Contacts of the helix formed by residues 324 - 351 (chain B) in PDB entry 1RX0
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 324 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10A THR* 3.8 31.0 - - + +
11A SER 4.0 9.1 - - - +
12A CYS* 4.8 3.1 - - - -
14A ASP* 5.4 0.2 - - - +
17A MET* 3.5 16.8 - - - +
322B ARG* 3.0 50.8 + - - +
323B LYS* 1.3 74.0 + - - +
325B ALA* 1.3 62.7 + - - +
326B VAL 3.4 2.2 - - - -
327B ALA* 3.4 9.0 + - - +
328B LEU* 3.0 33.4 + - + +
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Residues in contact with ALA 325 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
317B ALA* 3.6 37.7 - - - +
318B LEU* 3.7 19.1 - - + -
321B GLU* 5.1 0.9 - - - -
322B ARG 3.1 16.8 + - - +
323B LYS 3.4 0.4 - - - -
324B ASP* 1.3 80.1 + - - +
326B VAL* 1.3 65.5 + - + +
328B LEU* 3.2 1.9 + - - +
329B CYS* 2.9 30.2 + - - -
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Residues in contact with VAL 326 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
248B VAL* 6.2 4.0 - - + -
249B ARG* 5.2 7.0 - - - +
252B ASN* 3.8 36.0 - - - +
255B ARG* 5.0 6.0 + - - +
318B LEU* 6.0 0.9 - - + -
322B ARG 4.8 0.4 + - - +
323B LYS 4.9 4.5 + - - +
324B ASP 3.4 0.8 - - - -
325B ALA* 1.3 78.1 - - + +
327B ALA* 1.3 64.4 + - - +
329B CYS* 3.4 3.4 + - - +
330B SER* 3.2 25.7 + - - +
385B LEU* 6.4 0.4 - - + -
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Residues in contact with ALA 327 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A THR 6.1 0.2 - - - +
12A CYS* 3.5 31.4 - - + -
323B LYS 5.6 0.2 + - - -
324B ASP* 3.4 10.1 + - - +
325B ALA 3.3 0.4 - - - -
326B VAL* 1.3 79.0 - - - +
328B LEU* 1.3 59.1 + - - +
330B SER* 3.1 8.3 + - - -
331B MET* 2.9 33.2 + - + +
386B ILE* 4.6 6.4 - - + +
389B SER* 4.4 15.3 - - - +
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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
----------------------------------------------------------
12A CYS* 4.3 10.8 - - - +
305A VAL* 4.2 14.6 - - + -
310B MET* 5.1 1.2 - - - +
313B ASN* 3.8 21.5 - - - +
314B ALA* 3.6 15.1 - - + +
317B ALA* 3.8 10.1 - - + -
322B ARG* 3.6 17.0 - - - +
324B ASP* 3.0 45.0 + - + +
325B ALA* 3.7 4.5 - - - +
327B ALA* 1.3 74.8 - - + +
329B CYS* 1.3 59.4 + - - +
331B MET* 3.7 21.7 - - + +
332B ALA* 2.8 31.7 + - - +
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Residues in contact with CYS 329 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
252B ASN* 3.8 26.7 - - - +
255B ARG* 3.9 11.1 - - + +
256B ILE* 3.6 33.8 + - + -
314B ALA* 3.9 16.6 - - - -
318B LEU* 4.2 11.4 - - - -
325B ALA 2.9 26.6 + - - +
326B VAL* 3.7 5.6 - - - +
327B ALA 3.3 0.2 - - - -
328B LEU* 1.3 76.2 - - - +
330B SER* 1.3 57.6 + - - +
332B ALA* 3.8 1.4 - - - +
333B LYS* 3.0 30.7 + - - +
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Residues in contact with SER 330 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
255B ARG* 3.4 21.9 + - - +
326B VAL* 3.2 12.8 + - - +
327B ALA* 3.1 10.7 + - - -
329B CYS* 1.3 79.4 - - - +
331B MET* 1.3 57.9 + - - +
333B LYS* 3.4 1.6 + - - +
334B LEU* 2.9 30.3 + - - +
382B MET* 3.7 24.8 - - - +
385B LEU* 4.1 10.9 - - - +
386B ILE* 3.9 17.7 - - - -
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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
----------------------------------------------------------
12A CYS* 3.9 34.8 - - + +
13A ILE* 4.3 0.2 - - + -
301A ALA* 3.6 42.4 - - + +
302A THR* 3.6 20.0 - - - +
305A VAL* 3.8 19.3 - - - -
310B MET* 4.0 12.1 - - + -
327B ALA 2.9 17.8 + - - +
328B LEU* 3.7 17.0 - - + +
330B SER* 1.3 75.7 - - - +
332B ALA* 1.3 58.5 + - - +
334B LEU* 3.4 0.6 + - - +
335B PHE* 2.9 32.7 + - - +
386B ILE* 3.7 23.3 - - + -
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Residues in contact with ALA 332 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256B ILE* 6.0 3.4 - - + -
259B ALA* 4.7 2.9 - - + -
310B MET* 3.5 42.1 - - + +
311B VAL* 4.0 7.6 - - + -
314B ALA* 3.7 9.9 - - + -
328B LEU 2.8 19.2 + - - +
329B CYS 3.8 2.9 - - - +
331B MET* 1.3 77.8 - - - +
333B LYS* 1.3 56.2 + - - +
335B PHE* 4.0 0.2 - - - +
336B ALA* 2.8 35.9 + - - +
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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
----------------------------------------------------------
255B ARG* 3.7 38.3 + - + +
258B ILE* 4.0 10.3 - - + -
259B ALA* 4.1 9.3 - - - +
329B CYS 3.0 18.3 + - - +
330B SER 3.8 3.4 - - - +
332B ALA* 1.3 77.0 - - - +
334B LEU* 1.3 55.7 + - - +
337B THR* 2.7 45.0 + - + +
372B HIS 2.9 25.6 + - - -
373B GLN 3.8 6.9 + - - -
375B LEU 2.8 26.0 + - - -
376B GLU* 4.6 0.9 - - - -
377B GLY 2.9 15.2 + - - +
379B ASN* 2.9 21.2 + - - +
382B MET* 4.0 11.7 - - + -
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Residues in contact with LEU 334 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
298A ALA 4.9 1.6 - - - +
299A ASP* 4.1 11.2 - - - +
302A THR* 3.8 16.2 - - + +
330B SER 2.9 18.1 + - - +
331B MET 3.7 2.7 - - - +
333B LYS* 1.3 80.2 - - - +
335B PHE* 1.3 65.0 + - - +
337B THR* 3.6 0.9 + - - -
338B ASP* 3.3 27.7 + - - +
379B ASN* 3.5 39.0 - - + +
382B MET* 3.9 7.0 - - + -
383B ARG* 3.6 40.6 - - + +
386B ILE* 3.8 21.3 - - + -
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Residues in contact with PHE 335 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
302A THR* 3.8 16.4 - - + -
303A ARG* 3.5 37.0 - - + +
306A ALA* 4.0 11.0 - - + -
335A PHE* 3.6 31.9 - + - -
303B ARG* 4.4 1.8 - - + -
306B ALA* 3.8 7.9 - - + -
307B ALA* 3.6 35.2 - - + -
310B MET* 3.9 19.7 - - + -
331B MET 2.9 20.8 + - - +
332B ALA* 4.0 1.6 - - - +
334B LEU* 1.3 76.9 - - - +
336B ALA* 1.3 59.7 + - - +
338B ASP* 3.8 2.1 - - - +
339B GLU* 2.9 56.5 + - + +
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Residues in contact with ALA 336 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
259B ALA* 3.9 15.0 - - + +
262B SER* 4.6 1.1 - - - -
263B LEU* 4.7 0.4 - - + -
307B ALA* 4.2 21.5 - - + +
311B VAL* 3.7 24.9 - - + -
332B ALA 2.8 23.3 + - - +
335B PHE* 1.3 72.4 - - + +
337B THR* 1.3 60.7 + - - +
340B CYS* 2.8 38.2 + - - +
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Residues in contact with THR 337 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
258B ILE* 4.6 1.6 - - + -
259B ALA* 4.3 15.3 - - - -
262B SER* 3.7 22.8 + - - +
333B LYS* 2.7 31.9 + - + +
336B ALA* 1.3 76.2 - - - +
338B ASP* 1.3 60.3 + - - +
340B CYS* 4.6 0.2 - - - +
341B PHE* 3.3 18.2 + - - +
369B SER* 4.8 2.3 - - - +
372B HIS* 3.7 28.7 - - + +
373B GLN* 3.5 18.2 - - - +
379B ASN* 3.0 28.4 + - - -
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Residues in contact with ASP 338 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
303A ARG* 5.2 10.0 + - - +
334B LEU* 3.3 16.3 + - - +
335B PHE* 3.8 3.1 - - - +
336B ALA 3.2 0.2 - - - -
337B THR* 1.3 81.1 + - - +
339B GLU* 1.3 69.0 + - + +
341B PHE* 3.5 3.3 + - - +
342B ALA* 3.2 20.4 + - - +
373B GLN* 2.7 27.2 + - - +
379B ASN* 2.7 28.4 + - - +
383B ARG* 3.4 25.1 + - - -
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Residues in contact with GLU 339 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
303A ARG* 2.9 36.2 + - - +
303B ARG* 3.1 51.8 + - + +
307B ALA* 4.8 3.6 - - + -
335B PHE* 2.9 48.4 + - + +
336B ALA 4.3 0.7 - - - +
338B ASP* 1.3 76.4 - - + +
340B CYS* 1.3 58.8 + - - +
342B ALA* 3.3 9.0 + - - +
343B ILE* 3.0 33.2 + - + +
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Residues in contact with CYS 340 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
262B SER* 3.5 42.2 - - - +
263B LEU* 3.9 22.4 - - - -
266B ALA* 3.7 17.4 - - + +
304B LEU* 4.9 1.1 - - - -
307B ALA* 4.1 11.0 - - - -
336B ALA* 2.8 29.7 + - - +
337B THR 4.6 0.2 - - - +
339B GLU* 1.3 71.2 - - - +
341B PHE* 1.3 65.7 + - - +
343B ILE* 3.3 6.5 + - - +
344B CYS* 3.0 28.7 + - - -
369B SER* 4.8 1.6 - - - -
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Residues in contact with PHE 341 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
337B THR 3.3 18.9 + - - +
338B ASP 3.9 2.9 - - - +
340B CYS* 1.3 77.6 - - - +
342B ALA* 1.3 64.0 + - - +
344B CYS* 3.2 1.9 + - - +
345B ASN* 2.9 47.6 + - + +
366B VAL* 3.6 34.1 - - + -
369B SER* 3.6 27.5 + - - +
370B ARG* 3.6 30.1 - - + -
373B GLN* 3.6 21.5 - - - +
341D PHE* 5.0 8.1 - + - -
345D ASN* 4.1 22.9 - - - -
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Residues in contact with ALA 342 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
338B ASP 3.2 11.9 + - - +
339B GLU* 3.5 13.7 - - - +
341B PHE* 1.3 86.9 - - + +
343B ILE* 1.3 57.1 + - - +
345B ASN* 3.4 5.5 + - - +
346B GLN* 2.9 42.6 + - + +
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Residues in contact with ILE 343 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
266B ALA* 3.9 18.2 - - + +
269B SER* 4.7 1.3 - - - -
270B VAL* 3.7 27.6 - - + -
300B MET* 3.4 41.6 - - + +
303B ARG* 4.1 10.8 - - + +
304B LEU* 3.7 24.7 - - + +
339B GLU 3.0 24.8 + - - +
340B CYS* 3.5 12.3 - - - +
341B PHE 3.2 0.2 - - - -
342B ALA* 1.3 76.6 - - + +
344B CYS* 1.3 57.6 + - - +
346B GLN* 3.2 10.9 + - - +
347B ALA* 2.9 26.9 + - - +
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Residues in contact with CYS 344 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
265B ALA* 3.6 28.7 - - - -
266B ALA* 3.7 4.9 - - - -
269B SER* 3.4 26.6 + - - +
340B CYS 3.0 18.0 + - - +
341B PHE 3.7 6.3 - - - +
343B ILE* 1.3 77.1 - - - +
345B ASN* 1.3 57.8 + - - +
347B ALA* 3.3 3.8 + - - +
348B LEU 3.0 22.3 + - - -
362B VAL* 4.7 1.6 - - - +
365B TYR* 3.9 9.0 - - + -
366B VAL* 3.2 30.4 - - + +
369B SER* 4.1 8.1 - - - +
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Residues in contact with ASN 345 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
341B PHE* 2.9 38.2 + - + +
342B ALA* 3.8 6.1 - - - +
344B CYS* 1.3 74.3 - - - +
346B GLN* 1.3 66.6 + - - +
348B LEU* 3.3 4.1 + - - +
349B GLN 3.2 5.0 + - - -
366B VAL* 3.6 17.1 - - + +
341D PHE* 4.0 18.2 - - - -
370D ARG* 2.7 60.5 + - - +
373D GLN* 5.4 0.8 + - - +
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Residues in contact with GLN 346 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
296B THR* 3.9 19.7 - - + +
299B ASP* 5.0 7.8 - - - +
300B MET* 3.3 36.0 - - - +
303B ARG* 6.1 3.0 - - - +
342B ALA* 2.9 31.4 + - + +
343B ILE* 3.6 13.2 - - - +
345B ASN* 1.3 74.8 - - + +
347B ALA* 1.3 66.2 + - - +
349B GLN* 3.1 9.8 + - - +
350B MET* 2.9 29.3 + - - +
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Residues in contact with ALA 347 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
269B SER* 3.6 23.3 - - - +
273B THR* 3.1 24.2 - - - +
300B MET* 3.8 7.1 - - + +
343B ILE 2.9 13.3 + - - +
344B CYS 3.3 10.5 - - - +
346B GLN* 1.3 78.6 - - - +
348B LEU* 1.3 61.1 + - - +
350B MET* 3.2 8.8 + - - +
351B HIS* 2.8 26.3 - - - -
362B VAL* 4.4 6.5 - - + -
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Residues in contact with LEU 348 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
344B CYS 3.0 12.7 + - - +
345B ASN* 3.4 15.9 - - - +
346B GLN 3.2 0.2 - - - -
347B ALA* 1.3 77.6 - - - +
349B GLN* 1.3 63.2 + - - +
351B HIS* 3.0 15.2 + - - +
352B GLY 3.5 7.3 + - - +
355B GLY 3.4 30.1 - - - +
356B TYR* 4.2 9.2 - - + +
362B VAL* 4.2 12.3 - - + +
363B GLN* 4.1 11.4 - - + +
366B VAL* 3.9 26.2 - - + -
214D VAL* 5.4 4.7 - - + -
370D ARG* 3.9 16.6 - - + +
374D ILE* 3.7 23.8 - - + -
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Residues in contact with GLN 349 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
345B ASN 3.2 4.0 + - - +
346B GLN* 3.1 12.9 + - - +
348B LEU* 1.3 81.9 - - - +
350B MET* 1.3 58.6 + - + +
352B GLY* 3.0 15.6 + - - -
370D ARG* 2.9 36.3 + - - +
373D GLN* 3.2 28.0 + - - +
374D ILE* 3.4 14.7 - - - +
378D SER* 4.5 1.4 - - - -
379D ASN* 4.4 2.6 - - - +
380D GLU* 2.9 37.6 + - - +
399D FAD 2.6 27.5 + - - +
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Residues in contact with MET 350 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
273B THR* 3.7 29.4 - - + -
276B HIS* 3.3 16.1 - - + -
277B LEU* 4.5 12.4 - - + +
287B LEU* 4.2 2.6 - - - +
292B TYR* 5.7 1.6 - - + -
293B LEU* 3.4 45.8 - - + +
296B THR* 4.4 23.8 - - + +
297B LEU 5.6 0.2 - - - -
300B MET* 4.7 5.8 - - - +
346B GLN* 2.9 23.1 + - - +
347B ALA 3.5 7.9 - - - +
348B LEU 3.2 0.2 - - - -
349B GLN* 1.3 86.1 - - + +
351B HIS* 1.3 58.4 + - + +
352B GLY 3.3 1.1 - - - -
380D GLU* 4.7 5.8 - - + +
399D FAD 3.4 24.9 - - - +
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Residues in contact with HIS 351 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
272B LEU* 4.0 26.4 - - + -
273B THR* 4.0 7.6 + - - -
276B HIS* 3.7 37.5 + + + +
347B ALA 2.8 25.1 + - - -
348B LEU 3.0 10.3 + - - +
350B MET* 1.3 79.8 - - + +
352B GLY* 1.3 63.7 + - - +
354B TYR* 3.4 24.1 + - + +
355B GLY* 3.6 15.9 - - - +
360B TYR* 4.1 22.6 - + + -
362B VAL* 3.4 31.1 - - + +
399D FAD 4.1 4.6 + - - +
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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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