Contacts of the helix formed by residues 225 - 246 (chain A) in PDB entry 2BTO
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 THR 225 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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221A ILE* 5.8 1.3 - - + -
223A SER 4.3 6.1 - - - +
224A PRO* 1.3 78.3 - - - +
226A VAL* 1.3 66.0 + - - +
227A ASP* 3.4 13.9 + - - +
228A ASP* 2.7 48.5 + - - +
229A LEU* 3.1 15.3 + - - +
326B ILE* 6.4 2.2 - - + -
362B PRO* 5.6 10.1 - - + -
367B ARG* 5.9 3.9 - - + +
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Residues in contact with VAL 226 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A GLN* 4.3 7.9 - - - +
225A THR* 1.3 71.4 - - - +
227A ASP* 1.3 59.4 + - + +
229A LEU* 3.1 13.3 + - + +
230A ASN* 2.9 30.3 + - - +
1433A GTP 3.0 50.9 - - + +
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Residues in contact with ASP 227 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
225A THR* 3.0 11.6 + - - +
226A VAL* 1.3 83.9 - - + +
228A ASP* 1.3 61.8 + - - +
230A ASN* 3.5 8.8 + - - +
231A LEU* 3.1 49.1 + - - +
286B LYS* 2.7 32.4 + - - +
364B ILE 5.5 0.5 - - - +
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Residues in contact with ASP 228 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215A ALA* 4.4 17.3 - - + -
219A TRP* 3.6 17.7 - - + -
221A ILE* 4.0 16.6 - - - +
224A PRO* 3.4 6.0 - - + +
225A THR* 2.7 47.8 + - - +
227A ASP* 1.3 72.9 - - - +
229A LEU* 1.3 67.3 + - - +
231A LEU* 3.3 2.2 + - - -
232A LEU* 3.2 20.4 + - - +
326B ILE* 5.9 0.2 - - - +
367B ARG* 2.5 44.3 + - - +
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Residues in contact with LEU 229 (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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208A ASN* 3.7 36.8 - - + +
211A LEU* 3.8 14.4 - - + +
212A PHE* 3.7 37.0 - - + +
215A ALA* 4.4 1.1 - - + -
224A PRO* 4.1 14.6 - - + -
225A THR 3.1 15.6 + - - +
226A VAL* 3.1 13.6 + - + +
228A ASP* 1.3 76.3 - - - +
230A ASN* 1.3 62.1 + - - +
232A LEU* 3.3 11.9 + - - +
233A ILE* 3.2 25.6 + - - +
1433A GTP 4.1 14.1 - - + +
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Residues in contact with ASN 230 (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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17A GLN* 3.8 20.7 + - - +
18A ILE* 3.2 23.4 - - + +
21A SER* 5.4 2.0 - - - +
226A VAL* 2.9 22.8 + - - +
227A ASP* 3.8 10.3 + - - +
229A LEU* 1.3 73.6 - - - +
231A LEU* 1.3 61.1 + - + +
233A ILE* 3.2 7.0 + - - +
234A THR* 2.7 40.5 + - - +
1433A GTP 2.5 47.0 + - - -
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Residues in contact with LEU 231 (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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21A SER* 3.8 25.4 - - - +
219A TRP* 4.0 14.8 - - + -
227A ASP* 3.1 42.6 + - - +
228A ASP 3.3 4.9 + - - +
230A ASN* 1.3 77.9 - - + +
232A LEU* 1.3 63.3 + - - +
234A THR* 3.6 4.1 - - - -
235A GLU* 3.1 26.5 + - - +
286B LYS* 3.5 34.1 - - + +
287B PHE* 4.5 22.6 - - + -
367B ARG* 4.4 10.5 - - - +
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Residues in contact with LEU 232 (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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211A LEU* 3.3 49.1 - - + +
214A LEU* 4.1 7.6 - - + -
215A ALA* 4.1 17.0 - - + +
219A TRP* 3.6 34.4 - - + -
228A ASP 3.2 15.3 + - - +
229A LEU* 3.4 8.3 - - - +
231A LEU* 1.3 76.9 - - - +
233A ILE* 1.3 62.6 + - - +
235A GLU* 3.4 9.4 + - - +
236A ALA 3.3 15.1 + - - -
279A LEU* 4.0 22.4 - - + -
306A PHE* 3.4 22.9 - - + -
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Residues in contact with ILE 233 (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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18A ILE* 3.6 34.5 - - + -
173A VAL* 4.1 10.3 - - + -
206A PHE* 3.8 39.7 - - + -
211A LEU* 3.7 18.2 - - + -
229A LEU 3.2 11.9 + - - +
230A ASN* 3.2 7.4 + - - +
232A LEU* 1.3 74.1 - - - +
234A THR* 1.3 60.3 + - - +
236A ALA* 3.1 3.3 + - - +
237A LEU* 2.8 49.9 + - + +
306A PHE* 4.5 0.2 - - - -
1433A GTP 3.6 20.6 - - - +
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Residues in contact with THR 234 (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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18A ILE* 4.1 6.4 + - - +
21A SER* 2.5 39.5 + - - +
22A PHE* 4.0 11.8 + - - +
25A THR* 3.6 28.7 - - + +
230A ASN* 2.7 25.6 + - - +
231A LEU* 3.6 7.9 - - - -
232A LEU 3.4 0.2 - - - -
233A ILE* 1.3 72.7 - - - +
235A GLU* 1.3 54.1 + - - +
237A LEU* 3.2 7.7 + - - +
238A ALA* 2.7 34.2 + - + +
287B PHE* 4.5 8.1 - - + -
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Residues in contact with GLU 235 (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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25A THR* 6.2 0.2 - - - -
219A TRP* 3.8 24.5 + - - -
231A LEU 3.1 13.0 + - - +
232A LEU* 3.4 19.1 - - - +
234A THR* 1.3 77.5 - - - +
236A ALA* 1.3 67.9 + - - +
238A ALA* 3.7 7.8 - - - +
239A GLY* 3.0 18.9 + - - -
276A PHE* 3.2 54.2 - - + +
278A PRO 4.7 1.2 - - - +
279A LEU* 4.3 2.1 - - - +
365A SER* 4.4 8.0 + - - +
366A HIS* 3.8 16.6 + - - -
287B PHE* 4.5 17.9 - - + -
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Residues in contact with ALA 236 (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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206A PHE* 4.1 13.2 - - + -
232A LEU 3.3 4.6 + - - -
233A ILE 3.1 8.8 + - - +
235A GLU* 1.3 78.2 - - - +
237A LEU* 1.3 51.4 + - - +
239A GLY* 3.0 4.0 + - - -
240A ILE* 2.8 40.2 + - + +
274A CYS* 4.2 11.4 - - - -
276A PHE* 4.4 3.4 - - + -
306A PHE* 3.7 27.6 - - + -
371A VAL* 3.8 16.7 - - + +
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Residues in contact with LEU 237 (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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18A ILE* 4.0 12.8 - - + -
22A PHE* 3.9 20.6 - - + -
138A ILE* 5.8 2.7 - - + -
140A LEU* 3.8 25.6 - - + -
171A CYS* 3.8 28.3 - - + -
204A LEU* 4.6 4.5 - - + -
206A PHE* 4.2 12.6 - - + -
233A ILE* 2.8 39.5 + - + +
234A THR* 3.6 4.3 - - - +
236A ALA* 1.3 73.9 - - - +
238A ALA* 1.3 56.0 + - - +
240A ILE* 3.3 7.4 + - + -
241A THR* 2.6 44.2 + - + +
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Residues in contact with ALA 238 (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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22A PHE* 4.2 6.8 - - + -
25A THR* 4.2 14.8 - - + -
26A VAL* 5.1 2.5 - - + -
29A GLU* 3.7 20.4 - - - +
234A THR* 2.7 21.8 + - + +
235A GLU* 3.7 8.7 - - - +
237A LEU* 1.3 71.9 - - - +
239A GLY* 1.3 56.8 + - - +
241A THR* 3.6 4.7 - - - -
242A ALA* 3.0 15.8 + - - +
245A ARG* 2.8 24.8 + - - +
324A ARG* 3.6 5.3 + - - +
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Residues in contact with GLY 239 (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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235A GLU 3.0 11.6 + - - -
236A ALA 3.0 8.0 + - - -
238A ALA* 1.3 75.0 - - - +
240A ILE* 1.3 65.1 + - - +
242A ALA* 3.3 18.8 + - - +
243A SER 4.1 0.3 + - - -
276A PHE* 5.7 1.8 - - - -
322A LEU* 3.8 8.5 - - - +
324A ARG* 4.6 8.9 - - - +
371A VAL* 3.7 24.2 - - - +
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Residues in contact with ILE 240 (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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169A LEU* 5.4 11.2 - - + -
204A LEU* 4.7 15.3 - - + -
236A ALA* 2.8 28.6 + - + +
237A LEU* 3.8 10.3 - - + +
239A GLY* 1.3 74.3 - - - +
241A THR* 1.3 62.2 + - + +
243A SER* 3.1 23.2 + - - -
244A MET* 3.9 9.9 - - + +
259A LEU* 4.0 23.5 - - + +
274A CYS* 4.9 6.1 - - + -
322A LEU* 3.7 10.4 - - + +
371A VAL* 4.2 19.3 - - + -
373A LEU* 3.4 38.6 - - + -
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Residues in contact with THR 241 (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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22A PHE* 3.7 15.8 - - + -
52A PHE* 3.7 27.6 - - + -
138A ILE* 4.2 11.0 - - + -
237A LEU* 2.6 26.5 + - + +
238A ALA* 3.1 10.2 + - - -
240A ILE* 1.3 75.7 - - + +
242A ALA* 1.3 56.5 + - - +
243A SER 3.2 1.3 - - - -
244A MET* 2.8 40.0 + - + +
245A ARG* 3.0 31.3 + - - +
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Residues in contact with ALA 242 (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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238A ALA 3.0 19.5 + - - +
239A GLY* 3.3 11.2 - - - +
240A ILE 3.2 0.6 - - - -
241A THR* 1.3 76.9 - - - +
243A SER* 1.3 61.5 + - - +
245A ARG* 3.0 21.4 + - - +
246A PHE* 3.3 20.2 + - - +
322A LEU* 6.4 0.2 - - + -
324A ARG* 3.8 36.6 - - + +
359A VAL* 3.9 11.0 - - + +
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Residues in contact with SER 243 (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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239A GLY 4.1 1.6 + - - -
240A ILE 3.1 17.9 + - - -
242A ALA* 1.3 77.1 - - - +
244A MET* 1.3 61.4 + - - +
246A PHE 4.1 4.1 - - - +
253A GLU* 3.9 6.8 - - - -
254A ILE* 3.2 45.0 + - - +
259A LEU* 4.7 2.9 - - - +
322A LEU* 4.0 26.8 - - - +
357A GLY* 6.3 1.1 - - - -
359A VAL* 4.0 15.1 - - - +
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Residues in contact with MET 244 (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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6A THR* 4.2 16.6 - - - +
48A ASN* 4.3 5.7 - - - +
51A SER* 3.4 19.3 + - - -
52A PHE* 4.4 16.2 - - + -
138A ILE* 4.8 4.5 - - + -
169A LEU* 5.8 0.4 - - + -
240A ILE* 3.9 20.6 - - + +
241A THR* 2.8 25.5 + - + +
243A SER* 1.3 85.0 - - - +
245A ARG* 1.3 60.9 + - - +
246A PHE 3.6 1.1 + - - -
253A GLU* 4.5 8.6 - - - +
254A ILE* 3.3 23.7 - - + +
255A SER* 4.7 1.8 - - - -
256A LEU* 3.8 42.4 - - + -
259A LEU* 4.0 13.7 - - + -
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Residues in contact with ARG 245 (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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26A VAL* 3.7 25.0 - - - +
29A GLU* 2.7 33.1 + - - +
30A HIS* 3.0 49.2 + - + +
48A ASN* 2.8 26.1 + - - -
51A SER* 4.0 7.6 - - - +
52A PHE* 3.7 34.5 - - + -
238A ALA* 2.8 31.3 + - - +
241A THR* 3.2 27.1 + - - +
242A ALA* 3.0 10.2 + - - +
244A MET* 1.3 79.5 - - - +
246A PHE* 1.3 78.1 + - + +
324A ARG* 3.8 0.4 - - - +
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Residues in contact with PHE 246 (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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29A GLU* 4.0 24.5 - - + -
30A HIS* 3.7 21.5 - + - -
46A ARG* 4.1 15.7 - - + -
47A GLY* 3.8 13.5 - - - -
48A ASN* 3.1 25.9 + - - +
242A ALA* 3.3 14.6 + - - +
243A SER 4.1 5.7 - - - +
244A MET 3.6 1.0 - - - -
245A ARG* 1.3 106.3 - - + +
253A GLU* 3.9 18.1 + - - -
324A ARG* 4.0 7.9 - - - -
359A VAL* 3.8 33.5 - - + +
360A GLU 5.6 0.7 - - - +
361A GLN* 3.6 32.1 - - + +
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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
------------------------------------------------------------
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