Contacts of the helix formed by residues 342 - 371 (chain A) in PDB entry 6BQG
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 ASN 342 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
340A SER 4.1 4.3 - - - +
341A CYS* 1.3 75.4 - - - +
343A GLN* 1.3 60.7 + - - +
344A LYS 4.9 0.4 - - - +
345A LEU* 4.2 29.1 - - + +
346A MET* 3.2 28.2 + - - +
1202A OLC 4.7 9.9 + - - +
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Residues in contact with GLN 343 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
341A CYS 3.4 6.2 + - - +
342A ASN* 1.3 73.0 - - - +
344A LYS* 1.3 66.9 + - - +
346A MET* 3.1 9.5 + - - +
347A GLU* 3.1 30.6 + - - +
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Residues in contact with LYS 344 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
342A ASN* 4.9 0.8 - - + +
343A GLN* 1.3 80.4 - - - +
345A LEU* 1.3 62.5 + - - +
347A GLU* 3.4 12.7 + - - +
348A LYS* 3.2 19.9 + - - +
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Residues in contact with LEU 345 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
342A ASN* 4.1 29.0 + - + +
343A GLN 3.3 0.2 - - - -
344A LYS* 1.3 76.4 - - - +
346A MET* 1.3 61.1 + - - +
348A LYS* 3.1 13.3 + - + -
349A LEU* 2.9 56.7 + - + +
1202A OLC 5.3 11.0 - - - +
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Residues in contact with MET 346 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
330A THR* 4.2 18.6 - - - +
333A LEU* 4.0 23.6 - - + +
334A SER* 3.5 27.1 - - - -
337A CYS 4.7 2.5 - - - +
341A CYS* 3.4 33.4 - - + -
342A ASN 3.2 20.2 + - - +
343A GLN* 3.1 14.7 + - - +
345A LEU* 1.3 77.1 - - - +
347A GLU* 1.3 57.9 + - + +
349A LEU* 3.3 5.8 + - - +
350A LEU* 2.9 37.8 + - + +
1202A OLC 3.9 24.9 - - - +
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Residues in contact with GLU 347 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
343A GLN* 3.1 16.3 + - - +
344A LYS* 3.8 12.7 - - - +
345A LEU 3.3 0.2 - - - -
346A MET* 1.3 77.5 - - + +
348A LYS* 1.3 63.2 + - - +
350A LEU* 4.4 2.2 - - + -
351A ASN* 3.0 33.5 + - - +
1201A ERM 3.4 36.3 - - + +
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Residues in contact with LYS 348 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
344A LYS 3.2 13.3 + - - +
345A LEU* 3.1 22.5 + - + +
347A GLU* 1.3 78.8 - - - +
349A LEU* 1.3 63.4 + - + +
351A ASN* 3.8 11.5 + - - +
352A VAL* 3.8 15.1 - - - +
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Residues in contact with LEU 349 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
330A THR* 5.1 3.8 - - + -
345A LEU* 2.9 45.9 + - + +
346A MET* 3.8 5.8 - - - +
348A LYS* 1.3 74.9 - - - +
350A LEU* 1.3 67.3 + - - +
352A VAL* 2.9 18.1 + - + +
353A PHE* 2.9 48.0 + - + -
1202A OLC 3.9 31.0 - - - +
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Residues in contact with LEU 350 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
327A PHE* 3.8 20.9 - - + -
330A THR* 3.2 27.8 - - - +
331A ASN* 3.7 27.4 - - - +
334A SER* 4.0 29.4 - - - +
346A MET* 2.9 26.1 + - + +
347A GLU* 3.4 1.5 + - + -
349A LEU* 1.3 76.2 - - - +
351A ASN* 1.3 65.1 - - - +
353A PHE* 4.0 4.6 - - - +
354A VAL* 2.9 29.5 + - - +
1201A ERM 3.7 35.4 - - + +
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Residues in contact with ASN 351 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A TYR* 3.4 47.6 + - - +
347A GLU* 3.0 24.9 + - - +
348A LYS* 3.9 9.1 - - - +
349A LEU 3.1 0.2 + - - -
350A LEU* 1.3 77.3 - - - +
352A VAL* 1.3 62.2 - - + +
354A VAL* 4.0 6.0 - - - +
355A TRP* 3.8 22.0 - - - -
1201A ERM 3.7 22.2 - - - +
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Residues in contact with VAL 352 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
348A LYS 3.8 13.9 - - - +
349A LEU* 2.9 7.8 + - + +
351A ASN* 1.3 78.2 - - + +
353A PHE* 1.3 70.6 + - + +
354A VAL 3.1 2.0 - - - -
355A TRP* 3.1 8.5 + - + +
356A ILE* 3.0 34.9 + - + +
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Residues in contact with PHE 353 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
323A MET 4.8 0.2 - - - +
326A PRO* 3.8 23.1 - - + -
327A PHE* 3.6 30.2 + - + +
330A THR* 3.6 37.9 - - + -
349A LEU* 2.9 50.9 + - + +
350A LEU* 4.0 4.9 - - - +
352A VAL* 1.3 79.9 - - + +
354A VAL* 1.3 64.9 + - - +
355A TRP 3.4 0.2 - - - -
356A ILE* 3.4 27.8 + - + +
357A GLY* 3.1 16.6 + - - -
1202A OLC 4.7 9.6 - - + -
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Residues in contact with VAL 354 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A SER* 5.2 2.0 - - - +
327A PHE* 3.6 29.4 - - + -
350A LEU 2.9 21.6 + - - +
351A ASN* 4.0 6.5 - - - +
352A VAL 3.1 0.2 - - - -
353A PHE* 1.3 76.8 - - - +
355A TRP* 1.3 63.9 + - + +
357A GLY* 3.2 5.0 + - - -
358A TYR* 3.1 58.0 + - + +
1201A ERM 3.8 37.7 - - + +
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Residues in contact with TRP 355 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A ILE* 4.7 12.3 - - + -
63A ILE* 3.9 29.4 - - + -
64A ILE* 4.1 13.5 - - + -
107A MET* 3.7 43.5 - - + -
110A SER* 3.2 36.3 + - - -
111A LEU* 4.1 7.9 - - + -
114A ILE* 3.5 23.5 - - + +
351A ASN 3.8 14.8 - - - +
352A VAL* 3.1 9.8 + - + +
354A VAL* 1.3 78.4 - - + +
356A ILE* 1.3 61.0 + - - +
358A TYR* 3.3 29.1 + + + +
359A VAL* 2.9 34.2 + - + +
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Residues in contact with ILE 356 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
322A ILE 4.3 4.9 - - - +
323A MET* 3.1 46.2 - - - +
326A PRO* 5.1 5.4 - - + -
352A VAL* 3.0 23.7 + - + +
353A PHE* 3.5 37.2 - - + +
354A VAL 3.2 0.2 - - - -
355A TRP* 1.3 74.0 - - - +
357A GLY* 1.3 64.7 + - - +
359A VAL* 3.1 18.4 + - + +
360A ASN* 3.1 10.0 + - - +
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Residues in contact with GLY 357 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
323A MET 4.0 4.4 + - - -
324A TRP* 3.3 51.5 - - - -
353A PHE 3.1 11.0 + - - -
354A VAL 3.2 4.4 + - - -
356A ILE* 1.3 77.7 - - - +
358A TYR* 1.3 63.2 + - - +
360A ASN* 3.3 14.6 + - - +
361A SER* 3.7 3.1 + - - -
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Residues in contact with TYR 358 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A VAL* 4.5 11.4 - - + -
106A VAL* 3.5 23.4 - - + +
107A MET* 3.5 27.2 - - + +
110A SER* 4.0 11.1 + - - -
130A TRP* 4.2 10.2 - - - -
134A ASP* 2.7 23.9 + - - -
138A SER* 4.7 6.1 - - - -
324A TRP* 5.3 0.9 - + - -
354A VAL* 3.1 34.0 + - + +
355A TRP* 3.4 54.1 - + + +
356A ILE 3.1 0.2 - - - -
357A GLY* 1.3 77.1 - - - +
359A VAL* 1.3 58.0 + - + +
361A SER* 2.9 30.8 + - - -
362A GLY 3.7 0.9 + - - -
1201A ERM 3.8 20.5 + - - -
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Residues in contact with VAL 359 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A ILE* 4.3 27.8 - - + -
67A THR* 5.6 1.6 - - - -
107A MET* 5.2 2.0 - - - -
323A MET* 4.6 11.0 - - + -
355A TRP* 2.9 20.7 + - + +
356A ILE* 3.1 10.9 + - - +
358A TYR* 1.3 76.1 - - + +
360A ASN* 1.3 62.5 + - - +
362A GLY* 2.9 5.8 + - - +
363A ILE* 2.9 36.3 + - + +
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Residues in contact with ASN 360 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A SER* 3.8 8.9 + - - -
145A LEU* 4.4 10.8 - - - +
319A VAL* 4.6 5.9 - - - +
320A PHE* 4.5 6.9 - - - -
323A MET* 3.7 32.8 - - + +
324A TRP* 3.1 31.3 - - - +
356A ILE 3.1 5.9 + - - -
357A GLY 3.3 10.3 - - - +
358A TYR 3.1 0.8 - - - -
359A VAL* 1.3 76.4 - - - +
361A SER* 1.3 63.9 + - - +
363A ILE* 3.0 16.3 + - - +
364A ASN* 3.0 45.1 + - - +
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Residues in contact with SER 361 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A THR* 3.8 3.8 - - - +
71A ASN* 3.8 1.7 + - - -
99A ASP* 2.9 52.9 + - - +
102A VAL* 3.7 19.7 - - - +
107A MET* 4.6 1.3 - - - -
141A SER* 5.0 2.5 - - - -
324A TRP* 6.3 0.9 - - - -
357A GLY 3.7 3.6 + - - -
358A TYR 2.9 14.6 + - - -
360A ASN* 1.3 82.5 - - - +
362A GLY* 1.3 54.4 + - - +
364A ASN* 4.0 8.7 - - - +
365A PRO* 3.3 18.4 - - - +
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Residues in contact with GLY 362 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A MET 5.6 1.1 - - - +
67A THR* 3.7 30.4 + - - -
70A GLY* 5.8 1.4 - - - -
358A TYR 3.7 2.0 + - - -
359A VAL* 2.9 9.3 + - - -
361A SER* 1.3 77.5 + - - +
363A ILE* 1.3 66.0 + - - +
364A ASN 3.4 0.4 - - - -
365A PRO* 3.3 12.8 - - - +
366A LEU* 3.9 10.9 + - - +
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Residues in contact with ILE 363 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
319A VAL* 3.9 21.8 - - + -
323A MET* 4.2 14.6 - - + -
359A VAL* 2.9 31.8 + - + +
360A ASN* 3.0 10.9 + - - +
362A GLY* 1.3 78.8 - - - +
364A ASN* 1.3 62.1 + - - +
366A LEU* 3.0 25.1 + - + -
367A VAL* 2.8 46.7 + - + +
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Residues in contact with ASN 364 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95A LEU* 4.6 4.9 - - + -
99A ASP* 2.9 29.3 + - - +
141A SER* 3.7 1.8 + - - -
145A LEU* 3.6 28.1 - - - +
319A VAL* 5.9 0.3 - - - +
360A ASN* 3.0 40.8 + - - +
361A SER* 4.0 0.2 - - - +
363A ILE* 1.3 77.0 - - - +
365A PRO* 1.3 71.4 - - + +
367A VAL* 3.0 13.3 + - - +
368A TYR* 3.0 35.0 - - + -
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Residues in contact with PRO 365 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A GLY* 3.4 26.5 - - - +
71A ASN* 3.1 37.0 - - - +
74A VAL* 3.7 17.5 - - + +
361A SER 3.3 11.9 - - - +
362A GLY* 3.3 15.7 - - - +
364A ASN* 1.3 91.6 - - + +
366A LEU* 1.3 60.7 + - - +
367A VAL 3.0 1.4 + - - -
368A TYR* 3.1 15.5 + - + +
369A THR* 3.1 16.7 + - - +
379A PHE* 4.9 4.0 - - + -
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Residues in contact with LEU 366 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A MET* 6.6 0.4 - - - -
362A GLY 3.9 9.6 + - - +
363A ILE* 3.0 27.9 + - + +
365A PRO* 1.3 78.5 - - - +
367A VAL* 1.3 61.4 + - + +
369A THR* 3.4 12.9 - - + +
370A LEU* 3.2 40.6 - - + +
379A PHE* 6.1 0.2 - - - -
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Residues in contact with VAL 367 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315A ILE* 5.6 4.3 - - + -
316A VAL* 3.7 30.7 - - + -
319A VAL* 5.2 11.9 - - + -
363A ILE* 2.8 35.5 + - + +
364A ASN* 3.3 11.9 - - - +
365A PRO 3.0 0.4 - - - -
366A LEU* 1.3 79.4 - - + +
368A TYR* 1.3 70.8 + - + +
369A THR 3.2 8.0 + - - -
370A LEU* 3.5 7.4 + - + +
371A PHE* 3.0 40.6 - - + -
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Residues in contact with TYR 368 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A VAL* 6.2 4.3 - - + -
92A LEU* 4.6 34.1 - - + -
95A LEU* 4.5 19.4 - - + +
145A LEU* 5.1 8.1 - - + +
148A ILE* 3.8 23.1 - - + +
152A ARG* 3.2 37.2 + - - -
316A VAL* 4.8 5.0 - - + +
364A ASN* 3.0 34.6 + - + +
365A PRO* 3.1 7.7 + - + +
367A VAL* 1.3 90.5 - - + +
369A THR* 1.3 57.0 + - - +
371A PHE* 4.6 4.3 - + - -
372A ASN* 3.6 10.0 - - - +
375A TYR* 3.5 29.2 - - + +
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Residues in contact with THR 369 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
365A PRO 3.1 13.5 + - - +
366A LEU* 3.4 23.1 - - + +
368A TYR* 1.3 77.6 - - - +
370A LEU* 1.3 71.7 - - + +
371A PHE 3.2 2.9 + - - -
372A ASN 3.5 6.7 - - - +
375A TYR* 3.7 25.7 + - - -
376A ARG* 3.2 24.8 + - - +
379A PHE* 3.8 27.9 - - + +
----------------------------------------------------------
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Residues in contact with LEU 370 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
366A LEU* 3.2 42.8 - - + +
367A VAL* 3.5 10.4 + - + +
369A THR* 1.3 83.7 - - + +
371A PHE* 1.3 77.6 + - + +
376A ARG* 3.6 23.4 + - + +
----------------------------------------------------------
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Residues in contact with PHE 371 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
308A LYS* 3.9 29.9 - - - +
311A LYS* 6.3 0.4 - - + -
312A VAL* 3.9 37.0 - - + -
315A ILE* 3.8 39.7 - - + -
316A VAL* 5.2 0.4 - - + -
367A VAL* 3.0 41.9 + - + +
368A TYR* 5.2 2.2 - + - -
369A THR 3.2 0.2 - - - -
370A LEU* 1.3 96.5 - - + +
372A ASN* 1.3 59.8 + - - +
373A LYS 3.8 0.9 + - - -
376A ARG* 3.4 13.3 + - - +
----------------------------------------------------------
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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