Contacts of the helix formed by residues 324 - 351 (chain B) in PDB entry 2Z1Z
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 324 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
320B LEU* 3.5 16.2 - - + +
321B ALA* 2.8 22.1 + - - +
322B CYS 2.9 2.6 + - - -
323B LEU* 1.3 82.5 - - - +
325B PRO* 1.4 65.2 - - - +
326B GLU* 3.1 19.3 + - - +
327B GLY 3.0 11.4 + - - -
328B LEU* 2.6 40.6 + - - +
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Residues in contact with PRO 325 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
324B THR* 1.4 82.7 - - - +
326B GLU* 1.3 67.0 - - + +
328B LEU* 3.7 6.9 - - + +
329B GLU* 2.7 35.1 + - - +
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Residues in contact with GLU 326 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73B VAL* 3.9 29.6 - - + +
321B ALA 4.8 0.3 - - - +
324B THR* 3.1 20.8 + - - +
325B PRO* 1.3 101.3 - - + +
327B GLY* 1.3 56.2 + - - +
329B GLU* 3.5 13.7 - - - +
330B ALA* 2.9 34.5 + - - +
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Residues in contact with GLY 327 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73B VAL* 4.5 4.6 - - - +
74B ILE* 4.4 8.0 - - - +
321B ALA 3.3 15.2 + - - -
322B CYS* 3.1 22.9 - - - -
324B THR* 3.0 9.5 + - - -
326B GLU* 1.3 72.6 - - - +
328B LEU* 1.3 64.1 + - - +
330B ALA* 3.0 14.2 + - - +
331B MET* 3.1 16.7 + - - +
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Residues in contact with LEU 328 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110B THR* 4.4 17.7 - - + -
111B PHE* 5.2 3.6 - - + -
242B MET* 6.3 0.9 - - - -
322B CYS 3.1 7.0 + - - +
323B LEU* 4.1 15.0 - - + -
324B THR* 2.6 42.2 + - - +
325B PRO* 3.8 5.6 - - + +
327B GLY* 1.3 70.6 - - - -
329B GLU* 1.3 62.2 + - - +
331B MET* 3.3 29.7 + - + +
332B HIS* 3.1 25.5 + - - +
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Residues in contact with GLU 329 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
325B PRO 2.7 20.5 + - - +
326B GLU* 3.5 12.0 - - - +
328B LEU* 1.3 78.8 - - - +
330B ALA* 1.3 61.4 + - - +
332B HIS* 3.5 6.7 + - - +
333B LYS* 3.2 42.2 + - + +
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Residues in contact with ALA 330 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71B PRO* 3.3 35.2 - - + -
73B VAL* 3.9 10.5 - - + -
74B ILE* 5.2 1.8 - - + -
326B GLU 2.9 20.0 + - - +
327B GLY* 3.0 5.4 + - - +
329B GLU* 1.3 74.1 - - - +
331B MET* 1.3 55.9 + - + +
333B LYS* 3.3 17.8 + - - +
334B VAL* 3.0 32.4 + - - +
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Residues in contact with MET 331 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71B PRO* 5.8 1.3 - - + -
74B ILE* 5.5 1.3 - - + -
111B PHE* 4.8 5.2 - - + -
242B MET* 5.3 5.8 - - + -
268B PHE* 4.5 5.2 - - - -
271B TYR* 3.8 55.4 - - + +
272B ALA* 4.5 7.0 - - + +
322B CYS* 3.7 30.7 - - + +
323B LEU* 4.6 6.7 - - + -
327B GLY 3.1 11.6 + - - +
328B LEU* 3.3 36.3 - - + +
329B GLU 3.4 0.2 - - - -
330B ALA* 1.3 74.1 - - + +
332B HIS* 1.3 55.8 + - - +
334B VAL* 3.3 3.1 + - - +
335B ILE* 2.7 44.7 + - + +
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Residues in contact with HIS 332 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
328B LEU 3.1 17.8 + - - +
329B GLU* 3.6 7.2 + - - +
331B MET* 1.3 77.4 - - - +
333B LYS* 1.3 54.3 + - - +
335B ILE* 3.8 9.6 - - + +
336B GLY* 2.8 31.3 + - - -
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Residues in contact with LYS 333 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
329B GLU* 3.2 36.9 + - + +
330B ALA* 3.3 22.3 - - - +
332B HIS* 1.3 80.3 + - - +
334B VAL* 1.3 61.8 + - + +
336B GLY* 3.4 2.8 + - - -
337B PHE* 3.0 25.5 + - - +
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Residues in contact with VAL 334 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68B GLU* 5.6 9.2 - - + -
69B PRO 5.0 5.4 - - - +
71B PRO* 3.9 22.2 - - + -
270B LYS 5.3 0.2 - - - +
271B TYR 2.8 31.6 - - - +
272B ALA* 4.9 4.9 - - - -
273B GLY 5.5 0.4 - - - +
330B ALA 3.0 16.0 + - - +
331B MET* 3.4 4.3 - - - +
333B LYS* 1.3 77.6 - - + +
335B ILE* 1.3 60.9 + - + +
337B PHE* 2.8 25.4 + - + +
338B TYR* 3.2 34.0 + - + -
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Residues in contact with ILE 335 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242B MET* 3.5 47.6 - - + +
243B TYR* 3.8 33.5 - - + +
270B LYS 4.4 3.6 - - - +
271B TYR* 3.9 23.6 - - + +
331B MET* 2.7 30.8 + - + +
332B HIS* 4.0 7.9 - - + +
334B VAL* 1.3 70.8 - - + +
336B GLY* 1.3 53.0 + - - +
338B TYR* 3.3 4.3 + - - +
339B LYS* 2.8 57.2 + - + +
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Residues in contact with GLY 336 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
332B HIS* 2.8 19.5 + - - -
333B LYS* 3.6 3.4 - - - -
334B VAL 3.1 0.2 - - - -
335B ILE* 1.3 75.9 - - - +
337B PHE* 1.3 64.5 + - - +
339B LYS* 4.2 8.5 - - - +
340B GLU* 3.0 22.9 + - - +
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Residues in contact with PHE 337 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68B GLU* 3.6 33.2 - - + -
333B LYS 3.0 12.1 + - - +
334B VAL* 2.8 17.1 + - + +
336B GLY* 1.3 76.5 - - - +
338B TYR* 1.3 72.7 + + - +
340B GLU* 3.1 0.6 + - - -
341B ASN* 2.8 46.4 + - - +
409B GLY 3.5 9.2 - - - -
411B ARG* 3.3 67.9 + - + +
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Residues in contact with TYR 338 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66B THR* 3.8 12.0 - - + -
67B THR* 3.0 30.8 + - - -
68B GLU* 3.1 21.1 + - + +
243B TYR* 3.7 27.8 - - + -
270B LYS 5.0 0.9 - - - -
334B VAL* 3.2 35.4 + - + -
335B ILE* 3.7 4.3 - - - +
337B PHE* 1.3 99.1 - + - +
339B LYS* 1.3 49.8 + - - +
341B ASN* 3.5 7.8 - - - +
342B THR* 2.6 38.5 + - - +
363B PRO* 4.9 2.9 - - + -
407B ALA* 3.8 13.8 - - - +
408B PHE* 3.6 40.4 - + + -
409B GLY 4.4 0.4 - - - -
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Residues in contact with LYS 339 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242B MET 5.2 0.2 - - - +
243B TYR* 2.6 44.7 + - + +
244B MET 4.7 2.5 - - - -
245B SER* 3.2 19.5 - - - -
335B ILE* 2.8 38.8 + - + +
336B GLY* 4.2 7.0 - - - +
338B TYR* 1.3 73.9 - - - +
340B GLU* 1.3 65.0 + - - +
342B THR* 3.2 10.7 + - + +
343B ASN* 3.1 30.3 + - - +
359B GLY 5.5 1.0 + - - -
360B LYS 2.8 24.5 + - - -
361B ASN* 4.2 0.8 - - - +
362B ALA 4.4 3.8 + - - +
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Residues in contact with GLU 340 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
336B GLY 3.0 14.6 + - - +
337B PHE* 3.5 2.2 - - - +
339B LYS* 1.3 72.2 - - - +
341B ASN* 1.3 67.2 + - - +
342B THR 2.9 1.0 + - - -
343B ASN* 3.0 34.7 + - - +
344B ILE* 3.3 32.6 + - + +
411B ARG* 3.4 28.9 - - - +
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Residues in contact with ASN 341 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
337B PHE* 2.8 32.4 + - - -
338B TYR* 3.5 7.3 - - - +
340B GLU* 1.3 72.2 - - - +
342B THR* 1.3 60.7 + - - +
344B ILE* 3.5 10.0 + - - +
345B ILE* 3.3 24.8 + - - +
407B ALA* 3.0 30.6 + - + +
409B GLY 3.2 23.8 + - - -
411B ARG* 2.6 37.8 + - - +
414B ILE* 3.6 18.6 - - + +
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Residues in contact with THR 342 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
338B TYR 2.6 32.7 + - - +
339B LYS* 3.6 15.4 + - + +
340B GLU 2.9 2.0 + - - -
341B ASN* 1.3 72.8 - - - +
343B ASN* 1.4 60.5 + - - +
345B ILE* 3.2 5.4 + - - +
346B ILE* 3.0 29.6 + - - +
359B GLY* 3.2 32.1 + - - -
362B ALA 4.0 4.9 - - - +
363B PRO* 3.8 19.1 - - + -
365B VAL* 4.2 5.9 - - - +
407B ALA* 3.4 21.8 - - + -
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Residues in contact with ASN 343 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
339B LYS* 3.1 19.9 + - - +
340B GLU* 3.0 32.0 + - - +
342B THR* 1.4 75.3 + - - +
344B ILE* 1.3 52.9 + - + +
346B ILE* 3.5 10.1 + - - +
347B ASP* 2.7 47.5 + - - +
359B GLY 4.5 9.4 - - - +
360B LYS* 6.0 1.6 - - - +
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Residues in contact with ILE 344 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
340B GLU* 3.3 31.4 + - - +
341B ASN* 3.6 9.2 - - - +
342B THR 3.2 0.4 - - - -
343B ASN* 1.3 75.4 - - - +
345B ILE* 1.3 54.3 + - - +
347B ASP* 3.4 8.8 + - + +
348B THR* 2.6 40.7 + - + +
411B ARG* 3.8 35.0 - - - +
414B ILE* 4.1 9.4 - - + -
415B LEU* 4.2 23.3 - - + -
418B CYS* 4.0 18.4 - - + -
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Residues in contact with ILE 345 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61B LEU* 4.4 7.4 - - + -
341B ASN 3.3 16.7 + - - +
342B THR 3.2 7.1 + - - +
344B ILE* 1.3 77.8 - - - +
346B ILE* 1.3 60.0 + - - +
348B THR* 3.4 1.6 + - - -
349B PHE* 3.1 41.3 + - + -
365B VAL* 3.5 24.9 - - + -
405B VAL* 4.0 18.8 - - + -
406B SER 3.7 24.7 - - - +
407B ALA* 3.8 17.0 - - + -
414B ILE* 4.1 12.8 - - + -
418B CYS* 4.0 19.5 - - - -
421B PHE* 5.4 0.9 - - + -
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Residues in contact with ILE 346 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
342B THR 3.0 15.7 + - - +
343B ASN* 3.6 12.8 - - - +
345B ILE* 1.3 72.7 - - - +
347B ASP* 1.3 74.4 + - - +
348B THR 3.1 0.2 + - - -
349B PHE* 3.2 1.9 + - - +
350B THR* 3.0 30.7 + - + +
356B VAL* 4.1 24.0 - - + -
358B GLY 3.9 6.1 - - - +
359B GLY* 3.1 37.0 - - - +
360B LYS* 5.3 0.9 - - + -
365B VAL* 4.0 18.4 - - + -
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Residues in contact with ASP 347 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
343B ASN* 2.7 34.7 + - - +
344B ILE* 3.4 10.7 + - - +
346B ILE* 1.3 77.0 - - - +
348B THR* 1.3 59.9 - - + +
350B THR* 3.6 5.3 - - - +
351B SER* 2.8 34.1 + - - -
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Residues in contact with THR 348 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
344B ILE* 2.6 32.0 + - + +
345B ILE 3.9 2.6 + - - +
346B ILE 3.2 0.2 - - - -
347B ASP* 1.3 75.2 - - + +
349B PHE* 1.3 68.5 + - - +
351B SER* 2.9 19.5 + - - -
352B LEU* 3.3 15.5 - - - +
418B CYS* 3.4 40.2 + - + +
421B PHE* 4.4 13.7 - - - +
422B LYS* 3.8 26.0 - - - +
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Residues in contact with PHE 349 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
345B ILE* 3.1 34.9 + - + +
346B ILE* 3.2 1.1 + - - +
348B THR* 1.3 79.4 + - - +
350B THR* 1.3 58.1 + - - +
352B LEU* 3.3 17.8 + - + +
354B TYR* 3.2 36.4 + + - -
356B VAL* 3.4 22.4 - - + -
365B VAL* 4.9 0.2 - - + -
367B VAL* 3.7 22.7 - - + -
369B PHE* 4.1 23.6 - + - -
381B ILE* 5.8 2.7 - - + -
389B THR* 6.3 0.4 - - + -
403B VAL* 6.3 0.2 - - + -
405B VAL* 4.1 22.7 - - + -
421B PHE* 3.7 43.1 - + - -
425B TYR* 4.6 15.7 - + - -
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Residues in contact with THR 350 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
346B ILE* 3.0 24.9 + - + +
347B ASP* 3.6 4.3 - - - +
349B PHE* 1.3 73.1 - - - +
351B SER* 1.3 58.0 + - - +
352B LEU 2.9 10.1 + - - -
353B GLY* 2.9 14.9 + - - -
354B TYR 4.3 6.3 + - - +
356B VAL* 3.6 24.5 - - - +
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Residues in contact with SER 351 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
347B ASP 2.8 15.5 + - - -
348B THR* 2.9 20.6 + - - -
350B THR* 1.3 75.0 - - - +
352B LEU* 1.3 60.0 + - - +
353B GLY 3.5 0.4 - - - -
422B LYS* 4.5 10.3 - - - -
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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