Contacts of the helix formed by residues 332 - 362 (chain A) in PDB entry 6TOS
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 ASP 332 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
329A GLN 4.9 2.1 + - - -
330A ALA* 4.6 0.4 - - - -
331A SER* 1.3 83.8 + - - +
333A ARG* 1.3 62.4 + - - +
334A GLU 3.2 2.5 - - - -
335A ALA* 3.1 41.4 + - + +
336A VAL* 3.4 12.3 + - - +
415A SOG 4.2 20.2 - - + +
416A SOG 3.3 34.0 - - - +
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Residues in contact with ARG 333 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197A ARG* 5.7 9.1 - - - +
199A PHE* 6.1 3.0 - - - -
329A GLN 5.2 1.3 - - - -
330A ALA* 3.6 32.2 + - + +
332A ASP* 1.3 73.0 - - - +
334A GLU* 1.4 57.9 + - + +
336A VAL* 3.2 12.6 + - + +
337A TYR* 2.8 67.7 + - + -
404A CIT 4.0 17.8 + - + +
416A SOG 3.4 15.8 - - + +
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Residues in contact with GLU 334 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A TYR* 5.0 11.3 + - - -
332A ASP* 3.2 1.2 - - - +
333A ARG* 1.4 76.4 - - + +
335A ALA* 1.3 58.1 + - - +
337A TYR* 3.4 31.4 + - + +
338A ALA* 3.0 29.1 + - - +
416A SOG 3.6 42.9 - - + +
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Residues in contact with ALA 335 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
332A ASP* 3.1 35.7 + - + +
334A GLU* 1.3 77.2 - - - +
336A VAL* 1.4 59.7 + - - +
338A ALA* 3.5 7.1 + - - +
339A ALA* 3.2 23.6 + - - +
415A SOG 3.8 27.1 - - + +
416A SOG 5.7 0.4 - - - +
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Residues in contact with VAL 336 (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 34.5 - - + +
329A GLN 5.2 5.4 - - - +
332A ASP 3.8 12.6 - - - +
333A ARG* 3.2 12.4 + - - +
335A ALA* 1.4 72.5 - - - +
337A TYR* 1.4 64.2 + - - +
339A ALA* 3.3 2.7 + - - +
340A PHE* 3.1 46.4 + - + -
404A CIT 3.4 34.5 - - + +
415A SOG 4.3 16.6 - - + -
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Residues in contact with TYR 337 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A TYR* 4.5 4.0 - - - +
110A GLU* 3.5 55.1 - - + +
333A ARG* 2.8 64.8 + - + -
334A GLU* 3.4 36.1 + - - +
336A VAL* 1.4 74.9 - - - +
338A ALA* 1.4 48.8 + - - +
340A PHE* 3.4 2.3 + - - +
341A THR* 2.7 41.9 + - - +
404A CIT 3.4 43.5 + - + -
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Residues in contact with ALA 338 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A TYR* 5.8 1.3 - - - +
45A TYR* 3.7 28.7 + - + +
334A GLU 3.0 16.8 + - - +
335A ALA* 3.7 7.6 - - - +
336A VAL 3.3 0.2 - - - -
337A TYR* 1.4 74.1 - - - +
339A ALA* 1.4 59.4 + - - +
341A THR* 4.3 1.3 - - - -
342A PHE* 3.0 30.7 + - - +
410A SOG 3.7 11.4 - - + +
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Residues in contact with ALA 339 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
317A LEU* 3.8 12.6 - - + -
335A ALA 3.2 16.5 + - - +
336A VAL* 3.3 4.7 + - - +
338A ALA* 1.4 75.5 - - - +
340A PHE* 1.4 54.8 + - + +
342A PHE* 3.9 6.0 - - - +
343A SER* 2.7 36.0 + - - -
415A SOG 3.9 29.8 - - + -
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Residues in contact with PHE 340 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107A ASP* 5.7 0.7 - - - +
314A ILE* 4.2 5.2 - - + -
317A LEU* 3.6 47.1 - - + -
318A ASN* 4.2 17.5 - - - -
321A LYS* 4.1 11.2 - - + -
327A PHE* 3.8 27.1 - + - -
336A VAL* 3.1 28.9 + - + +
337A TYR 3.8 2.2 - - - +
339A ALA* 1.4 75.5 - - + +
341A THR* 1.3 57.8 + - - +
343A SER* 3.4 1.2 + - - -
344A HIS* 3.0 57.3 + - + -
401A NRE 5.8 0.2 - - - -
404A CIT 3.5 48.2 - - + +
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Residues in contact with THR 341 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A TYR* 4.3 7.3 + - - +
49A LEU* 3.4 33.7 - - + -
107A ASP* 3.3 40.5 + - + +
110A GLU* 4.3 3.1 + - - -
337A TYR* 2.7 27.7 + - - +
338A ALA* 3.8 6.7 - - - -
340A PHE* 1.3 69.7 - - - +
342A PHE* 1.3 60.9 + - - +
344A HIS* 3.3 4.0 + - - +
345A TRP* 2.9 28.2 + - - +
409A SOG 4.3 2.2 - - + -
410A SOG 3.9 13.0 - - + -
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Residues in contact with PHE 342 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
313A PRO* 5.1 6.5 - - + -
338A ALA 3.0 18.3 + - - +
339A ALA* 3.9 6.5 - - - +
341A THR* 1.3 75.2 - - - +
343A SER* 1.4 59.9 + - - +
345A TRP* 3.4 23.9 + + - +
346A LEU* 3.0 57.6 + - + +
409A SOG 4.0 26.2 - - + -
410A SOG 4.1 12.8 - - + +
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Residues in contact with SER 343 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
310A CYS 4.5 0.9 - - - +
313A PRO* 3.4 21.6 - - - +
314A ILE* 3.8 30.7 + - - +
317A LEU* 3.1 19.5 - - - +
339A ALA 2.7 22.2 + - - -
340A PHE 3.6 4.9 - - - -
341A THR 3.2 0.2 - - - -
342A PHE* 1.4 74.0 - - - +
344A HIS* 1.4 63.5 + - - +
346A LEU* 3.4 13.9 + - - +
347A VAL* 3.5 17.5 + - - +
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Residues in contact with HIS 344 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A TYR* 3.6 4.7 - - - +
103A SER* 3.6 17.6 + - - +
106A VAL* 5.9 4.9 - - + -
107A ASP* 3.2 22.2 + - - -
314A ILE* 3.5 26.0 - - + +
340A PHE* 3.0 39.8 + + + +
341A THR 3.6 2.2 - - - +
343A SER* 1.4 73.3 - - - +
345A TRP* 1.4 64.2 + - - +
347A VAL* 3.2 14.3 + - - +
348A TYR* 3.1 20.7 - - - -
401A NRE 3.4 46.4 + + + -
404A CIT 4.9 5.6 - - - -
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Residues in contact with TRP 345 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A ALA* 2.8 48.8 + - + -
53A TYR* 3.9 26.6 + + + -
56A VAL* 3.6 27.2 - - + +
341A THR 2.9 16.1 + - - +
342A PHE* 3.6 19.5 - + - +
344A HIS* 1.4 77.9 - - - +
346A LEU* 1.3 80.1 + - + +
348A TYR* 3.3 6.5 + - + -
349A ALA* 2.8 33.4 + - + -
409A SOG 3.8 37.0 - - + -
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Residues in contact with LEU 346 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
309A LEU 4.5 4.9 - - - +
310A CYS* 3.4 40.6 - - - +
313A PRO* 3.7 29.6 - - + -
342A PHE* 3.0 45.2 + - + +
343A SER* 3.6 8.3 - - - +
344A HIS 3.3 0.8 - - - -
345A TRP* 1.3 92.0 - - + +
347A VAL* 1.4 62.2 + - - +
349A ALA* 3.4 7.0 + - + +
350A ASN 3.2 16.8 + - - -
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Residues in contact with VAL 347 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95A ALA* 5.8 1.6 - - + -
126A GLN* 3.8 14.6 - - - +
310A CYS 4.3 5.4 - - - +
311A TYR* 3.5 37.5 + - + +
314A ILE* 3.6 26.0 - - + -
343A SER 3.5 14.3 + - - +
344A HIS 3.2 8.8 + - - +
346A LEU* 1.4 74.8 - - - +
348A TYR* 1.3 67.2 + - + +
350A ASN* 3.3 18.4 + - - +
351A SER* 3.8 5.4 + - - -
401A NRE 3.7 27.8 - - - -
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Residues in contact with TYR 348 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A TYR* 3.8 18.2 - + + -
56A VAL* 3.3 16.4 - - + +
60A ALA* 4.8 0.2 - - - +
95A ALA* 3.6 31.2 - - + -
96A THR* 4.7 3.8 + - - +
99A CYS* 3.5 15.4 + - - +
100A LEU* 3.6 38.4 - - + -
103A SER* 3.6 24.7 - - - -
126A GLN* 2.7 30.9 + - - -
344A HIS 3.1 24.6 + - - -
345A TRP* 3.3 6.1 + - + +
347A VAL* 1.3 72.6 - - + +
349A ALA* 1.3 64.6 + - - +
350A ASN 3.1 1.8 - - - -
351A SER* 3.1 23.3 + - - -
352A ALA 3.4 2.3 + - - -
401A NRE 3.6 19.4 - - - -
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Residues in contact with ALA 349 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56A VAL* 3.8 14.3 - - + +
310A CYS* 4.8 3.4 - - - -
345A TRP* 2.8 43.0 + - + +
346A LEU* 3.5 17.7 - - + +
347A VAL 3.4 0.2 - - - -
348A TYR* 1.3 75.4 - - - +
350A ASN* 1.4 55.5 + - - +
352A ALA* 3.2 4.3 + - - +
353A ALA* 2.9 29.3 + - - +
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Residues in contact with ASN 350 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
306A VAL* 3.7 14.7 - - - +
307A PHE* 3.6 34.6 + - - -
310A CYS* 3.7 21.5 - - + -
311A TYR* 4.0 10.7 - - + -
346A LEU 3.2 5.4 + - - -
347A VAL 3.3 13.5 - - - +
348A TYR 3.1 0.2 - - - -
349A ALA* 1.4 74.0 - - - +
351A SER* 1.4 62.8 + - - +
353A ALA* 3.1 3.4 + - - +
354A ASN* 3.1 53.3 + - - +
419A NA 3.0 23.0 - - - -
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Residues in contact with SER 351 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A ALA* 3.8 5.6 - - - -
64A ASN* 2.8 25.7 + - - +
92A ASP* 3.2 45.4 + - - +
95A ALA* 4.9 5.0 - - - +
96A THR* 3.5 19.7 + - - -
347A VAL 3.8 5.6 + - - -
348A TYR* 3.1 14.0 + - - -
350A ASN* 1.4 77.0 - - - +
352A ALA* 1.4 56.0 + - - +
354A ASN* 4.6 0.5 - - - +
355A PRO* 3.3 12.8 - - - +
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Residues in contact with ALA 352 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56A VAL* 3.9 30.1 - - + +
59A VAL* 3.9 22.1 - - + +
60A ALA* 3.8 10.3 - - + +
348A TYR 3.4 5.2 + - - +
349A ALA 3.2 10.0 + - - +
350A ASN 3.2 0.4 - - - -
351A SER* 1.4 79.6 - - - +
353A ALA* 1.3 61.7 + - - +
354A ASN 3.5 0.2 - - - -
355A PRO* 3.5 8.3 - - - +
356A ILE* 3.3 23.3 - - + +
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Residues in contact with ALA 353 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
306A VAL* 4.0 26.0 - - + -
310A CYS* 5.5 1.1 - - - -
349A ALA 2.9 16.9 + - - +
350A ASN* 3.1 7.8 + - - +
352A ALA* 1.3 73.9 - - - +
354A ASN* 1.3 65.8 + - - +
356A ILE* 3.1 12.0 + - - +
357A ILE* 2.9 28.9 + - + +
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Residues in contact with ASN 354 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A ASN* 5.0 2.7 - - - +
88A LEU* 4.0 15.0 - - + +
89A SER* 5.9 0.7 - - - +
92A ASP* 3.1 26.1 + - - +
303A VAL* 3.8 19.8 - - - +
306A VAL* 5.2 0.2 - - - +
307A PHE* 5.7 0.4 - - - -
350A ASN* 3.1 34.1 + - - +
351A SER 4.6 0.9 - - - +
353A ALA* 1.3 72.1 - - - +
355A PRO* 1.4 68.5 - - + +
357A ILE* 3.1 24.3 + - - +
358A TYR* 3.2 41.7 + - + +
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Residues in contact with PRO 355 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A VAL 5.2 0.7 - - - +
63A GLY* 3.5 43.7 - - - +
64A ASN* 3.6 17.9 - - - +
67A VAL* 3.8 9.2 - - + -
351A SER 3.3 16.6 - - - +
352A ALA 3.5 10.3 - - - +
354A ASN* 1.4 90.8 - - + +
356A ILE* 1.4 59.3 + - + +
358A TYR* 3.5 11.3 + - + -
359A ASN* 3.2 6.8 + - - +
369A PHE* 3.2 26.9 - - + -
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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
----------------------------------------------------------
59A VAL* 3.8 21.3 - - + -
352A ALA* 3.3 24.2 - - + +
353A ALA* 3.1 10.6 + - - +
355A PRO* 1.4 75.0 - - + +
357A ILE* 1.3 65.5 + - + +
359A ASN* 3.3 12.3 + - + +
360A PHE* 3.2 45.8 - - + -
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Residues in contact with ILE 357 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
299A MET* 4.2 6.1 - - + +
302A VAL* 3.8 23.6 - - + -
303A VAL* 3.8 26.9 - - + -
306A VAL* 4.0 32.5 - - + -
353A ALA* 2.9 29.8 + - + +
354A ASN* 3.1 20.4 + - - +
356A ILE* 1.3 76.4 - - + +
358A TYR* 1.4 55.3 + - - +
359A ASN 3.3 0.3 + - - -
360A PHE* 3.4 3.8 + - - +
361A LEU* 2.9 40.5 + - + +
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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
----------------------------------------------------------
67A VAL* 3.8 39.7 - - + -
85A LEU* 3.4 38.5 + - + +
88A LEU* 3.5 19.4 - - - +
89A SER* 4.8 4.5 + - - -
299A MET* 3.9 23.3 - - + -
303A VAL* 3.7 22.1 - - + +
354A ASN* 3.2 31.6 + - + +
355A PRO* 3.8 5.2 - - + +
356A ILE 3.4 0.2 - - - -
357A ILE* 1.4 73.8 - - - +
359A ASN* 1.3 60.9 + - - +
362A SER* 3.0 30.3 + - - +
365A PHE* 3.4 33.9 - + + +
369A PHE* 4.2 2.0 - - + -
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Residues in contact with ASN 359 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
355A PRO 3.2 13.1 + - - +
356A ILE* 3.3 14.3 - - + +
357A ILE 3.2 0.6 - - - -
358A TYR* 1.3 78.6 - - - +
360A PHE* 1.3 84.2 + - - +
366A ARG* 3.1 49.8 + - - +
369A PHE* 3.5 31.8 - - + +
370A LYS 5.5 0.2 + - - -
373A PHE* 5.3 4.8 - - - -
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Residues in contact with PHE 360 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
356A ILE* 3.2 40.8 - - + +
357A ILE* 3.4 4.5 + - - +
359A ASN* 1.3 97.3 - - - +
361A LEU* 1.3 71.5 + - + +
362A SER 3.6 0.4 - - - -
366A ARG* 3.4 15.8 + - - +
----------------------------------------------------------
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Residues in contact with LEU 361 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
295A LYS* 4.0 12.6 - - - +
298A LYS* 3.9 27.9 - - + +
299A MET* 3.8 30.5 - - + +
302A VAL* 3.7 42.2 - - + -
357A ILE* 2.9 23.3 + - + +
358A TYR 4.2 0.2 - - - -
360A PHE* 1.3 85.9 - - + +
362A SER* 1.3 59.6 + - - +
363A GLY 4.3 0.4 - - - -
366A ARG* 4.8 0.4 - - - -
406A SO4 4.4 4.9 + - - -
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Residues in contact with SER 362 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
299A MET* 3.7 19.7 - - - -
358A TYR 3.0 16.5 + - - +
360A PHE 3.6 0.8 - - - -
361A LEU* 1.3 79.0 - - - +
363A GLY* 1.3 57.8 + - - +
364A LYS* 3.8 1.7 - - - +
365A PHE* 2.8 33.2 + - - -
366A ARG* 3.0 29.5 + - - +
406A SO4 3.0 18.0 + - - -
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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).
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