Contacts of the helix formed by residues 364 - 388 (chain C) in PDB entry 5HJP
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 PRO 364 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
362C SER 4.7 0.9 - - - +
363C LEU* 1.4 89.6 - - + +
365C LEU* 1.4 66.1 + - - +
366C ASP* 3.2 5.6 - - + +
367C ASP* 2.8 42.7 + - + +
368C GLN* 3.0 10.0 + - - -
455C SER* 6.1 2.7 - - - -
456C ASN* 6.0 2.9 - - + -
459C GLU* 4.7 10.1 - - - +
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Residues in contact with LEU 365 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
363C LEU 3.5 2.8 + - - -
364C PRO* 1.4 68.8 - - - +
366C ASP* 1.4 60.7 + - - +
368C GLN* 3.3 15.8 + - + +
369C VAL* 3.0 31.4 + - + +
544C HIS* 4.1 25.8 - - + +
547C LEU* 3.8 35.4 - - + -
548C GLN* 3.3 33.2 - - + +
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Residues in contact with ASP 366 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
364C PRO* 3.1 4.7 + - + +
365C LEU* 1.4 80.7 - - - +
367C ASP* 1.4 62.0 + - - +
369C VAL* 3.4 11.0 + - - +
370C ILE* 3.0 36.3 + - + +
544C HIS* 4.7 13.2 + - - -
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Residues in contact with ASP 367 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
363C LEU* 4.8 7.7 - - + +
364C PRO* 2.8 38.4 + - + +
366C ASP* 1.4 75.2 - - - +
368C GLN* 1.4 60.4 + - - +
370C ILE* 3.7 7.8 - - - +
371C LEU* 2.9 35.4 + - - +
453C GLY 4.4 0.3 - - - +
454C LEU* 3.6 27.1 - - + +
455C SER* 3.4 32.9 + - - -
456C ASN* 3.6 15.4 + - - +
460C VAL* 5.0 3.0 - - + +
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Residues in contact with GLN 368 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
355C LYS* 5.3 0.2 - - - +
360C PHE* 3.4 53.6 - - + +
361C SER* 3.1 24.9 + - - +
363C LEU* 2.9 25.7 + - + +
364C PRO 3.0 13.1 + - - +
365C LEU* 3.4 17.9 - - - +
367C ASP* 1.4 75.3 - - - +
369C VAL* 1.4 60.6 + - - +
371C LEU 3.6 0.2 + - - -
372C LEU* 3.2 22.9 + - - +
547C LEU* 3.4 35.8 + - + +
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Residues in contact with VAL 369 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
365C LEU* 3.0 19.1 + - + +
366C ASP* 3.4 11.9 - - - +
367C ASP 3.2 0.2 - - - -
368C GLN* 1.4 73.0 - - - +
370C ILE* 1.3 61.7 + - + +
372C LEU 3.4 1.2 + - - -
373C ARG* 3.0 60.0 + - + +
543C LEU* 3.6 11.7 - - + +
544C HIS* 3.6 43.1 - - + +
547C LEU* 3.7 18.4 - - + -
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Residues in contact with ILE 370 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
366C ASP* 3.0 26.1 + - + +
367C ASP* 3.7 15.5 - - - +
369C VAL* 1.3 78.2 - - + +
371C LEU* 1.3 56.7 + - - +
373C ARG* 3.3 7.0 + - - +
374C ALA* 2.9 33.1 + - + +
451C ALA* 3.8 20.0 - - + -
452C LYS 3.4 21.8 - - - +
453C GLY* 3.6 31.0 - - - +
454C LEU* 3.8 12.8 - - + +
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Residues in contact with LEU 371 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
360C PHE* 3.7 29.2 - - + -
363C LEU* 3.8 20.2 - - + -
367C ASP 2.9 18.9 + - - +
368C GLN 4.0 0.4 - - - +
369C VAL 3.4 0.4 - - - -
370C ILE* 1.3 74.9 - - - +
372C LEU* 1.3 58.0 + - - +
374C ALA* 4.2 2.8 - - - +
375C GLY* 3.1 24.4 + - - -
379C LEU* 5.1 0.2 - - - +
445C ILE 5.3 0.2 - - - +
446C LEU* 3.5 32.5 - - + +
447C PHE* 3.9 12.1 - - + -
448C ASN* 3.4 29.8 - - + +
451C ALA* 4.3 5.2 - - + -
454C LEU* 4.0 17.5 - - + -
460C VAL* 4.1 10.5 - - + -
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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
----------------------------------------------------------
350C LEU* 4.1 30.1 - - + +
351C VAL* 4.4 8.3 - - + +
354C ALA* 3.9 23.1 - - + -
360C PHE* 3.9 11.9 - - + -
368C GLN 3.2 21.2 + - - +
369C VAL 4.0 2.5 - - - +
371C LEU* 1.3 73.5 - - - +
373C ARG* 1.4 61.7 + - - +
375C GLY 4.6 0.2 - - - +
376C TRP* 2.9 36.9 + - - +
379C LEU* 4.8 2.2 - - + -
446C LEU* 4.1 10.3 - - + -
525C MET* 3.7 6.5 - - + -
543C LEU* 3.7 30.7 - - + -
547C LEU* 3.8 21.8 - - + -
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Residues in contact with ARG 373 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
369C VAL* 3.0 38.1 + - - +
370C ILE* 3.7 6.1 - - - +
372C LEU* 1.4 76.7 - - - +
374C ALA* 1.3 57.8 + - - +
376C TRP* 3.0 22.3 + - - -
524C GLU* 3.3 41.3 + - - +
525C MET* 3.5 30.5 - - - +
528C ALA* 3.6 31.0 + - + +
541C LYS* 4.2 7.7 - - - +
543C LEU* 3.6 12.4 - - + +
544C HIS* 3.6 27.5 + - - -
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Residues in contact with ALA 374 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
370C ILE* 2.9 18.8 + - + +
371C LEU* 4.2 3.1 - - - +
373C ARG* 1.3 78.9 - - - +
375C GLY* 1.3 57.7 - - - +
376C TRP* 4.1 0.9 + - - -
377C ASN* 5.1 2.9 + - - +
378C GLU* 4.4 7.6 - - - +
448C ASN* 5.2 9.4 - - + +
451C ALA* 4.1 23.1 - - + -
452C LYS 5.9 0.2 - - - +
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Residues in contact with GLY 375 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
371C LEU 3.1 16.2 + - - -
374C ALA* 1.3 76.6 - - - +
376C TRP* 1.4 63.3 + - - +
377C ASN* 3.1 4.6 + - - -
378C GLU* 3.3 10.9 + - - +
379C LEU* 3.1 33.0 + - - +
445C ILE* 4.1 16.8 - - - +
448C ASN* 6.5 0.2 - - - -
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Residues in contact with TRP 376 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
343C ALA* 5.1 1.8 - - + -
347C LEU* 3.7 15.5 - - + -
350C LEU* 3.8 23.1 - - + +
372C LEU 2.9 21.9 + - - +
373C ARG* 3.0 26.9 + - - -
374C ALA 5.0 0.7 - - - -
375C GLY* 1.4 69.9 - - - +
377C ASN* 1.3 82.0 + - + +
379C LEU* 3.7 2.9 - - - +
380C LEU* 3.1 43.5 + - + +
504C LEU* 3.6 23.2 - - + +
507C LEU* 3.8 20.0 - - + -
522C LEU* 3.7 30.7 - - + -
525C MET* 3.5 51.9 + - + +
526C LEU* 4.1 8.7 - - + -
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Residues in contact with ASN 377 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
374C ALA 5.1 2.6 + - - +
375C GLY 3.1 1.4 + - - -
376C TRP* 1.3 108.0 - - + +
378C GLU* 1.4 60.7 + - + +
380C LEU* 3.2 6.1 + - - +
381C ILE* 3.0 41.6 + - - +
500C GLY* 2.6 43.8 + - - -
503C CYS* 4.3 3.5 - - - +
504C LEU* 3.9 21.7 - - + +
507C LEU* 4.2 10.6 - - - +
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Residues in contact with GLU 378 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
374C ALA 4.4 12.3 - - - +
375C GLY* 3.3 4.2 + - - +
377C ASN* 1.4 75.0 - - + +
379C LEU* 1.4 57.4 + - - +
381C ILE* 3.2 4.6 + - - +
382C ALA* 2.9 31.9 + - - +
445C ILE* 3.9 29.1 - - + +
493C LEU* 4.8 2.1 - - - +
496C LEU* 3.8 36.4 - - + +
497C ARG* 2.8 56.1 + - - +
500C GLY* 4.3 10.5 - - - -
426D VAL* 5.2 0.3 - - - +
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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
----------------------------------------------------------
350C LEU* 3.7 29.6 - - + -
353C TRP* 3.9 11.2 - - + -
371C LEU 5.1 0.9 - - - +
372C LEU* 4.8 3.1 - - + -
375C GLY* 3.1 32.5 + - - +
376C TRP* 3.7 6.7 - - - +
378C GLU* 1.4 76.5 - - - +
380C LEU* 1.4 59.0 + - - +
382C ALA* 3.5 2.3 + - - +
383C SER* 3.0 12.0 + - - -
442C ARG* 2.9 67.2 + - + +
445C ILE* 3.9 13.4 - - + +
446C LEU* 4.1 23.6 - - + +
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Residues in contact with LEU 380 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
343C ALA* 3.6 36.1 - - + +
346C GLN* 3.6 39.0 - - + +
347C LEU* 4.3 3.1 - - + -
350C LEU* 4.5 16.2 - - + -
376C TRP* 3.1 44.2 + - + +
377C ASN* 3.7 4.3 - - - +
379C LEU* 1.4 72.7 - - - +
381C ILE* 1.4 66.7 + - + +
383C SER* 3.1 8.3 + - - +
384C PHE* 3.0 36.1 + - + +
387C ARG* 5.2 0.5 + - - -
442C ARG* 5.1 2.5 - - - +
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Residues in contact with ILE 381 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
377C ASN* 3.0 46.7 + - - +
378C GLU* 3.2 6.5 + - - +
380C LEU* 1.4 73.9 - - + +
382C ALA* 1.3 56.5 + - - +
384C PHE* 3.6 31.3 - - + -
385C SER* 2.7 35.8 + - - +
420C VAL* 4.6 2.9 - - + -
424C LEU* 3.6 27.1 - - + -
496C LEU* 3.8 6.3 - - + -
499C ILE* 4.0 9.0 - - + -
500C GLY* 3.7 13.7 - - - +
503C CYS* 3.7 24.5 - - + -
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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 GLU 2.9 16.3 + - - +
379C LEU 3.7 5.4 - - - +
381C ILE* 1.3 76.2 - - - +
383C SER* 1.4 62.3 + - - +
385C SER* 4.6 2.2 - - - -
386C HIS* 3.3 16.6 + - - +
424C LEU* 5.6 0.9 - - - -
428C MET* 3.9 9.2 - - + +
438C LEU* 3.4 23.4 - - + +
441C LEU* 6.3 0.9 - - + -
442C ARG* 3.9 22.2 - - + -
445C ILE* 4.5 2.9 - - + -
496C LEU* 4.0 19.2 - - + +
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Residues in contact with SER 383 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
308C GLU* 5.2 1.7 + - - -
346C GLN* 4.9 7.6 + - - -
379C LEU 3.0 3.7 + - - -
380C LEU* 3.1 13.0 + - - +
382C ALA* 1.4 77.2 - - - +
384C PHE* 1.3 59.2 + - - +
386C HIS* 3.6 2.8 + - - +
387C ARG* 3.0 45.6 + - - +
438C LEU* 4.6 8.1 - - - +
442C ARG* 2.8 38.2 + - - +
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Residues in contact with PHE 384 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
339C ILE* 5.8 8.3 - - + -
380C LEU* 3.0 26.5 + - + -
381C ILE* 3.6 37.2 - - + -
383C SER* 1.3 74.8 - - - +
385C SER* 1.3 64.1 + - - +
387C ARG* 3.6 24.2 - - - +
388C SER* 2.7 34.0 + - - -
395C ILE* 3.7 30.1 - - + -
396C LEU 3.8 11.4 - - - +
397C LEU* 4.7 15.3 - - + -
420C VAL* 4.1 26.7 - - + -
503C CYS* 5.4 4.0 - - - -
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Residues in contact with SER 385 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
381C ILE 2.7 22.6 + - - -
382C ALA 4.0 2.2 - - - -
384C PHE* 1.3 77.5 - - - +
386C HIS* 1.3 62.6 + - - +
388C SER* 3.2 14.0 + - - -
389C ILE* 3.5 9.5 + - - +
420C VAL* 3.7 12.6 - - - +
424C LEU* 3.7 29.9 - - - +
425C VAL* 3.6 22.9 - - - +
428C MET* 3.7 19.1 - - - -
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Residues in contact with HIS 386 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
382C ALA 3.3 15.4 + - - +
383C SER 3.9 1.8 - - - +
385C SER* 1.3 79.6 - - - +
387C ARG* 1.4 60.0 + - - +
389C ILE* 3.1 41.5 - - + +
428C MET* 3.5 11.1 - - - -
433C MET* 2.8 50.6 + - + -
434C ASP* 3.7 7.3 + - - -
435C LYS* 3.9 35.2 + - + +
438C LEU* 3.7 25.2 - - + +
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Residues in contact with ARG 387 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
346C GLN* 3.8 26.5 - - - +
380C LEU 5.2 0.2 + - - -
383C SER* 3.0 36.6 + - - +
384C PHE* 3.6 31.8 - - - +
385C SER 3.3 0.2 - - - -
386C HIS* 1.4 75.2 + - - +
388C SER* 1.3 55.5 + - - +
389C ILE 3.3 3.0 + - - -
390C ASP* 4.4 9.7 + - - +
391C VAL* 5.1 1.9 + - - +
396C LEU* 3.5 44.7 + - + +
397C LEU* 4.5 6.3 - - - +
398C ALA* 3.6 31.5 - - - +
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Residues in contact with SER 388 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
384C PHE 2.7 21.8 + - - -
385C SER 3.2 7.1 + - - -
387C ARG* 1.3 73.2 - - - +
389C ILE* 1.4 57.7 + - - +
390C ASP 3.3 2.9 - - - -
391C VAL* 2.8 35.6 + - - +
394C GLY 3.7 18.6 - - - -
395C ILE* 3.3 6.9 - - - +
396C LEU* 2.8 26.2 + - - -
425C VAL* 3.4 16.6 - - - +
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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