Contacts of the helix formed by residues 371 - 395 (chain C) in PDB entry 1R5K
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 371 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
369C ASP 5.7 0.2 - - - +
370C LEU* 1.3 76.8 - - - +
372C LEU* 1.3 64.6 + - - +
373C HIS* 3.8 6.9 + - - +
374C ASP* 3.0 27.4 + - - +
375C GLN* 3.0 20.5 + - - +
471C GLU* 2.9 29.1 + - + +
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Residues in contact with LEU 372 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
362C LYS* 5.8 5.8 - - - +
370C LEU 3.7 1.0 + - - -
371C THR* 1.3 74.1 - - - +
373C HIS* 1.3 66.4 + - + +
375C GLN* 3.2 19.0 + - + +
376C VAL* 3.2 34.2 + - + +
543C MET 4.8 11.4 - - - +
544C LEU* 4.7 26.2 - - + -
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Residues in contact with HIS 373 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
371C THR* 3.2 6.0 + - - +
372C LEU* 1.3 83.7 - - + +
374C ASP* 1.3 72.2 + - - +
376C VAL* 3.6 7.8 + - - +
377C HIS* 3.2 32.6 + + + +
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Residues in contact with ASP 374 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
370C LEU* 4.4 5.2 - - + -
371C THR* 3.0 16.1 + - - +
373C HIS* 1.3 90.3 - - - +
375C GLN* 1.3 63.8 + - - +
376C VAL 3.2 0.4 - - - -
377C HIS* 3.7 3.6 - - - +
378C LEU* 3.0 28.3 + - - +
461C PHE* 3.5 36.9 - - + -
468C SER* 5.2 4.9 - - - -
471C GLU* 2.7 45.0 - - - +
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Residues in contact with GLN 375 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
362C LYS* 4.2 14.7 + - - -
367C PHE* 3.4 62.7 + - + +
368C VAL* 3.4 25.5 + - - +
370C LEU* 2.9 27.8 + - + -
371C THR 3.0 14.0 + - - +
372C LEU* 3.2 19.2 + - + +
374C ASP* 1.3 77.4 - - - +
376C VAL* 1.3 64.0 + - + +
378C LEU* 3.2 2.6 + - - +
379C LEU* 3.1 22.5 + - + +
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Residues in contact with VAL 376 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
372C LEU* 3.2 32.6 + - + +
373C HIS* 3.9 8.1 - - - +
375C GLN* 1.3 77.6 - - + +
377C HIS* 1.3 58.7 + - - +
379C LEU* 3.4 9.6 + - + +
380C GLU* 2.8 34.5 + - - +
541C LEU* 3.9 42.3 - - + +
542C GLU* 4.7 1.6 - - - +
543C MET 4.8 5.2 - - - +
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Residues in contact with HIS 377 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
373C HIS* 3.2 26.8 + + + +
374C ASP* 3.7 7.0 - - - +
375C GLN 3.2 0.2 - - - -
376C VAL* 1.3 78.9 - - - +
378C LEU* 1.3 63.3 + - - +
380C GLU* 3.2 19.5 + - - +
381C CYS* 3.1 44.4 + - - -
457C GLY 3.2 21.6 + - - -
460C THR* 3.2 27.3 + - - -
461C PHE* 3.2 28.3 - + + -
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Residues in contact with LEU 378 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
367C PHE* 4.0 14.8 - - + -
370C LEU* 3.4 33.0 - - + -
374C ASP 3.0 15.9 + - - +
375C GLN 3.6 5.2 - - - +
376C VAL 3.2 0.2 - - - -
377C HIS* 1.3 79.1 - - - +
379C LEU* 1.3 61.2 + - - +
381C CYS* 3.3 2.6 + - - +
382C ALA* 3.2 24.8 + - - +
453C LEU* 3.4 22.0 - - - +
454C LEU* 3.9 22.7 - - + +
457C GLY* 3.9 23.1 + - - -
458C VAL 4.0 0.4 - - - +
461C PHE* 3.5 23.8 - - + -
475C ILE* 3.8 10.8 - - + -
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Residues in contact with LEU 379 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
354C LEU* 5.7 2.0 - - + -
357C MET* 4.1 30.5 - - + +
358C ILE* 4.5 24.2 - - + +
361C ALA* 3.9 16.4 - - + -
367C PHE* 4.2 16.2 - - + -
375C GLN* 3.1 22.7 + - + +
376C VAL* 3.9 8.3 - - + +
378C LEU* 1.3 74.1 - - - +
380C GLU* 1.3 66.3 + - - +
382C ALA* 4.4 1.6 - - - +
383C TRP* 3.1 31.4 + - + +
453C LEU* 3.9 20.0 - - + -
541C LEU* 4.3 17.7 - - + -
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Residues in contact with GLU 380 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
376C VAL* 2.8 24.0 + - - +
377C HIS* 3.2 21.5 + - - +
379C LEU* 1.3 79.2 - - - +
381C CYS* 1.3 61.8 + - - +
383C TRP* 3.6 14.7 + - + -
522C MET* 5.0 5.5 - - - +
538C ASP* 5.3 9.6 - - - +
541C LEU* 4.3 30.5 - - + +
542C GLU* 6.1 0.9 - - - +
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Residues in contact with CYS 381 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
377C HIS* 3.1 37.0 + - - +
378C LEU 4.1 1.6 - - - +
379C LEU 3.2 0.2 - - - -
380C GLU* 1.3 79.2 - - - +
382C ALA* 1.3 58.1 + - - +
383C TRP* 3.8 0.4 - - - -
384C LEU 5.5 0.4 + - - -
385C GLU* 3.5 16.1 - - - +
456C SER* 4.0 19.0 - - - +
457C GLY* 3.7 21.1 - - - -
460C THR* 4.5 3.4 - - - -
515C ARG* 5.1 3.8 + - - +
518C SER* 5.2 3.3 + - - -
522C MET* 5.9 1.4 - - - +
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Residues in contact with ALA 382 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
378C LEU 3.2 15.7 + - - +
379C LEU* 4.5 0.7 - - - +
381C CYS* 1.3 78.8 - - - +
383C TRP* 1.3 66.9 + - - +
384C LEU 3.3 2.5 - - - -
385C GLU* 3.1 10.2 + - - +
386C ILE* 2.9 41.2 + - + +
452C ILE* 3.8 24.2 - - + +
453C LEU* 3.9 7.0 - - + -
456C SER* 4.1 3.6 - - - -
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Residues in contact with TRP 383 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
350C ALA* 5.0 1.1 - - + -
354C LEU* 3.8 31.0 - - + -
357C MET* 3.5 20.8 - - - +
379C LEU* 3.1 24.5 + - + +
380C GLU* 3.6 15.3 + - - -
381C CYS 3.8 0.6 - - - -
382C ALA* 1.3 76.2 - - - +
384C LEU* 1.3 87.6 + - + +
386C ILE 3.2 1.0 + - - -
387C LEU* 2.8 57.7 + - + +
522C MET* 3.8 31.3 - - + +
525C LEU* 4.7 2.5 - - + -
537C TYR* 3.4 55.3 - + + +
541C LEU* 4.5 11.3 - - + +
602C GW5 4.1 19.1 - + + -
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Residues in contact with LEU 384 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
381C CYS 5.5 0.2 + - - -
382C ALA 3.3 0.2 - - - -
383C TRP* 1.3 101.3 - - + +
385C GLU* 1.3 60.8 + - - +
387C LEU* 3.4 9.6 + - + +
388C MET* 2.7 51.4 + - + +
518C SER* 3.5 37.4 + - - +
521C GLY* 4.1 8.5 - - - -
522C MET* 3.8 35.6 - - + +
525C LEU* 4.6 5.4 - - + -
602C GW5 4.2 23.8 - - + -
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Residues in contact with GLU 385 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
381C CYS 3.5 17.0 - - - +
382C ALA 3.1 8.6 + - - +
384C LEU* 1.3 78.0 - - - +
386C ILE* 1.3 58.1 + - - +
388C MET* 3.1 4.0 + - - +
389C ILE* 2.8 30.5 + - - +
452C ILE* 3.6 20.5 - - + +
456C SER* 2.8 27.1 + - - -
511C LEU* 4.4 3.6 - - - +
514C ILE* 3.8 21.7 - - + +
515C ARG* 3.0 41.1 + - - +
518C SER* 3.6 22.4 + - - +
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Residues in contact with ILE 386 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
357C MET* 3.7 27.6 - - + -
360C TRP* 3.7 27.4 - - + -
379C LEU* 5.5 0.2 - - + -
382C ALA* 2.9 37.3 + - + +
383C TRP 3.6 3.4 - - - +
385C GLU* 1.3 73.5 - - - +
387C LEU* 1.3 69.3 + - + +
388C MET 3.0 1.6 + - - -
389C ILE* 3.3 8.2 - - - +
390C GLY* 3.2 18.5 + - - -
449C LYS* 4.1 32.0 - - + +
452C ILE* 3.8 14.8 - - + -
453C LEU* 4.1 13.9 - - + -
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Residues in contact with LEU 387 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
350C ALA* 3.8 26.7 - - + +
353C GLU* 3.6 32.1 - - + +
354C LEU* 4.6 1.3 - - + +
357C MET* 3.4 24.2 - - + -
383C TRP* 2.8 45.2 + - + +
384C LEU* 3.5 7.4 - - + +
386C ILE* 1.3 75.5 - - + +
388C MET* 1.3 62.3 + - - +
390C GLY* 3.4 1.4 + - - -
391C LEU* 3.1 21.5 + - - +
394C ARG* 4.5 4.3 + - - +
602C GW5 4.1 29.1 - - + -
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Residues in contact with MET 388 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
384C LEU* 2.7 42.4 + - + +
385C GLU* 3.5 5.8 - - - +
386C ILE 3.0 0.2 - - - -
387C LEU* 1.3 72.3 - - - +
389C ILE* 1.3 60.3 + - - +
391C LEU* 3.2 6.2 + - + +
392C VAL* 3.0 33.3 + - - +
424C ILE* 4.2 21.8 - - + -
428C LEU* 3.8 17.7 - - + +
514C ILE* 4.7 7.6 - - + +
517C MET* 3.5 30.5 - - + +
518C SER* 3.6 29.4 - - - -
521C GLY* 4.5 4.3 - - - -
602C GW5 4.4 18.2 - - + -
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Residues in contact with ILE 389 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
385C GLU 2.8 17.0 + - - +
386C ILE* 3.3 16.6 - - - +
388C MET* 1.3 73.6 - - - +
390C GLY* 1.3 60.6 + - - +
392C VAL* 3.7 5.5 - - - +
393C TRP* 2.9 27.9 + - - +
435C PHE* 4.3 17.5 - - + -
445C PHE* 4.0 16.4 - - + -
448C LEU* 4.0 24.5 - - + -
449C LYS* 4.1 17.7 - - + -
452C ILE* 3.6 28.5 - - + -
511C LEU* 4.6 1.6 - - + -
514C ILE* 3.8 24.6 - - + +
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Residues in contact with GLY 390 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
386C ILE 3.2 8.2 + - - -
387C LEU 3.8 3.6 - - - -
388C MET 3.1 0.8 - - - -
389C ILE* 1.3 81.3 - - - +
391C LEU* 1.3 64.0 + - - +
393C TRP* 3.4 2.0 + - - +
394C ARG* 3.1 41.5 + - - +
445C PHE* 4.2 17.3 - - - -
449C LYS* 5.5 1.6 - - - -
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Residues in contact with LEU 391 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
387C LEU 3.1 13.8 + - - +
388C MET* 3.5 7.9 - - - +
390C GLY* 1.3 77.5 - - - +
392C VAL* 1.3 58.2 + - - +
393C TRP 3.1 0.3 + - - -
394C ARG* 3.3 12.3 + - - +
395C SER* 2.8 38.5 + - - +
402C LEU* 4.4 11.4 - - + -
403C LEU 3.7 23.8 - - - +
404C PHE* 3.6 54.3 - - + +
428C LEU* 3.9 28.3 - - + -
602C GW5 4.2 12.3 - - + -
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Residues in contact with VAL 392 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
388C MET 3.0 17.1 + - - +
389C ILE* 3.7 5.2 - - - +
391C LEU* 1.3 81.6 - - + +
393C TRP* 1.3 63.2 + - - +
395C SER* 3.2 3.9 + - - -
396C MET* 3.2 5.2 + - - +
402C LEU* 5.7 0.9 - - + -
428C LEU* 3.6 41.5 - - + +
431C THR* 3.9 12.8 - - + -
432C SER* 2.6 41.0 + - - +
435C PHE* 3.4 35.2 - - + -
514C ILE* 5.8 0.4 - - + -
517C MET* 4.6 2.0 - - + -
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Residues in contact with TRP 393 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
323C GLU* 5.6 0.6 + - - -
389C ILE 2.9 20.1 + - - +
390C GLY* 3.7 4.5 - - - +
391C LEU 3.1 0.4 - - - -
392C VAL* 1.3 76.6 - - - +
394C ARG* 1.3 78.9 + - + +
395C SER 2.9 1.6 + - - -
396C MET* 3.0 40.0 + - + +
435C PHE* 5.1 3.8 - - + -
440C LEU* 3.6 44.4 - - + -
441C GLN* 3.9 2.0 - - - -
442C GLY* 3.5 32.1 - - - -
445C PHE* 3.4 43.2 - + + -
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Residues in contact with ARG 394 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
326C ILE* 4.5 27.8 - - + +
353C GLU* 4.4 22.9 + - - +
387C LEU* 4.5 5.1 + - - +
390C GLY* 3.1 35.8 + - - +
391C LEU* 3.4 17.5 - - - +
393C TRP* 1.3 87.6 - - + +
395C SER* 1.3 56.6 + - - +
396C MET 3.3 1.4 + - - -
397C GLU 5.0 0.2 + - - -
398C HIS* 3.8 5.9 + - - -
403C LEU* 2.9 60.2 + - + +
404C PHE* 3.1 24.4 + - - +
405C ALA* 5.5 2.5 - - - +
406C PRO* 6.0 0.9 - - - -
602C GW5 5.6 3.0 - - - -
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Residues in contact with SER 395 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
391C LEU* 2.8 24.7 + - - +
392C VAL 3.2 0.2 + - - -
393C TRP 2.9 0.6 + - - -
394C ARG* 1.3 71.8 - - - +
396C MET* 1.3 64.8 + - - +
397C GLU 3.5 1.8 - - - -
398C HIS* 3.2 23.5 + - - +
399C PRO* 5.2 0.2 - - - +
401C LYS 3.6 16.9 - - - +
402C LEU* 3.4 12.4 - - - +
403C LEU* 2.8 30.6 + - - +
429C LEU* 5.8 0.2 - - - +
432C SER* 3.1 19.0 + - - -
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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