Contacts of the helix formed by residues 449 - 473 (chain A) in PDB entry 2WW9
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 LYS 449 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70A GLY* 3.9 11.7 - - - -
189A ILE* 3.3 47.5 + - + +
192A ASN* 3.8 17.2 - - + +
193A LEU* 3.4 38.6 - - - +
253A VAL* 5.1 1.3 - - - -
300A TYR* 4.9 6.2 + - - -
446A LEU* 3.7 26.3 - - + +
447A LYS* 4.6 5.7 - - - +
448A GLY* 1.4 84.3 - - - +
450A ALA* 1.4 61.4 + - - +
451A ALA 3.3 2.7 - - - -
452A GLY 2.9 4.1 + - - +
453A ILE* 2.8 46.2 + - + +
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Residues in contact with ALA 450 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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256A ILE* 4.8 4.3 - - + +
300A TYR* 4.5 1.2 + - - -
354A THR* 4.6 0.2 - - + -
441A GLY 4.4 5.3 - - - +
442A GLU* 3.5 35.1 + - + +
445A GLY 4.1 5.2 - - - +
446A LEU* 3.3 29.8 - - + +
447A LYS* 4.3 3.3 - - - +
449A LYS* 1.4 79.0 - - - +
451A ALA* 1.4 56.3 + - - +
453A ILE* 3.5 10.2 - - - +
454A VAL* 3.5 23.7 - - - +
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Residues in contact with ALA 451 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
300A TYR* 3.5 42.1 + - + +
438A THR* 3.3 26.0 - - + +
442A GLU* 3.0 12.5 + - - +
450A ALA* 1.4 74.5 - - - +
452A GLY* 1.4 59.3 + - - +
453A ILE 3.4 0.9 - - - -
454A VAL* 3.4 19.0 - - - +
455A VAL* 3.3 18.0 - - - +
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Residues in contact with GLY 452 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A GLY 5.0 6.7 - - - -
71A VAL* 5.5 1.6 - - - -
185A ASN* 3.4 22.3 + - - -
189A ILE* 3.9 9.8 - - - +
297A LEU* 5.7 1.6 - - - -
300A TYR* 4.0 13.1 - - - -
449A LYS* 2.9 10.2 + - - -
451A ALA* 1.4 78.4 - - - +
453A ILE* 1.4 57.9 + - - +
454A VAL 3.5 0.2 - - - -
455A VAL* 3.5 9.0 - - - +
456A GLY* 3.3 17.5 + - - -
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Residues in contact with ILE 453 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189A ILE* 3.8 28.4 - - + +
193A LEU* 4.9 12.8 - - + -
253A VAL* 6.2 3.6 - - + +
256A ILE* 4.3 17.5 - - + -
449A LYS* 2.8 49.8 + - + +
450A ALA* 3.5 14.8 - - - +
452A GLY* 1.4 76.4 - - - +
454A VAL* 1.4 71.4 + - + +
456A GLY* 3.2 0.7 + - - -
457A ILE* 3.1 38.0 + - + +
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Residues in contact with VAL 454 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256A ILE* 3.5 31.6 - - + -
260A VAL* 3.7 29.8 - - + +
434A LEU* 5.6 2.5 - - + -
437A ILE 5.2 1.8 - - - +
438A THR* 3.7 29.2 - - + +
441A GLY* 4.6 11.7 - - - -
450A ALA 3.5 11.0 - - - +
451A ALA* 3.4 23.8 - - - +
453A ILE* 1.4 76.1 - - - +
455A VAL* 1.4 59.2 + - - +
457A ILE* 3.7 3.8 - - - +
458A ALA* 3.0 29.2 + - - +
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Residues in contact with VAL 455 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A MET* 5.3 0.4 - - + -
185A ASN* 5.2 0.4 - - - +
293A CYS* 3.4 35.3 - - - +
296A VAL* 3.4 33.9 - - + +
297A LEU* 3.7 26.5 - - + -
300A TYR* 6.2 1.6 - - + -
434A LEU* 5.1 4.5 - - + -
438A THR* 5.6 0.4 - - - +
451A ALA 3.3 17.5 - - - +
452A GLY* 3.5 12.3 - - - +
454A VAL* 1.4 80.0 - - + +
456A GLY* 1.4 62.7 + - - +
458A ALA* 4.0 5.8 - - + -
459A GLY 3.1 21.8 + - - -
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Residues in contact with GLY 456 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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182A MET* 4.0 20.8 - - - +
185A ASN* 4.8 2.2 - - - -
186A THR* 4.0 16.9 - - - +
189A ILE* 4.3 9.0 - - - -
452A GLY 3.3 9.9 + - - -
453A ILE 3.2 7.2 + - - -
455A VAL* 1.4 85.4 - - - +
457A ILE* 1.4 60.5 + - - +
460A GLY* 3.6 14.4 + - - -
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Residues in contact with ILE 457 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186A THR* 6.3 0.7 - - + -
189A ILE* 5.2 4.9 - - + -
256A ILE* 5.8 1.3 - - + -
257A ALA* 4.5 12.3 - - + +
260A VAL* 3.9 19.3 - - + -
261A CYS* 4.3 14.6 - - + -
264A GLN* 3.0 38.0 - - - +
453A ILE* 3.1 32.1 + - + +
454A VAL* 3.7 7.4 - - - +
456A GLY* 1.4 74.9 - - - +
458A ALA* 1.4 59.8 + - - +
459A GLY 3.4 0.4 - - - -
460A GLY* 3.0 15.8 + - - +
461A PHE 3.4 4.0 + - - -
54B VAL* 5.6 8.3 - - + -
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Residues in contact with ALA 458 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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260A VAL* 4.4 6.7 - - + -
264A GLN* 3.4 20.5 - - - +
289A LEU* 3.8 33.7 - - + +
434A LEU* 4.5 6.3 - - + -
454A VAL 3.0 21.6 + - - +
455A VAL* 3.9 8.5 - - - +
456A GLY 3.5 0.4 - - - -
457A ILE* 1.4 77.3 - - - +
459A GLY* 1.4 59.2 + - - +
460A GLY 3.5 0.5 + - - -
462A SER* 3.3 21.8 + - - -
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Residues in contact with GLY 459 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A MET* 5.3 4.4 - - - +
289A LEU 3.9 13.6 + - - -
290A TYR* 3.3 21.7 - - - -
293A CYS* 4.1 8.3 - - - -
455A VAL 3.1 15.6 + - - -
456A GLY 4.4 1.6 - - - -
458A ALA* 1.4 75.7 - - - +
460A GLY* 1.4 57.6 + - - +
461A PHE 3.6 0.4 - - - -
462A SER* 4.5 0.2 - - - -
463A LEU* 3.1 29.1 + - - +
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Residues in contact with GLY 460 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A MET* 6.0 2.7 - - - -
456A GLY 3.6 11.0 + - - -
457A ILE* 3.0 12.4 + - - -
459A GLY* 1.4 79.0 - - - +
461A PHE* 1.4 57.6 + - - +
462A SER 3.4 0.2 - - - -
463A LEU* 3.8 7.2 - - - +
464A LEU* 3.1 22.0 + - - +
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Residues in contact with PHE 461 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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261A CYS* 5.7 0.7 - - - -
264A GLN* 3.0 51.1 - - + +
265A SER* 4.1 22.7 - - - -
267A ARG* 4.8 15.0 - - - -
457A ILE 3.4 4.4 + - - -
458A ALA 4.1 0.2 + - - -
460A GLY* 1.4 73.0 - - - +
462A SER* 1.3 60.4 + - - +
463A LEU 3.4 0.4 - - - -
464A LEU* 3.5 26.4 - - + +
465A GLU* 2.9 28.5 + - + +
46B GLU* 5.3 1.6 - - + -
49B LYS* 3.8 48.0 - - + -
50B ILE* 4.9 12.6 - - + -
53B ALA* 5.2 11.0 - - + -
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Residues in contact with SER 462 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
264A GLN 3.9 14.4 + - - -
267A ARG* 5.7 3.1 - - - +
287A LYS* 3.6 18.5 - - - +
288A LEU 5.0 0.2 + - - -
289A LEU* 3.9 13.0 + - - +
290A TYR* 3.6 27.4 - - - -
458A ALA 3.3 19.6 + - - -
459A GLY 4.3 0.4 - - - -
460A GLY 3.4 0.4 - - - -
461A PHE* 1.3 78.3 - - - +
463A LEU* 1.4 60.2 + - - +
465A GLU* 3.5 5.3 + - - +
466A VAL* 3.3 25.8 + - - +
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Residues in contact with LEU 463 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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178A SER* 4.2 20.6 - - - +
182A MET* 4.7 13.0 - - + -
290A TYR* 3.9 35.6 - - + +
459A GLY 3.1 19.1 + - - +
460A GLY* 3.8 8.3 - - - +
461A PHE 3.4 0.2 - - - -
462A SER* 1.4 74.0 - - - +
464A LEU* 1.4 58.0 + - - +
466A VAL* 3.3 10.1 + - + +
467A ILE* 3.0 38.9 + - + +
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Residues in contact with LEU 464 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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460A GLY 3.1 19.8 + - - +
461A PHE* 3.5 31.2 - - + +
462A SER 3.3 0.2 - - - -
463A LEU* 1.4 75.6 - - - +
465A GLU* 1.4 55.7 + - - +
467A ILE* 3.4 17.8 + - + +
468A THR* 3.0 42.5 + - + +
471A TYR* 6.1 0.9 - - + -
49B LYS* 6.1 4.5 - - + +
53B ALA* 5.3 10.5 - - + -
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Residues in contact with GLU 465 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
267A ARG* 3.1 45.7 + - - +
285A PRO* 3.4 18.2 - - - +
287A LYS* 3.1 31.0 + - + +
461A PHE* 2.9 25.5 + - + +
462A SER* 3.5 8.7 + - - +
463A LEU 3.3 0.4 - - - -
464A LEU* 1.4 74.6 - - - +
466A VAL* 1.4 63.2 + - - +
468A THR* 3.1 19.4 + - - +
469A ILE* 3.2 25.0 + - + +
49B LYS* 5.7 3.8 - - - +
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Residues in contact with VAL 466 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
287A LYS* 3.6 26.9 - - + +
290A TYR* 5.1 11.2 - - + -
462A SER 3.3 15.7 + - - +
463A LEU* 3.3 13.1 + - + +
465A GLU* 1.4 76.4 - - - +
467A ILE* 1.4 57.9 + - + +
469A ILE* 3.2 6.3 + - - +
470A GLU* 3.0 40.3 + - + +
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Residues in contact with ILE 467 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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177A PHE* 6.1 7.0 - - + -
463A LEU* 3.0 23.6 + - + +
464A LEU* 3.4 31.2 + - + +
466A VAL* 1.4 76.6 - - - +
468A THR* 1.4 60.0 + - - +
470A GLU* 3.5 8.5 + - + +
471A TYR* 2.9 73.1 + - + +
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Residues in contact with THR 468 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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464A LEU* 3.0 39.7 + - + +
465A GLU* 3.1 18.9 + - - +
467A ILE* 1.4 74.9 - - + +
469A ILE* 1.4 58.2 + - - +
471A TYR* 3.3 12.4 + - + +
472A GLN* 3.0 43.4 + - - +
479A ALA* 4.1 14.8 - - + +
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Residues in contact with ILE 469 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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284A TYR* 3.9 31.0 - - + +
285A PRO* 4.8 5.2 - - + +
287A LYS* 3.4 32.3 - - - +
465A GLU* 3.2 21.2 + - + +
466A VAL* 3.2 5.3 + - - +
468A THR* 1.4 73.9 - - - +
470A GLU* 1.4 71.0 + - - +
472A GLN* 4.2 11.7 - - - +
473A GLN* 3.0 54.9 + - + +
474A SER* 3.7 0.6 + - - +
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Residues in contact with GLU 470 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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466A VAL* 3.0 33.5 + - + +
467A ILE* 3.8 11.2 - - + +
469A ILE* 1.4 86.6 - - - +
471A TYR* 1.4 64.1 + - + +
474A SER* 3.2 28.9 + - - +
475A GLY 3.2 22.7 + - - +
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Residues in contact with TYR 471 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29A PHE* 5.2 6.2 - - - -
177A PHE* 6.0 1.4 - - - -
464A LEU* 6.1 0.7 - - + -
467A ILE* 2.9 62.3 + - + +
468A THR* 3.5 16.6 - - + +
470A GLU* 1.4 79.9 - - + +
472A GLN* 1.4 60.1 + - - +
475A GLY 3.2 13.6 + - - +
477A GLN* 3.1 50.3 + - + +
478A SER* 3.1 31.5 + - - -
479A ALA* 3.8 9.0 - - + +
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Residues in contact with GLN 472 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
468A THR* 3.0 33.2 + - - +
469A ILE* 4.0 11.5 + - - +
471A TYR* 1.4 76.9 - - - +
473A GLN* 1.4 77.9 + - + +
475A GLY* 4.4 3.1 + - - -
478A SER* 4.6 1.1 - - - -
479A ALA* 4.2 16.6 + - - +
480A LEU* 3.9 41.6 - - + +
483A VAL 5.1 4.0 + - - -
484A LEU* 5.1 13.9 - - + +
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Residues in contact with GLN 473 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
282A ASN* 5.2 7.7 + - - -
284A TYR* 4.2 17.6 - - - -
469A ILE* 3.0 42.1 + - + +
472A GLN* 1.4 85.7 - - + +
474A SER* 1.4 68.6 + - - +
475A GLY* 4.6 0.3 - - - -
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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