Contacts of the helix formed by residues 380 - 407 (chain C) in PDB entry 5UH6
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 380 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56C VAL* 4.3 10.1 - - + +
60C SER* 2.8 24.3 + - - -
63C TRP* 5.7 1.7 - - - -
177C SER* 4.1 13.7 - - - +
378C LEU* 3.4 24.1 + - + +
379C ARG* 1.3 77.2 - - - +
381C VAL* 1.3 66.3 + - - +
382C GLY 3.8 1.4 + - - -
383C GLU* 3.5 8.4 + - - +
384C LEU* 3.2 22.7 + - - +
506C VAL* 4.1 25.4 - - + -
510C GLY* 6.2 0.2 - - - -
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Residues in contact with VAL 381 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56C VAL 5.3 0.4 - - - +
57C GLN* 3.3 36.8 - - - +
60C SER* 4.0 7.0 - - - +
61C PHE* 4.9 2.5 - - + +
160C MET* 4.1 11.0 - - + -
166C PHE* 4.0 11.2 - - + -
175C VAL* 3.3 44.0 - - + +
176C VAL 5.2 0.2 - - - +
177C SER* 4.7 4.0 + - - +
380C THR* 1.3 78.6 - - - +
382C GLY* 1.3 60.6 + - - +
384C LEU* 3.4 1.3 + - - +
385C ILE* 3.1 50.1 + - + +
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Residues in contact with GLY 382 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60C SER* 2.5 31.1 + - - -
61C PHE* 4.8 1.1 - - - -
63C TRP* 3.5 18.8 - - - -
64C LEU* 3.3 18.4 - - - +
381C VAL* 1.3 76.0 - - - +
383C GLU* 1.3 56.5 + - - +
385C ILE* 3.6 0.8 + - - -
386C GLN* 3.0 27.0 + - - +
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Residues in contact with GLU 383 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C TRP* 3.7 12.6 - - + -
377C ARG* 2.4 49.0 + - - -
379C ARG* 3.3 25.2 + - + +
380C THR* 3.5 13.6 + - - +
382C GLY* 1.3 73.7 - - - +
384C LEU* 1.3 57.7 + - - +
386C GLN* 3.3 12.7 - - - +
387C ASN* 2.7 56.9 + - - +
510C GLY* 5.6 0.7 - - - -
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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
----------------------------------------------------------
175C VAL* 4.1 8.1 - - + -
176C VAL 3.5 24.9 - - - +
178C GLN* 4.2 3.8 - - - +
379C ARG* 3.6 46.4 - - - +
380C THR 3.2 22.1 + - - +
381C VAL* 3.8 4.3 - - - +
382C GLY 3.4 0.2 - - - -
383C GLU* 1.3 78.8 - - - +
385C ILE* 1.3 60.2 + - - +
387C ASN* 3.8 4.6 + - - +
388C GLN* 3.5 23.4 + - - +
430C PHE* 4.2 20.9 - - + -
436C LEU* 3.6 26.9 - - + -
460C PRO 5.9 0.4 - - - +
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Residues in contact with ILE 385 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61C PHE* 4.0 14.6 - - + -
64C LEU* 3.7 19.1 - - + -
157C PHE* 4.5 6.5 - - + -
158C PRO 5.7 0.2 - - - +
166C PHE* 3.7 30.1 - - + -
381C VAL* 3.1 27.8 + - + +
382C GLY 3.9 3.1 - - - +
384C LEU* 1.3 73.5 - - - +
386C GLN* 1.3 66.1 + - - +
388C GLN* 3.4 5.9 + - - +
389C ILE* 3.0 33.5 + - + +
427C ILE* 5.4 5.1 - - + +
430C PHE* 4.4 19.7 - - + -
431C PHE* 3.9 19.5 - - + -
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Residues in contact with GLN 386 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C TRP* 3.2 29.7 - - - -
64C LEU* 4.1 10.8 - - + -
85C GLY* 3.3 21.5 + - - +
88C GLU* 3.4 18.6 + - - +
89C VAL* 3.9 11.4 - - + +
382C GLY 3.0 20.2 + - - +
383C GLU* 3.3 11.8 - - - +
385C ILE* 1.3 77.9 - - - +
387C ASN* 1.3 56.5 + - - +
389C ILE* 2.8 12.0 + - - +
390C ARG* 2.8 63.6 + - - +
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Residues in contact with ASN 387 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
379C ARG* 3.9 25.4 - - - +
383C GLU* 2.7 38.4 + - - +
384C LEU* 4.1 5.6 - - - +
386C GLN* 1.3 77.9 - - - +
388C GLN* 1.3 64.1 + - + +
390C ARG* 2.8 38.2 + - - +
391C VAL* 3.1 25.2 + - - +
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Residues in contact with GLN 388 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
384C LEU 3.5 8.8 + - - +
385C ILE* 3.4 8.6 + - - +
386C GLN 3.2 0.6 - - - -
387C ASN* 1.3 77.2 - - + +
389C ILE* 1.3 66.1 + - + +
391C VAL* 3.2 33.5 + - - +
392C GLY 3.2 9.4 + - - -
395C ARG* 5.7 0.5 + - - -
426C ALA* 3.5 32.3 - - - +
427C ILE* 5.5 3.6 - - + -
429C GLU* 5.1 5.2 - - - +
430C PHE* 3.6 40.0 + - + +
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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
----------------------------------------------------------
64C LEU* 4.8 3.1 - - + -
86C LEU* 3.7 31.9 - - + -
89C VAL* 4.4 12.1 - - + -
133C LEU* 6.4 0.4 - - + -
157C PHE* 3.8 23.1 - - + -
385C ILE* 3.0 28.7 + - + +
386C GLN* 2.8 13.8 + - - +
388C GLN* 1.3 75.8 - - - +
390C ARG* 1.3 65.0 + - - +
392C GLY* 3.1 4.4 + - - -
393C MET* 3.0 42.9 + - + +
423C VAL* 5.3 6.8 - - + +
426C ALA* 5.5 0.9 - - - -
427C ILE* 4.0 21.3 - - + -
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Residues in contact with ARG 390 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88C GLU* 3.5 18.2 + - - -
89C VAL* 4.3 19.1 - - + +
92C GLU* 3.4 26.4 + - - -
208C ARG* 4.9 18.2 - - - +
386C GLN* 2.8 39.3 + - - +
387C ASN* 2.8 42.8 + - - +
389C ILE* 1.3 74.1 - - - +
391C VAL* 1.3 61.4 + - + +
393C MET* 3.3 10.2 + - + +
394C SER* 3.2 20.8 + - - -
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Residues in contact with VAL 391 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
387C ASN 3.1 15.9 + - - +
388C GLN* 3.4 30.7 - - - +
389C ILE 3.1 0.4 - - - -
390C ARG* 1.3 75.8 - - + +
392C GLY* 1.3 63.1 + - - +
394C SER* 2.6 27.3 + - - +
395C ARG* 3.2 37.9 + - + +
426C ALA* 5.4 0.4 - - + -
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Residues in contact with GLY 392 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
388C GLN 3.2 4.4 + - - -
389C ILE 3.1 7.3 + - - -
391C VAL* 1.3 80.2 - - - +
393C MET* 1.3 57.9 + - - +
394C SER 3.4 0.2 - - - -
395C ARG* 3.7 7.6 + - - +
396C MET* 3.5 15.4 + - - +
422C PRO 3.7 22.1 - - - +
423C VAL* 3.3 21.6 - - - +
426C ALA* 3.8 11.8 - - - +
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Residues in contact with MET 393 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89C VAL* 3.9 21.8 - - + -
90C LEU* 4.2 17.0 - - + -
93C LEU* 3.7 36.1 - - + +
107C PHE* 5.3 4.7 - - + -
154C MET* 4.6 13.9 - - + -
389C ILE* 3.0 24.8 + - + +
390C ARG* 3.6 8.3 - - - +
391C VAL 3.1 0.4 - - - -
392C GLY* 1.3 75.1 - - - +
394C SER* 1.3 61.0 + - - +
395C ARG 3.2 0.2 - - - -
396C MET* 3.3 21.0 - - - +
397C GLU* 3.0 26.9 + - - +
423C VAL* 3.7 24.5 - - - -
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Residues in contact with SER 394 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C LEU* 5.9 0.4 - - - -
390C ARG* 3.2 8.5 + - - -
391C VAL* 2.6 25.5 + - - +
393C MET* 1.3 77.3 - - - +
395C ARG* 1.3 65.3 + - - +
397C GLU* 3.5 17.7 + - - +
398C ARG* 3.3 19.9 + - - +
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Residues in contact with ARG 395 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
388C GLN* 5.7 0.6 + - - -
391C VAL* 3.2 36.4 + - + +
392C GLY* 3.8 5.1 - - - +
393C MET 3.2 0.4 - - - -
394C SER* 1.3 80.8 + - - +
396C MET* 1.3 60.3 + - - +
398C ARG* 3.3 17.1 + - - +
399C VAL* 3.3 16.8 + - - +
422C PRO* 3.7 29.7 + - + -
425C ALA* 6.1 1.0 - - - +
426C ALA* 4.3 20.8 - - - +
429C GLU* 5.1 10.7 + - - -
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Residues in contact with MET 396 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C LEU* 6.1 0.9 - - + -
96C ILE* 6.4 1.1 - - + -
107C PHE* 5.1 9.4 - - + -
154C MET* 4.7 8.3 - - - -
392C GLY 3.5 12.1 + - - +
393C MET* 3.3 31.9 - - + +
395C ARG* 1.3 76.4 - - - +
397C GLU* 1.3 59.5 + - - +
398C ARG 3.2 0.2 - - - -
399C VAL* 3.3 10.4 + - - +
400C VAL* 2.7 50.6 + - + +
418C ILE* 3.6 28.5 - - + -
419C ASN 3.4 46.2 - - - +
420C ILE* 5.2 0.2 - - - -
422C PRO* 4.5 5.4 - - + +
423C VAL* 4.6 9.9 - - + -
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Residues in contact with GLU 397 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C LEU* 3.4 27.5 - - + +
96C ILE* 3.9 27.3 - - + +
393C MET 3.0 18.5 + - - +
394C SER* 3.6 15.7 - - - +
395C ARG 3.2 0.2 - - - -
396C MET* 1.3 78.8 - - - +
398C ARG* 1.3 57.8 + - - +
400C VAL* 3.3 7.4 + - - +
401C ARG* 3.0 56.4 + - - +
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Residues in contact with ARG 398 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
394C SER 3.3 9.2 + - - +
395C ARG* 3.3 13.1 + - - +
396C MET 3.2 0.2 - - - -
397C GLU* 1.3 80.7 + - - +
399C VAL* 1.3 64.6 + - + +
401C ARG* 3.6 5.9 + - - +
402C GLU* 3.2 21.5 + - - +
308F LYS 4.0 5.7 + - - -
309F ARG* 4.1 13.7 + - - +
311F THR* 3.3 35.0 + - - +
9H G 3.1 34.2 + - - -
10H A 3.9 20.2 - - - -
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Residues in contact with VAL 399 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
395C ARG 3.3 12.7 + - - +
396C MET* 3.3 12.9 + - - +
398C ARG* 1.3 80.8 - - + +
400C VAL* 1.3 60.1 + - - +
402C GLU* 3.1 7.2 + - + +
403C ARG* 2.8 55.2 + - + +
417C LEU 4.7 1.6 - - - +
419C ASN* 4.2 26.5 - - + +
422C PRO* 5.1 6.5 - - + -
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Residues in contact with VAL 400 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96C ILE* 4.2 25.8 - - + -
105C LEU* 4.1 26.5 - - + -
107C PHE* 5.6 0.7 - - + -
396C MET* 2.7 42.6 + - + +
397C GLU* 3.3 8.9 + - - +
399C VAL* 1.3 73.7 - - - +
401C ARG* 1.3 59.6 + - - +
403C ARG* 3.1 3.1 + - - +
404C MET* 3.0 45.7 + - + +
417C LEU* 3.3 29.5 - - + +
418C ILE* 4.6 0.4 - - + -
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Residues in contact with ARG 401 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95C PRO 5.1 2.0 + - - -
96C ILE* 3.5 21.8 - - + +
97C GLU 3.3 28.2 + - - +
98C ASP* 5.3 2.9 - - + +
304C LYS* 6.3 2.8 - - - +
397C GLU* 3.0 44.5 + - - +
398C ARG* 3.9 6.3 - - - +
399C VAL 3.3 0.2 - - - -
400C VAL* 1.3 75.4 - - - +
402C GLU* 1.3 59.1 + - - +
404C MET* 3.7 25.5 - - + +
405C THR* 3.7 23.6 + - - +
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Residues in contact with GLU 402 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
398C ARG 3.2 15.8 + - - +
399C VAL* 3.1 9.3 + - + +
400C VAL 3.0 0.4 - - - -
401C ARG* 1.3 78.9 - - - +
403C ARG* 1.3 59.1 + - + +
404C MET 3.1 5.4 + - - -
405C THR* 3.5 7.3 + - - -
406C THR* 3.0 32.6 + - - +
308F LYS* 5.6 3.1 - - - -
309F ARG* 3.1 59.6 + - + +
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Residues in contact with ARG 403 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
399C VAL* 2.8 28.5 + - + +
400C VAL 3.6 4.3 - - - +
402C GLU* 1.3 78.0 - - + +
404C MET* 1.3 59.6 + - - +
406C THR* 4.1 5.8 - - - -
407C GLN* 3.1 43.5 + - - +
415C GLN 5.1 0.8 + - - -
416C THR* 3.2 25.5 + - - +
417C LEU* 3.6 20.8 - - + +
418C ILE 3.5 25.1 + - - -
419C ASN* 3.9 26.4 + - - +
421C ARG* 5.1 4.9 - - - +
----------------------------------------------------------
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Residues in contact with MET 404 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96C ILE 4.6 11.4 - - - +
97C GLU 4.3 1.8 - - - -
98C ASP* 3.9 30.5 - - + +
103C MET* 3.6 49.5 - - + +
104C SER 5.2 0.2 - - - -
105C LEU* 5.4 2.2 - - - -
139C PHE* 4.8 0.9 - - - -
400C VAL* 3.0 25.7 + - + +
401C ARG* 3.7 35.7 - - + +
402C GLU 3.1 0.4 - - - -
403C ARG* 1.3 77.3 - - - +
405C THR* 1.3 65.2 + - + +
406C THR 3.2 1.3 - - - -
407C GLN 3.3 15.8 - - - +
412C ILE* 4.1 3.5 - - + +
417C LEU* 3.7 28.3 - - + -
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Residues in contact with THR 405 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98C ASP* 5.2 9.6 - - + +
103C MET* 4.9 8.7 - - + -
401C ARG 3.7 16.3 + - - +
402C GLU* 3.5 20.3 + - - -
404C MET* 1.3 77.8 - - + +
406C THR* 1.3 64.4 + - - +
407C GLN 4.1 2.1 - - - +
309F ARG* 4.9 6.4 + - - -
----------------------------------------------------------
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Residues in contact with THR 406 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
402C GLU* 3.0 29.7 + - - +
403C ARG* 4.4 5.4 - - - -
404C MET 3.2 0.6 - - - -
405C THR* 1.3 80.1 + - - +
407C GLN* 1.3 76.5 + - + +
408C ASP 3.9 0.2 + - - -
309F ARG* 4.4 7.6 + - - -
352F ARG* 6.2 2.2 - - - +
----------------------------------------------------------
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Residues in contact with GLN 407 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103C MET* 5.8 0.2 - - - +
403C ARG* 3.1 35.4 + - - +
404C MET 3.3 13.7 - - - +
405C THR 3.8 2.1 - - - +
406C THR* 1.3 93.8 - - + +
408C ASP* 1.3 66.6 + - - +
409C VAL* 4.0 1.2 + - - +
411C ALA* 5.2 2.1 - - + +
412C ILE* 3.8 19.9 - - + +
416C THR* 3.3 46.1 + - - -
417C LEU* 3.8 4.0 - - - +
----------------------------------------------------------
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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