Contacts of the helix formed by residues 281 - 316 (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 ASP 281 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
279A THR* 5.9 2.0 - - - +
280A LEU* 1.3 84.4 - - - +
282A GLU* 1.3 69.4 + - + +
283A ASN 3.9 0.2 - - - -
284A SER 3.5 2.5 + - - -
285A LEU* 2.8 48.5 + - - +
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Residues in contact with GLU 282 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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280A LEU* 5.0 1.6 - - - +
281A ASP* 1.3 81.2 - - + +
283A ASN* 1.3 74.5 + - - +
285A LEU* 2.7 17.4 + - - -
286A ALA* 3.1 14.0 + - - +
289A LYS* 5.8 8.3 - - - +
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Residues in contact with ASN 283 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
280A LEU* 4.7 15.2 - - + +
282A GLU* 1.3 80.3 - - - +
284A SER* 1.3 59.9 + - - +
286A ALA* 3.9 10.8 + - - +
287A PRO* 4.0 7.1 - - - +
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Residues in contact with SER 284 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
276A LEU* 3.6 17.2 - - - +
277A PRO* 3.5 28.6 - - - +
280A LEU* 2.9 45.3 - - - +
281A ASP 3.5 3.3 + - - -
282A GLU 2.7 4.8 + - - -
283A ASN* 1.3 76.9 - - - +
285A LEU* 1.3 60.2 + - - -
286A ALA 3.4 0.4 - - - -
287A PRO* 3.5 17.2 - - - +
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Residues in contact with LEU 285 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
276A LEU* 3.9 19.1 - - + -
280A LEU 3.9 14.6 - - - +
281A ASP* 2.8 31.1 + - - +
282A GLU* 2.7 11.0 + - - -
284A SER* 1.3 73.3 - - - +
286A ALA* 1.3 58.3 - - - -
287A PRO* 3.5 2.0 - - - -
288A LEU* 3.5 31.5 - - + +
289A LYS* 3.1 32.4 + - + +
350A ILE* 4.3 12.8 - - + +
351A LEU* 4.1 23.1 - - + +
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Residues in contact with ALA 286 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
282A GLU 3.1 12.3 + - - +
283A ASN* 4.1 7.2 - - - +
285A LEU* 1.3 74.8 - - - +
287A PRO* 1.3 68.8 - - + +
289A LYS* 3.4 16.5 + - - +
290A SER* 3.1 26.2 + - - -
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Residues in contact with PRO 287 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
272A LEU* 3.9 36.6 - - + +
276A LEU* 5.7 0.2 - - + -
283A ASN 4.0 5.6 - - - +
284A SER 3.5 17.7 - - - +
286A ALA* 1.3 95.9 - - + +
288A LEU* 1.3 64.1 + - + +
290A SER* 2.5 22.9 + - - +
291A LEU* 3.2 10.7 + - - +
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Residues in contact with LEU 288 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
269A GLN* 5.8 1.8 - - + +
272A LEU* 3.3 38.1 - - + +
273A LEU* 4.9 4.9 - - + -
276A LEU* 3.4 34.8 - - + -
285A LEU* 3.5 23.6 - - + +
286A ALA 3.2 0.6 - - - -
287A PRO* 1.3 77.6 - - + +
289A LYS* 1.3 61.3 + - - +
291A LEU* 3.1 5.6 + - + +
292A SER* 2.9 27.7 + - - -
347A ILE* 4.2 25.8 - - + +
350A ILE* 3.9 19.3 - - + -
351A LEU* 4.0 15.0 - - + -
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Residues in contact with LYS 289 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
282A GLU* 5.6 9.6 - - - +
285A LEU* 3.1 26.8 + - + +
286A ALA* 3.7 15.6 - - - +
288A LEU* 1.3 77.2 - - - +
290A SER* 1.3 61.6 + - - +
292A SER* 3.4 3.9 + - - -
293A GLN* 3.1 25.3 + - - +
351A LEU* 3.9 27.1 - - + -
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Residues in contact with SER 290 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
286A ALA 3.1 12.1 + - - -
287A PRO* 2.5 29.9 + - - +
289A LYS* 1.3 78.7 - - - +
291A LEU* 1.3 59.7 + - - +
293A GLN* 3.4 9.0 - - - +
294A LYS* 3.2 33.7 + - - +
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Residues in contact with LEU 291 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
265A MET* 4.3 18.8 - - + +
268A GLU* 4.6 18.4 - - + +
269A GLN* 4.2 25.8 - - + +
272A LEU* 4.5 15.0 - - + -
287A PRO 3.2 8.0 + - - +
288A LEU* 3.1 9.3 + - + +
290A SER* 1.3 79.0 + - - +
292A SER* 1.3 58.0 + - - +
293A GLN 3.0 0.9 - - - -
294A LYS* 2.7 35.1 + - + +
295A GLN* 2.8 47.3 + - + +
347A ILE* 3.3 20.0 - - + -
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Residues in contact with SER 292 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
288A LEU 2.9 13.4 + - - -
289A LYS* 3.6 9.6 - - - -
291A LEU* 1.3 74.8 - - - +
293A GLN* 1.3 57.4 + - - +
295A GLN* 3.3 7.8 + - - +
296A ILE* 2.9 39.5 + - - +
344A HIS* 3.2 23.4 - - - -
347A ILE* 4.1 14.0 - - - +
348A GLN* 3.6 9.5 + - - -
351A LEU* 4.2 9.6 - - - +
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Residues in contact with GLN 293 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
289A LYS 3.1 14.2 + - - +
290A SER* 3.4 14.4 - - - +
291A LEU 3.0 0.6 - - - -
292A SER* 1.3 78.0 - - - +
294A LYS* 1.3 63.7 + - + +
296A ILE* 3.4 14.7 + - - +
297A THR* 3.0 36.3 + - - -
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Residues in contact with LYS 294 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
265A MET* 4.7 14.8 - - + -
268A GLU* 4.2 18.7 + - - +
290A SER* 3.2 24.0 - - - +
291A LEU* 2.7 20.0 + - + +
293A GLN* 1.3 72.7 - - + +
295A GLN* 1.3 61.5 + - - +
297A THR* 3.4 7.9 + - - +
298A LEU* 2.9 25.7 + - - +
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Residues in contact with GLN 295 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
265A MET* 3.7 20.5 - - - -
269A GLN* 3.1 25.3 + - - -
291A LEU* 2.8 39.5 + - + +
292A SER* 3.5 3.1 - - - +
294A LYS* 1.3 76.7 - - - +
296A ILE* 1.3 52.2 + - - +
298A LEU* 3.0 5.9 + - - +
299A SER* 2.7 36.0 + - - -
340A LEU* 3.8 16.7 - - + +
343A LEU* 3.7 11.2 - - - +
344A HIS* 2.6 51.9 + - + +
347A ILE* 4.3 8.5 - - - +
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Residues in contact with ILE 296 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
292A SER* 2.9 26.1 + - - +
293A GLN* 3.9 15.3 - - - +
295A GLN* 1.3 74.0 - - - +
297A THR* 1.3 66.9 + - - +
299A SER* 3.2 9.7 + - - -
300A GLY* 3.1 16.6 + - - -
344A HIS* 3.4 26.5 - - + +
348A GLN* 6.3 0.2 - - - -
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Residues in contact with THR 297 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
293A GLN* 3.0 27.1 + - - -
294A LYS* 3.5 8.2 - - - +
296A ILE* 1.3 76.8 - - - +
298A LEU* 1.3 59.2 + - - +
300A GLY* 3.0 18.4 + - - -
301A GLN* 3.2 31.4 + - + +
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Residues in contact with LEU 298 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
258A GLN* 4.0 35.7 - - + +
261A THR* 4.2 26.0 - - + -
262A LEU* 4.5 5.4 - - + -
265A MET* 4.4 8.3 - - + -
294A LYS 2.9 16.8 + - - +
295A GLN 3.5 3.4 - - - +
297A THR* 1.3 74.3 - - - +
299A SER* 1.3 65.8 + - - +
301A GLN* 3.2 17.0 + - + +
302A MET* 3.0 42.2 + - + +
340A LEU* 3.8 16.6 - - + -
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Residues in contact with SER 299 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
295A GLN 2.7 16.9 + - - -
296A ILE* 3.4 14.8 - - - -
297A THR 3.2 0.2 - - - -
298A LEU* 1.3 71.8 - - - +
300A GLY* 1.3 59.3 + - - +
302A MET* 3.1 8.5 + - - +
303A ASN* 2.9 39.1 + - - -
337A PHE* 3.8 13.7 - - - -
340A LEU* 3.6 18.1 - - - +
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Residues in contact with GLY 300 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
296A ILE 3.1 8.8 + - - -
297A THR 3.0 9.6 + - - -
299A SER* 1.3 74.4 + - - +
301A GLN* 1.3 65.0 + - - +
303A ASN* 3.0 21.7 + - - +
304A THR* 3.0 16.3 + - - -
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Residues in contact with GLN 301 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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254A LEU* 5.6 5.2 - - - +
258A GLN* 4.2 15.2 - - - +
297A THR* 3.2 33.2 + - + +
298A LEU* 3.2 18.0 + - + +
300A GLY* 1.3 73.5 - - - +
302A MET* 1.3 63.5 + - - +
304A THR* 3.1 9.0 + - - +
305A GLU* 3.0 31.3 + - - +
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Residues in contact with MET 302 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
258A GLN* 3.7 22.4 - - + +
262A LEU* 4.5 7.9 - - + -
298A LEU* 3.0 29.5 + - + +
299A SER 3.2 11.7 - - - +
301A GLN* 1.3 78.9 - - - +
303A ASN* 1.3 58.6 + - - +
305A GLU* 3.5 10.0 - - - +
306A MET* 3.2 19.2 + - - +
333A LEU* 3.7 14.3 - - + +
336A GLN* 3.8 16.6 - - + +
337A PHE* 3.5 44.4 - - + -
340A LEU* 3.4 37.7 - - + -
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Residues in contact with ASN 303 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
299A SER* 2.9 35.9 + - - -
300A GLY* 3.0 10.9 + - - +
302A MET* 1.3 74.4 - - - +
304A THR* 1.3 65.5 + - - +
306A MET* 3.3 7.5 + - - +
307A SER* 3.1 22.7 + - - -
337A PHE* 3.9 21.2 - - - -
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Residues in contact with THR 304 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
300A GLY 3.0 13.7 + - - -
301A GLN* 3.6 10.8 - - - -
303A ASN* 1.3 74.5 - - - +
305A GLU* 1.3 62.4 + - + +
307A SER* 2.6 24.1 + - - +
308A ALA* 2.9 18.2 + - + +
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Residues in contact with GLU 305 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
251A ILE* 4.2 14.5 - - + +
254A LEU* 3.1 36.4 - - + +
255A LEU* 3.8 3.3 - - - +
258A GLN* 2.6 34.3 + - - +
301A GLN* 3.0 20.9 + - - +
302A MET* 3.5 7.1 - - - +
304A THR* 1.3 79.1 - - + +
306A MET* 1.3 63.5 + - - +
308A ALA* 3.1 9.4 + - - +
309A LEU* 2.9 26.2 + - - +
333A LEU* 3.0 35.0 - - + +
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Residues in contact with MET 306 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
302A MET 3.2 11.5 + - - +
303A ASN* 3.3 12.1 + - - +
305A GLU* 1.3 77.0 - - - +
307A SER* 1.3 52.4 + - - +
309A LEU* 3.2 14.8 + - + -
310A ASP* 2.7 49.5 + - - +
330A LYS* 3.4 52.3 - - + +
333A LEU* 3.4 17.0 - - + +
334A GLN* 4.6 11.2 - - - -
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Residues in contact with SER 307 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
303A ASN 3.1 8.8 + - - -
304A THR* 2.6 29.5 + - - +
306A MET* 1.3 77.7 - - - +
308A ALA* 1.3 54.1 + - - +
310A ASP* 3.6 7.6 - - - +
311A ALA* 2.8 39.2 + - - +
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Residues in contact with ALA 308 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
247A ILE* 4.8 7.9 - - + +
251A ILE* 4.2 15.3 - - + -
304A THR* 2.9 18.4 + - + +
305A GLU* 3.3 11.4 - - - +
307A SER* 1.3 79.0 + - - +
309A LEU* 1.3 59.9 + - - +
311A ALA* 3.4 6.0 + - - +
312A THR* 3.0 27.7 + - - -
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Residues in contact with LEU 309 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
248A LEU* 3.7 20.0 - - + -
251A ILE* 3.6 27.1 - - + -
305A GLU 2.9 15.4 + - - +
306A MET* 3.6 17.3 - - + +
308A ALA* 1.3 74.5 - - - +
310A ASP* 1.3 64.8 + - - +
312A THR* 3.0 17.5 + - - +
313A LYS* 3.1 14.4 + - - +
326A LEU* 3.5 26.0 - - + +
329A LEU* 4.2 17.3 - - + -
330A LYS* 3.9 31.4 - - - +
333A LEU* 4.3 12.6 - - + -
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Residues in contact with ASP 310 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
306A MET* 2.7 43.3 + - - +
307A SER* 3.7 7.4 - - - +
309A LEU* 1.3 73.0 - - - +
311A ALA* 1.3 59.9 + - - +
313A LYS* 4.1 6.2 + - - +
314A LYS* 3.3 22.9 + - - +
330A LYS* 2.4 36.3 + - - +
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Residues in contact with ALA 311 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
307A SER 2.8 18.9 + - - +
308A ALA* 3.8 6.3 - - - +
310A ASP* 1.3 76.0 - - - +
312A THR* 1.3 61.5 + - - +
314A LYS* 3.2 7.6 + - - +
315A GLY* 2.8 27.5 + - - -
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Residues in contact with THR 312 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
244A PRO* 4.6 1.3 - - + -
247A ILE* 3.6 28.2 - - + +
248A LEU* 5.0 9.6 - - + +
308A ALA 3.0 15.0 + - - -
309A LEU* 3.0 11.8 + - - -
311A ALA* 1.3 76.6 - - - +
313A LYS* 1.3 59.6 + - - +
315A GLY 5.1 0.2 - - - -
316A MET* 2.8 52.4 + - - +
318A LEU* 3.7 29.6 - - + -
326A LEU* 4.8 3.6 - - + -
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Residues in contact with LYS 313 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
309A LEU 3.1 7.7 + - - +
310A ASP* 4.3 6.7 - - - +
312A THR* 1.3 79.7 - - - +
314A LYS* 1.3 59.8 + - - +
318A LEU* 4.6 1.3 - - + -
326A LEU* 3.2 29.1 - - + +
327A PHE* 4.2 29.3 - - + -
330A LYS* 5.2 13.7 - - + +
499A ASP* 4.6 11.7 + - - -
511A GLN* 2.9 48.0 + - - +
514A ASN* 2.8 37.3 + - + +
515A THR* 4.0 13.1 + - - -
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Residues in contact with LYS 314 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
310A ASP 3.3 17.6 + - - +
311A ALA* 3.2 8.2 + - - +
312A THR 3.0 0.4 - - - -
313A LYS* 1.3 81.4 - - - +
315A GLY* 1.3 56.2 + - - +
316A MET 3.9 0.2 - - - -
508A THR* 2.7 54.8 + - + +
510A ALA* 3.6 3.6 - - - +
511A GLN* 4.3 15.5 - - - +
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Residues in contact with GLY 315 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
311A ALA 2.8 17.5 + - - -
312A THR* 5.1 0.2 - - - -
314A LYS* 1.3 77.0 - - - +
316A MET* 1.3 67.5 + - - +
510A ALA* 3.8 7.6 - - - -
----------------------------------------------------------
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Residues in contact with MET 316 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242A SER 4.3 14.6 - - - +
243A SER 4.7 0.4 - - - +
244A PRO* 3.3 38.6 - - + -
247A ILE* 3.3 28.3 - - + -
312A THR* 2.8 29.2 + - + +
315A GLY* 1.3 80.6 - - - +
317A ILE* 1.3 62.8 + - - +
318A LEU* 3.2 7.2 + - + +
510A ALA* 3.6 5.9 - - - +
514A ASN* 2.7 24.9 + - - -
----------------------------------------------------------
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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