Contacts of the helix formed by residues 394 - 424 (chain H) in PDB entry 6X34
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 GLN 394 (chain H).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218H HIS* 5.6 1.1 - - - -
219H VAL* 4.4 2.9 - - - +
221H ARG* 5.4 5.3 - - - +
393H CYS* 1.3 90.1 - - - +
395H GLN* 1.3 62.9 + - - +
396H GLU* 3.7 20.7 - - + +
397H GLU* 3.3 40.4 + - - +
398H SER* 3.7 4.3 + - - -
477H LEU* 6.0 0.6 - - - +
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Residues in contact with GLN 395 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218H HIS* 5.5 6.3 + - + +
219H VAL* 5.6 0.9 - - - -
394H GLN* 1.3 71.7 - - - +
396H GLU* 1.3 59.5 - - - +
398H SER* 2.6 24.6 + - - +
399H GLN* 2.9 18.4 + - - +
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Residues in contact with GLU 396 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
394H GLN* 3.2 15.1 - - + +
395H GLN* 1.3 78.4 - - - +
397H GLU* 1.3 56.6 + - - +
399H GLN* 3.4 6.6 + - - +
400H ALA* 2.9 30.2 + - - +
451H TYR* 5.3 4.4 + - - +
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Residues in contact with GLU 397 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
221H ARG* 5.5 6.1 - - - +
259H LEU* 5.7 5.6 - - + -
393H CYS* 4.7 13.7 - - + -
394H GLN* 3.3 34.4 + - - +
395H GLN 3.2 0.4 - - - -
396H GLU* 1.3 78.7 - - - +
398H SER* 1.3 57.6 + - - +
400H ALA* 3.3 7.3 + - - +
401H ALA* 2.9 28.6 + - - +
477H LEU* 4.8 16.8 - - + +
----------------------------------------------------------
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Residues in contact with SER 398 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219H VAL* 3.6 37.3 - - - +
285H VAL* 5.2 2.5 - - - +
394H GLN 3.7 1.9 + - - -
395H GLN* 2.6 32.9 + - - +
397H GLU* 1.3 76.6 - - - +
399H GLN* 1.3 55.6 + - - +
401H ALA* 3.6 7.4 - - - +
402H ARG* 2.9 29.5 + - - +
----------------------------------------------------------
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Residues in contact with GLN 399 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42H PHE* 5.3 1.9 - - + -
113H HIS* 4.1 23.8 - - - +
395H GLN 2.9 17.1 + - - +
396H GLU* 3.7 8.1 - - - +
398H SER* 1.3 76.3 + - - +
400H ALA* 1.3 56.4 + - - +
402H ARG* 3.3 7.5 + - - +
403H MET* 2.9 39.0 + - + +
451H TYR* 5.8 2.5 - - - +
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Residues in contact with ALA 400 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
396H GLU 2.9 17.8 + - - +
397H GLU* 3.7 7.0 - - - +
399H GLN* 1.3 76.3 - - - +
401H ALA* 1.3 57.6 + - - +
403H MET* 3.3 12.1 + - - +
404H ILE* 2.9 38.2 + - + +
451H TYR* 5.1 10.4 + - + +
474H ARG* 5.9 6.7 - - + -
477H LEU* 4.7 18.2 - - + -
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Residues in contact with ALA 401 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256H ALA* 5.4 6.9 - - + +
259H LEU* 5.2 7.0 - - + -
285H VAL* 3.8 33.6 - - + +
286H THR* 5.0 1.8 - - + -
397H GLU 2.9 17.8 + - - +
398H SER* 3.6 7.6 - - - +
399H GLN 3.3 0.2 - - - -
400H ALA* 1.3 73.2 - - - +
402H ARG* 1.3 61.2 + - - +
404H ILE* 3.0 17.9 - - + +
405H TYR* 2.9 29.8 + - - +
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Residues in contact with ARG 402 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42H PHE* 6.4 0.9 - - + -
64H ILE* 5.9 7.0 - - + -
113H HIS* 5.2 13.2 - - + -
285H VAL* 4.4 8.4 - - + +
398H SER 2.9 17.2 + - - +
399H GLN* 3.3 7.4 + - - +
401H ALA* 1.3 75.6 - - - +
403H MET* 1.3 58.4 - - + +
405H TYR* 3.3 9.0 + - - +
406H SER* 2.9 30.5 + - - -
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Residues in contact with MET 403 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42H PHE* 3.6 54.3 - - + -
399H GLN* 2.9 23.7 + - - +
400H ALA* 3.5 9.6 - - - +
401H ALA 3.2 0.2 - - - -
402H ARG* 1.3 77.2 - - + +
404H ILE* 1.3 59.3 + - + +
406H SER* 2.6 21.7 + - - -
407H THR* 2.9 20.6 + - - +
448H LEU* 5.3 8.7 - - + -
451H TYR* 3.6 51.6 - - + -
452H PHE* 4.6 9.6 - - + -
478H PHE* 6.0 2.7 - - + -
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Residues in contact with ILE 404 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256H ALA* 4.1 23.6 - - + -
286H THR* 4.3 17.5 - - + -
400H ALA* 2.9 20.7 + - + +
401H ALA* 3.0 30.5 - - - +
403H MET* 1.3 76.6 - - + +
405H TYR* 1.3 58.3 + - + +
407H THR* 3.3 9.1 - - + +
408H ALA* 2.9 33.1 + - - +
477H LEU 4.8 11.0 - - - +
478H PHE* 4.4 26.2 - - + -
481H GLU* 4.5 20.0 - - + -
483H MET* 4.8 10.8 - - - +
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Residues in contact with TYR 405 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
285H VAL* 3.2 23.3 - - + +
286H THR* 3.3 22.2 - - - +
287H THR 3.8 17.0 - - - -
288H GLY* 4.1 12.9 - - - -
401H ALA 2.9 13.6 + - - +
402H ARG* 3.6 8.5 - - - +
404H ILE* 1.3 79.4 - - - +
406H SER* 1.3 62.1 + - - +
408H ALA* 3.7 4.0 - - + +
409H GLY* 2.9 28.6 + - - -
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Residues in contact with SER 406 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40H GLU* 5.7 7.4 - - - -
42H PHE* 4.5 22.3 + - - +
402H ARG 2.9 15.0 + - - -
403H MET* 2.6 26.3 + - - -
405H TYR* 1.3 82.8 - - - +
407H THR* 1.3 56.2 + - - +
409H GLY* 3.3 2.6 + - - -
410H LEU* 3.0 27.9 + - - +
----------------------------------------------------------
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Residues in contact with THR 407 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
403H MET 2.9 22.3 + - - +
404H ILE* 3.3 14.4 - - - +
406H SER* 1.3 77.6 + - - +
408H ALA* 1.3 60.5 + - - +
410H LEU* 3.4 7.3 + - - +
411H TYR* 2.9 57.4 + - - -
444H SER* 5.8 7.5 - - - -
448H LEU* 6.1 4.0 - - - -
478H PHE* 5.0 6.6 - - + -
483H MET* 3.7 20.2 - - + +
----------------------------------------------------------
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Residues in contact with ALA 408 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
286H THR 5.6 4.0 - - - +
404H ILE 2.9 21.2 + - - +
405H TYR* 3.7 5.4 - - + +
407H THR* 1.3 76.4 - - + +
409H GLY* 1.3 56.3 + - - +
411H TYR* 3.2 6.5 + - - +
412H ASN* 2.6 43.6 + - - +
483H MET* 5.5 6.1 - - + -
486H LEU* 4.4 13.0 - - + -
----------------------------------------------------------
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Residues in contact with GLY 409 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
405H TYR* 2.9 17.9 + - - -
406H SER* 3.7 2.9 - - - -
408H ALA* 1.3 77.5 - - - +
410H LEU* 1.3 61.2 + - - +
412H ASN* 3.3 8.9 + - - +
413H HIS* 3.0 23.7 + - - +
----------------------------------------------------------
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Residues in contact with LEU 410 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
406H SER 3.0 16.9 + - - +
407H THR* 3.7 8.1 - - - +
409H GLY* 1.3 74.9 - - - +
411H TYR* 1.3 64.3 + - + +
413H HIS* 3.3 7.6 + - - +
414H PHE* 2.9 27.4 + - - +
441H VAL* 5.7 9.0 - - + +
444H SER* 4.8 16.2 - - - +
----------------------------------------------------------
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Residues in contact with TYR 411 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
407H THR* 2.9 39.5 + - - +
408H ALA 3.7 0.4 - - - +
410H LEU* 1.3 79.2 - - + +
412H ASN* 1.3 61.8 + - - +
414H PHE* 3.3 7.5 + + + +
415H ILE* 2.9 32.4 + - - +
441H VAL* 4.9 11.0 - - + -
444H SER* 5.6 1.1 - - - -
445H LEU* 3.2 34.3 - - + +
448H LEU* 6.0 0.3 - - - +
483H MET* 3.7 12.1 - - + +
486H LEU* 3.5 42.0 - - + -
487H VAL* 3.7 22.9 - - + +
490H CYS* 4.6 12.5 - - - -
522H LEU* 5.4 8.3 - - + +
525H ILE* 3.7 20.1 - - + +
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Residues in contact with ASN 412 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
408H ALA* 2.6 32.2 + - - +
409H GLY* 3.8 8.0 - - - +
411H TYR* 1.3 72.6 - - - +
413H HIS* 1.3 61.2 + - - +
415H ILE* 3.3 8.1 + - - +
416H LYS* 2.9 29.3 + - - +
486H LEU* 3.9 18.6 - - - +
----------------------------------------------------------
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Residues in contact with HIS 413 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
409H GLY 3.0 15.1 + - - +
410H LEU* 3.6 10.8 - - - +
412H ASN* 1.3 75.5 - - - +
414H PHE* 1.3 57.5 + - - +
416H LYS* 3.3 9.1 + - + +
417H GLY* 2.9 27.6 + - - -
436H LEU* 5.8 2.1 - - + +
437H PRO* 3.8 37.4 - - + +
----------------------------------------------------------
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Residues in contact with PHE 414 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
410H LEU 2.9 16.5 + - - +
411H TYR* 3.3 10.7 + + + +
413H HIS* 1.3 77.3 - - - +
415H ILE* 1.3 57.8 + - + +
417H GLY* 3.3 2.1 + - - +
418H LEU* 2.9 38.6 + - + +
436H LEU* 3.8 40.4 - - + +
437H PRO* 5.7 2.2 - - + -
441H VAL* 4.3 33.9 - - + -
490H CYS* 4.6 26.9 - - + -
494H LEU* 4.4 32.1 - - + -
518H ILE* 4.6 14.6 - - + -
522H LEU* 6.0 3.8 - - + -
----------------------------------------------------------
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Residues in contact with ILE 415 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
411H TYR 2.9 15.6 + - - +
412H ASN* 3.8 6.7 - - - +
414H PHE* 1.3 74.1 - - + +
416H LYS* 1.3 62.9 + - - +
418H LEU* 3.3 6.5 + - - +
419H ASP* 2.9 31.3 + - + +
486H LEU* 3.5 33.9 - - + +
489H ASN* 3.5 31.4 - - + +
490H CYS* 3.8 20.4 - - - -
493H ARG* 5.2 7.0 + - + +
----------------------------------------------------------
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Residues in contact with LYS 416 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
412H ASN 2.9 18.4 + - - +
413H HIS* 3.6 11.4 - - + +
415H ILE* 1.3 78.7 - - - +
417H GLY* 1.3 57.1 + - - +
419H ASP* 3.3 5.1 + - - +
420H SER* 2.8 30.5 + - - -
----------------------------------------------------------
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Residues in contact with GLY 417 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
413H HIS* 2.9 17.5 + - - -
414H PHE 3.7 2.9 - - - -
415H ILE 3.3 0.2 - - - -
416H LYS* 1.3 76.8 - - - +
418H LEU* 1.3 55.9 + - - +
420H SER* 2.8 18.9 + - - -
421H PHE* 2.9 20.5 + - - +
434H THR* 5.0 11.0 - - - +
436H LEU* 4.7 20.7 - - - +
----------------------------------------------------------
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Residues in contact with LEU 418 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
414H PHE* 2.9 29.9 + - + +
415H ILE* 3.3 6.7 + - - +
417H GLY* 1.3 75.6 - - - +
419H ASP* 1.3 58.4 + - - +
421H PHE* 3.9 5.1 - - - +
422H SER* 2.8 34.6 + - - -
436H LEU* 4.9 4.8 - - + +
493H ARG* 4.7 24.2 - - + +
494H LEU* 6.3 2.7 - - + -
503H PHE* 6.5 0.9 - - + -
----------------------------------------------------------
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Residues in contact with ASP 419 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
415H ILE* 2.9 21.4 + - + +
416H LYS* 3.8 5.8 - - - +
418H LEU* 1.3 77.0 - - - +
420H SER* 1.3 61.8 + - - +
422H SER* 3.9 5.9 + - - -
423H GLY* 3.1 21.3 + - - -
493H ARG* 4.1 18.8 - - - +
----------------------------------------------------------
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Residues in contact with SER 420 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
416H LYS 2.8 19.1 + - - -
417H GLY* 2.8 17.7 + - - -
419H ASP* 1.3 76.2 - - - +
421H PHE* 1.3 58.5 + - - +
423H GLY* 4.2 0.8 - - - -
424H LYS* 3.8 18.4 + - - +
432H ALA 4.8 2.4 - - - +
433H GLY* 4.9 4.2 - - - -
434H THR* 4.0 18.6 - - - +
----------------------------------------------------------
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Residues in contact with PHE 421 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
417H GLY 2.9 18.2 + - - +
418H LEU* 3.9 5.6 - - - +
419H ASP 3.2 0.4 - - - -
420H SER* 1.3 76.1 - - - +
422H SER* 1.3 63.1 + - - +
423H GLY 3.3 0.7 - - - -
424H LYS* 3.3 20.2 + - - +
433H GLY* 5.1 11.9 - - - -
434H THR* 5.5 5.6 - - + +
436H LEU* 5.8 5.4 - - + -
497H TYR* 4.4 4.7 + - - -
503H PHE* 5.6 3.6 - - + -
506H PHE* 5.1 2.1 - - - +
507H ALA* 3.9 33.2 - - + +
----------------------------------------------------------
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Residues in contact with SER 422 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
418H LEU* 2.8 22.9 + - - -
419H ASP* 3.9 6.9 + - - -
421H PHE* 1.3 71.2 - - - +
423H GLY* 1.3 67.0 + - - +
424H LYS 3.4 6.3 + - - +
493H ARG* 4.9 12.3 + - - -
496H VAL* 5.7 4.5 - - - -
497H TYR* 3.6 27.8 + - - -
----------------------------------------------------------
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Residues in contact with GLY 423 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
419H ASP 3.1 15.3 + - - -
420H SER 4.7 0.4 - - - -
422H SER* 1.3 85.1 + - - +
424H LYS* 1.3 59.8 + - - +
425H PRO* 3.6 7.3 - - - +
----------------------------------------------------------
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Residues in contact with LYS 424 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
420H SER 3.8 15.0 + - - +
421H PHE 3.3 16.3 + - - +
422H SER 3.3 6.3 - - - +
423H GLY* 1.3 76.4 - - - +
425H PRO* 1.3 75.3 - - + +
431H PRO 5.5 0.9 - - - +
432H ALA* 3.3 29.6 - - + +
506H PHE* 5.0 5.9 - - - +
----------------------------------------------------------
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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