Contacts of the helix formed by residues 276 - 302 (chain A) in PDB entry 2B50
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 276 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
274A TYR* 3.5 13.7 - - - -
275A LYS* 1.3 84.1 - - - +
277A ILE* 1.3 59.3 + - - +
278A SER* 3.9 8.9 + - - +
279A VAL* 3.3 24.1 + - + +
280A HIS* 2.8 29.6 + - - +
357A ARG* 2.8 48.0 + - - +
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Residues in contact with ILE 277 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
252A ILE* 3.6 44.2 - - + -
255A LEU* 4.0 22.3 - - + +
274A TYR* 3.2 16.2 + - + +
276A GLU* 1.3 73.9 - - - +
278A SER* 1.3 65.1 + - - +
280A HIS* 3.3 7.3 + - - +
281A VAL* 3.1 22.5 + - - +
352A PHE* 4.3 7.2 - - + -
356A LEU* 3.9 20.2 - - + -
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Residues in contact with SER 278 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
276A GLU* 3.3 15.1 + - - +
277A ILE* 1.3 79.6 - - - +
279A VAL* 1.3 58.2 + - - +
281A VAL* 3.5 4.3 + - - +
282A PHE* 3.1 24.9 + - - +
356A LEU* 3.4 19.8 - - - +
357A ARG* 3.0 31.3 + - - +
360A PHE* 3.5 31.7 - - - +
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Residues in contact with VAL 279 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
275A LYS* 4.2 15.7 - - + -
276A GLU* 3.3 30.2 + - + +
278A SER* 1.3 74.0 - - - +
280A HIS* 1.3 61.0 + - - +
282A PHE* 3.1 8.7 + - - +
283A TYR* 2.8 62.7 + - + +
357A ARG* 4.3 2.2 - - - +
360A PHE* 3.8 15.9 - - + -
460A GLU* 5.1 0.2 - - - +
463A THR* 3.7 28.3 - - + +
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Residues in contact with HIS 280 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
255A LEU* 4.2 25.1 - - + -
259A GLU* 2.6 48.8 + - + +
271A LEU* 3.7 24.7 - - + +
274A TYR* 3.9 27.1 - + + +
275A LYS 5.8 1.0 - - - +
276A GLU 2.8 16.9 + - - +
277A ILE* 3.3 5.8 + - - +
279A VAL* 1.3 76.7 - - - +
281A VAL* 1.3 63.0 + - - +
283A TYR* 3.2 14.4 + - - +
284A ARG* 3.0 23.8 + - + +
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Residues in contact with VAL 281 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
255A LEU* 4.0 28.0 - - + -
277A ILE 3.1 12.4 + - - +
278A SER 3.6 7.6 - - - +
280A HIS* 1.3 74.8 - - - +
282A PHE* 1.3 58.7 + - - +
284A ARG* 3.2 10.4 + - - +
285A CYS* 3.0 35.5 + - - -
352A PHE* 4.1 17.9 - - + -
353A LEU* 4.0 12.1 - - + -
356A LEU* 3.7 26.0 - - + -
360A PHE* 6.3 0.4 - - + -
364A ILE* 5.3 3.8 - - + -
1001A VCA 4.0 17.3 - - + -
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Residues in contact with PHE 282 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
278A SER 3.1 5.9 + - - +
279A VAL 3.1 9.1 + - - +
281A VAL* 1.3 75.6 - - - +
283A TYR* 1.3 62.6 + + - +
285A CYS* 3.0 21.0 + - + +
286A GLN* 3.0 40.1 + - - +
360A PHE* 3.6 24.2 - + + +
363A ILE* 3.6 32.5 - - + -
453A MET* 3.6 36.6 - - + -
456A ILE* 3.9 19.3 - - + -
463A THR* 3.5 31.6 - - + -
464A SER 4.5 0.9 - - - -
465A LEU* 5.0 4.0 - - + -
1001A VCA 4.0 13.9 - - + -
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Residues in contact with TYR 283 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
271A LEU* 3.9 22.3 - - + +
272A PRO* 3.8 34.2 - - + +
273A PRO 4.1 13.6 + - - -
274A TYR* 5.9 1.6 - - - -
275A LYS* 4.3 7.5 - - + +
279A VAL* 2.8 39.2 + - + +
280A HIS* 3.2 17.0 + - - +
282A PHE* 1.3 71.8 - + - +
284A ARG* 1.3 56.9 + - - +
286A GLN* 3.3 15.7 + - - +
287A CYS* 3.1 28.9 + - - -
462A GLU 3.6 11.1 + - - -
463A THR* 3.7 4.9 - - + -
464A SER* 2.8 59.0 + - - -
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Residues in contact with ARG 284 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
259A GLU* 2.9 41.6 + - - +
264A TRP* 3.6 53.2 - - - +
271A LEU* 3.7 21.3 - - + +
280A HIS* 3.0 20.5 + - + +
281A VAL 3.2 8.0 + - - +
283A TYR* 1.3 73.2 - - - +
285A CYS* 1.3 63.3 + - - +
287A CYS* 3.5 25.8 + - - +
288A THR* 2.8 28.4 + - - -
1001A VCA 3.8 27.5 - - + +
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Residues in contact with CYS 285 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
281A VAL* 3.0 26.6 + - - -
282A PHE* 3.0 15.0 + - + +
284A ARG* 1.3 76.2 - - - +
286A GLN* 1.3 57.7 + - - +
288A THR* 3.5 3.5 + - - -
289A THR* 3.1 34.5 + - - +
363A ILE* 5.9 0.7 - - - -
364A ILE* 4.6 12.6 - - - -
1001A VCA 3.5 67.4 - - + +
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Residues in contact with GLN 286 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
282A PHE* 3.0 38.2 + - + +
283A TYR* 3.3 18.8 + - - +
285A CYS* 1.3 74.1 - - - +
287A CYS* 1.3 65.3 + - - +
289A THR* 3.4 6.6 + - - -
290A VAL* 3.0 32.0 + - - +
464A SER 2.9 23.6 + - - -
465A LEU* 3.3 12.9 - - + +
466A HIS* 2.7 38.2 + - + +
469A LEU* 3.7 13.2 - - + +
1001A VCA 4.0 11.2 - - + -
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Residues in contact with CYS 287 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
271A LEU* 3.5 24.9 - - - -
283A TYR 3.1 21.5 + - - -
284A ARG* 3.7 25.8 - - - +
286A GLN* 1.3 77.1 - - - +
288A THR* 1.3 58.2 + - - +
290A VAL* 4.0 3.2 - - - +
291A GLU* 3.0 29.5 + - - +
466A HIS* 6.5 0.9 - - - -
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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
----------------------------------------------------------
264A TRP* 6.1 1.0 - - - -
284A ARG 2.8 16.0 + - - -
285A CYS 3.8 6.1 - - - -
286A GLN 3.3 0.2 - - - -
287A CYS* 1.3 76.0 - - - +
289A THR* 1.3 55.6 + - - +
291A GLU* 3.4 6.0 + - + +
292A THR* 2.7 42.7 + - - +
333A ILE* 6.2 4.3 - - + -
341A VAL* 5.9 3.9 - - + +
342A ALA 6.1 3.1 - - - +
1001A VCA 4.1 30.3 - - + +
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Residues in contact with THR 289 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
285A CYS 3.1 15.1 + - - +
286A GLN* 3.4 8.1 + - - -
287A CYS 3.5 0.2 - - - -
288A THR* 1.3 75.1 - - - +
290A VAL* 1.3 60.4 + - - +
292A THR* 3.2 7.5 + - - -
293A VAL* 2.9 34.1 + - - +
323A HIS* 4.8 2.9 - - + +
326A ILE* 3.8 22.4 - - + +
327A PHE* 5.5 0.2 - - + -
469A LEU* 4.1 4.0 - - - +
1001A VCA 2.7 67.3 + - + +
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Residues in contact with VAL 290 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
286A GLN 3.0 21.8 + - - +
287A CYS* 4.1 3.6 - - - +
289A THR* 1.3 73.9 - - - +
291A GLU* 1.3 64.6 + - - +
293A VAL* 3.3 10.1 + - - +
294A ARG* 3.2 29.3 + - - +
466A HIS* 3.8 43.7 - - + +
468A LEU* 4.1 5.2 - - + -
469A LEU* 3.8 26.9 - - + -
310B PHE* 3.9 21.1 - - + -
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Residues in contact with GLU 291 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
287A CYS 3.0 19.1 + - - +
288A THR* 3.8 7.0 - - + +
290A VAL* 1.3 76.8 - - - +
292A THR* 1.3 59.7 + - - +
294A ARG* 3.0 49.0 + - - +
295A GLU* 3.1 24.4 + - + +
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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
----------------------------------------------------------
226A PHE* 4.9 1.6 - - + -
288A THR* 2.7 29.8 + - - +
289A THR* 3.2 6.4 + - - -
291A GLU* 1.3 74.4 - - - +
293A VAL* 1.3 54.6 + - - +
295A GLU* 3.2 18.9 + - - +
296A LEU* 2.8 34.7 + - + +
326A ILE* 3.8 28.1 - - + +
329A MET* 3.8 23.3 - - + -
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Residues in contact with VAL 293 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
289A THR 2.9 21.5 + - - +
290A VAL* 3.5 11.0 - - - +
292A THR* 1.3 74.5 - - - +
294A ARG* 1.3 53.4 + - - +
296A LEU* 3.8 7.5 - - - +
297A THR* 2.8 38.4 + - - +
322A VAL* 4.0 30.1 - - + +
323A HIS* 5.3 1.1 - - + -
326A ILE* 4.1 10.0 - - + +
468A LEU* 3.7 17.7 - - + -
469A LEU* 5.2 3.8 - - + -
472A ILE* 4.6 6.7 - - + -
921A B7G 3.7 35.4 - - + -
310B PHE* 4.8 1.6 - - + -
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Residues in contact with ARG 294 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
290A VAL* 3.2 22.4 + - - +
291A GLU* 3.0 36.4 + - - +
293A VAL* 1.3 76.8 - - - +
295A GLU* 1.3 59.7 + - + +
297A THR* 3.4 7.3 + - - -
298A GLU* 3.2 28.9 + - - +
466A HIS* 5.3 3.2 + - - -
308B SER 4.9 9.9 + - - -
310B PHE* 3.4 47.6 - - + -
405B ARG* 5.8 5.1 - - - +
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Residues in contact with GLU 295 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
225A ASN* 3.4 24.9 - - - +
226A PHE* 3.5 25.8 - - + +
227A ASN* 3.3 28.5 + - - +
228A MET 5.5 0.7 + - - -
291A GLU* 3.1 28.7 + - - +
292A THR* 3.2 18.0 + - - +
294A ARG* 1.3 75.4 - - - +
296A LEU* 1.3 58.2 + - - +
298A GLU* 3.4 7.3 + - - +
299A PHE* 2.9 28.9 + - - +
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Residues in contact with LEU 296 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
226A PHE* 3.7 19.5 - - + -
292A THR 2.8 23.0 + - - +
293A VAL 3.8 4.5 - - - +
295A GLU* 1.3 70.5 - - - +
297A THR* 1.3 59.9 + - - +
299A PHE* 3.6 5.3 - - + +
300A ALA* 2.9 31.7 + - - +
318A LEU* 4.1 4.5 - - + +
322A VAL* 3.6 45.3 - - + +
325A ALA* 3.8 23.6 - - + -
326A ILE* 3.9 14.6 - - + -
329A MET* 3.8 12.1 - - + -
388A ILE* 3.8 14.8 - - + -
392A ILE* 3.9 11.0 - - + +
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Residues in contact with THR 297 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
293A VAL* 2.8 23.3 + - - +
294A ARG* 3.6 7.5 - - - -
295A GLU 3.3 0.2 - - - -
296A LEU* 1.3 76.4 - - - +
298A GLU* 1.3 58.7 + - - +
300A ALA* 3.3 2.9 + - - +
301A LYS* 2.9 50.2 + - + +
306A PHE* 5.0 0.2 - - - -
318A LEU* 3.9 27.3 - - + +
921A B7G 3.4 26.4 - - + +
311B LEU* 4.4 14.4 - - + +
----------------------------------------------------------
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Residues in contact with GLU 298 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
225A ASN* 3.1 22.1 + - + +
294A ARG 3.2 14.9 + - - +
295A GLU* 3.7 8.1 - - - +
297A THR* 1.3 76.9 - - - +
299A PHE* 1.3 62.5 + - - +
301A LYS* 2.8 40.4 + - - +
302A SER* 2.9 28.8 + - - -
307B SER 5.3 1.2 - - - +
----------------------------------------------------------
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Residues in contact with PHE 299 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218A ILE* 3.5 33.7 - - + -
221A ALA* 3.7 6.7 - - + -
222A TYR* 3.6 31.2 - + + -
225A ASN* 3.8 12.3 - - + +
226A PHE* 3.8 21.8 - + + -
295A GLU 2.9 18.1 + - - +
296A LEU* 3.6 3.4 - - + +
297A THR 3.3 0.2 - - - -
298A GLU* 1.3 77.0 - - - +
300A ALA* 1.3 64.4 + - - +
302A SER* 3.1 18.0 + - - -
303A ILE* 3.6 16.1 - - + +
385A ALA* 3.6 23.1 - - - -
388A ILE* 3.7 21.5 - - + -
389A ALA* 4.0 11.9 - - + -
392A ILE* 4.0 17.9 - - + -
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Residues in contact with ALA 300 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
296A LEU 2.9 17.7 + - - +
297A THR 3.6 4.5 - - - +
299A PHE* 1.3 79.3 - - - +
301A LYS* 1.3 61.2 + - - +
303A ILE* 3.1 20.5 + - + +
306A PHE* 3.1 54.0 - - + +
318A LEU* 4.2 10.1 - - + -
392A ILE* 4.3 11.0 - - + -
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Residues in contact with LYS 301 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
297A THR* 2.9 31.6 + - + +
298A GLU* 2.8 46.7 + - - +
300A ALA* 1.3 75.4 - - - +
302A SER* 1.3 57.3 + - - +
303A ILE 3.1 6.0 + - - +
304A PRO* 4.6 0.7 - - - +
306A PHE* 4.0 4.7 - - + -
307A SER* 2.8 32.8 + - - +
311A LEU* 6.5 0.2 - - + -
314A GLN* 4.3 15.5 - - - +
301B LYS* 6.0 5.8 - - + -
307B SER* 4.6 16.2 + - - -
311B LEU* 4.8 12.9 - - + +
314B GLN* 5.5 1.6 - - - +
----------------------------------------------------------
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Residues in contact with SER 302 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217A HIS* 2.9 27.2 + - - -
221A ALA* 3.6 21.2 - - - +
224A LYS* 5.3 6.7 + - - +
225A ASN* 3.4 12.2 + - - -
298A GLU 2.9 16.6 + - - -
299A PHE 3.1 13.5 + - - -
301A LYS* 1.3 76.0 - - - +
303A ILE* 1.3 59.5 + - - +
304A PRO* 3.3 3.3 - - - +
----------------------------------------------------------
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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