Contacts of the helix formed by residues 535 - 558 (chain C) in PDB entry 2O2C
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 535 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95C ASP* 3.9 15.8 + - - +
97C ASN* 3.1 16.8 + - - -
219C LEU* 3.9 5.8 - - - +
222C PHE* 3.8 13.5 - - + -
348C GLU* 5.9 0.4 - - - -
466C GLN* 4.8 2.0 - - - +
533C SER* 3.1 26.2 + - - +
534C LEU* 1.3 75.7 - - - +
536C PRO* 1.4 74.7 - - - +
537C ARG* 3.6 8.8 + - - +
538C ALA* 3.1 19.5 + - - +
539C LEU* 3.1 10.0 + - - +
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Residues in contact with PRO 536 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219C LEU* 3.7 30.5 - - + -
222C PHE* 3.9 26.2 - - + -
345C ASN* 3.3 49.1 - - + +
348C GLU* 4.0 7.6 - - + -
349C LEU* 3.4 17.1 - - - +
535C THR* 1.4 85.6 - - - +
537C ARG* 1.3 61.2 + - - +
539C LEU 3.3 1.9 + - - -
540C GLY 3.1 17.7 + - - -
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Residues in contact with ARG 537 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91C LEU* 2.8 47.4 + - + -
92C GLY* 3.6 14.8 + - - -
93C SER* 3.7 26.9 - - - +
97C ASN* 5.6 0.4 - - - +
348C GLU* 2.8 59.5 + - - +
351C THR* 3.7 27.7 + - - +
352C GLY* 3.3 27.9 - - - +
355C VAL* 4.4 2.8 - - - +
535C THR* 3.1 9.1 + - - +
536C PRO* 1.3 79.3 - - - +
538C ALA* 1.3 60.6 + - - +
540C GLY 3.3 0.9 + - - -
541C ALA* 3.1 19.4 + - - +
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Residues in contact with ALA 538 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91C LEU* 3.9 14.3 - - + +
97C ASN* 3.7 7.2 - - - +
531C ILE* 4.0 18.8 - - + +
533C SER 3.3 26.5 - - - +
534C LEU* 4.2 0.9 - - - -
535C THR* 3.1 16.6 + - - +
537C ARG* 1.3 75.6 - - - +
539C LEU* 1.3 64.3 + - - +
541C ALA* 3.2 4.0 + - - +
542C ILE* 3.0 28.7 + - - +
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Residues in contact with LEU 539 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214C MET* 3.9 17.5 - - + -
215C ALA* 4.0 19.1 - - + -
218C ALA* 3.9 19.5 - - + -
219C LEU* 3.9 24.2 - - + -
329C MET* 4.9 0.4 - - + -
349C LEU* 4.1 8.7 - - + -
398C LEU* 3.8 28.9 - - + -
401C LEU* 5.1 0.7 - - + -
534C LEU* 4.1 12.0 - - + +
535C THR 3.1 11.3 + - - +
536C PRO 3.7 7.0 - - - +
538C ALA* 1.3 73.6 - - - +
540C GLY* 1.3 65.9 + - - +
542C ILE* 3.2 9.2 + - + +
543C ILE* 3.0 40.3 + - + +
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Residues in contact with GLY 540 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
330C TRP* 3.6 10.5 - - - -
349C LEU* 3.4 33.1 - - - +
353C ALA* 3.5 10.1 - - - -
536C PRO 3.1 10.5 + - - -
537C ARG 3.3 2.7 + - - -
538C ALA 3.3 0.2 - - - -
539C LEU* 1.3 74.7 - - - +
541C ALA* 1.3 56.6 + - - +
544C ALA* 3.1 31.2 + - - +
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Residues in contact with ALA 541 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91C LEU* 3.8 22.0 - - + -
99C LEU* 4.1 9.6 - - + -
352C GLY 3.5 14.0 - - - +
356C ILE* 3.7 25.4 - - + +
531C ILE* 6.4 0.4 - - + -
537C ARG 3.1 12.4 + - - +
538C ALA 3.4 10.5 - - - +
539C LEU 3.2 0.2 - - - -
540C GLY* 1.3 73.8 - - - +
542C ILE* 1.3 58.8 + - + +
544C ALA* 3.5 0.5 + - - +
545C MET* 3.0 29.6 + - - +
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Residues in contact with ILE 542 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99C LEU* 4.4 18.8 - - + -
398C LEU* 5.0 4.7 - - + -
401C LEU* 4.6 11.4 - - + -
460C ILE* 4.3 27.6 - - + -
529C LEU* 6.1 0.7 - - + -
531C ILE* 4.0 28.7 - - + -
534C LEU* 4.2 12.6 - - + -
538C ALA 3.0 15.1 + - - +
539C LEU* 3.7 10.1 - - + +
541C ALA* 1.3 76.4 - - + +
543C ILE* 1.3 68.1 + - + +
545C MET* 3.4 12.4 + - + +
546C TYR* 3.2 43.0 + - + -
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Residues in contact with ILE 543 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214C MET* 3.8 24.0 - - + -
329C MET* 4.2 5.2 - - + -
330C TRP* 3.6 25.6 - - + -
401C LEU* 3.5 31.6 - - + -
404C TYR* 3.6 31.6 - - + +
405C LEU* 4.8 4.0 - - + -
408C LEU* 4.9 1.3 - - + -
539C LEU* 3.0 25.2 + - + +
542C ILE* 1.3 75.3 - - + +
544C ALA* 1.3 61.0 + - - +
546C TYR* 3.1 7.1 + - - +
547C GLU* 2.9 39.2 + - + +
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Residues in contact with ALA 544 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152C ARG* 3.9 12.6 - - - +
330C TRP* 4.4 0.6 - - - -
353C ALA* 3.8 28.3 - - + +
356C ILE* 4.0 7.9 - - + -
357C ASP* 4.1 2.2 - - - +
540C GLY 3.1 19.8 + - - +
541C ALA 3.9 3.6 - - - +
543C ILE* 1.3 75.4 - - - +
545C MET* 1.3 62.4 + - - +
547C GLU* 3.2 13.2 + - - +
548C HIS* 3.0 32.2 + - - -
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Residues in contact with MET 545 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99C LEU* 4.0 14.1 - - + -
356C ILE* 3.8 11.2 - - + +
369C VAL* 3.7 28.7 - - + -
370C PRO* 3.6 14.0 - - + +
373C LEU* 3.9 16.4 - - + -
529C LEU* 3.6 38.4 - - + -
541C ALA 3.0 18.3 + - - +
542C ILE* 3.5 10.8 - - + +
544C ALA* 1.3 77.3 - - - +
546C TYR* 1.3 91.2 + - + +
548C HIS 3.4 0.3 + - - -
549C LYS* 3.0 26.2 + - - +
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Residues in contact with TYR 546 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
373C LEU* 4.2 10.5 - - + -
391C ILE* 3.6 17.8 - - + +
405C LEU* 3.7 40.6 - - + -
408C LEU* 4.0 5.4 - - + -
409C ASP* 6.0 1.1 - - - -
458C ASP* 2.7 41.7 + - - +
460C ILE* 3.6 16.7 - - + +
529C LEU* 3.5 8.9 - - + +
542C ILE* 3.2 26.3 + - + -
543C ILE 3.1 8.3 + - - +
545C MET* 1.3 94.6 - - + +
547C GLU* 1.3 64.2 + - - +
549C LYS* 3.3 24.5 + - + +
550C VAL* 3.1 32.7 + - + +
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Residues in contact with GLU 547 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148C HIS* 3.4 8.2 + - - +
152C ARG* 2.8 35.2 + - - -
326C ARG 4.5 0.3 - - - +
327C TYR* 3.7 44.4 + - + -
330C TRP* 2.9 28.3 + - - -
404C TYR* 4.3 3.1 + - - -
408C LEU* 3.9 17.7 - - + -
543C ILE* 2.9 23.2 + - + +
544C ALA* 3.5 7.7 - - - +
546C TYR* 1.3 76.2 - - - +
548C HIS* 1.3 61.6 + - - +
550C VAL* 3.4 4.5 + - - +
551C LEU* 3.1 24.3 + - - +
562C TYR* 5.0 0.7 + - - -
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Residues in contact with HIS 548 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133C PHE* 4.1 6.3 - + - -
148C HIS* 4.7 6.9 + - - -
149C ILE* 3.9 19.5 - - + -
152C ARG* 3.7 7.9 + - - -
356C ILE* 4.3 9.0 - - + -
357C ASP* 2.6 34.0 + - - -
360C PHE* 3.4 42.3 - + + -
370C PRO* 3.7 20.2 - - + -
544C ALA 3.0 23.4 + - - +
547C GLU* 1.3 78.1 - - + +
549C LYS* 1.3 62.3 + - - +
551C LEU* 3.3 13.1 + - + +
552C VAL* 3.1 28.6 + - - +
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Residues in contact with LYS 549 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
370C PRO* 3.7 16.1 - - - +
373C LEU* 4.0 26.2 - - + +
374C ALA* 3.5 18.6 - - - +
377C GLY* 5.3 2.9 - - - -
389C HIS* 3.6 35.0 + - - -
409C ASP* 4.2 13.4 + - - +
430C PRO* 6.2 1.4 - - - +
458C ASP* 4.4 4.6 + - - -
545C MET 3.0 13.7 + - - +
546C TYR* 3.3 31.1 + - + +
548C HIS* 1.3 75.4 - - - +
550C VAL* 1.3 64.7 + - + +
552C VAL 3.4 1.9 + - - -
553C GLN* 3.1 51.2 + - - +
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Residues in contact with VAL 550 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
327C TYR* 3.7 12.3 - - - +
408C LEU* 4.0 11.2 - - + +
409C ASP* 4.0 33.9 - - + +
412C SER* 3.5 32.3 - - - +
413C ASN* 3.1 23.3 + - - +
546C TYR* 3.1 20.2 + - + +
547C GLU* 3.6 5.6 - - - +
549C LYS* 1.3 78.9 - - + +
551C LEU* 1.3 63.0 + - - +
553C GLN* 3.5 2.6 + - - +
554C GLY* 3.0 20.8 + - - -
561C SER* 3.9 3.3 + - - -
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Residues in contact with LEU 551 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125C ILE* 5.3 1.3 - - + -
128C PHE* 3.7 27.8 - - + -
129C VAL* 4.0 21.8 - - + -
132C VAL* 4.3 23.3 - - + -
133C PHE* 5.0 2.9 - - + -
148C HIS* 5.7 4.3 - - - +
360C PHE* 4.0 21.1 - - + -
547C GLU 3.1 12.9 + - - +
548C HIS* 3.4 20.0 - - + +
549C LYS 3.3 0.2 - - - -
550C VAL* 1.3 77.1 - - - +
552C VAL* 1.3 61.4 + - + +
554C GLY* 3.4 1.0 + - - -
555C ALA* 3.0 30.5 + - + +
561C SER* 4.7 2.8 + - - -
562C TYR* 3.3 28.0 - - - +
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Residues in contact with VAL 552 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125C ILE* 4.1 17.9 - - + -
360C PHE* 3.6 28.3 - - + -
371C LEU* 3.7 29.8 - - + +
374C ALA* 3.7 24.0 - - + -
375C LEU* 4.8 0.4 - - + -
548C HIS 3.1 13.9 + - - +
549C LYS 3.4 0.6 + - - +
551C LEU* 1.3 80.3 - - + +
553C GLN* 1.3 56.6 + - - +
555C ALA* 3.2 6.0 + - - +
556C ILE* 2.9 46.5 + - + +
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Residues in contact with GLN 553 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
374C ALA* 3.1 31.2 + - + +
377C GLY* 3.5 23.6 - - - -
378C VAL* 3.8 8.2 - - + +
381C ILE* 4.4 7.5 - - - +
409C ASP* 4.4 11.1 - - - +
413C ASN* 3.8 15.0 + - - +
430C PRO* 4.9 2.1 - - - +
549C LYS* 3.1 40.3 + - - +
550C VAL* 4.9 1.7 - - - -
552C VAL* 1.3 73.7 - - - +
554C GLY* 1.3 64.9 + - - +
556C ILE* 3.3 6.5 + - - +
557C TRP* 3.0 52.6 + - + -
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Residues in contact with GLY 554 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
413C ASN* 3.7 5.5 - - - +
550C VAL 3.0 11.6 + - - -
551C LEU 3.8 0.4 - - - -
553C GLN* 1.3 76.4 - - - +
555C ALA* 1.3 57.5 + - - +
557C TRP 3.4 1.0 + - - -
558C GLY 3.0 22.5 + - - -
559C ILE* 3.0 32.3 + - - +
561C SER* 3.3 24.0 - - - -
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Residues in contact with ALA 555 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123C ARG* 3.9 14.0 + - - +
125C ILE* 3.6 20.6 - - + +
128C PHE* 3.8 34.7 - - + -
551C LEU* 3.0 17.5 + - + +
552C VAL* 3.2 5.1 + - - +
554C GLY* 1.3 75.2 - - - +
556C ILE* 1.3 63.9 + - - +
558C GLY* 3.4 11.7 + - - +
559C ILE 5.1 1.6 - - - -
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Residues in contact with ILE 556 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50C LEU* 3.3 17.2 - - + +
56C TRP* 4.7 0.7 - - + -
119C LEU* 4.1 27.6 - - + -
120C ALA* 5.1 4.5 - - - -
123C ARG* 2.9 37.5 + - + +
125C ILE* 4.1 13.9 - - + -
375C LEU* 3.4 33.0 - - + -
378C VAL* 4.0 22.7 - - + -
552C VAL* 2.9 27.3 + - + +
553C GLN* 3.3 6.0 + - - +
555C ALA* 1.3 75.1 - - - +
557C TRP* 1.3 69.8 + - + +
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Residues in contact with TRP 557 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C ASP* 4.6 3.1 - - - +
50C LEU* 3.9 17.0 - - + +
123C ARG* 3.8 4.3 + - - -
378C VAL* 4.4 16.5 - - + +
381C ILE* 4.0 20.0 - - + -
382C ASN* 2.8 27.0 + - - -
413C ASN* 3.9 17.9 - - + -
418C THR* 4.1 10.7 - - - +
424C VAL* 4.4 5.2 - - + +
426C THR* 3.7 18.7 + - - +
427C LEU 3.5 9.3 + - - -
428C THR* 3.3 45.1 - - + -
429C GLY* 3.4 20.6 - - - -
430C PRO* 5.0 0.2 - - + -
553C GLN* 3.0 38.5 + - + +
554C GLY 3.9 3.4 - - - +
556C ILE* 1.3 81.2 - - + +
558C GLY* 1.3 60.8 + - - +
559C ILE* 3.3 19.8 + - + +
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Residues in contact with GLY 558 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123C ARG* 3.5 14.8 - - - -
418C THR* 3.4 9.7 - - - -
419C ARG* 2.9 32.1 + - - +
554C GLY 3.0 5.5 + - - -
555C ALA* 3.4 6.4 + - - -
556C ILE 3.2 4.6 + - - -
557C TRP* 1.3 77.4 - - - +
559C ILE* 1.3 62.4 + - - +
----------------------------------------------------------
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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