Contacts of the helix formed by residues 242 - 265 (chain B) in PDB entry 1ASZ
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 VAL 242 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116B HIS* 5.5 2.9 - - + -
131B ARG* 4.3 6.7 - - - -
133B GLN 4.0 20.4 - - - +
134B ALA* 4.0 16.3 - - + +
136B LEU* 4.3 26.7 - - + -
183B THR* 5.6 4.0 - - + -
208B LEU* 5.1 1.4 - - - +
212B SER* 4.4 8.0 + - - +
240B ARG 3.6 1.1 + - - -
241B THR* 1.3 74.7 - - - +
243B THR* 1.3 65.6 + - + +
245B GLN* 3.4 5.1 - - - +
246B ALA* 3.4 16.6 + - - +
379B LEU* 3.1 32.5 - - + -
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Residues in contact with THR 243 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
212B SER* 6.0 0.4 - - - -
241B THR* 3.3 11.8 + - - -
242B VAL* 1.3 78.7 - - + +
244B ASN* 1.3 66.1 + - - +
246B ALA* 3.1 6.3 + - - +
247B ILE* 2.8 26.0 + - - +
379B LEU* 3.3 30.3 - - + +
380B VAL* 4.0 9.3 - - - +
383B GLN* 2.6 49.4 + - + +
384B TYR* 4.6 10.5 + - - -
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Residues in contact with ASN 244 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
231B ARG* 5.5 0.8 - - - +
235B ARG* 4.8 5.3 + - - -
238B ASP* 2.4 52.7 + - - +
239B LEU* 3.2 33.2 - - + +
241B THR* 3.1 10.9 + - - +
243B THR* 1.3 74.4 + - - +
245B GLN* 1.3 66.6 + - - +
247B ILE* 2.8 31.5 + - - +
248B PHE* 2.9 21.0 + - + +
384B TYR* 5.2 4.7 + - - -
544B ARG* 6.0 0.9 - - - +
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Residues in contact with GLN 245 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
312A ALA 3.5 23.4 + - - -
313A ASP* 3.7 20.0 + - - +
314A PHE* 4.1 24.8 - - - +
133B GLN* 4.1 24.0 + - - +
134B ALA* 4.3 12.3 - - + +
239B LEU 3.6 9.9 + - - -
240B ARG* 4.1 4.8 - - - +
241B THR 3.4 14.3 + - - +
242B VAL 3.4 10.1 - - - +
244B ASN* 1.3 80.5 - - - +
246B ALA* 1.3 57.3 + - - +
248B PHE* 3.6 2.3 + - - +
249B ARG* 3.1 51.8 + - - +
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Residues in contact with ALA 246 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134B ALA* 5.0 3.6 - - + -
242B VAL 3.4 8.1 + - - +
243B THR 3.1 7.8 + - - +
245B GLN* 1.3 76.6 - - - +
247B ILE* 1.3 61.7 + - - +
249B ARG* 3.8 5.8 - - - +
250B ILE* 2.9 29.8 + - - +
376B GLU* 3.2 43.4 - - + +
379B LEU* 4.1 15.0 - - + -
380B VAL* 4.2 3.1 - - + -
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Residues in contact with ILE 247 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243B THR 2.8 17.0 + - - +
244B ASN* 2.8 34.5 + - - +
246B ALA* 1.3 69.9 - - - +
248B PHE* 1.3 80.6 + - + +
249B ARG 3.0 0.2 - - - -
250B ILE* 2.6 39.0 + - - +
251B GLN* 3.0 5.3 + - + +
380B VAL* 3.8 26.5 - - + -
384B TYR* 4.5 8.7 - - + -
533B VAL* 5.3 3.8 - - + +
537B LEU* 4.8 10.8 - - + -
539B LEU* 3.6 24.7 - - + -
544B ARG* 5.1 4.9 - - + -
545B ALA* 4.4 17.0 - - + -
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Residues in contact with PHE 248 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268A THR* 5.2 4.4 - - - -
269A GLU 5.0 3.1 - - - +
314A PHE* 3.8 21.1 - + + -
235B ARG* 3.5 10.3 - - - -
239B LEU* 3.1 36.3 - - + -
244B ASN* 2.9 16.4 + - + +
245B GLN 3.8 0.9 - - - +
247B ILE* 1.3 84.5 - - + +
249B ARG* 1.3 64.9 + - - +
251B GLN* 3.4 38.1 - - + +
252B ALA* 3.6 15.1 + - - +
544B ARG 3.8 2.2 - - - -
545B ALA* 3.4 16.4 - - - -
546B SER 3.3 9.6 - - - -
547B LEU* 3.2 43.3 - - + -
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Residues in contact with ARG 249 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268A THR* 4.4 26.7 - - + +
314A PHE* 5.4 4.2 + - - -
133B GLN* 3.7 35.9 - - - +
134B ALA* 4.6 8.9 - - - +
245B GLN* 3.1 44.3 + - - +
246B ALA* 3.6 14.7 - - - +
247B ILE 3.0 0.4 - - - -
248B PHE* 1.3 76.2 - - - +
250B ILE* 1.3 59.0 + - - +
252B ALA* 3.1 10.7 + - - +
253B GLY 3.0 19.8 + - - -
373B PHE* 3.6 15.4 - - + -
376B GLU* 3.5 31.4 + - + +
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Residues in contact with ILE 250 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246B ALA 2.9 18.8 - - - +
247B ILE* 2.6 9.7 + - - +
249B ARG* 1.3 78.5 - - - +
251B GLN* 1.3 66.0 + - - +
253B GLY* 3.0 9.5 + - - +
254B VAL* 3.2 12.1 + - + +
369B LEU* 3.5 28.0 - - + -
373B PHE* 4.1 17.7 - - + -
376B GLU* 4.4 2.5 - - + +
377B ILE* 3.6 40.2 - - + +
380B VAL* 5.1 0.7 - - + -
533B VAL* 4.4 12.6 - - + -
536B TYR* 5.8 2.5 - - + -
537B LEU* 4.1 25.8 - - + -
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Residues in contact with GLN 251 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
269A GLU 5.7 0.5 - - - +
270A VAL* 5.7 0.5 - - - -
271A HIS* 3.7 18.9 + - - +
247B ILE* 3.0 7.0 + - + +
248B PHE* 3.4 32.7 - - + +
249B ARG 3.3 0.4 - - - -
250B ILE* 1.3 78.8 - - - +
252B ALA* 1.3 58.3 + - - +
254B VAL* 3.0 21.0 + - - +
255B CYS* 3.4 5.1 + - - -
339B THR* 5.3 1.6 - - - +
529B LEU* 3.5 39.5 - - + +
530B GLU* 4.5 6.5 - - - +
533B VAL* 3.6 19.9 - - + +
545B ALA 2.9 28.5 + - - -
546B SER* 4.0 4.9 - - - +
547B LEU* 4.8 7.8 + - - +
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Residues in contact with ALA 252 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268A THR* 4.9 5.6 - - + -
269A GLU* 3.8 44.6 - - + +
271A HIS* 5.7 0.9 - - + -
248B PHE 3.6 6.1 + - - +
249B ARG 3.1 10.2 + - - +
251B GLN* 1.3 75.7 - - - +
253B GLY* 1.3 64.3 + - - +
254B VAL 3.0 2.0 - - - -
255B CYS* 3.8 10.3 - - - +
256B GLU* 3.1 24.0 + - - +
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Residues in contact with GLY 253 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
249B ARG 3.0 9.7 + - - -
250B ILE 3.0 6.0 + - - -
252B ALA* 1.3 78.4 - - - +
254B VAL* 1.3 55.3 + - - +
256B GLU* 3.5 6.2 - - - +
257B LEU* 2.8 41.7 + - - +
369B LEU* 4.9 1.8 - - - -
373B PHE* 3.2 33.4 - - - -
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Residues in contact with VAL 254 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
250B ILE* 3.3 14.4 - - + +
251B GLN 3.0 9.8 + - - +
253B GLY* 1.3 75.0 - - - +
255B CYS* 1.3 66.6 + - - +
256B GLU 2.9 2.0 + - - -
257B LEU* 3.2 5.8 + - - +
258B PHE* 3.0 22.5 + - - +
341B LEU* 4.6 12.1 - - + -
365B ILE* 4.8 15.5 - - + +
369B LEU* 4.0 25.6 - - + -
529B LEU* 3.9 16.8 - - + -
532B VAL* 4.2 23.3 - - + -
533B VAL* 4.2 14.8 - - + -
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Residues in contact with CYS 255 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
269A GLU* 3.4 20.0 - - - +
271A HIS* 2.9 40.6 - - - -
251B GLN 3.4 7.8 + - - -
252B ALA* 3.9 5.8 - - - +
254B VAL* 1.3 78.8 - - - +
256B GLU* 1.3 60.9 + - - +
258B PHE* 3.3 18.9 - - - +
259B ARG* 3.4 21.7 + - - +
320B ILE* 4.2 6.6 - - + +
341B LEU* 4.5 9.4 - - - -
529B LEU* 3.4 24.0 - - - -
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Residues in contact with GLU 256 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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252B ALA 3.1 16.6 + - - +
253B GLY* 3.5 5.6 - - - +
254B VAL 2.9 1.2 - - - -
255B CYS* 1.3 75.4 - - - +
257B LEU* 1.3 61.0 + - - +
258B PHE 3.1 2.1 + - - -
259B ARG* 3.4 14.3 + - - +
260B GLU* 3.0 31.1 + - - +
372B ARG* 4.1 23.6 + - - +
373B PHE* 4.3 18.5 - - - -
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Residues in contact with LEU 257 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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253B GLY* 2.8 29.2 + - - +
254B VAL* 3.2 4.9 + - - +
256B GLU* 1.3 74.7 - - + +
258B PHE* 1.3 66.2 + - - +
260B GLU* 4.0 4.7 - - - -
261B TYR* 2.9 27.5 + - - +
364B PHE* 3.2 32.9 - - + +
365B ILE* 4.4 15.5 - - + +
368B GLU* 3.3 32.3 - - + -
369B LEU* 4.7 16.6 - - + +
372B ARG* 3.4 34.3 - - - +
373B PHE* 4.8 3.1 - - + -
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Residues in contact with PHE 258 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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254B VAL 3.0 13.1 + - - +
255B CYS 3.3 11.2 - - - +
257B LEU* 1.3 81.7 - - - +
259B ARG* 1.3 60.3 + - + +
261B TYR* 3.3 3.1 + - - +
262B LEU* 3.0 50.9 + - + +
318B TYR* 4.1 8.3 - + - -
320B ILE* 3.5 31.4 - - + -
341B LEU* 3.6 48.7 - - + -
342B ASP 4.0 9.9 - - - -
343B MET* 4.1 7.6 - - + -
361B LEU* 3.6 32.1 - - + -
365B ILE* 4.7 8.3 - - + +
527B ILE* 4.7 7.4 - - + -
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Residues in contact with ARG 259 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
259A ARG* 3.4 47.4 - - - +
269A GLU* 2.5 46.2 + - - -
318A TYR* 4.5 2.6 + - - -
320A ILE* 5.1 0.2 - - - +
255B CYS* 3.4 21.7 + - - +
256B GLU* 4.1 10.1 - - - +
258B PHE* 1.3 71.8 - - - +
260B GLU* 1.3 66.2 + - - +
262B LEU* 3.2 6.1 + - - +
263B ALA* 3.0 26.7 + - - +
269B GLU* 5.1 0.6 + - - -
318B TYR* 3.2 37.7 - - + +
320B ILE* 3.8 24.9 - - + +
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Residues in contact with GLU 260 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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256B GLU* 3.0 25.9 + - + +
257B LEU* 3.8 5.8 - - - +
259B ARG* 1.3 78.6 - - - +
261B TYR* 1.3 63.4 + - - +
263B ALA* 3.6 8.0 + - - +
264B THR* 3.1 17.4 + - - +
364B PHE* 3.8 11.8 - - + -
372B ARG* 2.7 45.4 + - - -
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Residues in contact with TYR 261 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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257B LEU 2.9 17.9 + - - +
258B PHE 3.8 1.8 - - - +
260B GLU* 1.3 77.9 - - - +
262B LEU* 1.3 72.9 + - + +
264B THR* 3.3 24.3 + - + -
265B LYS* 3.2 33.1 + - + +
357B THR* 3.6 13.0 + - + -
360B GLU* 2.7 51.3 + - + +
361B LEU* 3.5 46.0 - - + +
364B PHE* 3.6 33.8 - + + -
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Residues in contact with LEU 262 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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258B PHE* 3.0 53.0 + - + +
259B ARG* 3.2 5.6 + - - +
261B TYR* 1.3 96.9 - - + +
263B ALA* 1.3 58.9 + - - +
265B LYS* 2.9 15.9 + - - +
267B PHE* 3.1 63.2 + - + -
318B TYR* 3.8 27.6 - - + -
343B MET* 4.4 7.6 - - + -
357B THR* 5.3 0.7 - - + -
361B LEU* 4.3 10.5 - - + -
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Residues in contact with ALA 263 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256A GLU* 5.3 9.4 - - - +
259B ARG 3.0 15.7 + - - +
260B GLU* 4.1 5.8 - - - +
261B TYR 3.3 0.2 - - - -
262B LEU* 1.3 72.0 - - - +
264B THR* 1.3 57.9 + - - +
265B LYS 2.9 5.6 - - - -
266B LYS* 3.0 27.1 + - - +
267B PHE 4.3 10.3 - - - +
318B TYR* 5.7 0.8 - - + -
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Residues in contact with THR 264 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260B GLU* 3.1 15.6 + - - +
261B TYR* 3.3 17.4 + - + -
263B ALA* 1.3 79.5 - - - +
265B LYS* 1.3 72.3 + - + +
266B LYS* 3.3 18.8 + - - +
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Residues in contact with LYS 265 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
261B TYR* 3.2 47.3 - - + +
262B LEU 2.9 3.2 + - - +
264B THR* 1.3 91.0 + - - +
266B LYS* 1.3 72.4 + - - +
267B PHE* 3.2 28.5 + - + -
316B ARG* 2.9 32.0 + - - +
345B MET* 5.6 1.6 - - + -
357B THR* 5.0 10.5 - - + +
360B GLU* 3.7 18.7 + - - -
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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