 3.6 31.0 - - + -
406C LEU* 4.9 9.9 - - + -
429C LEU* 4.1 22.0 - - + -
433C VAL* 5.5 1.8 - - + -
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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