Contacts of the helix formed by residues 232 - 254 (chain E) in PDB entry 2ZU6
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 232 (chain E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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197E LYS* 5.9 2.0 - - - -
227E CYS* 4.0 5.6 - - - -
228E GLY* 4.8 1.1 - - - +
231E MSE 1.3 76.4 - - - +
233E THR* 1.3 59.9 - - - +
234E THR* 2.7 30.1 + - - +
235E ASP* 2.9 28.8 + - - +
236E VAL* 3.2 12.3 + - - +
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Residues in contact with THR 233 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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227E CYS* 3.7 20.8 - - - -
228E GLY* 5.6 1.6 - - - +
232E SER* 1.3 72.7 + - - +
234E THR* 1.3 57.7 + - - +
236E VAL* 3.9 2.5 - - - -
237E GLU* 2.3 40.8 + - - +
272E GLY 4.6 10.8 - - - +
273E ILE 3.7 19.0 - - - +
275E CYS* 5.3 6.3 + - - +
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Residues in contact with THR 234 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142A ALA* 4.5 17.0 - - + +
145A GLN* 3.8 21.0 + - - -
232E SER* 2.7 14.6 + - - +
233E THR* 1.3 79.4 + - - +
235E ASP* 1.3 71.6 + - - +
237E GLU* 3.3 20.8 - - - +
238E LYS* 3.3 15.0 + - + +
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Residues in contact with ASP 235 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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194E GLY 4.2 4.2 - - - +
195E GLU 5.4 0.3 - - - +
197E LYS* 2.9 42.8 + - + +
198E SER* 3.3 26.7 + - - -
201E PRO* 5.4 0.2 - - - -
231E MSE 4.0 12.1 - - + -
232E SER* 2.9 30.4 + - - +
234E THR* 1.3 79.5 - - - +
236E VAL* 1.3 63.3 + - - +
238E LYS* 2.8 17.1 + - - -
239E SER* 3.1 10.8 + - - -
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Residues in contact with VAL 236 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201E PRO* 4.8 5.6 - - + -
223E LEU* 5.1 5.6 - - + -
227E CYS* 3.6 20.0 - - + -
231E MSE 3.4 29.6 - - + +
232E SER 3.2 10.0 + - - +
233E THR* 4.0 1.6 - - - +
235E ASP* 1.3 75.4 - - - +
237E GLU* 1.3 63.0 + - - +
239E SER* 3.4 7.3 - - - -
240E PHE* 3.1 33.8 + - + -
273E ILE* 3.6 30.5 - - + +
274E LEU* 3.5 21.1 - - + -
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Residues in contact with GLU 237 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141A ARG* 3.6 20.4 + - + +
145A GLN* 3.9 13.6 - - - +
233E THR* 2.3 40.4 + - - +
234E THR* 3.3 13.6 + - - +
236E VAL* 1.3 79.3 - - - +
238E LYS* 1.3 62.3 + - - +
240E PHE 3.4 0.3 + - - -
241E ASP* 3.0 27.7 + - - -
273E ILE 4.0 5.2 - - - +
274E LEU* 4.4 4.9 - - - +
275E CYS* 3.4 38.9 + - - +
278E TYR* 3.3 36.9 + - + -
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Residues in contact with LYS 238 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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138A THR* 3.3 41.6 + - - +
139A ASN* 4.3 10.8 + - - +
141A ARG* 5.6 8.7 - - + -
195E GLU 4.6 8.9 + - - -
198E SER* 3.6 23.8 + - - +
234E THR* 3.3 14.3 + - + +
235E ASP* 2.8 16.2 + - - +
237E GLU* 1.3 71.2 - - + +
239E SER* 1.3 55.8 + - - +
241E ASP* 2.9 12.1 + - - +
242E LYS* 2.6 38.4 + - - +
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Residues in contact with SER 239 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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198E SER* 2.2 37.4 + - - -
201E PRO* 2.9 32.1 - - - +
202E VAL* 3.6 13.6 - - - +
235E ASP 3.1 2.4 + - - -
236E VAL 3.4 9.4 - - - -
238E LYS* 1.3 77.9 - - - +
240E PHE* 1.3 54.7 + - - -
242E LYS* 3.1 3.1 + - - +
243E LEU* 2.6 41.9 + - - +
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Residues in contact with PHE 240 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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201E PRO* 5.5 1.1 - - + -
205E VAL* 4.8 7.0 - - + -
223E LEU* 4.4 19.7 - - + -
236E VAL* 3.1 34.5 + - + +
239E SER* 1.3 82.2 - - - +
241E ASP* 1.3 52.0 + - - +
243E LEU* 3.1 13.2 + - + +
244E LEU* 2.6 40.0 + - - +
261E VAL* 4.4 7.6 - - + -
264E PHE* 3.7 31.2 - + + -
265E ILE* 3.1 46.2 - - + -
268E ALA* 4.3 6.3 - - + -
274E LEU* 3.8 14.1 - - + -
278E TYR* 2.9 24.2 - - + +
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Residues in contact with ASP 241 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141A ARG* 2.8 44.8 + - - +
237E GLU 3.0 10.1 + - - +
238E LYS* 2.9 13.0 + - - +
240E PHE* 1.3 74.7 - - - +
242E LYS* 1.3 63.1 + - - +
244E LEU* 3.4 2.8 + - - +
245E LYS* 3.1 32.6 + - - +
278E TYR* 2.8 17.5 + - - -
282E TYR* 2.4 33.2 + - - +
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Residues in contact with LYS 242 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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202E VAL* 3.7 30.7 - - + -
238E LYS 2.6 16.3 + - - +
239E SER* 3.3 7.4 - - - +
241E ASP* 1.3 73.3 - - - +
243E LEU* 1.3 61.8 + - - +
245E LYS* 3.3 19.0 + - + +
246E ASP* 3.0 42.7 + - - +
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Residues in contact with LEU 243 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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201E PRO 4.3 2.2 - - - +
202E VAL* 3.7 31.0 - - + +
205E VAL* 4.0 37.0 - - + -
206E SER* 4.4 9.6 - - - +
209E LEU* 5.4 0.4 - - + -
239E SER* 2.6 26.5 + - - +
240E PHE* 3.3 23.8 - - + +
242E LYS* 1.3 73.4 - - - +
244E LEU* 1.3 62.4 + - - +
246E ASP* 3.2 14.4 + - - +
247E LEU* 3.2 15.1 + - - +
250E LEU* 3.6 28.5 - - + +
261E VAL* 4.9 12.8 - - + -
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Residues in contact with LEU 244 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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240E PHE 2.6 23.4 + - - +
241E ASP 3.8 3.6 - - - +
243E LEU* 1.3 73.0 - - - +
245E LYS* 1.3 63.3 + - - +
247E LEU* 3.4 32.2 + - + +
248E PRO* 4.4 1.4 - - - +
261E VAL* 3.6 26.7 - - + -
265E ILE* 4.1 10.1 - - + -
278E TYR* 4.0 7.2 - - + +
282E TYR* 3.8 35.7 - - + +
288E CYS* 4.8 1.7 - - - -
291E ALA* 3.7 25.5 - - + +
294E ALA* 4.0 11.0 - - + -
295E LEU* 3.9 21.5 - - + -
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Residues in contact with LYS 245 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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245B LYS* 5.9 7.9 - - + -
241E ASP* 3.1 22.0 + - - +
242E LYS* 3.4 23.1 - - + +
243E LEU 3.2 0.2 - - - -
244E LEU* 1.3 77.5 - - - +
246E ASP* 1.3 66.3 + - - +
248E PRO* 3.5 12.3 - - - +
282E TYR* 5.7 1.4 + - - -
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Residues in contact with ASP 246 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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202E VAL* 4.7 7.8 - - - +
242E LYS* 3.0 42.2 + - - +
243E LEU* 3.2 9.5 + - - +
245E LYS* 1.3 80.7 - - - +
247E LEU* 1.3 52.3 + - - +
248E PRO* 3.2 4.5 - - - -
249E GLU* 2.7 36.6 + - + +
250E LEU* 3.2 27.4 + - + +
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Residues in contact with LEU 247 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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243E LEU 3.2 14.4 + - - +
244E LEU* 3.4 18.4 - - + +
245E LYS 3.3 0.6 - - - -
246E ASP* 1.3 75.2 - - - +
248E PRO* 1.3 67.0 - - + +
250E LEU* 4.6 5.8 - - + +
251E ALA* 3.0 27.2 + - - +
257E ALA* 3.6 19.5 - - + +
258E PRO* 3.6 31.2 - - + -
261E VAL* 3.9 11.2 - - + -
290E GLN* 3.6 13.7 - - + +
291E ALA* 3.7 21.3 - - - +
294E ALA* 3.6 30.5 - - + -
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Residues in contact with PRO 248 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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244E LEU 4.4 1.3 - - - +
245E LYS 3.5 13.0 - - - +
246E ASP 3.3 5.2 - - - -
247E LEU* 1.3 93.8 - - + +
249E GLU* 1.3 57.2 + - - +
251E ALA* 4.0 5.5 + - - +
252E LEU* 3.8 17.8 + - - +
288E CYS* 4.1 16.6 - - - -
290E GLN* 3.3 28.8 + - - +
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Residues in contact with GLU 249 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137D GLY* 3.7 20.7 + - - +
140D VAL* 4.3 17.2 - - - +
161D ARG* 3.3 45.0 + - - -
246E ASP* 2.7 22.2 + - + +
248E PRO* 1.3 73.4 - - + +
250E LEU* 1.3 66.8 + - + +
251E ALA 3.0 2.8 + - - -
252E LEU* 3.1 27.8 + - + +
253E ASP* 4.0 1.2 + - - +
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Residues in contact with LEU 250 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110D ARG* 4.6 16.6 - - - +
206E SER* 3.7 21.8 - - - +
209E LEU* 4.2 16.6 - - + -
243E LEU* 3.6 35.9 - - + +
246E ASP* 3.2 29.0 + - + +
247E LEU* 4.1 10.3 - - + +
249E GLU* 1.3 79.3 - - + +
251E ALA* 1.3 58.3 + - - +
253E ASP* 3.1 7.6 + - - +
254E THR* 3.0 30.5 + - - +
257E ALA* 4.2 13.7 - - + -
261E VAL* 5.4 0.2 - - + -
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Residues in contact with ALA 251 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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160D GLY* 5.5 0.3 - - - -
195D GLN* 5.8 1.2 + - - -
247E LEU 3.0 18.3 + - - +
248E PRO 4.1 4.3 - - - +
249E GLU 3.0 1.2 - - - -
250E LEU* 1.3 76.4 - - - +
252E LEU* 1.3 66.8 + - + +
253E ASP 3.4 0.2 - - - -
254E THR 3.6 22.4 + - - +
255E PRO* 3.7 11.4 - - - +
257E ALA* 4.3 2.0 - - - -
258E PRO* 4.5 13.7 - - + -
290E GLN* 3.4 17.9 - - - +
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Residues in contact with LEU 252 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158D THR* 3.6 2.1 + - - -
160D GLY* 3.2 41.8 - - - +
161D ARG* 3.5 41.3 + - + +
164D ASP* 3.9 34.8 - - + +
168D ARG* 5.6 1.1 - - - +
192D PHE* 3.7 4.7 - - - -
248E PRO 3.8 13.9 - - - +
249E GLU* 3.1 24.4 + - + +
251E ALA* 1.3 82.1 - - - +
253E ASP* 1.3 59.5 + - - +
254E THR 3.6 0.3 + - - -
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Residues in contact with ASP 253 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110D ARG* 2.5 39.1 + - + +
158D THR* 3.1 24.5 + - + +
161D ARG* 3.0 42.7 + - - +
190D ARG* 3.3 21.5 + - - -
192D PHE* 3.8 7.8 - - - -
210E GLU* 3.5 20.9 - - - +
249E GLU 4.3 2.1 - - - +
250E LEU* 3.1 6.7 + - - +
252E LEU* 1.3 74.9 - - - +
254E THR* 1.3 64.1 + - - +
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Residues in contact with THR 254 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190D ARG* 3.1 21.1 + - - +
209E LEU* 3.5 24.8 + - + +
210E GLU* 3.5 14.0 + - - +
250E LEU* 3.0 11.5 + - - -
251E ALA* 3.6 6.9 - - - -
252E LEU 3.4 1.4 - - - -
253E ASP* 1.3 89.7 + - - +
255E PRO* 1.3 73.0 - - + +
256E ARG 2.6 5.5 + - - +
257E ALA* 2.9 20.8 + - + +
260E LEU* 3.8 25.6 - - + -
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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
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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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