Contacts of the helix formed by residues 267 - 291 (chain B) in PDB entry 1XIU
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 267 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
265B GLU 3.7 4.2 - - - +
266B LEU* 1.4 89.0 - - + +
268B LEU* 1.3 56.0 + - - +
269B GLU* 3.2 4.5 - - + +
270B ASP* 2.6 51.0 + - - +
271B GLN 3.2 2.6 + - - -
358B THR* 3.7 18.4 - - - +
359B ALA* 3.9 19.3 - - + -
362B GLU* 6.1 0.2 - - + -
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Residues in contact with LEU 268 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
266B LEU 2.6 8.1 + - - -
267B PRO* 1.3 70.1 - - - +
269B GLU* 1.3 61.1 + - - +
271B GLN* 3.2 24.2 + - - +
272B VAL* 3.1 27.7 + - + +
691F HIS* 3.8 28.0 - - + +
694F LEU* 4.3 25.6 - - + +
695F GLN* 4.0 28.5 - - + +
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Residues in contact with GLU 269 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
267B PRO* 3.1 4.8 + - + +
268B LEU* 1.3 78.4 - - - +
270B ASP* 1.3 61.7 + - - +
272B VAL* 3.7 8.1 - - - +
273B ILE* 3.1 35.7 + - + +
358B THR* 5.4 8.3 - - + -
691F HIS* 5.9 1.6 - - - -
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Residues in contact with ASP 270 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
266B LEU* 4.3 14.6 - - + -
267B PRO* 2.6 24.8 + - + +
269B GLU* 1.3 73.2 - - - +
271B GLN* 1.3 56.9 + - - +
272B VAL 3.2 1.8 - - - -
273B ILE* 3.7 1.4 - - - +
274B LEU* 2.9 37.2 + - + +
356B GLY 4.1 1.9 - - - +
357B LEU* 3.5 21.6 - - + +
358B THR* 2.9 33.2 + - - +
359B ALA* 2.6 39.6 + - - +
363B VAL* 5.0 1.1 - - + +
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Residues in contact with GLN 271 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263B PHE* 3.3 39.3 + - + +
264B THR* 3.2 37.4 + - - +
266B LEU* 3.0 31.5 + - + +
267B PRO 3.2 1.8 + - - +
268B LEU* 3.2 20.2 + - - +
270B ASP* 1.3 71.7 - - - +
272B VAL* 1.3 61.8 + - - +
274B LEU 3.5 0.5 + - - -
275B LEU* 2.9 38.1 + - - +
694F LEU* 3.2 31.6 - - + +
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Residues in contact with VAL 272 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268B LEU* 3.1 20.2 - - + +
269B GLU* 3.7 8.1 - - - +
271B GLN* 1.3 77.9 - - - +
273B ILE* 1.3 66.8 + - + +
275B LEU* 4.0 0.5 - - - +
276B ARG* 2.9 29.1 + - + +
431B ASN* 4.6 14.8 - - - +
688F LYS* 6.4 0.7 - - + -
690F LEU* 3.8 29.0 - - + +
691F HIS* 4.1 36.1 - - + +
694F LEU* 4.2 7.6 - - + -
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Residues in contact with ILE 273 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
269B GLU* 3.1 26.7 + - + +
270B ASP* 3.2 8.2 + - - +
272B VAL* 1.3 83.8 - - + +
274B LEU* 1.3 58.1 + - - +
276B ARG* 3.3 4.0 + - - +
277B ALA* 2.9 29.1 + - + +
354B ALA* 3.8 19.7 - - + -
355B LYS 3.3 21.3 - - - +
356B GLY* 3.2 32.8 - - - +
357B LEU* 3.9 9.6 - - + +
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Residues in contact with LEU 274 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263B PHE* 4.2 10.3 - - + -
266B LEU* 3.8 27.1 - - + -
270B ASP 2.9 17.1 + - - +
271B GLN 3.9 3.1 - - - +
273B ILE* 1.3 74.6 - - - +
275B LEU* 1.3 54.0 + - - +
277B ALA* 2.9 4.3 + - + +
278B GLY* 2.7 35.3 + - - -
349B LEU* 3.6 35.4 - - + +
350B PHE* 4.5 8.1 - - + -
351B ASN* 3.6 27.1 - - + +
354B ALA* 4.1 6.3 - - + -
357B LEU* 3.8 20.6 - - + -
363B VAL* 4.1 11.2 - - + -
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Residues in contact with LEU 275 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
253B LEU* 3.8 31.0 - - + +
254B VAL* 4.4 14.8 - - + -
257B ALA* 3.8 22.0 - - + -
263B PHE* 3.6 30.1 - - + -
271B GLN 2.9 15.1 + - - +
272B VAL 4.1 1.8 - - - +
274B LEU* 1.3 74.9 - - - +
276B ARG* 1.3 63.0 + - - +
278B GLY* 5.1 0.2 - - - -
279B TRP* 2.9 30.0 + - - +
282B LEU* 4.4 2.5 - - + -
349B LEU* 3.9 12.1 - - + -
428B MET* 4.1 9.2 - - + -
690F LEU* 4.5 10.5 - - + -
694F LEU* 4.2 21.3 - - + -
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Residues in contact with ARG 276 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
272B VAL* 2.9 20.3 + - + +
273B ILE* 3.7 3.6 - - - +
275B LEU* 1.3 78.5 - - - +
277B ALA* 1.3 58.3 + - - +
279B TRP* 3.2 20.6 + - - -
428B MET* 4.1 12.3 - - + -
431B ASN* 3.0 49.8 - - + +
432B PRO* 5.3 6.4 - - - +
690F LEU* 5.9 1.1 - - + -
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Residues in contact with ALA 277 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
273B ILE* 2.9 18.9 + - + +
274B LEU* 2.9 3.6 + - + +
276B ARG* 1.3 81.2 - - - +
278B GLY* 1.3 58.0 + - - +
279B TRP 3.7 0.2 - - - -
280B ASN* 3.8 11.7 - - - +
281B GLU* 5.4 3.6 - - - +
351B ASN* 5.0 11.1 + - + +
354B ALA* 4.2 21.8 - - + -
355B LYS 6.0 0.2 - - - +
432B PRO 5.8 3.4 - - - +
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Residues in contact with GLY 278 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
274B LEU 2.7 14.8 + - - -
277B ALA* 1.3 78.3 - - - +
279B TRP* 1.3 65.5 + - - +
280B ASN* 3.1 3.8 + - - -
281B GLU* 3.2 6.8 + - - +
282B LEU* 2.8 38.5 + - - +
348B VAL* 4.6 15.9 - - - -
349B LEU* 5.7 0.9 - - - -
351B ASN* 6.3 0.9 - - - -
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Residues in contact with TRP 279 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202B 9CR 4.1 10.5 - - + -
246B ALA* 5.0 1.3 - - + -
250B LEU* 3.7 22.9 - - + -
253B LEU* 4.0 16.4 - - + -
275B LEU 2.9 16.8 + - - +
276B ARG 3.2 26.0 + - - -
278B GLY* 1.3 76.3 - - - +
280B ASN* 1.3 85.3 + - + +
282B LEU* 3.5 0.9 - - - +
283B LEU* 2.8 50.0 + - + +
407B LEU* 4.1 21.2 - - + +
410B LEU* 3.9 17.0 - - + -
425B LEU* 3.6 26.9 - - + -
428B MET* 3.1 50.9 + - + +
429B LEU* 4.2 7.0 - - + -
432B PRO* 6.4 0.2 - - - +
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Residues in contact with ASN 280 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202B 9CR 4.5 9.4 - - + +
277B ALA 3.8 17.5 - - - +
279B TRP* 1.3 109.7 + - + +
281B GLU* 1.3 65.1 + - - +
283B LEU* 3.9 1.2 - - - +
284B ILE* 3.0 37.3 + - + +
403B GLY* 2.9 37.5 + - - +
404B LEU* 4.1 1.2 - - - +
407B LEU* 3.5 26.8 - - + +
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Residues in contact with GLU 281 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
278B GLY* 3.2 7.9 + - - +
280B ASN* 1.3 81.4 + - - +
282B LEU* 1.3 68.6 + - - +
284B ILE* 3.7 3.2 - - - -
285B ALA* 2.8 26.0 + - - +
348B VAL* 3.7 23.6 - - + +
351B ASN* 5.8 0.5 + - - -
396B LEU 5.6 0.4 - - - -
399B LEU* 3.7 39.0 - - + +
400B ARG* 2.7 63.6 + - - +
403B GLY* 4.4 7.6 - - - -
404B LEU 5.6 0.2 + - - -
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Residues in contact with LEU 282 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
253B LEU* 4.0 32.3 - - + -
256B TRP* 4.3 6.1 - - + -
274B LEU 5.2 0.2 - - - +
275B LEU* 4.4 2.2 - - + -
278B GLY* 2.8 32.6 + - - +
279B TRP 3.5 5.8 - - - +
281B GLU* 1.3 79.1 - - - +
283B LEU* 1.3 57.0 + - - +
285B ALA* 3.4 2.2 + - - -
286B GLY 3.0 20.3 + - - -
345B ARG* 3.1 57.5 + - + +
348B VAL* 3.4 22.0 - - + -
349B LEU* 4.1 26.0 - - + +
399B LEU* 5.7 0.2 - - - -
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Residues in contact with LEU 283 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202B 9CR 4.0 29.7 + - + +
246B ALA* 3.8 23.8 - - + +
249B GLN* 3.8 25.1 - - + +
250B LEU* 4.0 5.8 - - + -
253B LEU* 4.0 31.4 - - + -
279B TRP* 2.8 46.6 + - + +
280B ASN 3.9 2.9 - - - +
282B LEU* 1.3 70.9 - - - +
284B ILE* 1.3 67.1 + - - +
286B GLY* 3.0 11.1 + - - +
287B PHE* 3.1 19.2 + - - +
345B ARG* 4.7 4.3 - - - +
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Residues in contact with ILE 284 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202B 9CR 4.3 11.0 - - + -
280B ASN* 3.0 21.0 + - + +
281B GLU* 3.8 3.6 - - - +
283B LEU* 1.3 75.0 - - - +
285B ALA* 1.3 57.7 + - - +
287B PHE* 3.5 26.7 - - + -
288B SER* 2.6 36.4 + - - +
323B VAL* 5.0 1.8 - - + -
327B LEU* 3.8 27.4 - - + -
399B LEU* 3.9 7.6 - - + -
402B ILE* 4.2 7.6 - - + -
403B GLY* 3.7 29.8 - - - +
406B CYS* 4.0 23.3 - - + -
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Residues in contact with ALA 285 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
281B GLU 2.8 20.3 + - - +
282B LEU 3.8 3.8 - - - +
284B ILE* 1.3 73.3 - - - +
286B GLY* 1.3 63.4 + - - +
288B SER* 3.8 4.9 - - - -
289B HIS* 3.1 23.9 + - - +
331B MET* 4.1 9.2 - - + +
341B LEU* 3.9 13.2 - - + +
344B LEU* 6.3 1.6 - - + -
345B ARG* 4.1 18.8 - - + -
399B LEU* 4.0 21.3 - - + -
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Residues in contact with GLY 286 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202B 9CR 5.0 0.9 - - - -
221B GLU* 5.9 0.2 - - - -
282B LEU 3.0 11.2 + - - -
283B LEU* 3.0 8.8 + - - -
285B ALA* 1.3 79.7 - - - +
287B PHE* 1.3 55.6 + - - -
289B HIS* 3.3 2.6 + - - +
290B ARG* 3.2 31.9 + - - +
338B LYS* 5.1 2.9 + - - -
341B LEU* 5.0 8.1 - - - +
345B ARG* 4.2 14.1 - - - +
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Residues in contact with PHE 287 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202B 9CR 3.5 70.6 + - + +
283B LEU 3.1 19.3 + - - -
284B ILE* 3.5 29.6 - - + -
286B GLY* 1.3 72.2 - - - +
288B SER* 1.3 66.8 + - - +
289B HIS 3.1 2.0 - - - -
290B ARG* 3.4 30.3 - - - +
291B SER* 2.5 38.3 + - - -
298B ILE* 4.0 37.7 - - + -
299B LEU 4.0 4.7 - - - +
300B LEU* 5.8 0.2 - - + -
323B VAL* 4.0 9.2 - - + -
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Residues in contact with SER 288 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
284B ILE* 2.6 25.6 + - - +
285B ALA 3.8 3.6 - - - -
287B PHE* 1.3 82.4 - - - +
289B HIS* 1.3 62.4 + - - +
291B SER* 3.2 8.0 + - - -
292B ILE* 3.5 7.8 + - - +
323B VAL* 3.7 17.5 - - - +
327B LEU* 3.8 22.6 - - - +
328B VAL* 3.3 32.0 - - - +
331B MET* 4.0 10.8 - - - -
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Residues in contact with HIS 289 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
285B ALA 3.1 15.1 + - - +
286B GLY 3.8 1.1 - - - +
287B PHE 3.1 0.4 - - - -
288B SER* 1.3 77.6 - - - +
290B ARG* 1.3 68.1 + - - +
291B SER 2.9 1.6 + - - -
292B ILE* 3.1 34.0 + - + +
293B MET* 5.3 2.0 - - + +
331B MET* 3.7 24.2 - - + -
336B MET* 2.9 46.2 + - + -
337B ASP* 4.2 4.7 + - - -
338B LYS* 3.6 38.2 + - + -
341B LEU* 3.7 20.6 - - + +
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Residues in contact with ARG 290 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202B 9CR 2.6 43.4 + - - -
226B PRO* 3.7 35.2 - - - +
228B ILE* 5.8 0.2 - - - -
231B TYR* 3.7 24.9 - - - +
249B GLN* 4.3 4.8 - - - +
286B GLY 3.2 15.7 + - - +
287B PHE* 3.4 11.3 - - - +
289B HIS* 1.3 81.2 + - - +
291B SER* 1.3 60.7 + - - +
292B ILE* 3.2 2.4 + - - +
293B MET* 3.5 16.6 + - - +
299B LEU* 2.9 37.4 + - + +
300B LEU 4.0 2.7 - - - -
301B ALA* 3.1 14.8 - - - +
338B LYS* 5.0 6.4 - - - +
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Residues in contact with SER 291 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
287B PHE 2.5 24.5 + - - -
288B SER* 3.4 7.6 - - - -
289B HIS 2.9 0.8 - - - -
290B ARG* 1.3 72.6 - - - +
292B ILE* 1.3 59.0 - - - +
293B MET 3.0 3.1 - - - -
294B ALA* 2.8 25.2 + - - +
297B GLY 4.1 3.2 - - - +
298B ILE* 3.3 16.7 - - - +
299B LEU* 2.8 35.7 + - - -
328B VAL* 3.7 20.0 - - - +
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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