Contacts of the helix formed by residues 285 - 315 (chain A) in PDB entry 1SIQ
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 285 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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277A GLN 5.6 1.6 + - - -
278A PHE* 5.8 6.4 - - - -
280A VAL* 5.0 10.2 - - - +
281A PRO 4.2 2.4 + - - -
282A LEU* 3.0 40.0 + - - +
284A ARG* 1.3 80.0 - - - +
286A GLN* 1.3 67.4 + - - +
287A LEU* 4.4 5.6 - - + +
288A ILE* 3.1 18.4 + - + +
289A GLN* 3.0 23.6 + - - +
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Residues in contact with GLN 286 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
284A ARG* 3.7 8.7 + - - +
285A ASN* 1.3 71.8 - - - +
287A LEU* 1.3 69.4 + - + +
289A GLN* 3.1 9.5 + - - +
290A LYS* 3.0 25.3 + - - +
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Residues in contact with LEU 287 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
285A ASN* 3.3 6.1 - - + +
286A GLN* 1.3 84.5 - - + +
288A ILE* 1.3 64.6 + - + +
290A LYS* 3.8 9.8 + - + +
291A LYS* 3.4 31.8 + - - +
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Residues in contact with ILE 288 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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272A ALA* 4.1 15.9 - - + -
282A LEU* 3.4 38.1 - - + +
283A ALA* 4.1 5.6 - - - -
285A ASN* 3.1 18.4 + - + +
287A LEU* 1.3 78.6 - - + +
289A GLN* 1.3 65.8 + - - +
291A LYS* 3.3 20.9 + - + +
292A LEU* 3.3 17.7 + - + +
344A MET* 3.7 44.4 - - + +
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Residues in contact with GLN 289 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
283A ALA* 2.9 31.0 + - - +
284A ARG* 4.4 10.0 + - - +
285A ASN 3.0 12.4 + - - +
286A GLN* 3.1 9.6 + - - +
288A ILE* 1.3 73.6 - - + +
290A LYS* 1.3 63.6 + - - +
292A LEU* 3.3 14.8 + - + +
293A ALA* 3.0 23.0 + - - +
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Residues in contact with LYS 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 15.6 + - - +
287A LEU* 4.0 10.5 - - + +
289A GLN* 1.3 76.5 - - - +
291A LYS* 1.3 65.6 + - + +
293A ALA* 3.2 8.6 + - + +
294A ASP* 3.0 45.1 + - - +
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Residues in contact with LYS 291 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
287A LEU* 3.4 22.2 - - - +
288A ILE* 3.5 12.8 - - + +
289A GLN 3.2 0.4 - - - -
290A LYS* 1.3 79.5 - - + +
292A LEU* 1.3 62.0 + - - +
294A ASP* 3.2 10.0 + - - +
295A MET* 3.0 32.7 + - + +
340A GLN* 3.4 38.3 - - - +
343A ASP* 3.3 26.3 + - - -
344A MET* 3.9 27.9 - - + +
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Residues in contact with LEU 292 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
265A LEU* 3.9 24.3 - - + +
268A ALA* 4.4 3.6 - - + -
269A ARG* 4.1 33.4 - - + +
272A ALA* 4.9 4.7 - - + -
283A ALA* 5.5 4.9 - - + -
288A ILE* 3.3 25.8 + - + +
289A GLN* 3.6 15.3 - - + +
290A LYS 3.3 0.2 - - - -
291A LYS* 1.3 77.0 - - - +
293A ALA* 1.3 62.7 + - - +
295A MET* 3.3 9.7 + - - +
296A LEU* 3.0 25.3 + - - +
344A MET* 3.9 20.2 - - + -
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Residues in contact with ALA 293 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
289A GLN 3.0 13.7 + - - +
290A LYS* 3.2 12.1 + - + +
292A LEU* 1.3 78.3 - - - +
294A ASP* 1.3 54.8 + - - +
296A LEU* 3.5 6.3 + - - +
297A THR* 2.8 38.7 + - - +
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Residues in contact with ASP 294 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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290A LYS* 3.0 45.5 + - - +
291A LYS* 3.2 10.6 + - - +
293A ALA* 1.3 75.7 - - - +
295A MET* 1.3 65.2 + - + +
297A THR* 3.3 6.8 + - - -
298A GLU* 3.1 30.8 + - + +
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Residues in contact with MET 295 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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264A CYS 5.0 0.4 - - - +
265A LEU* 3.9 36.8 - - + -
268A ALA* 4.7 2.0 - - + -
291A LYS 3.0 19.5 + - - +
292A LEU* 3.3 11.9 + - - +
294A ASP* 1.3 77.6 - - + +
296A LEU* 1.3 62.9 + - - +
298A GLU* 3.9 0.5 - - - -
299A ILE* 3.0 30.9 + - + +
337A ILE* 3.8 38.1 - - + +
340A GLN* 3.4 33.2 - - + -
341A ALA* 3.6 17.3 - - + +
344A MET* 3.7 21.5 - - - -
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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
----------------------------------------------------------
4A PHE* 4.4 10.5 - - + -
6A TRP* 3.3 40.4 - - + +
9A PRO* 3.5 28.5 - - + -
265A LEU* 4.1 22.6 - - + +
292A LEU 3.0 15.5 + - - +
293A ALA* 3.9 6.3 - - - +
295A MET* 1.3 76.3 - - - +
297A THR* 1.3 60.2 + - - +
299A ILE* 3.8 5.8 - - + +
300A THR* 2.7 35.6 + - - +
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Residues in contact with THR 297 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
293A ALA* 2.8 22.9 + - - +
294A ASP* 3.6 9.9 + - - -
296A LEU* 1.3 78.3 - - - +
298A GLU* 1.3 68.5 + - - +
300A THR* 3.3 4.9 + - - -
301A LEU* 3.1 40.9 + - + +
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Residues in contact with GLU 298 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
258A LEU* 5.0 1.3 - - - +
294A ASP* 3.1 18.4 + - + +
295A MET 4.1 2.5 - - - +
297A THR* 1.3 83.7 - - - +
299A ILE* 1.3 63.3 + - - +
301A LEU* 3.4 21.4 + - - +
302A GLY* 3.1 19.2 + - - -
329A ASN* 5.1 4.5 + - - -
330A ASN* 5.7 0.5 + - - -
333A LYS* 2.8 56.6 + - + +
337A ILE* 4.4 12.6 - - + -
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Residues in contact with ILE 299 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
258A LEU* 4.0 15.8 - - + +
261A SER* 3.8 35.4 - - - +
262A GLU* 3.8 28.9 - - + +
265A LEU* 3.8 27.6 - - + -
295A MET* 3.0 20.3 + - + +
296A LEU* 3.8 7.9 - - + +
298A GLU* 1.3 75.5 - - - +
300A THR* 1.3 60.2 + - - +
302A GLY* 3.3 2.4 + - - -
303A LEU* 2.9 35.5 + - + +
337A ILE* 3.8 16.2 - - + -
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Residues in contact with THR 300 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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9A PRO* 3.6 34.7 - - + +
10A LEU* 3.6 32.0 - - + +
296A LEU* 2.7 26.8 + - - +
297A THR* 3.6 5.3 - - - -
299A ILE* 1.3 76.3 - - - +
301A LEU* 1.3 68.2 + - + +
303A LEU* 4.5 7.0 - - - -
304A HIS* 3.3 33.4 + - + +
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Residues in contact with LEU 301 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10A LEU* 6.3 0.2 - - - -
297A THR* 3.1 35.4 + - + +
298A GLU* 3.4 24.7 + - - +
300A THR* 1.3 78.4 - - + +
302A GLY* 1.3 61.1 + - - +
304A HIS* 4.2 2.1 - - - +
305A ALA* 3.3 24.1 + - - +
329A ASN* 5.7 3.4 - - - +
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Residues in contact with GLY 302 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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258A LEU* 3.7 9.9 - - - -
298A GLU 3.1 13.6 + - - -
299A ILE 3.7 3.1 - - - -
301A LEU* 1.3 76.3 - - - +
303A LEU* 1.3 58.4 + - - +
305A ALA* 3.4 5.0 + - - +
306A CYS* 2.9 34.8 + - - +
326A LEU* 4.9 0.4 - - - +
329A ASN* 4.8 3.8 - - - +
330A ASN* 3.8 23.9 + - - +
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Residues in contact with LEU 303 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A GLN 6.0 1.3 - - - +
8A ASP* 5.4 4.9 - - - +
9A PRO* 6.5 0.9 - - + -
12A LEU* 3.9 25.3 - - + +
84A ARG* 3.7 27.1 - - - +
255A TRP* 3.9 23.2 - - + -
258A LEU* 3.5 20.4 - - + +
262A GLU* 3.5 21.8 - - - +
299A ILE* 2.9 25.2 + - + +
300A THR* 3.3 8.5 + - - +
302A GLY* 1.3 76.4 - - - +
304A HIS* 1.3 65.4 + - + +
306A CYS* 3.3 4.2 + - - +
307A LEU* 3.0 25.6 + - - +
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Residues in contact with HIS 304 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8A ASP* 4.6 2.2 - - - -
9A PRO* 6.4 0.2 - - + -
10A LEU* 3.3 54.0 + - + +
11A VAL 4.6 0.2 + - - -
12A LEU* 3.9 34.1 - - + -
15A GLN* 5.2 4.9 - - + +
300A THR* 3.3 23.7 + - + +
301A LEU* 4.5 2.5 - - - +
303A LEU* 1.3 84.2 - - + +
305A ALA* 1.3 65.6 + - - +
307A LEU* 3.5 14.4 + - + +
308A GLN* 3.2 21.0 + - - +
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Residues in contact with ALA 305 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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301A LEU 3.3 19.8 + - - +
302A GLY* 3.6 2.9 - - - +
303A LEU 3.3 0.6 - - - -
304A HIS* 1.3 75.4 - - - +
306A CYS* 1.3 64.8 + - - +
308A GLN* 3.1 8.7 + - - +
309A LEU* 3.0 18.9 + - - +
326A LEU* 3.5 33.8 - - + +
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Residues in contact with CYS 306 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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254A ALA* 3.6 30.3 - - - -
255A TRP* 3.5 38.4 + - + +
258A LEU* 4.1 2.5 - - - -
302A GLY 2.9 15.3 + - - +
303A LEU* 3.6 5.4 - - - +
305A ALA* 1.3 77.1 - - - +
307A LEU* 1.3 57.0 + - - +
309A LEU* 3.2 4.7 + - - +
310A GLY* 2.8 24.8 + - - -
326A LEU* 3.8 13.0 - - - +
330A ASN* 3.4 25.6 - - - -
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Residues in contact with LEU 307 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12A LEU* 4.0 15.0 - - + -
15A GLN* 3.5 36.8 - - + +
16A LEU* 4.0 26.5 - - + -
77A VAL* 4.1 15.8 - - + +
255A TRP* 3.7 10.2 - - + -
303A LEU 3.0 15.0 + - - +
304A HIS* 3.6 14.6 - - + +
305A ALA 3.2 0.4 - - - -
306A CYS* 1.3 73.9 - - - +
308A GLN* 1.3 64.2 + - - +
310A GLY* 3.1 3.1 + - - -
311A ARG* 3.0 43.2 + - + +
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Residues in contact with GLN 308 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
304A HIS 3.2 9.9 + - - +
305A ALA* 3.1 11.1 + - - +
307A LEU* 1.3 82.3 - - - +
309A LEU* 1.3 63.0 + - - +
311A ARG* 3.2 11.7 + - - +
312A LEU* 3.0 54.2 + - + +
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Residues in contact with LEU 309 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
251A TYR* 3.9 25.4 - - + -
254A ALA* 5.6 2.5 - - + -
305A ALA 3.0 12.7 + - - +
306A CYS* 3.6 8.3 - - - +
308A GLN* 1.3 77.3 - - - +
310A GLY* 1.3 57.7 + - - +
312A LEU* 3.2 8.2 + - + +
313A LYS* 2.8 30.6 + - + +
318A ALA* 4.2 12.6 - - + -
322A MET* 3.6 39.0 - - + +
323A VAL* 4.0 27.4 - - + -
326A LEU* 3.6 26.9 - - + -
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Residues in contact with GLY 310 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76A SER* 3.7 1.8 - - - -
77A VAL* 3.9 11.4 - - - -
251A TYR* 3.3 30.4 - - - -
306A CYS 2.8 11.2 + - - -
307A LEU 3.1 4.9 + - - -
309A LEU* 1.3 77.8 - - - +
311A ARG* 1.3 59.2 + - - +
313A LYS* 3.4 5.2 + - - +
314A ASP* 3.2 26.9 + - - +
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Residues in contact with ARG 311 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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15A GLN 3.0 25.5 + - - -
16A LEU* 4.0 1.0 - - - +
17A THR* 4.2 10.9 - - - +
20A GLU* 2.9 42.2 + - - -
75A SER* 4.5 3.2 + - - -
77A VAL* 3.5 16.3 - - - +
307A LEU* 3.0 33.8 + - + +
308A GLN* 3.2 15.7 + - - +
310A GLY* 1.3 73.6 - - - +
312A LEU* 1.3 67.0 + - + +
314A ASP* 3.3 17.5 + - - +
315A GLN* 3.2 29.6 + - - +
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Residues in contact with LEU 312 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
308A GLN* 3.0 44.6 + - + +
309A LEU* 3.6 11.2 - - + +
311A ARG* 1.3 76.3 - - + +
313A LYS* 1.3 63.0 + - - +
315A GLN* 2.9 26.7 + - - +
317A LYS* 2.9 46.6 + - + +
318A ALA* 4.2 3.1 - - + +
322A MET* 3.9 29.6 - - + -
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Residues in contact with LYS 313 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A THR* 5.8 4.9 + - - +
76A SER* 3.6 19.7 + - - +
79A TYR* 5.8 3.2 - - - -
247A ASN* 5.2 1.8 - - - -
248A ASN* 3.0 31.4 + - - +
251A TYR* 3.8 41.4 - - + -
309A LEU* 2.8 16.8 + - + +
310A GLY 3.5 7.4 - - - +
311A ARG 3.2 0.2 - - - -
312A LEU* 1.3 77.3 - - - +
314A ASP* 1.3 57.7 + - - +
316A ASP* 2.9 23.8 + - - +
318A ALA* 3.8 21.5 - - + +
323A VAL* 5.7 4.5 - - + -
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Residues in contact with ASP 314 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A VAL 5.2 0.2 - - - +
75A SER* 3.4 17.1 - - - -
76A SER* 2.7 43.1 + - - -
77A VAL 4.1 1.7 + - - -
310A GLY 3.2 11.7 + - - +
311A ARG* 3.3 15.9 + - - +
312A LEU 3.3 0.6 - - - -
313A LYS* 1.3 76.0 - - - +
315A GLN* 1.3 59.6 + - + +
316A ASP* 3.3 7.4 + - - +
----------------------------------------------------------
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Residues in contact with GLN 315 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
311A ARG* 3.2 25.7 - - - +
312A LEU* 2.9 19.4 + - - +
314A ASP* 1.3 80.0 - - + +
316A ASP* 1.3 71.5 + - - +
317A LYS* 3.3 44.5 + - + +
----------------------------------------------------------
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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