Contacts of the helix formed by residues 261 - 290 (chain A) in PDB entry 5FLZ
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 261 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183A ASN* 4.6 13.5 + - - +
184A LYS* 5.3 0.5 + - - -
258A ASN 3.4 8.2 + - - +
260A GLY* 1.3 78.8 - - - +
262A ARG* 1.3 66.4 + - - +
263A SER* 3.6 12.0 + - - -
264A SER* 2.9 48.0 + - - +
265A VAL* 3.3 12.7 - - - +
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Residues in contact with ARG 262 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260A GLY 4.1 1.2 - - - -
261A ASP* 1.3 74.7 + - - +
263A SER* 1.3 74.9 + - - +
265A VAL* 3.3 8.3 - - - +
266A MET* 3.0 30.8 + - - +
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Residues in contact with SER 263 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184A LYS* 3.8 22.3 - - - -
261A ASP* 3.6 9.7 + - - -
262A ARG* 1.3 87.1 + - - +
264A SER* 1.3 66.8 + - - +
266A MET* 3.4 5.9 + - - +
267A PHE* 3.1 23.7 + - - +
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Residues in contact with SER 264 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183A ASN* 3.7 19.3 - - - -
184A LYS* 4.0 12.5 - - - +
258A ASN* 3.3 32.6 + - - +
261A ASP* 2.9 34.4 + - - +
263A SER* 1.3 79.0 - - - +
265A VAL* 1.3 56.8 + - - -
267A PHE* 3.1 2.8 + - - +
268A LEU* 2.8 36.5 + - - +
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Residues in contact with VAL 265 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
255A ILE* 4.2 18.4 - - + +
258A ASN* 3.7 34.8 - - + +
259A LEU* 4.3 13.0 - - + +
260A GLY 5.6 1.1 - - - +
261A ASP 3.3 14.6 - - - +
262A ARG* 3.3 16.8 - - - +
264A SER* 1.3 71.5 + - - +
266A MET* 1.4 57.4 + - - +
268A LEU* 3.8 5.6 - - - +
269A LYS* 2.6 39.5 + - - +
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Residues in contact with MET 266 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
262A ARG 3.0 22.9 + - - +
263A SER* 3.7 5.4 - - - +
264A SER 3.2 0.2 - - - -
265A VAL* 1.4 77.8 - - - +
267A PHE* 1.4 55.8 + - - +
269A LYS* 3.4 12.4 + - + +
270A LYS* 3.1 66.8 + - + +
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Residues in contact with PHE 267 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A ILE* 5.3 10.5 - - + -
145A PHE* 4.1 37.5 - + + -
146A LEU 5.9 0.4 - - - -
184A LYS* 4.0 37.9 - - + -
185A GLN* 4.5 11.0 - - - -
188A LEU* 4.8 11.2 - - + -
263A SER 3.1 16.8 + - - +
264A SER 3.9 2.7 - - - +
266A MET* 1.4 69.9 - - - +
268A LEU* 1.4 74.9 + - + +
270A LYS* 3.2 25.4 + - - +
271A LEU* 3.1 25.1 + - + +
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Residues in contact with LEU 268 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184A LYS* 5.2 9.0 - - + +
187A GLU* 5.6 6.7 - - + -
188A LEU* 4.5 19.7 - - + -
251A PHE* 3.1 24.8 - - + -
254A LYS* 3.9 39.7 - - + -
255A ILE* 4.1 17.9 - - + -
258A ASN* 4.2 22.4 - - + +
264A SER* 2.8 24.0 + - - +
265A VAL* 3.8 3.4 - - - +
267A PHE* 1.4 89.4 - - + +
269A LYS* 1.4 57.7 - - - +
271A LEU* 3.3 4.0 + - - +
272A LEU 2.9 22.9 + - - -
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Residues in contact with LYS 269 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
251A PHE* 5.2 0.2 - - - -
255A ILE* 5.1 5.5 - - + +
265A VAL* 2.6 24.5 + - + +
266A MET* 3.6 14.8 - - + +
268A LEU* 1.4 71.1 - - - +
270A LYS* 1.3 56.9 + - + +
272A LEU* 3.1 13.4 + - + +
273A ASN* 2.8 34.4 + - + +
383A ASP* 4.6 14.8 - - - +
385A MET* 5.2 14.8 - - - +
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Residues in contact with LYS 270 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
266A MET* 3.1 51.8 + - + +
267A PHE* 3.2 29.6 + - + +
269A LYS* 1.3 74.3 - - + +
271A LEU* 1.4 59.7 + - - +
273A ASN* 3.2 15.9 + - - +
274A ASN* 3.1 23.5 + - - +
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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
----------------------------------------------------------
138A PHE* 4.0 31.2 - - + +
141A GLU* 3.5 32.3 - - + +
142A ILE* 3.8 30.3 - - + -
145A PHE* 5.4 4.9 - - + -
188A LEU* 5.0 9.2 - - + -
251A PHE* 4.0 18.6 - - + -
254A LYS* 5.8 0.2 - - - +
267A PHE* 3.1 18.4 + - + +
268A LEU* 3.7 8.7 - - - +
270A LYS* 1.4 71.7 - - - +
272A LEU* 1.3 68.2 + - - +
273A ASN 3.2 0.3 + - - -
274A ASN* 3.4 6.6 + - - +
275A ILE* 3.3 22.7 + - + +
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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
----------------------------------------------------------
248A LEU* 3.9 26.2 - - + -
251A PHE* 3.5 42.3 - - + -
252A GLN* 3.5 20.6 - - - +
255A ILE* 4.6 8.7 - - + -
268A LEU 2.9 13.9 + - - +
269A LYS* 3.3 16.8 - - + +
271A LEU* 1.3 76.8 - - - +
273A ASN* 1.3 54.0 + - - +
275A ILE* 3.3 10.1 + - + +
276A SER* 2.7 36.8 + - - -
279A TYR* 5.3 1.1 - - + -
383A ASP* 4.2 19.3 - - - +
385A MET* 4.5 10.8 - - + -
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Residues in contact with ASN 273 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
269A LYS* 2.8 18.8 + - - +
270A LYS* 3.3 13.0 - - - +
271A LEU 3.1 0.2 - - - -
272A LEU* 1.3 78.1 - - - +
274A ASN* 1.4 58.9 + - - +
276A SER* 3.0 5.0 + - - -
277A GLN* 2.9 53.2 + - - +
381A PHE 4.5 2.2 + - - +
382A ALA 4.4 4.2 + - - -
383A ASP* 3.3 33.8 + - - +
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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
----------------------------------------------------------
137A ARG* 5.1 5.2 - - + +
141A GLU* 3.5 38.1 + - - +
145A PHE* 5.0 9.1 - - - -
270A LYS* 3.1 24.4 + - - +
271A LEU* 3.8 9.7 - - - +
272A LEU 3.3 0.4 - - - -
273A ASN* 1.4 72.7 - - - +
275A ILE* 1.3 64.6 + - - +
277A GLN* 3.1 27.2 - - - +
278A ASP* 3.1 10.0 - - - +
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Residues in contact with ILE 275 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A VAL* 3.9 23.3 - - + +
137A ARG* 4.6 7.4 - - + -
138A PHE* 3.2 44.0 - - + +
141A GLU* 5.1 0.7 - - - +
247A ILE* 5.6 4.5 - - + -
251A PHE* 4.8 11.7 - - + -
271A LEU* 3.3 23.3 + - + +
272A LEU* 3.3 11.2 + - + +
273A ASN 3.3 0.6 - - - -
274A ASN* 1.3 77.9 - - - +
276A SER* 1.3 62.3 + - - +
278A ASP* 3.1 26.5 + - - +
279A TYR* 3.3 39.3 + - + +
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Residues in contact with SER 276 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
248A LEU* 5.6 0.3 - - - +
272A LEU* 2.7 18.4 + - - -
273A ASN 3.2 11.4 - - - -
275A ILE* 1.3 76.9 - - - +
277A GLN* 1.3 47.7 + - - +
279A TYR* 3.1 19.0 + - - +
280A CYS* 2.7 38.1 + - - -
383A ASP* 3.1 29.4 + - - -
384A LEU 3.2 23.6 + - - -
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Residues in contact with GLN 277 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
273A ASN* 2.9 37.7 + - - +
274A ASN* 3.1 18.1 + - - +
276A SER* 1.3 74.4 - - - +
278A ASP* 1.4 54.5 + - - +
280A CYS* 3.4 3.2 + - - +
281A THR* 2.9 32.2 + - - -
380A ASP* 3.0 36.3 + - - +
381A PHE* 3.3 26.9 - - - +
383A ASP* 4.1 6.4 + - - -
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Residues in contact with ASP 278 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A MET* 5.0 16.0 - - + +
134A VAL* 5.4 7.7 - - + +
137A ARG* 3.6 27.7 - - - +
274A ASN 3.1 12.9 - - - +
275A ILE* 3.1 21.9 + - - +
277A GLN* 1.4 71.5 - - - +
279A TYR* 1.3 69.4 - - + +
281A THR* 3.4 7.8 + - - -
282A MET* 3.2 37.4 + - + +
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Residues in contact with TYR 279 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A VAL* 3.4 33.4 - - + +
244A GLY* 4.5 8.2 + - - -
247A ILE* 3.8 21.8 - - - +
248A LEU* 4.1 37.2 + - + -
272A LEU* 5.3 1.3 - - + -
275A ILE* 3.3 33.3 - - + +
276A SER* 3.1 24.5 - - - +
278A ASP* 1.3 82.1 - - + +
280A CYS* 1.3 61.3 + - - +
282A MET* 3.3 23.2 - - + +
283A LEU* 3.0 34.1 + - + +
384A LEU 5.2 2.2 - - - +
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Residues in contact with CYS 280 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
276A SER* 2.7 34.7 + - - +
277A GLN* 3.5 5.4 - - - +
278A ASP 3.3 0.2 - - - -
279A TYR* 1.3 73.2 - - - +
281A THR* 1.4 51.5 + - - +
283A LEU* 3.3 8.8 + - - +
284A TYR* 2.7 31.5 + - - +
379A ASN 4.0 0.4 - - - -
380A ASP* 2.9 50.8 - - - +
383A ASP* 4.4 2.7 - - - -
384A LEU* 3.7 36.8 - - - -
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Residues in contact with THR 281 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
277A GLN 2.9 16.4 + - - -
278A ASP* 3.5 11.2 - - - -
279A TYR 3.3 0.2 - - - -
280A CYS* 1.4 71.9 - - - +
282A MET* 1.4 60.2 + - - +
284A TYR* 3.7 2.6 - - - +
285A GLU* 2.9 37.7 + - - +
293A ASN* 5.4 3.4 - - - +
380A ASP* 3.4 12.8 + - - -
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Residues in contact with MET 282 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A MET* 4.5 10.1 - - + -
134A VAL* 5.5 1.6 - - + -
278A ASP* 3.2 28.8 + - + +
279A TYR* 3.3 32.1 - - + +
281A THR* 1.4 78.3 - - - +
283A LEU* 1.3 62.6 + - + +
285A GLU* 3.3 3.1 + - - +
286A TRP* 3.1 23.2 + - - +
291A ILE 4.1 1.7 - - - +
293A ASN* 4.1 22.9 - - + +
298A GLU* 4.0 32.1 - - + +
299A PHE* 3.5 43.5 - - + -
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Residues in contact with LEU 283 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
279A TYR* 3.0 29.9 + - + +
280A CYS* 3.6 4.3 - - - +
282A MET* 1.3 73.4 - - + +
284A TYR* 1.4 56.9 + - - +
286A TRP* 3.3 14.6 + - + +
287A LEU* 2.8 54.5 + - + +
299A PHE* 5.3 9.9 - - + -
384A LEU* 4.3 19.5 - - + -
390A LEU* 3.9 31.4 - - + -
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Residues in contact with TYR 284 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
280A CYS 2.7 11.1 + - - +
281A THR* 3.7 4.5 - - - +
283A LEU* 1.4 56.4 - - - +
285A GLU* 1.4 65.3 + - - +
287A LEU* 5.4 0.2 - - - -
288A THR* 2.8 62.3 + - + +
289A GLN* 5.8 3.1 - - + -
373A ILE* 4.4 6.6 + - - +
376A GLN* 3.4 44.9 - - + -
377A GLU* 3.5 39.1 + - + +
380A ASP* 3.0 31.6 - - + +
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Residues in contact with GLU 285 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
281A THR* 2.9 25.7 + - - +
282A MET 3.3 4.5 + - - +
284A TYR* 1.4 79.6 - - - +
286A TRP* 1.4 55.2 + - - +
289A GLN* 2.8 50.7 + - + +
290A GLY 3.3 1.4 + - - -
291A ILE* 3.0 43.3 + - + +
293A ASN* 3.8 21.7 + - - +
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Residues in contact with TRP 286 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
282A MET 3.1 9.8 + - - +
283A LEU* 3.4 17.5 - - + +
285A GLU* 1.4 77.2 - - - +
287A LEU* 1.3 72.3 + - + +
290A GLY* 2.7 55.0 + - - -
291A ILE 3.6 5.8 - - - +
292A LEU* 3.1 46.8 - - + +
299A PHE* 5.2 7.0 - + + -
301A THR* 5.9 0.2 - - - -
324A TYR* 5.6 4.7 - + - -
347A MET 5.2 2.8 + - - -
348A LEU* 4.8 12.3 - - + +
351A GLY* 3.2 48.1 - - - -
352A ILE* 4.0 7.0 - - + -
354A LEU* 3.4 8.6 - - - +
355A LYS* 3.8 19.1 - - + -
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Residues in contact with LEU 287 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
283A LEU* 2.8 36.6 + - + +
286A TRP* 1.3 87.3 - - + +
288A THR* 1.3 56.1 + - - +
347A MET 5.9 0.9 - - - +
350A THR* 4.0 26.5 - - + -
351A GLY* 5.6 1.8 - - - +
354A LEU* 3.0 20.9 - - + +
376A GLN* 3.1 22.7 - - + +
390A LEU* 4.9 8.7 - - + -
393A TYR* 4.9 12.8 - - + -
394A VAL* 4.1 28.9 - - + -
397A CYS* 3.1 29.3 - - + -
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Residues in contact with THR 288 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
284A TYR* 2.8 40.9 + - + +
287A LEU* 1.3 78.1 - - - +
289A GLN* 1.4 80.8 + - - +
290A GLY 3.8 0.7 - - - -
354A LEU* 3.8 8.3 - - - +
367A PRO* 3.6 16.9 - - + +
373A ILE* 4.4 19.1 - - + -
376A GLN* 2.6 33.9 + - - +
397A CYS* 5.0 0.2 - - - -
----------------------------------------------------------
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Residues in contact with GLN 289 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
284A TYR* 5.8 3.3 - - + -
285A GLU* 2.8 33.8 + - + +
288A THR* 1.4 106.6 + - - +
290A GLY* 1.3 63.5 + - - +
291A ILE* 3.2 10.1 + - + +
354A LEU* 4.6 3.6 - - - -
358A ARG* 3.0 47.8 + - - +
366A ILE* 5.0 3.1 - - - +
367A PRO* 3.1 37.5 + - - +
----------------------------------------------------------
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Residues in contact with GLY 290 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
286A TRP* 2.7 43.0 + - - -
288A THR 3.8 0.4 - - - -
289A GLN* 1.3 70.9 - - - +
291A ILE* 1.4 59.5 + - - +
292A LEU 4.3 0.2 + - - -
354A LEU* 3.6 30.5 - - - +
355A LYS* 3.6 15.2 - - - +
358A ARG* 4.5 3.2 - - - +
----------------------------------------------------------
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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