Contacts of the helix formed by residues 289 - 319 (chain A) in PDB entry 5UNF
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 SER 289 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
287A ILE* 3.8 2.8 - - - +
288A ASN* 1.4 84.0 + - - +
290A CYS* 1.3 60.0 + - - +
291A GLU* 3.3 12.3 - - - -
292A VAL* 3.3 27.7 - - - +
293A ILE* 3.2 18.6 - - - +
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Residues in contact with CYS 290 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
288A ASN 3.4 5.2 + - - +
289A SER* 1.3 69.9 - - - +
291A GLU* 1.4 72.8 + - - +
292A VAL 3.4 0.2 - - - -
293A ILE* 3.1 17.4 + - + +
294A ALA* 2.8 35.0 + - - +
1047A LYS* 5.3 15.3 - - - -
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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
----------------------------------------------------------
289A SER* 3.3 10.0 - - - -
290A CYS* 1.4 97.4 + - - +
292A VAL* 1.4 64.2 + - + +
294A ALA* 3.2 9.7 + - - +
295A VAL* 3.2 26.4 + - - +
1047A LYS* 5.8 4.2 - - - +
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Residues in contact with VAL 292 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
278A LEU* 6.3 2.2 - - + -
287A ILE* 3.4 25.4 - - + -
289A SER* 3.3 26.8 + - - +
291A GLU* 1.4 74.9 - - + +
293A ILE* 1.4 62.0 + - + +
294A ALA 3.3 0.2 - - - -
295A VAL* 3.4 13.5 + - + +
296A ILE* 3.2 30.3 + - + +
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Residues in contact with ILE 293 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
282A ALA* 4.4 17.5 - - + -
287A ILE* 4.1 27.6 - - + +
288A ASN* 4.5 4.3 - - - +
289A SER 3.2 21.3 - - - +
290A CYS* 3.1 18.6 + - + +
292A VAL* 1.4 76.6 - - - +
294A ALA* 1.4 61.5 + - - +
296A ILE* 3.5 14.1 + - + +
297A ASP* 3.4 31.0 + - - +
1099A ASN* 5.4 7.6 - - - +
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Residues in contact with ALA 294 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
290A CYS 2.8 12.7 + - - +
291A GLU* 3.2 11.6 + - - +
293A ILE* 1.4 74.8 - - - +
295A VAL* 1.4 63.5 + - + +
297A ASP* 3.4 12.6 + - - +
298A LEU* 3.4 26.3 + - + +
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Residues in contact with VAL 295 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
275A LEU* 5.6 3.6 - - + -
291A GLU* 3.2 16.7 + - + +
292A VAL* 3.5 16.4 - - + +
294A ALA* 1.4 73.9 - - + +
296A ILE* 1.4 55.7 + - + +
298A LEU* 3.2 16.8 + - + +
299A ALA* 2.9 45.1 + - + +
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Residues in contact with ILE 296 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
275A LEU* 3.8 43.2 - - + +
278A LEU* 3.7 34.3 - - + +
279A ASP* 4.0 22.7 - - + +
282A ALA* 5.7 1.6 - - + -
287A ILE* 6.2 1.8 - - + -
292A VAL* 3.2 18.8 + - + +
293A ILE* 3.6 20.4 - - + +
294A ALA 3.4 0.2 - - - -
295A VAL* 1.4 76.1 - - + +
297A ASP* 1.4 55.7 + - - +
299A ALA 3.3 0.3 + - - -
300A LEU* 2.8 42.0 + - + +
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Residues in contact with ASP 297 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
293A ILE* 3.4 23.4 + - - +
294A ALA* 3.5 12.4 - - - +
295A VAL 3.3 0.4 - - - -
296A ILE* 1.4 79.7 - - - +
298A LEU* 1.4 57.1 + - + +
300A LEU* 4.0 4.6 - - - +
301A PRO* 3.3 21.7 - - - +
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Residues in contact with LEU 298 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A LEU* 6.2 3.1 - - + -
294A ALA* 3.4 12.5 + - + +
295A VAL* 3.2 22.4 + - + +
297A ASP* 1.4 77.7 - - - +
299A ALA* 1.4 67.8 + - + +
300A LEU 3.4 0.2 - - - -
301A PRO* 3.3 9.9 - - - +
302A PHE* 3.3 29.0 - - + -
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Residues in contact with ALA 299 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
275A LEU* 3.5 21.0 - - + +
295A VAL* 2.9 25.0 + - + +
296A ILE 4.0 0.7 - - - +
298A LEU* 1.4 82.4 - - + +
300A LEU* 1.3 58.6 + - - +
301A PRO 3.6 0.4 - - - -
302A PHE* 3.6 10.3 + - - +
303A ALA* 3.1 27.5 + - - +
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Residues in contact with LEU 300 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
272A PHE* 6.0 3.1 - - + -
275A LEU* 3.9 11.9 - - + -
296A ILE* 2.8 22.2 + - + +
297A ASP* 4.0 5.6 - - - +
299A ALA* 1.3 74.1 - - - +
301A PRO* 1.4 70.6 - - + +
303A ALA* 3.2 2.1 + - - +
304A ILE* 3.0 38.4 + - + +
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Residues in contact with PRO 301 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A ILE* 3.8 27.8 - - + -
51A TYR* 2.7 33.5 + - - +
104A TYR* 4.3 18.6 - - + +
108A TYR* 4.4 8.1 - - - +
297A ASP 3.3 19.1 - - - +
298A LEU* 3.3 14.4 - - - +
300A LEU* 1.4 89.7 - - + +
302A PHE* 1.3 58.1 + - + +
304A ILE* 3.7 6.7 + - + -
305A LEU 3.4 9.2 + - - -
1501A 8ES 4.6 6.3 - - + -
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Residues in contact with PHE 302 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A LEU* 3.6 31.2 - - + -
46A ALA* 5.7 5.6 - - + -
47A ILE* 3.6 26.2 - - + -
50A LEU* 4.5 19.1 - - + -
298A LEU* 3.3 30.1 - - + -
299A ALA* 3.8 9.2 - - - +
300A LEU 3.2 0.4 - - - -
301A PRO* 1.3 77.2 - - + +
303A ALA* 1.4 63.0 + - - +
304A ILE 3.2 0.2 - - - -
305A LEU* 3.1 22.8 + - + +
306A LEU* 3.3 13.6 + - - +
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Residues in contact with ALA 303 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268A CYS 4.3 1.0 - - - +
271A PRO* 4.0 11.6 - - + +
272A PHE* 3.7 37.5 + - + +
275A LEU* 3.6 19.5 - - + -
299A ALA 3.1 18.2 + - - +
300A LEU* 3.2 4.7 + - - +
302A PHE* 1.4 75.6 - - - +
304A ILE* 1.4 59.8 + - - +
306A LEU* 3.5 16.4 + - - +
307A GLY* 3.6 7.6 + - - -
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Residues in contact with ILE 304 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A TYR* 3.8 10.1 - - - +
269A TRP* 6.3 0.2 - - - -
272A PHE* 3.7 27.8 - - + -
300A LEU* 3.0 29.7 + - + +
301A PRO* 3.8 5.2 - - + +
303A ALA* 1.4 74.1 - - - +
305A LEU* 1.3 62.3 + - - +
307A GLY* 3.2 9.3 + - - +
308A PHE* 3.3 21.8 + - + -
1501A 8ES 3.6 83.1 - - + +
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Residues in contact with LEU 305 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A ILE* 6.0 0.7 - - + -
50A LEU* 3.7 37.7 - - + -
51A TYR* 3.7 36.3 - - + -
54A ILE* 3.6 35.4 - - + -
97A LEU* 4.8 5.8 - - + -
301A PRO 3.4 10.6 + - - +
302A PHE* 3.1 16.7 + - + +
304A ILE* 1.3 79.6 - - - +
306A LEU* 1.4 53.5 + - + +
308A PHE* 3.1 11.0 + - - +
309A THR* 2.7 34.6 + - - +
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Residues in contact with LEU 306 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
267A ILE* 4.0 13.5 - - + +
268A CYS* 3.2 39.8 - - - +
271A PRO* 3.8 31.4 - - + -
302A PHE 3.3 12.2 + - - +
303A ALA* 3.8 7.4 - - - +
304A ILE 3.4 0.4 - - - -
305A LEU* 1.4 75.8 - - + +
307A GLY* 1.3 63.8 + - - +
309A THR* 3.2 19.2 + - + +
310A ASN 3.2 9.7 + - - -
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Residues in contact with GLY 307 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93A LEU* 5.1 1.7 - - - +
268A CYS 3.4 10.1 + - - -
269A TRP* 3.4 41.6 - - - -
303A ALA 3.6 4.5 + - - -
304A ILE 3.2 8.4 + - - -
305A LEU 3.2 1.2 - - - -
306A LEU* 1.3 79.2 - - - +
308A PHE* 1.4 57.3 + - - +
310A ASN* 3.3 19.4 + - - +
311A SER* 4.2 4.3 + - - -
1501A 8ES 4.2 1.3 - - - -
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Residues in contact with PHE 308 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A TYR* 4.9 2.2 - + - -
54A ILE* 4.2 8.3 - - + -
93A LEU* 3.4 47.1 - - + -
94A LEU* 3.4 18.6 - - + +
96A THR* 3.8 5.6 - - - -
97A LEU* 3.6 30.3 - - + -
100A TRP* 3.8 19.1 - + - -
124A LEU* 3.8 5.4 - - + -
304A ILE* 3.3 31.6 + - + -
305A LEU* 3.1 9.0 + - + +
307A GLY* 1.4 72.2 - - - +
309A THR* 1.4 60.1 + - - +
310A ASN 3.2 0.7 - - - -
311A SER* 3.1 29.0 + - - -
312A CYS* 3.8 1.6 + - - -
1501A 8ES 3.3 39.3 - + + -
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Residues in contact with THR 309 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A ILE* 3.9 27.1 - - + +
268A CYS* 4.3 7.4 - - - -
305A LEU* 2.7 22.4 + - - +
306A LEU* 3.2 25.1 + - + +
308A PHE* 1.4 74.2 - - - +
310A ASN* 1.4 59.6 + - - +
312A CYS* 2.9 33.5 + - + +
313A VAL* 3.3 13.7 + - + +
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Residues in contact with ASN 310 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131A SER* 5.0 1.2 + - - -
135A ILE* 3.3 27.5 - - - +
264A ALA* 3.9 30.3 + - - +
265A PHE* 4.1 6.6 - - - +
268A CYS* 3.6 18.6 - - + -
269A TRP* 3.4 22.1 + - - +
306A LEU 3.2 5.1 + - - -
307A GLY 3.4 14.1 - - - +
308A PHE 3.2 0.8 - - - -
309A THR* 1.4 76.8 - - - +
311A SER* 1.4 54.9 + - - +
312A CYS 3.2 0.2 - - - -
313A VAL* 3.2 6.0 + - - +
314A ASN* 3.1 36.6 + - - +
317A LEU* 5.5 1.2 - - - +
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Residues in contact with SER 311 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A ASN* 3.1 22.7 + - - +
90A ASP* 3.0 37.3 + - - +
93A LEU* 3.5 23.7 - - - +
94A LEU* 3.8 16.4 - - - -
131A SER* 4.4 1.6 + - - -
307A GLY 4.5 1.4 + - - -
308A PHE 3.1 15.3 + - - -
310A ASN* 1.4 76.3 - - - +
312A CYS* 1.4 57.7 + - - +
314A ASN* 4.9 0.2 + - - -
315A PRO* 3.3 13.2 - - - +
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Residues in contact with CYS 312 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A ILE* 3.6 34.8 - - - -
57A ILE* 5.1 8.7 - - + -
58A GLY* 3.5 27.6 - - - +
61A VAL* 4.0 9.4 - - + +
94A LEU* 4.4 1.8 - - - -
308A PHE 3.9 4.9 - - - -
309A THR* 2.9 19.2 + - + +
311A SER* 1.4 76.3 - - - +
313A VAL* 1.3 59.5 + - + +
315A PRO* 3.3 9.5 - - - +
316A PHE* 3.3 27.2 - - + -
----------------------------------------------------------
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Residues in contact with VAL 313 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
264A ALA* 3.8 26.2 - - + -
268A CYS* 4.4 11.0 - - - -
309A THR* 3.4 20.9 - - + +
310A ASN* 3.2 14.5 + - - +
312A CYS* 1.3 77.6 - - + +
314A ASN* 1.4 64.4 + - - +
315A PRO 3.4 0.4 - - - -
316A PHE* 3.2 13.0 + - + +
317A LEU* 3.1 37.4 + - + +
----------------------------------------------------------
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Residues in contact with ASN 314 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A LEU* 3.6 17.3 - - + +
90A ASP* 3.1 38.6 + - - +
131A SER* 3.7 1.0 + - - -
135A ILE* 3.5 30.2 - - - +
310A ASN* 3.1 28.7 + - - +
311A SER* 4.2 0.4 - - - +
313A VAL* 1.4 74.6 - - - +
315A PRO* 1.4 65.3 - - + +
317A LEU* 4.1 4.3 - - - +
318A TYR* 3.2 49.9 + - - +
319A CYS 4.3 0.2 + - - -
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Residues in contact with PRO 315 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A VAL* 3.5 30.1 - - + +
62A ASN* 3.9 11.4 - - - +
65A VAL* 3.6 28.3 - - + -
311A SER 3.3 18.4 - - - +
312A CYS 3.3 15.9 - - - +
313A VAL 3.4 2.5 - - - -
314A ASN* 1.4 89.4 - - + +
316A PHE* 1.4 56.1 + - + +
319A CYS* 3.1 26.7 + - + +
320A PHE* 3.1 19.2 - - + -
----------------------------------------------------------
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Residues in contact with PHE 316 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A ILE* 6.2 1.3 - - + -
61A VAL* 3.8 28.7 - - + -
312A CYS* 3.3 27.4 - - + -
313A VAL* 3.2 8.6 + - + +
315A PRO* 1.4 76.6 - - + +
317A LEU* 1.3 59.2 + - - +
318A TYR 3.3 0.7 + - - -
320A PHE* 3.5 22.7 - + + -
321A VAL* 2.9 42.3 + - + +
----------------------------------------------------------
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Residues in contact with LEU 317 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A ARG* 3.5 15.2 + - - -
257A MET 5.0 1.6 - - - +
260A ALA* 3.6 39.5 - - + +
261A VAL* 3.6 28.7 - - + +
264A ALA* 4.0 6.3 - - + -
310A ASN* 5.5 1.1 - - - +
313A VAL* 3.1 37.6 + - + +
314A ASN* 3.4 9.6 + - - +
316A PHE* 1.3 76.8 - - - +
318A TYR* 1.4 79.3 + - + +
321A VAL* 5.0 4.6 - - - +
322A GLY 4.4 3.5 + - - -
----------------------------------------------------------
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Residues in contact with TYR 318 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83A ILE* 3.6 24.8 - - + +
86A LEU* 4.0 15.0 - - + -
135A ILE* 3.4 27.9 + - + +
138A MET* 3.8 39.3 - - + +
139A SER* 5.1 2.4 + - - -
142A ARG* 4.0 15.2 + - - +
261A VAL* 3.6 35.1 + - + +
314A ASN* 3.2 48.2 + - - +
316A PHE 3.3 0.4 - - - -
317A LEU* 1.4 92.1 - - + +
319A CYS* 1.3 63.2 - - - +
320A PHE 3.7 0.4 - - - -
322A GLY* 3.2 24.0 - - - -
----------------------------------------------------------
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Residues in contact with CYS 319 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A VAL* 4.0 28.9 - - + -
68A LEU* 4.2 31.2 - - - -
83A ILE* 3.8 24.5 - - + -
315A PRO* 3.1 13.4 + - + +
318A TYR* 1.3 80.3 - - - +
320A PHE* 1.3 69.2 + - + +
323A ASN* 3.8 14.6 + - - +
----------------------------------------------------------
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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