Contacts of the helix formed by residues 267 - 293 (chain A) in PDB entry 2AXT
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 ASN 267 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
265A PHE* 4.6 1.5 - - + +
266A ASN* 1.3 89.0 + - - +
268A SER* 1.3 64.2 + - - +
269A ARG* 3.0 15.1 + - - +
270A SER* 2.8 30.1 + - - -
271A LEU* 2.7 25.0 + - - +
568A SQD 2.6 33.1 + - - +
232D PHE 3.0 22.0 + - - +
233D ARG* 4.9 0.6 - - - +
235D PHE* 3.7 20.7 + - - +
237D PRO* 6.1 0.6 - - - +
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Residues in contact with SER 268 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
244A GLU* 5.3 0.7 + - - -
246A TYR* 4.0 8.5 + - - -
248A ILE* 3.6 31.3 - - - +
266A ASN 3.9 1.6 - - - -
267A ASN* 1.3 70.2 + - - +
269A ARG* 1.3 57.4 + - - +
271A LEU* 4.3 8.1 - - - +
272A HIS* 2.8 48.7 + - - +
218D VAL* 5.6 1.3 - - - -
235D PHE* 3.6 27.3 - - - -
243D THR* 4.1 13.3 - - - +
353D BCT 5.0 1.4 + - - -
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Residues in contact with ARG 269 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
267A ASN* 2.9 8.1 + - - +
268A SER* 1.3 77.1 - - - +
270A SER* 1.3 62.7 + - - +
273A PHE* 3.1 13.3 + - - +
457C LYS 5.1 0.2 + - - -
218D VAL* 5.5 0.7 - - + -
219D GLU* 2.7 32.1 - - - +
222D LEU* 3.4 25.7 - - + +
223D PHE 3.1 25.4 + - - -
225D ASP* 3.3 18.6 + - - +
231D THR* 2.9 41.3 + - - -
232D PHE* 3.7 11.6 - - + -
234D ALA* 3.2 21.6 + - - +
235D PHE* 3.7 17.2 - - + +
243D THR* 2.7 37.4 + - + +
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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
----------------------------------------------------------
265A PHE* 3.5 15.4 - - - -
267A ASN* 2.8 23.7 + - - -
269A ARG* 1.3 73.7 - - - +
271A LEU* 1.3 60.4 + - - +
273A PHE* 4.0 1.6 - - - +
274A PHE* 3.5 15.8 + - - +
568A SQD 2.7 53.1 + - - +
232D PHE* 3.2 21.9 - - - -
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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
----------------------------------------------------------
215A HIS* 3.7 14.4 - - + +
246A TYR* 5.6 0.4 - - - +
248A ILE* 5.8 1.6 - - + -
265A PHE* 3.7 30.7 - - + -
267A ASN 2.7 19.5 + - - +
268A SER* 3.7 8.5 - - - +
270A SER* 1.3 72.0 - - - +
272A HIS* 1.3 76.4 + - + +
274A PHE* 3.2 5.7 + - - +
275A LEU* 3.2 28.7 + - + +
564A PQ9 3.4 69.8 - - + +
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Residues in contact with HIS 272 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215A HIS* 3.1 16.5 + + - -
246A TYR* 4.8 0.4 - - - -
268A SER* 2.8 39.9 + - - +
269A ARG 4.2 2.2 - - - +
271A LEU* 1.3 78.9 - - + +
273A PHE* 1.3 63.1 + - - +
275A LEU* 3.3 18.7 + - + +
276A ALA 3.3 8.7 + - - -
557A FE2 2.4 24.5 - - - -
214D HIS* 3.3 14.5 + + - -
215D GLY* 3.3 13.2 - - - +
218D VAL* 3.1 48.6 - - + +
219D GLU* 4.2 0.9 - - - +
244D TYR* 5.6 0.7 - + - -
353D BCT 3.0 25.1 + - - -
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Residues in contact with PHE 273 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
269A ARG 3.1 17.9 + - - +
270A SER 4.1 0.9 - - - +
272A HIS* 1.3 73.1 - - - +
274A PHE* 1.3 60.7 + - - +
275A LEU 2.9 4.9 - - - -
276A ALA* 2.9 3.9 + - - +
277A ALA* 2.8 44.5 + - + +
567A LHG 3.1 92.0 - - + -
568A SQD 3.7 37.5 - - + -
219D GLU* 3.6 15.0 - - - +
232D PHE* 3.8 20.0 - + + -
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Residues in contact with PHE 274 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211A PHE* 3.5 39.2 - + - -
265A PHE* 3.8 17.9 - + + -
270A SER 3.5 11.9 + - - +
271A LEU 3.2 9.7 + - - +
273A PHE* 1.3 84.3 - - - +
275A LEU* 1.3 62.6 + - + +
277A ALA* 3.9 4.9 - - + +
278A TRP* 3.4 46.2 + + + +
564A PQ9 3.6 42.2 - - + -
568A SQD 3.6 44.9 - - + -
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Residues in contact with LEU 275 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211A PHE* 4.1 20.2 - - + +
215A HIS* 3.8 38.8 - - + +
271A LEU* 3.3 24.2 - - + +
272A HIS* 3.3 23.6 - - + +
273A PHE 2.9 0.6 - - - -
274A PHE* 1.3 82.8 - - + +
276A ALA* 1.3 56.5 + - - +
278A TRP* 5.3 0.2 - - - -
279A PRO* 2.9 20.3 - - - +
564A PQ9 4.4 8.7 - - + -
211D CYS* 2.6 45.6 - - - +
214D HIS* 4.6 6.5 - - + -
215D GLY* 4.1 4.9 - - - +
271D MET* 5.3 2.9 - - + -
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Residues in contact with ALA 276 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
272A HIS 3.3 1.7 + - - +
273A PHE* 2.9 7.3 + - - +
275A LEU* 1.3 78.1 - - - +
277A ALA* 1.3 58.1 + - - +
279A PRO* 4.4 1.3 - - - -
280A VAL* 3.0 31.1 - - + +
567A LHG 3.7 25.5 - - + +
212D ALA* 3.7 14.4 - - - +
215D GLY 3.4 5.8 - - - +
216D ALA* 3.3 31.4 - - + +
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Residues in contact with ALA 277 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
273A PHE* 2.8 41.1 + - + +
274A PHE* 4.6 4.5 - - + +
276A ALA* 1.3 80.0 - - - +
278A TRP* 1.3 60.7 + - - +
279A PRO 3.6 0.2 - - - -
281A VAL* 2.8 38.8 + - + +
567A LHG 4.0 20.4 - - + -
568A SQD 5.9 0.7 - - + -
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Residues in contact with TRP 278 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203A ALA* 3.0 35.0 + - + -
204A GLY* 3.6 6.3 - - - -
207A GLY* 3.6 4.9 - - - -
208A GLY 3.7 17.0 - - - -
211A PHE* 3.9 21.1 - + + -
274A PHE* 3.4 40.8 + + + +
277A ALA* 1.3 77.6 - - - +
279A PRO* 1.3 74.0 - - + +
281A VAL* 4.2 2.2 - - - +
282A GLY* 3.1 19.8 + - - -
560A CLA 3.3 31.6 - - + -
568A SQD 4.4 26.2 - - + -
509C DGD 4.4 12.1 - - + -
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Residues in contact with PRO 279 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204A GLY* 4.1 17.9 - - - +
208A GLY* 4.2 11.2 - - - -
275A LEU 2.9 29.4 - - - +
276A ALA 4.5 0.7 - - - -
277A ALA 4.0 0.2 - - - -
278A TRP* 1.3 94.8 - - + +
280A VAL* 1.3 60.2 + - - +
283A VAL* 2.7 36.2 + - - +
561A PHO 3.4 22.9 - - + -
208D ALA 4.3 0.7 - - - +
211D CYS* 3.9 7.6 - - - +
212D ALA* 3.3 21.1 - - + -
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Residues in contact with VAL 280 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A VAL 4.3 6.7 - - - +
146A ALA* 3.7 35.7 - - + +
149A ALA* 4.1 9.2 - - + +
276A ALA 3.0 26.0 - - - +
277A ALA* 3.5 2.2 + - - +
278A TRP 3.4 0.6 - - - -
279A PRO* 1.3 77.7 - - - +
281A VAL* 1.3 64.7 + - - +
283A VAL* 3.8 0.5 - - - +
284A TRP* 2.9 62.1 + - + +
561A PHO 5.2 2.5 - - + -
567A LHG 4.5 5.4 - - + -
212D ALA* 4.4 12.6 - - + -
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Residues in contact with VAL 281 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
277A ALA* 2.8 29.0 + - + +
278A TRP* 4.2 2.5 - - - +
280A VAL* 1.3 73.0 - - - +
282A GLY* 1.3 63.4 + - - +
284A TRP* 3.5 20.6 - - + +
285A PHE* 3.3 39.6 + - + -
567A LHG 3.9 44.4 - - + -
436C PHE* 5.9 1.2 - - + -
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Residues in contact with GLY 282 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200A LEU* 3.7 19.0 - - - +
201A GLY* 3.6 10.1 - - - -
204A GLY* 4.3 6.3 - - - -
278A TRP 3.1 13.9 + - - -
279A PRO 3.7 1.8 - - - -
281A VAL* 1.3 78.6 - - - +
283A VAL* 1.3 63.5 + - - +
285A PHE* 3.2 24.9 + - - +
286A THR 3.5 4.2 + - - -
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Residues in contact with VAL 283 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A ALA* 3.6 25.4 - - + -
150A PRO 4.4 0.2 - - - -
153A SER* 3.8 16.1 + - - +
201A GLY* 5.0 0.7 - - - -
204A GLY* 4.9 0.4 - - - -
205A VAL* 3.8 22.0 - - + +
279A PRO 2.7 22.6 + - - +
282A GLY* 1.3 69.5 - - - -
284A TRP* 1.3 68.1 + - - +
286A THR* 2.9 19.2 + - - +
287A ALA* 3.3 7.1 + - - +
558A CLA 3.8 15.5 - - + +
561A PHO 3.7 33.7 - - + -
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Residues in contact with TRP 284 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A VAL* 3.5 22.2 - - + -
148A SER* 2.8 33.3 + - - -
149A ALA* 3.6 17.2 - - - +
152A ALA* 4.5 0.9 - - + -
280A VAL* 2.9 30.8 + - + +
281A VAL* 3.5 35.9 - - + +
283A VAL* 1.3 75.3 - - - +
285A PHE* 1.3 55.1 + - - +
287A ALA* 2.7 32.0 + - - +
288A LEU* 2.9 13.4 + - + +
567A LHG 4.4 25.4 - - + -
435C PHE* 3.7 26.5 - + + -
436C PHE* 4.2 25.4 - + + -
439C VAL* 3.6 31.6 - - + -
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Residues in contact with PHE 285 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197A PHE* 3.6 47.2 - + + +
200A LEU* 3.6 27.4 - - + -
281A VAL* 3.3 37.6 + - + -
282A GLY* 3.2 9.8 + - - +
284A TRP* 1.3 79.1 - - + +
286A THR* 1.3 50.2 + - - +
288A LEU* 2.6 25.8 + - + +
289A GLY* 2.6 33.1 + - - -
567A LHG 4.5 17.5 - - + -
432C VAL* 6.1 0.4 - - + -
436C PHE* 4.5 8.3 - + - -
509C DGD 3.8 25.1 - - + -
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Residues in contact with THR 286 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153A SER* 4.8 1.0 + - - -
197A PHE 3.5 11.6 + - - +
198A HIS* 3.7 18.8 - - + +
201A GLY* 3.3 28.4 - - - -
282A GLY 3.5 2.0 + - - -
283A VAL* 2.9 26.7 + - - +
285A PHE* 1.3 74.9 - - - +
287A ALA* 1.3 57.3 + - - +
289A GLY* 2.8 16.7 + - - +
290A ILE* 2.9 18.0 + - - +
558A CLA 3.0 42.4 + - + +
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Residues in contact with ALA 287 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A ALA* 3.5 37.9 - - + +
153A SER* 3.6 19.6 + - - +
156A ALA* 3.8 7.7 - - - +
283A VAL 3.3 4.2 + - - +
284A TRP* 2.7 17.5 + - - +
286A THR* 1.3 75.0 - - - +
288A LEU* 1.3 54.7 + - + +
290A ILE 3.6 0.2 + - - -
291A SER* 2.7 37.4 + - - -
558A CLA 4.7 2.2 - - - -
435C PHE* 5.8 0.9 - - + -
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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
----------------------------------------------------------
197A PHE* 3.4 14.4 - - + -
284A TRP 2.9 11.0 + - - +
285A PHE* 2.6 31.0 + - + +
287A ALA* 1.3 73.2 - - + +
289A GLY* 1.3 58.3 + - - +
291A SER* 4.1 2.4 - - - -
292A THR* 2.8 33.2 + - - -
431C PHE* 4.5 11.2 - - + -
432C VAL* 3.9 31.9 - - + -
435C PHE* 3.8 30.1 - - + -
436C PHE* 3.5 39.5 - - + -
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Residues in contact with GLY 289 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195A HIS* 4.8 0.7 - - - -
197A PHE* 3.7 21.8 - - - -
198A HIS* 6.3 0.2 - - - -
285A PHE 2.6 10.6 + - - -
286A THR* 2.8 6.4 + - - -
288A LEU* 1.3 78.7 - - - +
290A ILE* 1.3 53.7 + - - -
292A THR* 3.0 2.4 + - - -
293A MET* 2.6 53.8 + - - +
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Residues in contact with ILE 290 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A ALA* 3.7 34.1 - - + +
157A VAL* 4.1 9.4 - - + +
161A TYR* 4.0 15.0 - - + -
182A PHE* 5.0 0.4 - - + -
186A PHE* 3.4 29.4 - - + -
192A ILE* 3.9 14.4 - - + -
286A THR 2.9 12.8 + - - +
289A GLY* 1.3 74.4 - - - +
291A SER* 1.3 62.7 + - - +
293A MET 3.8 1.0 - - - -
294A ALA* 3.1 23.0 + - - +
558A CLA 3.0 51.4 - - + +
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Residues in contact with SER 291 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A ALA 4.9 1.0 + - - -
156A ALA* 3.4 14.7 - - - +
160A ILE* 3.8 15.7 - - - +
287A ALA* 2.7 23.5 + - - +
288A LEU* 4.1 5.4 - - - -
290A ILE* 1.3 78.7 - - - +
292A THR* 1.3 56.5 + - - +
294A ALA* 3.2 14.1 - - - +
295A PHE* 3.4 17.5 - - - -
431C PHE* 3.3 41.4 - - - +
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Residues in contact with THR 292 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195A HIS* 3.8 19.3 - - + +
197A PHE* 4.0 9.6 - - - -
288A LEU 2.8 21.5 + - - -
289A GLY* 3.0 3.7 + - - +
291A SER* 1.3 75.7 - - - +
293A MET* 1.3 58.7 + - - +
294A ALA 2.8 9.7 + - - -
295A PHE* 3.0 14.2 + - - +
296A ASN 3.8 2.1 + - - -
297A LEU* 3.6 29.5 + - + +
428C THR* 3.5 30.2 + - - +
431C PHE* 6.0 1.0 - - - +
432C VAL* 4.1 13.9 - - - +
508C DGD 4.2 6.1 - - + +
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Residues in contact with MET 293 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161A TYR* 3.8 2.0 - - - -
186A PHE* 3.7 24.5 - - + -
190A HIS* 2.8 53.7 + - - +
192A ILE* 3.3 40.8 - - + -
195A HIS* 3.7 30.7 - - + +
198A HIS* 5.2 2.2 - - + -
289A GLY* 2.6 37.3 + - - +
290A ILE 3.8 1.1 - - - -
292A THR* 1.3 71.7 - - - +
294A ALA* 1.3 59.0 + - - +
295A PHE 3.1 0.7 - - - -
296A ASN 3.5 3.5 + - - -
297A LEU 3.3 23.3 - - - +
298A ASN* 3.9 6.1 - - - -
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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