Contacts of the helix formed by residues 241 - 264 (chain A) in PDB entry 6UWZ
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 GLU 241 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
235A LEU* 3.6 14.7 - - + +
239A SER* 2.6 14.6 + - - +
240A GLY* 1.3 81.0 - - - +
242A LYS* 1.3 59.8 + - - +
243A MET 3.4 1.6 - - - -
244A THR* 3.8 10.3 - - - +
245A LEU* 2.9 30.0 + - - +
255B GLU* 3.4 1.3 - - - -
250E GLN* 3.2 19.6 + - + -
251E LYS 3.8 3.6 + - - -
252E CYS* 3.3 24.9 + - + +
253E THR* 2.6 40.2 + - - +
305E LEU* 3.6 17.7 - - - +
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Residues in contact with LYS 242 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232A VAL* 3.5 18.7 + - + +
233A PHE* 5.1 0.9 - - - +
235A LEU* 2.5 31.5 + - + +
236A PRO 4.2 10.1 - - - +
237A THR* 3.6 31.3 + - + +
239A SER 4.3 1.6 - - - +
241A GLU* 1.3 77.4 - - - +
243A MET* 1.3 59.2 + - - +
245A LEU 3.3 1.0 + - - -
246A SER* 2.8 35.4 + - - -
292A THR* 3.6 24.7 - - + +
295A VAL* 4.2 8.0 - - - +
296A ILE* 4.1 15.5 - - + -
407A ASP* 2.4 40.7 + - - -
255B GLU* 3.1 1.4 + - - +
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Residues in contact with MET 243 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242A LYS* 1.3 69.4 - - - +
244A THR* 1.3 67.8 + - - +
246A SER* 4.5 1.1 - - - +
247A ILE* 2.8 36.7 + - + +
289A ILE* 3.6 33.2 - - + +
292A THR* 3.3 28.0 - - + -
293A VAL* 3.6 21.1 - - + -
296A ILE* 3.3 13.9 - - + -
249B LEU* 4.0 7.9 - - + -
255B GLU* 2.8 46.0 + - + +
258B SER* 6.0 1.6 - - - -
259B THR* 4.0 19.5 - - + +
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Residues in contact with THR 244 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
240A GLY 3.9 12.8 + - - -
241A GLU* 3.6 15.7 - - + +
242A LYS 3.3 0.2 - - - -
243A MET* 1.3 78.4 - - - +
245A LEU* 1.3 58.9 + - - +
247A ILE* 4.1 2.3 - - - +
248A SER* 2.8 43.0 + - - +
254B GLY 5.6 0.2 + - - -
255B GLU* 3.7 6.6 + - - +
258B SER* 5.1 12.1 + - - -
252E CYS 4.9 0.4 - - - -
253E THR* 3.7 39.8 + - + +
256E ILE* 4.6 1.8 - - + -
257E SER* 6.1 0.2 - - - +
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Residues in contact with LEU 245 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
228A LEU* 4.7 4.0 - - + +
231A LEU* 4.2 17.0 - - + -
232A VAL* 3.7 34.3 - - + +
235A LEU* 4.5 4.9 - - + -
241A GLU 2.9 18.8 + - - +
242A LYS 3.7 3.4 - - - +
244A THR* 1.3 79.8 - - - +
246A SER* 1.3 63.9 + - - +
248A SER* 3.8 3.5 - - - -
249A VAL* 2.9 32.3 + - + +
252E CYS* 4.2 14.4 - - + -
256E ILE* 3.5 33.9 - - + -
298E VAL* 3.7 16.2 - - + -
302E VAL* 4.2 9.9 - - + -
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Residues in contact with SER 246 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
229A THR* 6.3 2.2 - - - +
232A VAL* 3.2 26.2 - - - +
242A LYS 2.8 19.5 + - - -
243A MET* 4.1 4.9 - - - -
245A LEU* 1.3 76.0 - - - +
247A ILE* 1.3 58.0 + - - +
249A VAL* 3.2 10.1 + - - +
250A LEU* 3.0 26.3 + - - +
285A VAL* 4.0 4.2 - - - +
288A SER* 4.9 2.5 - - - -
289A ILE* 3.4 32.0 - - - +
292A THR* 3.9 6.8 + - - +
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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
----------------------------------------------------------
243A MET* 2.8 34.6 + - + +
244A THR* 4.2 2.0 - - - +
246A SER* 1.3 74.9 - - - +
248A SER* 1.3 58.1 + - - +
250A LEU* 3.2 12.2 + - + +
251A LEU* 2.9 27.9 + - + +
289A ILE* 3.8 30.1 - - + -
242B LEU* 4.7 8.3 - - + -
258B SER 4.8 1.8 - - - +
259B THR* 4.1 28.9 - - + +
262B SER* 3.1 39.7 - - - +
263B VAL* 5.0 4.3 - - + +
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Residues in contact with SER 248 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
244A THR* 2.8 27.2 + - - +
247A ILE* 1.3 75.9 - - - +
249A VAL* 1.3 59.6 + - - +
251A LEU* 3.7 10.8 - - - +
252A SER* 2.9 35.1 + - - -
256E ILE* 3.3 37.6 - - - +
257E SER* 5.1 2.3 + - - -
260E LEU* 4.9 7.2 - - - +
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Residues in contact with VAL 249 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
225A PHE* 3.5 27.1 - - + +
228A LEU* 3.9 21.8 - - + +
229A THR* 3.5 25.6 - - - +
245A LEU* 2.9 25.7 + - + +
246A SER* 3.4 10.3 - - - +
248A SER* 1.3 75.2 - - - +
250A LEU* 1.3 57.1 + - - +
252A SER* 3.4 6.6 + - - -
253A LEU* 2.9 27.9 + - - +
285A VAL* 4.1 9.0 - - + -
256E ILE* 3.8 20.6 - - + -
259E LEU* 5.6 0.7 - - - -
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Residues in contact with LEU 250 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246A SER 3.0 13.1 + - - +
247A ILE* 3.3 16.8 - - + +
248A SER 3.2 0.2 - - - -
249A VAL* 1.3 77.9 - - - +
251A LEU* 1.3 55.6 + - + +
253A LEU* 3.3 6.1 + - - +
254A THR* 2.7 39.0 + - - +
282A MET* 4.8 6.1 - - - +
285A VAL* 3.7 13.2 - - + +
286A ILE* 3.8 17.7 - - + -
289A ILE* 3.3 26.9 - - + -
239B ILE* 4.0 34.3 - - + -
242B LEU* 3.5 18.8 - - + -
262B SER 5.5 0.9 - - - +
263B VAL* 5.9 2.0 - - + -
266B ALA* 4.5 7.6 - - + -
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Residues in contact with LEU 251 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
247A ILE* 2.9 19.3 + - + +
248A SER* 3.7 10.3 - - - +
250A LEU* 1.3 76.8 - - + +
252A SER* 1.3 64.4 + - - +
254A THR* 3.1 5.1 + - - +
255A VAL* 2.9 29.7 + - + +
262B SER* 3.4 36.3 - - - +
265B LEU* 4.2 24.9 - - + -
266B ALA* 3.8 24.9 - - + +
269B VAL* 5.9 2.0 - - + -
257C LEU* 6.2 1.6 - - + -
260E LEU* 4.0 24.2 - - + -
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Residues in contact with SER 252 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
225A PHE* 3.6 26.0 - - - -
248A SER 2.9 18.1 + - - -
249A VAL* 3.7 4.5 - - - -
251A LEU* 1.3 75.6 - - - +
253A LEU* 1.3 58.2 + - - +
255A VAL* 3.4 1.1 + - - -
256A PHE* 2.9 24.1 + - - +
256E ILE 4.5 1.2 + - - -
259E LEU* 4.4 6.0 - - - +
260E LEU* 3.4 35.2 + - - +
263E THR* 3.4 19.5 - - - +
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Residues in contact with LEU 253 (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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222A CYS* 4.4 3.4 - - - -
225A PHE* 3.4 31.4 - - + -
249A VAL 2.9 17.6 + - - +
250A LEU 3.6 4.9 - - - +
252A SER* 1.3 76.5 - - - +
254A THR* 1.3 58.2 + - - +
256A PHE* 3.3 3.5 + - + +
257A LEU* 2.8 22.9 + - - +
278A MET* 3.2 41.6 - - + +
281A THR* 3.9 19.3 - - + +
282A MET* 3.6 49.1 - - + +
285A VAL* 3.9 11.0 - - + -
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Residues in contact with THR 254 (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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250A LEU* 2.7 30.4 + - - +
251A LEU* 3.1 10.5 + - - -
253A LEU* 1.3 75.0 - - - +
255A VAL* 1.3 59.4 + - - +
257A LEU* 3.2 9.4 + - + +
258A LEU* 2.9 24.9 + - - +
282A MET* 4.4 6.8 - - - +
239B ILE* 4.3 7.6 - - - +
266B ALA* 4.2 8.7 - - + +
269B VAL* 3.8 26.1 - - + +
270B PHE* 3.7 35.0 - - + -
273B LEU* 5.3 0.5 - - - +
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Residues in contact with VAL 255 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
251A LEU* 2.9 16.0 + - + +
252A SER* 3.7 6.1 - - - +
254A THR* 1.3 76.2 - - - +
256A PHE* 1.3 58.1 + - - +
258A LEU* 3.0 35.8 + - + +
259A VAL* 3.0 9.2 + - - +
269B VAL* 5.0 14.6 - - + -
260E LEU* 4.0 15.9 - - + -
263E THR* 4.3 11.7 - - + +
264E ILE* 4.0 33.9 - - + -
267E PHE* 4.8 9.1 - - + +
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Residues in contact with PHE 256 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217A ASN 2.9 28.9 - - - -
218A VAL* 3.0 28.0 - - - -
221A PRO* 3.4 34.8 - - + -
222A CYS* 3.9 12.8 - - - -
225A PHE* 3.8 13.5 - + + -
252A SER 2.9 17.6 + - - +
253A LEU* 3.6 5.6 - - - +
254A THR 3.2 0.4 - - - -
255A VAL* 1.3 75.2 - - - +
257A LEU* 1.3 60.6 + - - +
259A VAL* 3.0 22.8 - - + +
260A ILE* 2.8 50.1 + - + +
278A MET* 4.4 2.7 - - + -
263E THR* 4.1 13.9 - - + +
266E LEU* 3.9 11.7 - - + -
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Residues in contact with LEU 257 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
253A LEU 2.8 13.9 + - - +
254A THR* 3.3 9.9 - - + +
256A PHE* 1.3 75.4 - - - +
258A LEU* 1.3 57.9 + - - +
260A ILE* 3.5 8.3 - - + +
261A VAL* 2.9 35.4 + - + +
278A MET* 3.5 25.4 - - + +
282A MET* 4.4 11.9 - - + -
230B ILE 5.4 0.7 - - - +
231B ASN* 3.3 54.3 - - + +
235B PRO* 4.4 4.7 - - + -
270B PHE* 3.4 29.2 - - + -
273B LEU* 4.7 4.9 - - + -
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Residues in contact with LEU 258 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
254A THR 2.9 12.9 + - - +
255A VAL* 3.0 20.4 + - + +
257A LEU* 1.3 78.4 - - - +
259A VAL* 1.3 58.9 + - - +
261A VAL* 3.6 10.4 + - - +
262A GLU* 3.7 9.7 + - - +
269B VAL* 3.8 20.2 - - + -
272B LEU* 4.0 20.9 - - + -
273B LEU* 3.4 37.2 - - + +
264C LEU* 5.9 1.3 - - + -
267E PHE* 3.2 53.7 - - + -
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Residues in contact with VAL 259 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217A ASN 4.9 2.0 - - - +
218A VAL* 6.1 0.2 - - + -
255A VAL 3.0 5.2 + - - +
256A PHE* 3.0 49.8 - - + +
258A LEU* 1.3 74.6 - - - +
260A ILE* 1.3 62.6 + - + +
262A GLU* 2.9 18.4 + - - +
263A LEU* 3.0 22.0 + - + +
263E THR 5.9 0.7 - - - +
266E LEU* 4.6 5.8 - - + +
267E PHE* 3.6 36.6 - - + -
270E ALA* 3.7 29.8 - - + -
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Residues in contact with ILE 260 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218A VAL* 3.7 28.7 - - + +
222A CYS* 4.7 0.4 - - - -
256A PHE* 2.8 37.5 + - + +
257A LEU* 3.2 16.4 + - + +
259A VAL* 1.3 77.9 - - + +
261A VAL* 1.3 59.0 + - + +
263A LEU* 4.4 2.7 - - - +
264A ILE* 2.8 55.5 + - + +
274A ILE* 5.5 2.5 - - + +
278A MET* 3.3 41.3 - - + -
227B PHE* 6.3 1.1 - - + -
231B ASN* 4.6 9.0 - - - +
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Residues in contact with VAL 261 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257A LEU* 2.9 24.9 + - + +
258A LEU* 3.7 8.5 - - - +
259A VAL 3.2 0.4 - - - -
260A ILE* 1.3 77.0 - - + +
262A GLU* 1.3 57.3 + - + +
264A ILE* 3.9 11.5 - - - +
266A SER* 4.2 2.6 + - - -
227B PHE* 4.1 20.9 - - + -
231B ASN* 4.6 11.4 - - + -
232B PHE* 4.2 20.6 - - + -
273B LEU* 4.6 15.0 - - + +
276B GLN* 5.6 6.7 - - - +
277B ARG* 3.3 34.5 + - - +
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Residues in contact with GLU 262 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
258A LEU 3.7 6.9 + - - +
259A VAL* 2.9 10.9 + - - +
261A VAL* 1.3 81.1 - - + +
263A LEU* 1.3 71.4 + - + +
264A ILE 3.5 2.0 + - - +
267E PHE* 3.0 30.1 - - - -
270E ALA 5.5 0.4 - - - -
271E GLN* 3.3 29.7 - - - +
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Residues in contact with LEU 263 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
213A TYR* 4.1 25.5 - - + +
214A PHE* 3.2 25.0 - - + -
217A ASN* 3.9 25.1 - - + +
218A VAL* 4.3 18.8 - - + -
259A VAL* 3.0 22.8 + - + +
260A ILE 4.4 1.1 - - - +
262A GLU* 1.3 91.7 - - + +
264A ILE* 1.3 60.5 + - + +
265A PRO* 4.4 0.7 - - - +
46E LYS* 5.5 1.6 - - - +
270E ALA* 3.7 42.2 - - + +
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Residues in contact with ILE 264 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135A PHE* 3.7 11.7 - - + -
214A PHE* 3.8 10.3 - - + -
218A VAL* 3.9 15.3 - - + -
260A ILE* 2.8 39.2 + - + +
261A VAL* 3.9 13.3 - - - +
262A GLU 3.5 1.6 - - - +
263A LEU* 1.3 87.5 - - - +
265A PRO* 1.3 85.6 - - + +
266A SER* 3.4 4.5 + - - -
272A PRO* 5.0 7.4 - - + -
274A ILE* 3.1 41.3 - - + -
227B PHE* 5.0 6.6 - - + -
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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).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il