Contacts of the helix formed by residues 332 - 362 (chain B) 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 B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
327B PHE* 4.6 6.9 - - - -
329B GLN* 3.4 33.6 - - - +
331B SER* 1.3 83.5 + - - +
333B ARG* 1.4 60.3 + - - +
334B GLU* 3.3 3.4 - - - -
335B ALA* 3.1 16.2 + - + +
336B VAL* 3.0 38.6 + - + +
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Residues in contact with ARG 333 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110B GLU* 3.5 21.3 + - - -
327B PHE 6.1 0.2 - - - -
329B GLN 4.0 4.5 + - - +
330B ALA* 3.5 26.2 + - - +
331B SER 3.2 3.4 - - - +
332B ASP* 1.4 75.4 + - - +
334B GLU* 1.3 56.8 + - - +
336B VAL* 3.5 6.2 + - - +
337B TYR* 3.1 66.4 + - + +
414B SOG 4.1 35.3 - - - +
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Residues in contact with GLU 334 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39B TYR* 5.8 0.3 - - - -
43B LYS* 3.7 30.5 + - - +
331B SER 4.6 4.3 + - - +
332B ASP 5.1 0.2 - - - -
333B ARG* 1.3 77.0 - - - +
335B ALA* 1.4 63.1 + - - +
337B TYR* 3.5 5.0 + - - +
338B ALA* 3.1 23.6 + - + +
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Residues in contact with ALA 335 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
332B ASP* 3.1 18.0 + - + +
334B GLU* 1.4 78.4 - - - +
336B VAL* 1.4 57.3 + - + +
338B ALA* 3.5 6.6 + - - +
339B ALA* 3.1 28.8 + - - +
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Residues in contact with VAL 336 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
327B PHE* 3.6 45.8 - - + +
332B ASP* 3.0 38.9 + - + +
333B ARG* 3.8 7.6 - - + +
335B ALA* 1.4 76.6 - - + +
337B TYR* 1.3 60.5 + - + +
339B ALA* 3.5 5.1 + - - +
340B PHE* 3.1 42.2 + - + -
411B SOG 3.8 24.5 - - + -
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Residues in contact with TYR 337 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110B GLU* 4.1 37.9 - - + +
333B ARG* 3.1 59.8 + - + +
334B GLU* 4.0 4.3 - - - +
336B VAL* 1.3 78.1 - - + +
338B ALA* 1.3 58.5 + - - +
340B PHE* 3.5 3.9 + - - +
341B THR* 2.7 41.8 + - - +
411B SOG 3.7 44.6 - - + +
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Residues in contact with ALA 338 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45B TYR* 3.6 24.5 + - + -
334B GLU* 3.1 17.7 + - + +
335B ALA* 3.7 8.1 - - - +
337B TYR* 1.3 75.3 - - - +
339B ALA* 1.3 57.6 + - - +
341B THR* 3.4 4.4 + - - -
342B PHE* 3.0 31.4 + - - +
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Residues in contact with ALA 339 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
317B LEU* 3.8 19.1 - - + -
335B ALA 3.1 16.6 + - - +
336B VAL* 3.8 7.0 - - - +
337B TYR 3.4 0.2 - - - -
338B ALA* 1.3 77.2 - - - +
340B PHE* 1.4 52.7 + - - +
342B PHE* 3.5 6.2 + - - +
343B SER* 2.7 38.7 + - - -
410B SOG 6.0 3.6 - - + -
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Residues in contact with PHE 340 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
314B ILE* 4.2 4.5 - - + -
317B LEU* 3.7 48.0 - - + -
318B ASN* 3.8 18.2 - - - -
321B LYS* 4.0 20.6 - - + -
327B PHE* 3.9 20.2 - + - -
336B VAL* 3.1 31.1 + - + +
337B TYR* 4.0 3.4 - - + +
338B ALA 3.4 0.2 - - - -
339B ALA* 1.4 71.7 - - - +
341B THR* 1.3 65.4 + - - +
343B SER* 3.4 1.1 + - - -
344B HIS* 3.1 42.3 + - + -
411B SOG 3.7 52.3 - - + -
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Residues in contact with THR 341 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45B TYR* 3.7 13.0 - - + -
49B LEU* 3.5 40.4 - - + -
107B ASP* 3.5 40.5 + - + +
337B TYR* 2.7 26.2 + - - +
338B ALA* 3.7 4.5 - - - -
339B ALA 3.3 0.2 - - - -
340B PHE* 1.3 75.3 - - - +
342B PHE* 1.3 61.1 + - - +
344B HIS* 3.3 2.1 + - - -
345B TRP* 3.0 21.5 + - - +
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Residues in contact with PHE 342 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45B TYR* 3.5 16.1 + - - +
49B LEU* 6.1 0.2 - - - -
313B PRO* 5.3 5.4 - - + -
338B ALA 3.0 18.6 + - - +
339B ALA* 3.8 6.5 - - - +
341B THR* 1.3 76.8 - - - +
343B SER* 1.3 58.2 + - - +
345B TRP* 3.3 31.3 + + + +
346B LEU* 2.9 61.2 + - + +
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Residues in contact with SER 343 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
310B CYS 4.5 1.4 - - - +
313B PRO* 3.3 19.7 - - - +
314B ILE* 3.8 27.9 - - - +
317B LEU* 3.1 20.1 - - - +
339B ALA 2.7 21.7 + - - -
340B PHE 3.6 5.8 - - - -
341B THR 3.3 0.2 - - - -
342B PHE* 1.3 77.5 - - - +
344B HIS* 1.4 60.8 - - - +
346B LEU* 3.6 8.3 + - - +
347B VAL* 3.4 24.9 + - - +
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Residues in contact with HIS 344 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53B TYR* 3.6 13.9 - - - +
103B SER* 3.7 9.5 + - - +
106B VAL* 6.3 1.6 - - + -
107B ASP* 3.0 25.5 + - - -
314B ILE* 3.5 27.3 - - + +
340B PHE* 3.1 28.3 + - - -
341B THR 3.6 3.1 - - - +
343B SER* 1.4 71.5 - - - +
345B TRP* 1.4 66.5 + - - +
347B VAL* 3.2 13.8 + - - +
348B TYR* 3.1 21.3 - - - -
401B NRE 3.5 38.8 + + + -
411B SOG 3.9 24.3 - - + +
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Residues in contact with TRP 345 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49B LEU* 5.0 5.8 - - + -
52B ALA* 2.9 49.5 + - + -
53B TYR* 3.7 34.0 + + + -
56B VAL* 3.4 24.4 - - + +
341B THR 3.0 14.0 + - - +
342B PHE* 3.7 34.1 - + - +
344B HIS* 1.4 74.1 - - - +
346B LEU* 1.4 85.2 + - + +
348B TYR* 3.0 9.3 + - + +
349B ALA* 2.8 40.5 + - + -
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Residues in contact with LEU 346 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
309B LEU 4.4 5.2 - - - +
310B CYS* 3.6 39.3 - - - +
313B PRO* 3.8 27.4 - - + -
342B PHE* 2.9 43.0 + - + +
343B SER 3.6 7.2 - - - +
344B HIS 3.3 0.2 - - - -
345B TRP* 1.4 99.1 - - + +
347B VAL* 1.3 61.0 + - - +
349B ALA* 3.3 8.2 + - + +
350B ASN 3.2 17.2 + - - -
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Residues in contact with VAL 347 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95B ALA* 6.0 1.3 - - + -
126B GLN* 3.6 15.0 - - - +
310B CYS 4.5 5.4 - - - +
311B TYR* 3.9 33.3 + - + +
314B ILE* 3.6 31.4 - - + -
343B SER 3.4 8.0 + - - +
344B HIS 3.2 9.9 + - - +
346B LEU* 1.3 75.1 - - - +
348B TYR* 1.4 68.2 + - + +
350B ASN* 3.4 17.3 + - - +
351B SER* 4.0 5.5 + - - -
401B NRE 3.3 31.2 - - - -
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Residues in contact with TYR 348 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53B TYR* 3.8 17.9 - + + -
56B VAL* 3.3 14.6 - - + +
95B ALA* 3.5 31.0 - - + -
96B THR* 4.9 2.9 + - - +
99B CYS* 3.4 15.8 + - - +
100B LEU* 3.6 37.2 - - + -
103B SER* 3.5 29.2 - - - -
126B GLN* 2.7 29.9 + - - -
344B HIS 3.1 24.7 + - - -
345B TRP* 3.0 7.4 + - + +
347B VAL* 1.4 74.5 - - + +
349B ALA* 1.4 65.1 + - - +
351B SER* 3.2 23.2 + - - -
352B ALA 3.6 0.9 + - - -
401B NRE 3.7 14.8 - + - -
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Residues in contact with ALA 349 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B VAL* 3.7 15.6 - - + +
310B CYS* 4.8 3.1 - - - -
345B TRP* 2.8 43.0 + - + +
346B LEU* 3.3 18.6 + - + +
348B TYR* 1.4 74.9 - - - +
350B ASN* 1.4 54.9 - - - +
352B ALA* 3.1 6.2 + - - +
353B ALA* 2.9 28.0 + - - +
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Residues in contact with ASN 350 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88B LEU* 5.7 1.0 - - - +
92B ASP* 4.3 5.9 + - - -
133B ALA* 6.2 0.2 - - - +
306B VAL* 3.9 12.8 - - - +
307B PHE* 3.6 42.9 + - - -
310B CYS* 3.8 20.6 - - + -
311B TYR* 4.0 14.7 + - + -
346B LEU 3.2 4.9 + - - -
347B VAL 3.4 13.0 + - - +
348B TYR 3.2 0.8 - - - -
349B ALA* 1.4 73.1 - - - +
351B SER* 1.3 63.5 + - - +
353B ALA* 3.2 5.5 + - - +
354B ASN* 3.1 46.4 + - - +
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Residues in contact with SER 351 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60B ALA* 3.8 4.7 - - - -
64B ASN* 2.8 24.1 + - - +
92B ASP* 3.2 46.7 + - - +
95B ALA* 5.0 5.2 - - - +
96B THR* 3.6 18.5 + - - -
311B TYR* 5.5 1.4 + - - -
347B VAL 4.3 5.9 + - - -
348B TYR* 3.2 13.4 + - - -
350B ASN* 1.3 77.8 + - - +
352B ALA* 1.3 59.7 + - - +
354B ASN 4.1 0.2 + - - -
355B PRO* 3.3 9.5 - - - +
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Residues in contact with ALA 352 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B VAL* 4.1 31.2 - - + +
59B VAL* 3.9 23.4 - - + +
60B ALA* 3.8 10.0 - - - +
348B TYR 3.6 1.4 + - - -
349B ALA 3.1 12.4 + - - +
351B SER* 1.3 78.4 - - - +
353B ALA* 1.4 61.1 + - - +
355B PRO* 3.3 12.4 - - - +
356B ILE* 3.4 20.0 - - + +
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Residues in contact with ALA 353 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
306B VAL* 4.1 23.3 - - + -
310B CYS* 5.5 1.3 - - - -
349B ALA 2.9 13.7 + - - +
350B ASN* 3.2 13.7 + - - +
352B ALA* 1.4 74.0 - - - +
354B ASN* 1.4 65.0 + - - +
356B ILE* 3.1 12.5 + - - +
357B ILE* 3.0 28.9 + - + +
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Residues in contact with ASN 354 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64B ASN* 5.0 2.9 - - - +
88B LEU* 3.9 21.5 - - + +
89B SER* 6.0 0.2 - - - +
92B ASP* 3.2 24.3 + - - +
303B VAL* 3.6 20.1 - - - +
306B VAL* 5.3 0.2 - - - +
307B PHE* 5.7 0.4 - - - -
350B ASN* 3.1 34.4 + - - +
351B SER 4.6 1.1 - - - +
353B ALA* 1.4 74.3 - - - +
355B PRO* 1.4 69.2 - - + +
356B ILE 3.2 0.7 + - - -
357B ILE* 3.2 14.9 + - - +
358B TYR* 3.1 44.8 + - + +
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Residues in contact with PRO 355 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B VAL* 5.2 0.9 - - + +
63B GLY* 3.4 45.1 - - - +
64B ASN* 3.5 17.3 - - - +
67B VAL* 4.0 7.4 - - + -
351B SER 3.3 16.6 - - - +
352B ALA 3.3 11.0 - - - +
354B ASN* 1.4 90.0 - - + +
356B ILE* 1.4 54.7 + - - +
358B TYR* 3.4 12.3 + - + -
359B ASN* 3.1 22.9 + - - +
369B PHE* 3.4 14.5 - - + -
413B SOG 4.5 8.1 - - + -
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Residues in contact with ILE 356 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B VAL* 3.9 18.4 - - + -
352B ALA* 3.4 22.0 - - + +
353B ALA* 3.1 11.7 + - - +
355B PRO* 1.4 72.8 - - - +
357B ILE* 1.3 65.7 + - + +
359B ASN* 3.1 15.0 + - - +
360B PHE* 3.2 44.3 + - + -
413B SOG 4.1 22.7 - - + -
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Residues in contact with ILE 357 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
299B MET* 4.0 6.3 - - + +
302B VAL* 3.9 13.0 - - + -
303B VAL* 3.9 28.5 - - + -
306B VAL* 4.0 33.7 - - + -
353B ALA* 3.0 24.8 + - + +
354B ASN* 3.5 24.0 - - - +
356B ILE* 1.3 74.0 - - + +
358B TYR* 1.4 57.0 + - - +
360B PHE* 3.3 4.8 + - - -
361B LEU* 2.9 53.3 + - + +
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Residues in contact with TYR 358 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67B VAL* 3.7 35.4 - - + -
85B LEU* 3.3 37.6 + - + +
88B LEU* 3.5 19.4 - - - +
89B SER* 4.7 4.3 + - - -
299B MET* 3.9 23.8 - - + -
303B VAL* 3.7 23.4 - - + +
354B ASN* 3.1 30.3 + - + +
355B PRO* 3.6 13.7 - - + +
357B ILE* 1.4 74.8 - - - +
359B ASN* 1.3 56.9 + - - +
362B SER* 2.8 33.8 + - - +
365B PHE* 3.7 29.1 - + + +
369B PHE* 4.3 1.3 - - + -
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Residues in contact with ASN 359 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
355B PRO 3.1 13.4 + - - +
356B ILE* 3.3 9.9 - - - +
358B TYR* 1.3 78.0 - - - +
360B PHE* 1.3 79.2 + - - +
362B SER 3.6 0.3 - - - +
366B ARG* 2.9 50.9 + - - +
369B PHE* 3.5 31.2 - - + +
413B SOG 3.7 24.5 - - + +
----------------------------------------------------------
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Residues in contact with PHE 360 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
356B ILE* 3.2 45.1 + - + +
357B ILE* 4.1 3.6 - - - +
359B ASN* 1.3 90.1 - - - +
361B LEU* 1.3 70.2 + - + +
366B ARG* 2.9 23.5 + - - +
413B SOG 5.5 2.7 - - + -
----------------------------------------------------------
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Residues in contact with LEU 361 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
295B LYS* 4.1 17.7 - - - +
298B LYS* 3.8 34.5 - - + +
299B MET* 3.7 25.9 - - + +
302B VAL* 3.8 29.4 - - + -
357B ILE* 2.9 36.0 + - + +
358B TYR 3.8 0.2 - - - -
360B PHE* 1.3 88.7 - - + +
362B SER* 1.3 59.9 + - - +
363B GLY 4.3 0.4 - - - -
366B ARG* 4.7 1.6 - - - -
403B SO4 4.1 5.4 + - - -
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Residues in contact with SER 362 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
299B MET* 3.6 19.7 - - - -
358B TYR 2.8 18.0 + - - +
359B ASN 3.6 1.6 - - - +
360B PHE 3.8 0.4 - - - -
361B LEU* 1.3 78.6 - - - +
363B GLY* 1.3 56.7 + - - +
364B LYS* 4.0 1.4 - - - +
365B PHE* 3.1 30.1 + - - -
366B ARG* 3.0 29.0 + - - +
403B SO4 2.7 24.2 + - - -
----------------------------------------------------------
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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