Contacts of the helix formed by residues 361 - 387 (chain A) in PDB entry 2FGY
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 SER 361 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163A CYS 4.8 1.7 + - - -
165A PHE* 6.0 0.3 - - - -
308A ASP 5.1 0.4 + - - -
309A SER* 5.0 3.6 + - - +
359A VAL 3.7 1.8 + - - -
360A ALA* 1.3 77.2 - - - +
362A GLU* 1.3 59.1 + - - +
363A GLY* 3.7 3.7 + - - -
364A MET* 3.2 24.7 + - - +
365A ARG* 2.9 26.2 + - - +
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Residues in contact with GLU 362 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
341A HIS* 5.1 6.8 - - - -
360A ALA 3.5 1.0 + - - -
361A SER* 1.3 72.2 - - - +
363A GLY* 1.3 59.3 + - - +
365A ARG* 3.4 29.5 + - - +
366A ARG* 2.9 35.3 + - + +
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Residues in contact with GLY 363 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162A ASP 4.5 4.3 - - - -
163A CYS* 3.1 43.7 - - - +
361A SER* 3.2 4.5 + - - -
362A GLU* 1.3 77.7 - - - +
364A MET* 1.3 58.9 + - - +
366A ARG* 3.4 5.3 + - - +
367A PHE* 2.9 24.1 + - - +
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Residues in contact with MET 364 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163A CYS 3.7 2.2 + - - -
165A PHE* 3.6 37.7 - - + -
236A LEU* 4.0 12.1 - - + -
289A ASP* 4.1 9.4 - - + +
290A ILE 4.0 21.1 - - - +
291A LEU* 4.3 9.6 - - + -
307A PRO* 3.8 23.1 - - + -
360A ALA* 4.1 11.4 - - + -
361A SER* 3.2 23.7 + - - +
363A GLY* 1.3 76.1 - - - +
365A ARG* 1.3 58.0 + - - +
367A PHE* 3.3 2.8 + - - +
368A ILE* 2.9 49.5 + - + +
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Residues in contact with ARG 365 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
306A ILE* 5.1 0.4 - - + -
341A HIS* 3.6 32.4 + - - +
344A ILE* 3.6 35.4 - - + +
345A LEU* 3.7 31.1 - - - +
348A ASN* 3.9 15.9 - - - -
359A VAL* 4.5 5.7 - - - +
360A ALA* 2.9 32.3 + - + +
361A SER 2.9 11.7 + - - +
362A GLU* 3.5 35.3 + - - +
364A MET* 1.3 72.3 - - - +
366A ARG* 1.3 60.7 + - - +
368A ILE* 3.5 2.9 + - + -
369A GLY* 2.9 24.3 + - - -
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Residues in contact with ARG 366 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159A PHE* 3.7 28.1 - - + -
162A ASP* 3.3 40.5 + - - +
163A CYS* 4.0 10.5 - - - -
362A GLU* 2.9 25.9 + - - +
363A GLY* 3.5 7.2 - - - +
364A MET 3.3 0.2 - - - -
365A ARG* 1.3 74.8 - - - +
367A PHE* 1.3 64.0 + - - +
369A GLY* 3.4 2.2 + - - -
370A GLN* 3.1 23.3 + - + +
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Residues in contact with PHE 367 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159A PHE* 3.9 20.6 - + - -
160A PHE* 4.1 26.2 - + - -
163A CYS* 3.7 9.9 - - + -
165A PHE* 3.6 28.9 - + + -
168A VAL* 4.3 8.5 - - + -
188A LEU* 4.7 6.1 - - + -
236A LEU* 3.7 24.0 - - + -
238A ILE* 4.1 9.9 - - + -
291A LEU* 4.0 13.7 - - + -
363A GLY 2.9 17.5 + - - +
364A MET* 3.5 5.2 - - - +
365A ARG 3.3 0.2 - - - -
366A ARG* 1.3 76.1 - - - +
368A ILE* 1.3 65.6 + - + +
370A GLN* 3.3 5.5 + - - +
371A LEU* 3.1 56.5 + - + +
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Residues in contact with ILE 368 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
291A LEU* 3.8 20.6 - - + -
304A VAL* 3.6 28.0 - - + -
306A ILE* 3.9 22.9 - - + -
307A PRO* 3.8 30.1 - - + -
344A ILE* 4.0 11.7 - - + -
364A MET* 2.9 33.1 + - + +
365A ARG* 3.9 6.7 - - - +
367A PHE* 1.3 78.1 - - + +
369A GLY* 1.3 62.1 + - - +
371A LEU* 3.2 8.5 + - - +
372A LEU* 3.1 31.3 + - + +
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Residues in contact with GLY 369 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
340A ILE* 4.2 9.4 - - - +
341A HIS* 6.2 0.4 - - - -
344A ILE* 3.5 19.4 - - - +
365A ARG 2.9 14.1 + - - -
366A ARG* 3.8 2.5 - - - -
367A PHE 3.3 0.4 - - - -
368A ILE* 1.3 74.8 - - - +
370A GLN* 1.3 56.4 + - - +
372A LEU* 3.4 3.1 + - - +
373A ILE* 2.9 39.1 + - - +
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Residues in contact with GLN 370 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159A PHE* 3.7 36.6 - - + -
188A LEU* 6.5 0.9 - - + -
337A ARG* 5.3 6.1 + - - +
366A ARG 3.1 8.4 + - - +
367A PHE 3.3 8.0 + - - +
369A GLY* 1.3 71.7 - - - +
371A LEU* 1.3 61.7 + - + +
373A ILE* 4.2 21.0 - - - +
374A ASN* 2.9 68.4 + - - +
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Residues in contact with LEU 371 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185A ILE 4.8 0.7 - - - +
186A LEU* 4.2 18.2 - - + +
188A LEU* 3.8 39.9 - - + -
238A ILE* 5.2 1.3 - - + -
291A LEU* 4.1 7.0 - - + -
293A ILE* 3.9 27.4 - - + -
302A ILE* 4.1 13.0 - - + +
304A VAL* 5.0 4.3 - - + -
367A PHE* 3.1 46.6 + - + +
368A ILE* 3.2 8.9 + - - +
370A GLN* 1.3 78.0 - - + +
372A LEU* 1.3 57.1 + - - +
374A ASN* 3.3 5.7 + - - +
375A ASN* 2.9 31.0 + - - +
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Residues in contact with LEU 372 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
302A ILE* 4.1 4.0 - - + -
304A VAL* 4.0 21.5 - - + -
319A VAL* 3.9 35.0 - - + +
321A ASN* 3.0 54.7 + - + +
324A THR* 5.2 0.4 - - - +
340A ILE* 3.9 23.6 - - + -
344A ILE* 4.0 15.9 - - + -
368A ILE* 3.1 25.0 + - + +
369A GLY 3.6 5.6 - - - +
371A LEU* 1.3 74.3 - - - +
373A ILE* 1.3 63.6 + - - +
375A ASN* 3.3 0.8 + - - -
376A LEU* 3.2 13.0 + - - +
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Residues in contact with ILE 373 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A LEU* 4.2 30.0 - - + +
337A ARG* 4.0 43.5 - - + +
340A ILE* 3.8 22.9 - - + -
369A GLY* 2.9 27.6 + - - +
370A GLN* 3.7 24.0 - - - +
372A LEU* 1.3 75.0 - - - +
374A ASN* 1.3 65.0 + - - +
376A LEU* 3.3 22.5 + - - +
377A SER* 4.0 2.3 + - - -
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Residues in contact with ASN 374 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186A LEU 3.0 29.6 + - - +
187A ARG* 3.4 36.1 + - + +
188A LEU* 5.0 5.9 - - - +
370A GLN* 2.9 52.9 + - - +
371A LEU* 3.6 2.8 - - - +
373A ILE* 1.3 77.0 - - - +
375A ASN* 1.3 63.4 + - - +
377A SER* 3.1 25.7 + - - -
378A GLN 3.7 1.7 + - - -
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Residues in contact with ASN 375 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185A ILE* 2.9 32.4 + - - +
300A ASP 2.9 24.4 + - - -
301A ALA* 3.5 6.3 - - - -
302A ILE* 3.0 32.9 + - + -
321A ASN* 2.9 24.6 + - - +
371A LEU 2.9 18.1 + - - +
373A ILE 3.3 0.6 - - - -
374A ASN* 1.3 74.3 - - - +
376A LEU* 1.3 59.0 + - - +
377A SER 3.2 0.2 - - - -
378A GLN* 3.1 8.4 + - - +
379A ILE* 2.9 26.3 + - - +
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Residues in contact with LEU 376 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A HIS* 3.8 20.2 - - + +
53A LEU* 3.8 33.0 - - + +
54A THR* 3.8 4.1 + - - +
321A ASN* 3.5 25.5 - - - +
324A THR* 4.6 1.6 - - - -
325A TYR* 3.8 46.0 - - + +
328A THR* 4.8 0.9 - - - +
340A ILE* 3.8 18.8 - - + -
372A LEU 3.2 11.8 + - - +
373A ILE* 3.5 9.6 - - - +
374A ASN 3.2 0.6 - - - -
375A ASN* 1.3 75.8 - - - +
377A SER* 1.3 63.0 + - - +
379A ILE* 3.3 4.6 + - + +
380A ASP* 3.0 22.3 + - - +
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Residues in contact with SER 377 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A LEU 3.8 4.0 + - - -
54A THR* 3.4 14.6 + - - +
55A ASP* 2.9 31.5 + - - +
59A ASN* 2.9 17.2 + - - -
187A ARG* 3.4 23.8 - - - -
373A ILE 4.0 2.3 + - - -
374A ASN* 3.1 15.2 + - - -
376A LEU* 1.3 78.7 - - - +
378A GLN* 1.3 56.3 + - - +
380A ASP* 3.3 1.9 + - - +
381A TYR* 2.8 22.3 + - - +
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Residues in contact with GLN 378 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184A TYR* 3.4 47.9 - - - +
185A ILE* 4.1 2.9 - - - -
187A ARG* 2.7 28.9 + - - +
299A THR 4.8 0.7 - - - -
300A ASP* 3.0 38.0 + - + -
374A ASN 3.7 0.4 + - - -
375A ASN* 3.1 19.6 + - - +
377A SER* 1.3 76.3 - - - +
379A ILE* 1.3 66.6 + - - +
381A TYR* 3.1 44.8 + - - +
382A VAL* 3.2 9.7 + - - +
390A TYR* 3.8 2.8 + - - -
414A ARG* 6.3 0.2 - - - +
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Residues in contact with ILE 379 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A HIS* 4.9 3.4 - - + -
40A ALA* 3.8 19.1 - - + -
299A THR* 4.2 11.4 - - - +
301A ALA* 3.6 36.6 - - + +
321A ASN* 4.0 26.5 - - - +
322A THR* 4.4 3.4 - - - +
325A TYR* 3.7 29.6 - - + -
375A ASN* 2.9 27.7 + - - +
376A LEU* 3.3 6.7 + - - +
378A GLN* 1.3 75.8 - - - +
380A ASP* 1.3 63.2 + - - +
382A VAL* 3.5 2.6 + - - +
383A VAL* 3.1 29.1 + - + +
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Residues in contact with ASP 380 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A CYS 3.4 13.8 - - - +
50A ARG* 3.6 4.0 - - - +
51A HIS 2.7 19.1 + - - -
54A THR* 2.5 40.0 + - + +
56A LEU* 5.8 0.5 - - - +
59A ASN* 4.2 1.3 - - - +
325A TYR* 2.4 32.9 + - - -
376A LEU 3.0 6.3 + - - -
377A SER 3.4 6.3 - - - +
379A ILE* 1.3 75.4 - - - +
381A TYR* 1.3 57.9 + - - +
383A VAL* 4.3 4.1 - - - +
384A ASN* 2.8 36.7 + - + +
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Residues in contact with TYR 381 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A ASN* 3.6 32.1 - - + +
62A LEU* 3.5 13.2 + - + -
63A GLY* 3.4 35.1 - - - -
66A GLU* 2.4 30.5 + - - +
184A TYR* 3.6 7.5 - + - -
187A ARG* 4.6 0.2 - - - -
377A SER 2.8 17.2 + - - +
378A GLN* 3.1 42.8 + - - +
380A ASP* 1.3 72.2 - - - +
382A VAL* 1.3 63.1 + - + +
384A ASN* 4.0 3.0 - - - +
385A ARG* 3.1 61.1 + - - +
390A TYR* 4.3 9.2 - + - -
----------------------------------------------------------
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Residues in contact with VAL 382 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A HIS* 6.1 0.4 - - - +
298A ASP 4.3 4.0 - - - +
299A THR* 3.6 19.7 - - - +
300A ASP* 3.8 5.8 - - + +
378A GLN* 3.2 17.2 + - - +
379A ILE 4.0 4.7 - - - +
381A TYR* 1.3 76.4 - - + +
383A VAL* 1.3 56.0 + - + +
385A ARG 3.2 0.7 + - - -
386A HIS* 2.8 54.1 + - + +
388A GLY 3.7 14.4 - - - +
389A ARG* 4.2 1.1 - - - -
390A TYR* 3.3 49.8 - - + +
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Residues in contact with VAL 383 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A HIS* 3.8 31.2 - - + +
41A CYS* 4.2 8.5 - - + -
44A LEU* 4.1 19.7 - - + -
48A THR* 3.6 26.9 - - + +
49A CYS* 4.0 15.3 - - + +
325A TYR* 5.3 0.9 - - - +
379A ILE* 3.1 26.0 + - + +
380A ASP* 3.8 7.6 - - - +
382A VAL* 1.3 73.8 - - - +
384A ASN* 1.3 57.6 + - - +
387A GLY* 2.7 33.6 + - - -
388A GLY 3.9 7.4 - - - +
----------------------------------------------------------
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Residues in contact with ASN 384 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A THR* 4.8 11.8 - - + +
49A CYS 5.9 1.3 - - - +
50A ARG* 4.0 25.4 + - - +
59A ASN* 6.2 0.4 - - - +
380A ASP* 2.8 23.1 + - + +
381A TYR* 4.1 3.4 - - - +
383A VAL* 1.3 76.6 - - + +
385A ARG* 1.3 66.2 + - - +
387A GLY 4.7 1.0 + - - -
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Residues in contact with ARG 385 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A GLY* 3.8 14.7 - - - -
66A GLU* 3.5 21.4 + - - -
67A ASP* 2.8 41.4 + - - -
381A TYR* 3.1 61.0 + - - +
384A ASN* 1.3 83.1 - - - +
386A HIS* 1.3 93.1 + - + +
----------------------------------------------------------
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Residues in contact with HIS 386 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A GLU* 5.5 1.4 + - - -
382A VAL* 2.8 27.7 + - + +
385A ARG* 1.3 110.0 + - + +
387A GLY* 1.3 61.3 + - - +
388A GLY* 3.4 1.6 + - - +
389A ARG 3.4 20.0 - - - +
390A TYR* 3.4 37.6 - + - -
391A PRO* 3.5 28.1 - - + +
394A ASP* 5.0 3.1 + - - -
----------------------------------------------------------
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Residues in contact with GLY 387 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A LEU* 3.8 26.8 - - - +
45A PRO* 5.0 7.6 - - - +
48A THR* 5.7 2.5 - - - -
383A VAL 2.7 20.8 + - - -
384A ASN 4.6 1.0 - - - -
385A ARG 3.8 0.8 - - - -
386A HIS* 1.3 74.0 - - - +
388A GLY* 1.3 54.7 + - - +
----------------------------------------------------------
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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