Contacts of the helix formed by residues 315 - 343 (chain B) in PDB entry 4UN5
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 ALA 315 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140B LYS* 4.5 7.3 - - - +
143B VAL* 3.9 19.7 - - + -
313B THR* 2.7 14.0 + - - +
314B LYS* 1.3 80.9 - - - +
316B PRO* 1.3 65.5 - - - +
317B LEU 3.3 2.9 + - - -
318B SER* 3.5 8.0 + - - -
319B ALA* 3.0 22.2 + - - +
418B GLU* 3.3 27.1 - - - +
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Residues in contact with PRO 316 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176B PRO* 4.6 14.6 - - + -
306B LEU* 3.7 38.1 - - + -
308B VAL* 4.0 20.0 - - + +
309B ASN 5.2 2.2 - - - +
310B THR* 5.3 7.6 - - + -
313B THR* 4.2 6.7 - - + +
314B LYS* 3.5 9.0 - - - +
315B ALA* 1.3 89.6 - - - +
317B LEU* 1.3 52.5 + - + +
319B ALA* 3.4 7.9 + - + +
320B SER* 2.5 37.6 + - - -
414B ILE* 6.4 1.3 - - + -
418B GLU* 5.0 1.6 - - + +
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Residues in contact with LEU 317 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B TYR* 4.7 11.7 - - + -
139B ARG* 4.2 10.3 - - - +
305B ILE* 4.4 18.6 - - + +
306B LEU* 3.8 6.4 - - + +
315B ALA 3.3 1.0 - - - -
316B PRO* 1.3 78.8 - - + +
318B SER* 1.3 61.6 + - - +
320B SER* 2.9 22.2 + - - -
321B MET* 2.9 28.9 + - + +
410B ILE* 3.8 25.8 - - + -
414B ILE* 3.5 35.9 - - + -
415B HIS* 3.7 24.9 - - + +
418B GLU* 3.7 6.7 + - + +
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Residues in contact with SER 318 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B TYR* 3.5 38.6 - - - +
139B ARG* 3.3 13.5 + - - +
140B LYS* 4.2 9.2 - - - -
315B ALA* 3.5 6.3 + - - -
317B LEU* 1.3 77.7 - - - +
319B ALA* 1.3 57.3 + - - +
321B MET* 3.3 2.6 + - - +
322B ILE* 2.9 35.3 + - - +
418B GLU* 2.9 31.4 + - - -
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Residues in contact with ALA 319 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140B LYS* 4.1 20.5 + - - +
308B VAL* 3.8 25.2 - - + +
313B THR* 4.0 11.7 - - + -
315B ALA 3.0 19.2 + - - +
316B PRO 3.5 5.4 - - - +
318B SER* 1.3 76.2 - - - +
320B SER* 1.3 58.2 + - - +
322B ILE* 3.4 8.8 + - - +
323B LYS* 2.9 26.7 + - - +
----------------------------------------------------------
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Residues in contact with SER 320 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
305B ILE 4.9 4.3 - - - -
306B LEU* 2.2 32.6 + - - -
307B ARG* 5.2 3.1 - - - -
308B VAL* 3.7 10.3 - - - +
316B PRO 2.5 19.8 + - - -
317B LEU* 2.9 10.4 + - - -
319B ALA* 1.3 74.9 - - - +
321B MET* 1.3 72.4 + - - +
323B LYS* 3.1 9.5 + - - +
324B ARG* 2.9 29.0 + - - +
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Residues in contact with MET 321 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134B THR* 5.8 0.9 - - - -
136B TYR* 3.6 47.8 - - + -
305B ILE 5.8 2.0 - - - +
317B LEU* 2.9 33.3 + - + +
318B SER 3.6 2.7 - - - +
320B SER* 1.3 83.7 - - - +
322B ILE* 1.3 57.3 + - - +
324B ARG* 3.1 46.9 + - - +
325B TYR* 2.9 24.7 + - - +
402B GLN* 3.2 39.9 - - + +
407B ASN* 4.8 6.5 - - - +
410B ILE* 5.9 0.4 - - + -
----------------------------------------------------------
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Residues in contact with ILE 322 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134B THR* 5.5 0.2 - - - -
136B TYR* 3.7 6.3 - - + +
137B HIS* 3.7 60.1 - - + +
140B LYS* 3.6 35.0 - - + +
318B SER 2.9 20.0 + - - +
319B ALA* 3.5 5.8 - - - +
320B SER 3.2 0.2 - - - -
321B MET* 1.3 74.6 - - - +
323B LYS* 1.3 57.5 + - - +
325B TYR* 3.1 8.1 + - - +
326B ASP* 2.9 42.5 + - - +
----------------------------------------------------------
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Residues in contact with LYS 323 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
307B ARG* 3.0 59.8 + - + +
308B VAL* 4.7 8.1 - - + -
319B ALA 2.9 15.3 + - - +
320B SER* 3.2 12.6 - - - +
322B ILE* 1.3 77.4 - - - +
324B ARG* 1.3 63.4 + - + +
326B ASP* 3.4 6.6 + - - +
327B GLU* 3.0 54.3 + - + +
----------------------------------------------------------
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Residues in contact with ARG 324 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
307B ARG* 6.1 2.5 - - - +
320B SER 2.9 16.5 + - - +
321B MET* 3.1 34.1 + - - +
323B LYS* 1.3 75.9 - - + +
325B TYR* 1.3 57.5 + - - +
327B GLU* 3.9 5.0 - - - +
328B HIS* 2.9 31.2 + - - +
397B ASP* 5.4 5.6 - - - +
400B ARG* 3.3 50.3 + - + +
401B LYS 2.9 27.0 + - - -
402B GLN* 3.2 19.0 + - - +
404B THR* 3.2 18.8 + - - +
406B ASP* 4.4 2.4 + - - -
407B ASN* 3.5 18.6 - - - +
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Residues in contact with TYR 325 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A G 5.0 3.6 + - - -
44A U 3.3 63.8 + + + -
133B PRO* 3.4 36.9 - - + +
134B THR* 3.9 8.3 - - + -
137B HIS* 3.9 14.8 - + + -
321B MET 2.9 12.0 + - - +
322B ILE* 3.1 12.7 + - - +
324B ARG* 1.3 76.1 - - - +
326B ASP* 1.3 72.5 + - - +
328B HIS* 3.1 4.0 + - - +
329B HIS* 2.9 40.8 + + + +
402B GLN* 3.7 11.6 + - - +
----------------------------------------------------------
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Residues in contact with ASP 326 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137B HIS* 4.8 2.3 + - - -
322B ILE* 2.9 35.5 + - - +
323B LYS* 3.9 5.9 - - - +
325B TYR* 1.3 91.5 - - - +
327B GLU* 1.3 58.3 + - + +
329B HIS* 3.1 6.8 + - - +
330B GLN* 3.0 47.8 + - - +
----------------------------------------------------------
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Residues in contact with GLU 327 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
307B ARG* 5.5 0.3 + - - -
323B LYS* 3.0 53.6 + - + +
324B ARG* 4.0 4.6 - - - +
326B ASP* 1.3 74.8 - - + +
328B HIS* 1.3 60.6 + - - +
330B GLN* 4.2 15.3 - - - +
331B ASP* 2.9 38.4 + - - +
392B LYS* 4.1 26.2 + - - +
395B ARG* 5.0 3.2 + - - -
397B ASP* 4.5 18.0 - - - +
398B LEU 4.9 4.9 - - - +
----------------------------------------------------------
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Residues in contact with HIS 328 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A U 3.6 34.5 + + - +
324B ARG 2.9 19.2 + - - +
325B TYR 3.4 5.2 - - - +
327B GLU* 1.3 76.4 - - - +
329B HIS* 1.3 57.7 + - - +
332B LEU* 2.9 29.6 + - + +
359B TYR* 2.8 40.2 + + - -
362B TYR* 4.2 5.4 - + - -
363B ILE* 4.7 1.6 - - + -
398B LEU 4.7 4.4 + - - -
399B LEU* 3.1 54.2 - - + +
400B ARG 3.3 12.6 + - - +
401B LYS* 5.1 1.1 - - + -
----------------------------------------------------------
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Residues in contact with HIS 329 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A G 4.3 13.1 + - - -
44A U 3.4 22.1 + - - +
325B TYR* 2.9 25.4 + + + +
326B ASP* 3.1 13.0 + - - +
328B HIS* 1.3 76.4 - - - +
330B GLN* 1.3 70.2 + - + +
332B LEU* 3.2 5.9 + - - +
333B THR* 3.0 40.8 + - - -
----------------------------------------------------------
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Residues in contact with GLN 330 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
326B ASP* 3.0 37.1 + - - +
327B GLU* 3.9 14.5 - - - +
329B HIS* 1.3 80.8 - - - +
331B ASP* 1.3 63.7 + - - +
333B THR* 3.2 8.3 + - - -
334B LEU* 2.9 27.9 + - - +
392B LYS* 5.7 1.2 + - - -
----------------------------------------------------------
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Residues in contact with ASP 331 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
327B GLU 2.9 19.2 + - - +
328B HIS* 4.8 0.2 - - - -
330B GLN* 1.3 83.0 - - - +
332B LEU* 1.3 57.0 + - - +
334B LEU* 3.7 9.8 - - - +
335B LEU* 2.9 30.3 + - - +
389B LEU* 3.6 25.1 - - + +
392B LYS* 2.9 41.3 + - - +
398B LEU* 4.0 9.4 - - + +
399B LEU* 3.9 17.8 - - + +
----------------------------------------------------------
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Residues in contact with LEU 332 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A A 5.1 2.7 - - - +
43A G 3.9 20.0 - - + +
44A U 5.0 8.7 - - + +
328B HIS* 2.9 25.5 + - + +
329B HIS* 3.5 4.3 - - - +
331B ASP* 1.3 75.2 - - - +
333B THR* 1.3 66.3 + - - +
335B LEU* 3.9 5.8 - - + +
336B LYS* 2.9 38.2 + - + +
351B PHE* 3.8 29.2 - - + -
359B TYR* 3.4 44.6 - - + +
399B LEU* 3.9 7.1 - - + +
----------------------------------------------------------
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Residues in contact with THR 333 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
329B HIS* 3.0 29.1 + - - -
330B GLN* 3.4 10.5 - - - -
332B LEU* 1.3 77.4 - - - +
334B LEU* 1.3 63.6 + - - +
336B LYS* 3.3 8.3 + - - +
337B ALA* 3.0 25.4 + - + +
----------------------------------------------------------
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Residues in contact with LEU 334 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
330B GLN 2.9 16.7 + - - +
331B ASP* 3.7 8.7 - - - +
333B THR* 1.3 78.4 - - - +
335B LEU* 1.3 56.9 + - - +
337B ALA* 3.2 7.6 + - + +
338B LEU* 2.9 56.5 + - + +
385B GLY 4.5 7.2 - - - +
389B LEU* 4.0 31.6 - - + -
----------------------------------------------------------
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Residues in contact with LEU 335 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
331B ASP 2.9 21.9 + - - +
332B LEU* 3.9 5.4 - - + +
334B LEU* 1.3 73.4 - - - +
336B LYS* 1.3 59.2 + - - +
338B LEU* 3.3 11.5 + - + +
339B VAL* 2.9 48.8 + - + +
350B ILE* 5.4 5.4 - - + -
351B PHE* 3.9 24.7 - - + -
359B TYR* 5.8 0.9 - - + -
372B PHE* 5.3 3.8 - - + -
376B ILE* 5.3 14.4 - - + -
379B ILE* 5.8 3.6 - - + -
380B LEU* 3.8 28.0 - - + -
383B MET* 5.4 2.9 - - - -
386B THR* 5.7 0.2 - - + -
389B LEU* 4.8 6.9 - - + +
399B LEU* 4.4 21.8 - - + -
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Residues in contact with LYS 336 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A A 3.9 37.5 + - - +
43A G 3.1 46.5 + - - -
332B LEU* 2.9 32.5 + - + +
333B THR* 3.6 7.0 - - - +
335B LEU* 1.3 76.4 - - - +
337B ALA* 1.3 57.2 + - - +
339B VAL* 3.5 1.6 + - - +
340B ARG* 2.9 36.5 + - + +
347B TYR* 3.8 23.7 + - - +
351B PHE* 3.8 27.1 - - + -
----------------------------------------------------------
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Residues in contact with ALA 337 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
333B THR* 3.0 19.4 + - + +
334B LEU* 3.6 7.9 - - + +
336B LYS* 1.3 76.2 - - - +
338B LEU* 1.3 64.8 + - + +
340B ARG* 3.2 10.1 + - - +
341B GLN* 2.9 39.5 + - - +
----------------------------------------------------------
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Residues in contact with LEU 338 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
334B LEU* 2.9 44.4 + - + +
335B LEU* 3.6 7.9 - - + +
337B ALA* 1.3 76.7 - - + +
339B VAL* 1.3 58.0 + - + +
341B GLN* 3.1 14.2 + - - +
342B GLN* 2.9 49.0 + - - +
383B MET* 3.3 18.7 - - + +
384B ASP 3.7 7.6 - - - +
385B GLY* 3.5 24.5 - - - +
386B THR* 3.7 17.7 - - + -
389B LEU* 4.2 6.3 - - + -
----------------------------------------------------------
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Residues in contact with VAL 339 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
335B LEU* 2.9 41.6 + - + +
336B LYS 4.0 2.0 - - - +
338B LEU* 1.3 71.7 - - - +
340B ARG* 1.3 66.6 + - - +
343B LEU* 3.0 52.6 + - + +
344B PRO* 3.7 0.3 - - - +
346B LYS 4.6 0.2 - - - -
347B TYR* 4.1 28.5 - - + +
350B ILE* 4.3 22.2 - - + -
351B PHE* 4.5 6.1 - - + -
379B ILE* 5.2 2.0 - - + -
383B MET* 3.8 18.8 - - + -
----------------------------------------------------------
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Residues in contact with ARG 340 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A C 3.7 40.2 + - - -
41A A 2.5 39.4 + - - +
336B LYS* 2.9 22.1 + - + +
337B ALA* 3.2 13.2 - - - +
339B VAL* 1.3 79.2 - - - +
341B GLN* 1.3 64.0 + - + +
344B PRO* 3.9 21.7 + - - +
347B TYR* 3.6 49.7 - - + +
352B PHE* 6.1 0.4 - - - -
----------------------------------------------------------
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Residues in contact with GLN 341 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
337B ALA* 2.9 30.9 + - - +
338B LEU* 3.1 19.3 + - - +
340B ARG* 1.3 81.6 - - + +
342B GLN* 1.3 72.1 + - + +
344B PRO* 4.5 4.2 - - - +
----------------------------------------------------------
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Residues in contact with GLN 342 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
338B LEU* 2.9 31.0 + - - +
341B GLN* 1.3 85.9 + - + +
343B LEU* 1.3 74.1 + - + +
344B PRO* 3.4 10.2 - - - +
345B GLU* 4.6 0.3 - - - +
383B MET* 3.4 21.7 - - + +
384B ASP* 3.0 48.8 + - - +
----------------------------------------------------------
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Residues in contact with LEU 343 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
339B VAL* 3.0 33.9 + - + +
342B GLN* 1.3 89.4 - - + +
344B PRO* 1.3 63.4 - - - +
345B GLU* 3.2 18.2 + - - +
346B LYS* 3.3 38.5 + - + +
347B TYR 3.8 0.2 + - - -
379B ILE* 4.2 11.9 - - + +
382B LYS* 4.5 26.0 - - + +
383B MET* 3.7 35.9 - - + -
----------------------------------------------------------
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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