Contacts of the helix formed by residues 244 - 275 (chain A) in PDB entry 1UUR
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 PRO 244 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242A SER* 3.3 9.3 - - - -
243A SER* 1.3 86.3 - - - +
245A GLN* 1.3 51.3 + - - -
246A PRO* 2.5 24.1 - - + +
247A ILE* 3.2 25.4 + - + -
248A LEU* 3.5 14.2 + - + +
312A THR* 4.6 1.1 - - + -
316A MET* 3.3 25.6 - - + -
318A LEU* 3.2 31.4 - - + -
322A ASP* 3.2 26.7 - - + +
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Residues in contact with GLN 245 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243A SER* 2.7 17.7 + - - +
244A PRO* 1.3 77.0 - - - +
246A PRO* 1.3 72.2 - - + +
248A LEU* 5.5 1.3 - - - -
249A ASP* 2.5 41.6 + - - +
322A ASP* 4.3 11.8 + - - +
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Residues in contact with PRO 246 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243A SER 3.3 9.9 - - - +
244A PRO* 2.5 9.1 - - + +
245A GLN* 1.3 95.2 - - + +
247A ILE* 1.3 70.6 + - + +
248A LEU 2.8 4.0 + - - -
249A ASP* 3.0 12.7 + - + +
250A THR* 2.9 20.6 + - - +
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Residues in contact with ILE 247 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
244A PRO* 3.6 19.1 - - + +
246A PRO* 1.3 77.6 - - + +
248A LEU* 1.3 63.7 + - + +
250A THR* 3.4 6.4 - - - -
251A ILE* 3.0 44.7 + - + +
308A ALA* 4.8 10.1 - - + +
312A THR* 3.6 24.0 - - + +
316A MET* 3.3 35.7 - - + -
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Residues in contact with LEU 248 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
244A PRO* 3.5 18.3 + - + +
245A GLN* 4.9 1.6 - - - +
246A PRO 2.8 4.6 + - - -
247A ILE* 1.3 78.7 - - + +
249A ASP* 1.3 57.7 + - - +
250A THR 3.0 4.9 + - - -
251A ILE* 3.2 2.0 + - - -
252A TYR* 2.9 30.1 + - - +
309A LEU* 3.7 29.2 - - + -
312A THR* 5.0 9.0 - - + -
318A LEU* 5.0 2.7 - - + -
322A ASP* 3.3 48.9 - - + +
325A LYS* 3.6 22.4 - - + +
326A LEU* 4.3 12.6 - - + +
329A LEU* 3.7 11.1 - - + +
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Residues in contact with ASP 249 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
245A GLN* 2.5 39.3 + - + +
246A PRO* 3.0 6.1 + - + +
248A LEU* 1.3 73.7 - - - +
250A THR* 1.3 61.4 + - - +
252A TYR* 3.8 9.7 - - - +
253A LYS* 3.4 24.1 + - - +
325A LYS* 2.6 30.0 + - - -
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Residues in contact with THR 250 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246A PRO* 2.9 18.8 + - - +
247A ILE* 3.4 10.8 + - - -
248A LEU 3.0 0.4 - - - -
249A ASP* 1.3 80.2 - - - +
251A ILE* 1.3 63.8 + - + +
253A LYS* 3.2 16.8 + - - +
254A LEU* 3.2 25.9 + - + +
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Residues in contact with ILE 251 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
247A ILE* 3.0 26.5 + - + +
248A LEU 3.7 3.8 - - - +
250A THR* 1.3 75.0 - - + +
252A TYR* 1.3 60.6 + - - +
254A LEU* 3.4 16.3 + - + +
255A LEU* 3.0 37.0 + - + +
305A GLU* 4.2 20.6 - - + +
308A ALA* 4.2 21.3 - - + -
309A LEU* 3.6 40.2 - - + +
329A LEU* 4.1 15.0 - - + -
333A LEU* 5.6 0.2 - - + -
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Residues in contact with TYR 252 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
248A LEU 2.9 16.4 + - - +
249A ASP* 3.8 13.7 - - - +
250A THR 3.2 0.2 - - - -
251A ILE* 1.3 74.6 - - - +
253A LYS* 1.3 70.8 + - + +
255A LEU* 3.3 4.0 + - + +
256A SER* 3.0 36.8 + - - -
325A LYS* 5.3 13.2 - - + -
329A LEU* 3.8 27.3 - - + +
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Residues in contact with LYS 253 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
249A ASP 3.4 12.0 + - - +
250A THR* 3.2 11.0 + - - +
252A TYR* 1.3 83.1 - - + +
254A LEU* 1.3 64.8 + - + +
256A SER* 2.8 20.8 + - - +
257A GLU* 3.2 29.3 + - - +
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Residues in contact with LEU 254 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
250A THR* 3.2 20.9 + - + +
251A ILE* 3.5 20.0 - - + +
252A TYR 3.2 0.4 - - - -
253A LYS* 1.3 79.5 - - + +
255A LEU* 1.3 52.6 + - - +
257A GLU* 3.1 13.6 + - - +
258A GLN* 2.7 45.7 + - + +
301A GLN* 5.6 5.2 - - - +
305A GLU* 3.1 41.1 - - + +
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Residues in contact with LEU 255 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
251A ILE* 3.0 24.5 + - + +
252A TYR* 3.7 4.7 - - + +
254A LEU* 1.3 79.8 - - - +
256A SER* 1.3 57.9 + - - +
258A GLN* 4.0 0.9 - - - +
259A GLU* 2.9 35.4 + - - +
305A GLU* 3.8 9.6 - - - +
329A LEU* 3.6 47.6 - - + +
332A ASP* 4.1 11.2 - - + +
333A LEU* 3.4 31.4 - - + +
336A GLN* 3.1 28.6 + - - +
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Residues in contact with SER 256 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
252A TYR* 3.0 25.1 + - - -
253A LYS* 2.8 27.7 + - - +
255A LEU* 1.3 76.3 - - - +
257A GLU* 1.3 60.5 + - - +
259A GLU* 3.2 26.4 - - - +
260A GLN* 3.5 9.2 + - - +
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Residues in contact with GLU 257 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
253A LYS* 3.4 26.6 - - - +
254A LEU* 3.1 15.8 + - - +
256A SER* 1.3 80.0 + - - +
258A GLN* 1.3 58.6 + - + +
259A GLU 3.0 4.3 - - - -
260A GLN* 2.9 23.2 + - - +
261A THR* 2.9 16.9 + - - +
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Residues in contact with GLN 258 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
254A LEU* 2.7 28.8 + - + +
255A LEU* 4.0 2.8 - - - +
257A GLU* 1.3 71.9 - - + +
259A GLU* 1.3 64.7 + - - +
261A THR* 3.4 10.4 + - - +
262A LEU* 3.1 29.6 + - - +
298A LEU* 4.0 27.1 - - + +
301A GLN* 4.2 11.3 - - - +
302A MET* 3.7 18.8 - - + +
305A GLU* 2.6 40.9 + - - +
336A GLN* 3.3 26.3 + - - +
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Residues in contact with GLU 259 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
255A LEU* 2.9 24.5 + - - +
256A SER* 3.2 16.3 - - - +
258A GLN* 1.3 79.4 - - - +
260A GLN* 1.3 60.9 + - - +
262A LEU* 3.6 6.9 + - - +
263A VAL* 3.4 23.1 + - + +
332A ASP* 6.0 2.3 - - - +
336A GLN* 3.3 13.3 + - + +
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Residues in contact with GLN 260 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
256A SER 3.5 7.6 + - - +
257A GLU* 2.9 10.3 + - - +
259A GLU* 1.3 79.2 - - - +
261A THR* 1.3 64.5 + - - +
262A LEU 3.2 0.2 - - - -
263A VAL* 3.2 20.5 + - + +
264A GLN* 3.2 38.7 + - + +
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Residues in contact with THR 261 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257A GLU* 2.9 16.8 + - - +
258A GLN* 3.7 13.7 - - - +
259A GLU 3.4 0.2 - - - -
260A GLN* 1.3 77.8 - - - +
262A LEU* 1.3 58.1 + - - +
264A GLN* 3.5 6.4 + - - +
265A MET* 2.8 51.6 + - + +
298A LEU* 4.2 17.5 - - + -
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Residues in contact with LEU 262 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
258A GLN 3.1 18.5 + - - +
259A GLU* 3.9 6.7 - - - +
260A GLN 3.2 0.2 - - - -
261A THR* 1.3 74.1 - - - +
263A VAL* 1.3 59.3 + - + +
265A MET* 3.6 6.3 - - - -
266A ILE* 2.8 39.5 + - + +
298A LEU* 4.5 6.5 - - + -
302A MET* 4.5 8.5 - - + -
336A GLN* 4.0 41.3 - - + +
339A GLN* 4.2 18.8 - - + -
340A LEU* 4.0 38.8 - - + +
343A LEU* 4.5 7.0 - - + -
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Residues in contact with VAL 263 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
259A GLU* 3.4 16.6 - - + +
260A GLN* 3.2 16.5 + - + +
262A LEU* 1.3 78.6 - - + +
264A GLN* 1.3 69.5 + - + +
266A ILE* 3.3 10.4 + - + +
267A HIS* 3.2 22.2 + - + +
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Residues in contact with GLN 264 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260A GLN* 3.2 38.9 + - + +
261A THR* 4.1 5.4 - - - +
263A VAL* 1.3 81.9 - - + +
265A MET* 1.3 58.0 + - - +
267A HIS* 3.9 7.6 - - - +
268A GLU* 2.9 36.3 + - - +
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Residues in contact with MET 265 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
261A THR* 2.8 39.3 + - + +
262A LEU* 3.8 9.9 - - - +
263A VAL 3.1 0.2 - - - -
264A GLN* 1.3 77.3 - - - +
266A ILE* 1.3 59.5 - - - +
267A HIS 3.2 0.2 - - - -
268A GLU* 3.9 7.8 - - + +
269A GLN* 2.9 29.3 + - - +
291A LEU* 4.3 18.8 - - + +
294A LYS* 4.7 16.4 - - + -
295A GLN* 3.7 33.0 - - + +
298A LEU* 4.4 9.2 - - + -
340A LEU* 3.8 20.2 - - - -
343A LEU* 4.3 10.0 - - + +
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Residues in contact with ILE 266 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
262A LEU* 2.8 31.4 + - + +
263A VAL* 3.7 8.1 - - + +
265A MET* 1.3 76.1 - - - +
267A HIS* 1.3 61.9 + - - +
270A SER* 3.3 24.8 + - - +
339A GLN* 3.7 26.5 - - + +
343A LEU* 3.9 28.0 - - + -
393A GLY 5.6 1.6 - - - +
394A ALA* 4.0 13.1 - - - +
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Residues in contact with HIS 267 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263A VAL* 3.2 13.8 + - + +
264A GLN* 3.9 7.0 - - + +
265A MET 3.2 0.2 - - - -
266A ILE* 1.3 77.7 - - - +
268A GLU* 1.3 69.7 + - - +
269A GLN 3.1 0.9 - - - -
270A SER* 3.5 7.3 + - - -
271A LEU* 3.0 58.1 + - + +
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Residues in contact with GLU 268 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
264A GLN* 2.9 26.8 + - - +
265A MET* 3.9 7.9 - - - +
267A HIS* 1.3 80.8 - - + +
269A GLN* 1.3 65.3 + - - +
271A LEU* 3.4 9.7 - - + +
272A LEU* 3.1 27.5 + - + +
291A LEU* 4.6 19.6 - - + +
294A LYS* 4.2 18.9 + - - +
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Residues in contact with GLN 269 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
265A MET 2.9 19.1 + - - +
266A ILE* 4.0 2.2 - - - +
267A HIS 3.1 0.8 + - - -
268A GLU* 1.3 71.3 - - - +
270A SER* 1.3 56.8 + - - +
271A LEU 2.7 15.4 + - - -
272A LEU* 2.8 16.2 + - - +
273A LEU* 2.9 18.9 + - + +
288A LEU* 5.8 1.1 - - + +
291A LEU* 4.2 11.4 - - + +
295A GLN* 3.1 27.7 + - - -
343A LEU* 3.0 37.2 + - - +
346A GLU* 3.3 25.5 + - - +
347A ILE* 3.3 27.2 - - + +
394A ALA* 3.7 8.1 - - + -
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Residues in contact with SER 270 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
266A ILE* 3.3 12.6 + - - +
267A HIS* 3.5 7.4 + - - -
269A GLN* 1.3 76.4 - - - +
271A LEU* 1.3 63.3 + - - +
273A LEU* 3.5 8.1 - - - +
274A ASN* 2.8 35.8 + - - -
394A ALA* 3.1 39.6 - - - +
395A ARG* 5.3 1.8 - - - -
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Residues in contact with LEU 271 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
267A HIS* 3.0 49.9 + - + +
268A GLU* 3.4 9.6 - - + +
269A GLN 2.7 5.1 + - - -
270A SER* 1.3 71.3 + - - +
272A LEU* 1.3 54.3 + - - +
273A LEU 2.7 14.1 + - - -
274A ASN* 3.0 16.5 + - - +
275A ARG* 3.4 55.1 + - - +
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Residues in contact with LEU 272 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268A GLU* 3.3 17.5 - - + +
269A GLN 2.8 7.8 + - - +
271A LEU* 1.3 74.4 - - + +
273A LEU* 1.3 55.5 + - - +
275A ARG* 4.2 16.1 - - + +
276A LEU* 3.5 24.0 + - + +
287A PRO* 3.9 43.5 - - + +
288A LEU* 3.3 30.5 - - + +
291A LEU* 4.5 12.8 - - + -
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Residues in contact with LEU 273 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
269A GLN* 2.9 19.5 + - + +
270A SER* 3.5 7.9 - - - +
271A LEU 2.7 7.3 + - - -
272A LEU* 1.3 76.0 - - - +
274A ASN* 1.3 63.4 + - - +
275A ARG 3.2 2.1 + - - -
276A LEU* 3.7 23.5 + - + +
288A LEU* 4.9 8.7 - - + -
346A GLU* 3.9 15.3 - - + +
347A ILE* 5.3 3.1 - - + -
350A ILE* 3.4 30.7 - - + -
394A ALA* 4.2 10.3 - - + -
395A ARG* 3.4 51.3 + - + +
----------------------------------------------------------
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Residues in contact with ASN 274 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
270A SER* 2.8 24.1 + - - +
271A LEU* 3.0 6.9 + - - +
273A LEU* 1.3 79.3 - - - +
275A ARG* 1.3 60.4 + - + +
276A LEU 3.3 9.3 + - - +
395A ARG* 5.5 7.1 - - - +
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Residues in contact with ARG 275 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
271A LEU* 3.4 57.3 + - - +
272A LEU* 4.6 13.9 - - + +
273A LEU 3.2 0.6 - - - -
274A ASN* 1.3 81.2 - - + +
276A LEU* 1.3 63.2 + - - +
277A PRO* 3.5 9.5 - - - +
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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