Contacts of the helix formed by residues 379 - 410 (chain C) in PDB entry 3BRW
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 ALA 379 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315C HIS* 4.2 17.7 - - + +
341C ASP* 3.3 41.8 + - + +
342C VAL* 5.0 0.2 - - + -
375C ALA 4.1 1.6 + - - -
376C CYS* 3.1 22.0 + - - +
378C LYS* 1.3 75.7 - - - +
380C GLU* 1.3 67.2 + - - +
381C LYS 3.2 1.1 - - - -
382C PHE* 2.8 19.3 + - + +
383C ALA 3.1 5.4 + - - -
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Residues in contact with GLU 380 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
341C ASP* 3.4 15.3 + - - +
378C LYS 3.5 2.6 + - - -
379C ALA* 1.3 69.3 - - - +
381C LYS* 1.3 65.8 + - + +
383C ALA* 3.2 18.5 + - - +
384C LYS* 3.3 40.8 + - + +
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Residues in contact with LYS 381 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
312C ASN* 3.7 28.9 + - - +
315C HIS* 4.3 23.6 - - + +
341C ASP* 5.4 2.2 - - - +
379C ALA 2.8 5.3 + - - -
380C GLU* 1.3 77.5 - - + +
382C PHE* 1.3 73.4 - - + +
384C LYS* 3.8 9.6 - - - +
385C LEU* 3.7 18.1 + - - +
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Residues in contact with PHE 382 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
292C ILE* 4.0 40.4 - - + -
312C ASN 5.4 0.2 - - - -
313C PHE* 4.7 24.9 - + - -
315C HIS* 3.5 34.8 - + - -
376C CYS* 3.4 20.0 - - + -
377C TYR* 3.6 43.7 - + + +
379C ALA* 2.8 9.4 + - + +
381C LYS* 1.3 78.4 - - + +
383C ALA* 1.3 60.8 + - - +
384C LYS 3.4 0.9 - - - -
385C LEU* 3.4 18.8 - - + +
386C GLU* 2.9 34.1 + - - +
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Residues in contact with ALA 383 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
377C TYR 3.5 6.8 + - - +
378C LYS* 3.4 26.2 - - + +
379C ALA 3.1 4.4 + - - +
380C GLU* 3.2 18.3 + - - +
382C PHE* 1.3 78.3 - - - +
384C LYS* 1.3 56.5 + - - +
386C GLU* 3.7 4.8 + - - +
387C GLU* 3.3 34.5 + - - +
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Residues in contact with LYS 384 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
380C GLU* 3.3 36.7 + - + +
381C LYS* 3.8 9.6 - - - +
383C ALA* 1.3 76.1 - - - +
385C LEU* 1.3 67.1 + - - +
386C GLU 3.4 0.2 - - - -
387C GLU* 3.8 15.8 + - - +
388C ARG* 3.1 42.8 + - - +
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Residues in contact with LEU 385 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
313C PHE* 5.7 9.4 - - + -
377C TYR* 4.9 10.5 - - + -
381C LYS 3.7 13.0 - - - +
382C PHE* 3.3 25.0 + - + +
384C LYS* 1.3 80.1 - - - +
386C GLU* 1.3 65.3 + - + +
388C ARG* 3.1 16.8 + - - +
389C THR* 2.8 52.2 + - + +
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Residues in contact with GLU 386 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187C HIS* 3.9 20.9 + - - -
188C VAL* 4.0 20.2 - - - +
377C TYR* 3.6 36.3 - - + +
382C PHE 2.9 19.6 + - - +
383C ALA* 4.0 6.3 - - - +
385C LEU* 1.3 78.1 - - + +
387C GLU* 1.3 53.6 + - + +
388C ARG 2.8 8.4 + - - -
389C THR* 4.0 11.0 - - - -
390C ARG* 2.7 39.5 + - - +
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Residues in contact with GLU 387 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134C LYS* 4.2 17.0 - - - +
135C CYS* 3.9 33.6 - - - +
383C ALA* 3.3 21.2 + - - +
384C LYS* 4.1 15.6 - - - +
385C LEU 3.3 0.4 - - - -
386C GLU* 1.3 77.1 - - + +
388C ARG* 1.3 57.1 + - - +
390C ARG* 4.8 4.7 - - - +
391C ALA* 3.4 18.4 - - - +
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Residues in contact with ARG 388 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
384C LYS* 3.1 44.2 + - - +
385C LEU* 3.1 11.6 + - - +
386C GLU 2.9 0.2 - - - -
387C GLU* 1.3 80.8 - - - +
389C THR* 1.3 63.9 + - - +
390C ARG 3.2 1.1 - - - -
391C ALA* 3.7 9.0 - - + +
392C ALA* 3.1 24.1 + - - +
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Residues in contact with THR 389 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187C HIS* 4.7 6.3 - - + -
385C LEU* 2.8 40.5 + - + +
386C GLU* 3.7 17.5 - - - +
388C ARG* 1.3 77.7 - - - +
390C ARG* 1.3 58.9 - - - +
392C ALA* 3.6 4.9 + - - +
393C LEU* 3.4 35.1 + - + +
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Residues in contact with ARG 390 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132C ARG* 4.1 5.5 - - - +
133C THR 3.4 16.2 + - - -
134C LYS 3.4 16.8 - - - +
135C CYS 3.4 16.2 + - - -
136C ARG* 2.9 24.6 + - - +
137C THR* 3.3 26.7 - - - +
184C PHE* 4.0 32.0 - - + -
187C HIS* 4.3 24.9 + - + +
188C VAL* 5.1 8.7 - - + +
386C GLU* 2.7 23.4 + - - +
387C GLU* 4.8 2.0 - - - +
389C THR* 1.3 70.1 - - - +
391C ALA* 1.3 60.5 + - - +
392C ALA 3.1 2.0 - - - -
393C LEU* 3.0 5.2 + - - +
394C LEU* 2.9 31.0 + - + +
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Residues in contact with ALA 391 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111C HIS* 5.5 1.0 - - - -
134C LYS* 3.6 35.3 + - + +
387C GLU 3.4 21.8 + - - +
388C ARG* 3.5 12.0 + - + +
389C THR 3.5 0.6 - - - -
390C ARG* 1.3 79.1 - - - +
392C ALA* 1.3 59.9 + - - +
394C LEU* 4.2 3.9 - - - +
395C GLU* 3.3 23.4 + - - +
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Residues in contact with ALA 392 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
388C ARG 3.1 16.7 + - - +
389C THR* 3.9 6.1 - - - +
390C ARG 3.1 0.6 - - - -
391C ALA* 1.3 76.1 - - - +
393C LEU* 1.3 63.1 + - + +
395C GLU* 3.3 6.8 + - - +
396C THR* 3.2 27.0 + - - +
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Residues in contact with LEU 393 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184C PHE* 3.9 19.2 - - + -
187C HIS* 3.4 46.4 - - + +
389C THR* 3.4 22.8 + - + +
390C ARG 3.0 5.0 + - - +
392C ALA* 1.3 78.3 - - + +
394C LEU* 1.3 59.5 + - - +
396C THR* 3.2 9.8 + - - +
397C LEU* 2.9 30.0 + - - +
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Residues in contact with LEU 394 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111C HIS* 3.7 25.1 - - + +
113C VAL* 3.8 32.3 - - + +
132C ARG* 4.1 9.9 - - + +
133C THR 3.6 8.3 - - - +
134C LYS* 3.4 39.5 - - + +
184C PHE* 3.8 24.7 - - + -
390C ARG* 2.9 17.3 + - + +
391C ALA 4.3 3.1 - - - +
393C LEU* 1.3 76.4 - - - +
395C GLU* 1.3 56.9 + - - +
397C LEU* 3.9 7.6 - - + -
398C TYR* 3.1 26.5 + - - +
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Residues in contact with GLU 395 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111C HIS* 3.5 33.1 + - + +
391C ALA 3.3 20.5 + - - +
392C ALA* 3.5 7.4 - - - +
393C LEU 3.1 0.4 - - - -
394C LEU* 1.3 76.7 - - - +
396C THR* 1.3 75.9 + - - +
398C TYR* 3.6 3.1 + - - +
399C GLU* 3.3 36.1 + - - +
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Residues in contact with THR 396 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
392C ALA 3.2 12.2 + - - +
393C LEU* 3.2 18.5 + - - +
395C GLU* 1.3 85.8 - - - +
397C LEU* 1.3 63.9 + - - +
399C GLU* 3.6 6.3 + - - +
400C GLU* 3.2 30.0 + - - +
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Residues in contact with LEU 397 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113C VAL* 3.9 32.8 - - + -
132C ARG* 5.7 0.2 - - - +
180C LEU* 3.7 47.6 - - + +
181C ILE* 4.2 10.1 - - + +
184C PHE* 4.2 27.6 - - + -
393C LEU 2.9 18.8 + - - +
394C LEU* 4.0 9.4 - - + +
396C THR* 1.3 74.0 + - - +
398C TYR* 1.3 65.3 + - - +
400C GLU* 3.2 6.7 + - - +
401C LEU* 3.1 34.5 + - + +
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Residues in contact with TYR 398 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103C TYR* 3.5 38.7 - + + -
104C SER* 3.6 22.3 - - - -
105C LEU* 3.6 25.6 + - + +
111C HIS* 3.6 36.6 - + + +
112C LEU 3.9 14.8 - - - -
113C VAL* 4.5 9.6 - - + -
170C TYR* 5.4 2.6 - - - -
394C LEU 3.1 17.5 + - - +
395C GLU 3.7 4.7 - - - +
397C LEU* 1.3 79.6 - - - +
399C GLU* 1.3 82.0 + - - +
401C LEU* 3.3 4.8 + - - +
402C HIS* 3.0 35.8 + + + +
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Residues in contact with GLU 399 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111C HIS* 4.7 4.3 - - - -
395C GLU* 3.3 32.2 + - - +
396C THR* 3.8 7.2 - - - +
397C LEU 3.3 0.6 - - - -
398C TYR* 1.3 100.7 - - - +
400C GLU* 1.3 55.4 + - + +
402C HIS* 3.1 9.1 + - - +
403C ILE* 2.8 56.3 + - + +
----------------------------------------------------------
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Residues in contact with GLU 400 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174C TYR* 4.7 1.3 + - - -
180C LEU* 4.1 25.5 - - + +
396C THR* 3.2 22.3 + - - +
397C LEU* 3.2 6.3 + - - +
399C GLU* 1.3 77.0 - - + +
401C LEU* 1.3 62.1 + - - +
403C ILE* 4.9 3.1 - - - -
404C HIS* 3.1 56.2 + - - +
----------------------------------------------------------
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Residues in contact with LEU 401 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103C TYR* 4.5 8.9 - - + -
113C VAL* 4.1 33.7 - - + -
172C VAL* 3.8 29.2 - - + -
174C TYR* 4.8 5.1 - - + +
177C ALA* 3.7 36.6 - - + +
180C LEU* 4.5 12.8 - - + -
181C ILE* 4.6 6.7 - - + -
397C LEU* 3.1 29.1 + - + +
398C TYR* 3.7 5.2 - - - +
400C GLU* 1.3 74.8 - - - +
402C HIS* 1.3 59.1 + - - +
404C HIS* 4.0 2.0 - - - +
405C SER* 2.8 36.6 + - - -
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Residues in contact with HIS 402 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103C TYR* 3.1 47.1 + + + -
170C TYR* 5.7 1.6 - + - -
398C TYR* 3.0 28.4 + + + +
399C GLU* 3.6 10.7 + - - +
401C LEU* 1.3 75.5 - - - +
403C ILE* 1.3 79.7 + - + +
405C SER* 3.3 1.9 + - - -
406C GLN* 3.0 59.7 + - + +
----------------------------------------------------------
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Residues in contact with ILE 403 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
399C GLU* 2.8 38.9 + - + +
400C GLU* 4.4 3.6 - - - +
402C HIS* 1.3 87.3 - - + +
404C HIS* 1.3 73.7 + - + +
406C GLN* 3.3 10.3 + - + +
407C SER* 3.2 22.7 + - - +
----------------------------------------------------------
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Residues in contact with HIS 404 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148B THR* 5.9 5.2 - - + -
174C TYR* 3.3 60.9 + + + +
400C GLU* 3.1 45.4 + - - +
403C ILE* 1.3 85.2 - - + +
405C SER* 1.3 59.5 + - - +
407C SER* 2.8 20.4 + - - -
408C MET* 3.4 21.2 + - - +
----------------------------------------------------------
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Residues in contact with SER 405 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103C TYR* 4.8 6.3 - - - -
171C PRO 4.0 11.4 - - - -
172C VAL* 3.6 4.5 - - - +
173C LEU* 2.8 36.7 + - - +
174C TYR 3.8 3.5 + - - -
401C LEU 2.8 23.1 + - - -
402C HIS* 3.9 3.8 - - - -
404C HIS* 1.3 74.3 - - - +
406C GLN* 1.3 67.6 + - - +
407C SER 3.1 1.5 + - - -
408C MET* 3.3 13.9 + - - +
409C MET* 3.4 18.7 + - - +
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Residues in contact with GLN 406 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103C TYR* 5.4 1.7 + - - +
402C HIS* 3.0 53.6 + - + +
403C ILE* 3.3 12.6 - - + +
405C SER* 1.3 76.2 - - - +
407C SER* 1.3 61.5 + - - +
409C MET* 3.5 6.2 + - - +
410C GLY 3.3 24.1 + - - +
411C LEU* 3.9 10.6 + - + +
----------------------------------------------------------
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Residues in contact with SER 407 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149B GLU* 5.8 3.1 - - - -
150B PHE 6.0 2.9 - - - -
152B ASN* 3.4 13.3 + - - +
403C ILE* 3.2 7.7 + - - -
404C HIS* 2.8 31.9 + - - -
406C GLN* 1.3 76.1 - - - +
408C MET* 1.3 67.0 + - - +
409C MET 3.0 3.5 + - - -
410C GLY* 3.3 10.2 + - - -
411C LEU* 4.2 16.0 + - - -
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Residues in contact with MET 408 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102B TYR* 4.2 9.6 - - - +
116B LEU* 6.3 0.2 - - - -
150B PHE* 4.0 22.9 - - + +
151B PRO 3.6 21.1 - - - +
152B ASN* 3.2 6.4 - - - +
153B VAL* 2.9 36.7 + - + +
156B MET* 3.9 15.7 - - + -
173C LEU* 3.4 36.1 - - + +
174C TYR* 4.4 5.4 - - + -
175C PRO* 3.9 20.0 - - + -
404C HIS* 3.4 21.3 + - - +
405C SER* 3.3 8.7 + - - +
407C SER* 1.3 83.8 + - - +
409C MET* 1.3 57.6 + - - +
----------------------------------------------------------
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Residues in contact with MET 409 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102B TYR* 5.0 4.0 - - - -
152B ASN* 4.4 8.2 - - - +
153B VAL* 4.6 8.0 - - - +
154B VAL* 4.6 2.9 - - - +
167B ASP 4.5 5.4 - - - +
168B ARG* 4.4 29.2 - - + +
169B PHE 3.5 25.8 - - - +
170B TYR* 4.9 7.2 - - + -
171B PRO* 4.7 13.2 - - + -
173C LEU* 3.7 26.0 - - + -
405C SER 3.4 13.7 + - - +
406C GLN* 3.7 7.4 - - - +
407C SER 3.0 1.5 - - - -
408C MET* 1.3 80.5 - - - +
410C GLY* 1.3 60.0 + - - +
----------------------------------------------------------
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Residues in contact with GLY 410 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152B ASN* 5.0 7.9 - - - -
406C GLN 3.3 7.8 + - - +
407C SER 3.3 6.4 + - - -
409C MET* 1.3 84.5 - - - +
411C LEU* 1.3 61.1 + - - +
----------------------------------------------------------
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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