Contacts of the helix formed by residues 191 - 210 (chain B) in PDB entry 2YTZ
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 LEU 191 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187B LEU* 4.2 11.6 - - + +
189B GLY* 3.0 1.0 - - - -
190B GLU* 1.3 100.7 - - + +
192B CYS* 1.3 64.5 + - - +
193B HIS* 2.9 5.6 + - - -
194B GLU* 3.0 15.0 + - + +
195B VAL* 3.1 20.7 + - + +
252B PHE* 3.4 35.6 - - + -
257B GLY 6.0 0.2 - - - +
259B PHE* 4.5 2.7 - - + -
320B LEU* 4.0 32.5 - - + -
321B PHE* 3.7 45.7 - - + +
323B ASP 5.2 1.1 - - - +
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Residues in contact with CYS 192 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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170B LEU 4.1 0.7 - - - +
171B CYS* 3.3 43.5 - - - +
187B LEU 3.2 27.3 + - - +
188B ARG 4.9 0.4 - - - -
189B GLY 3.2 24.7 + - - +
190B GLU 5.4 0.2 - - - -
191B LEU* 1.3 77.0 - - - +
193B HIS* 1.3 71.5 + - - +
195B VAL* 4.3 3.6 - - - -
196B GLY* 2.7 32.8 + - - -
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Residues in contact with HIS 193 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171B CYS* 4.0 6.8 - - - -
190B GLU 5.6 3.5 + - - +
191B LEU 2.9 3.1 + - - -
192B CYS* 1.3 97.8 - - - +
194B GLU* 1.3 61.9 + - - +
197B THR* 2.8 27.3 + - - -
222B TYR* 3.4 55.4 + + + +
225B HIS* 6.1 0.4 - - - -
227B PHE* 3.2 10.0 - - - -
321B PHE* 6.0 0.4 - - + -
357B PHE* 2.9 36.4 + - + +
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Residues in contact with GLU 194 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191B LEU* 3.0 7.5 + - + +
193B HIS* 1.3 75.8 - - - +
195B VAL* 1.3 62.7 + - - +
196B GLY 3.1 0.2 - - - -
197B THR* 2.9 2.9 + - - -
198B ARG* 2.8 74.7 + - - +
281B LEU* 4.0 2.4 - - + +
320B LEU* 3.0 31.1 + - + -
321B PHE* 3.4 15.0 - - + -
357B PHE* 3.3 35.8 - - + +
363B LYS* 2.9 25.5 + - - -
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Residues in contact with VAL 195 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170B LEU 5.3 0.7 - - - +
185B VAL 5.4 1.1 - - - +
186B PRO* 5.1 0.4 - - + -
187B LEU* 3.9 41.5 - - + +
191B LEU* 3.1 17.6 + - + +
192B CYS* 4.0 6.1 - - - +
194B GLU* 1.3 76.8 - - - +
196B GLY* 1.3 56.7 + - - +
198B ARG* 3.2 8.8 + - - +
199B ILE* 2.9 45.6 + - + +
250B ILE* 3.8 24.9 - - + -
273B TYR* 5.5 2.2 - - + -
276B VAL* 4.3 10.5 - - + -
320B LEU* 4.1 10.8 - - + -
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Residues in contact with GLY 196 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170B LEU* 3.4 30.1 + - - +
192B CYS 2.7 22.5 + - - -
195B VAL* 1.3 75.5 - - - +
197B THR* 1.3 61.0 + - - +
199B ILE* 3.2 7.2 + - - +
200B LEU* 3.2 18.9 + - - +
227B PHE* 3.5 15.4 - - - -
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Residues in contact with THR 197 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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193B HIS 2.8 20.4 + - - -
194B GLU 2.9 9.0 + - - -
196B GLY* 1.3 76.8 - - - +
198B ARG* 1.3 61.4 + - - +
200B LEU* 3.3 6.8 + - + +
201B VAL* 3.2 21.6 + - + +
220B ALA* 3.8 18.2 - - + +
221B TYR* 3.7 27.4 - - - +
222B TYR* 3.9 5.4 + - - +
227B PHE* 3.3 18.5 - - + -
228B ARG 4.2 6.1 - - - +
229B ALA* 6.0 0.2 - - + -
281B LEU* 4.5 5.8 - - + -
357B PHE* 3.5 16.3 - - + -
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Residues in contact with ARG 198 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194B GLU* 2.8 50.4 + - - +
195B VAL* 3.7 6.1 - - - +
197B THR* 1.3 74.1 - - - +
199B ILE* 1.3 61.2 + - - +
201B VAL* 4.5 2.7 - - - +
202B GLY* 3.0 22.5 + - - -
250B ILE* 5.3 0.9 - - - -
276B VAL* 3.9 16.4 - - + -
277B TRP* 2.9 46.2 + - - +
278B LEU* 3.5 13.9 + - - +
279B GLY 3.0 23.4 + - - -
281B LEU* 3.7 31.6 - - + +
317B ASP* 4.6 5.3 + - - -
318B ILE 3.5 8.1 + - - -
319B PRO* 3.4 27.3 - - - +
320B LEU* 4.6 7.8 - - - +
363B LYS* 4.6 0.4 - - - +
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Residues in contact with ILE 199 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170B LEU* 3.7 24.5 - - + +
178B CYS* 4.3 5.8 - - - -
182B TYR* 3.7 21.1 - - + +
184B ALA* 3.8 14.8 - - + -
185B VAL 4.2 6.5 - - - +
186B PRO* 3.9 34.8 - - + -
195B VAL* 2.9 29.0 + - + +
196B GLY 3.2 5.8 + - - +
198B ARG* 1.3 76.9 - - - +
200B LEU* 1.3 58.3 + - - +
202B GLY* 3.4 1.2 + - - -
203B VAL* 3.0 27.0 + - - +
206B ARG* 4.5 1.6 + - - -
275B PRO 4.1 9.4 - - - +
276B VAL* 3.7 15.7 - - + -
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Residues in contact with LEU 200 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143B PRO* 5.0 5.8 - - + -
144B MET* 5.7 0.2 - - - -
147B LEU* 6.2 0.2 - - + -
162B VAL* 4.0 19.1 - - + +
164B ALA* 4.2 15.0 - - + -
170B LEU* 4.9 7.6 - - + -
182B TYR* 5.1 5.2 - - + -
196B GLY 3.2 11.7 + - - +
197B THR* 3.4 11.0 - - + +
198B ARG 3.2 0.2 - - - -
199B ILE* 1.3 76.1 - - - +
201B VAL* 1.3 66.7 + - + +
203B VAL* 2.9 32.5 + - + +
204B ILE* 3.1 24.1 + - + +
227B PHE* 3.8 35.9 - - + +
228B ARG 4.5 0.7 - - - +
229B ALA* 4.1 18.6 - - + -
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Residues in contact with VAL 201 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197B THR 3.2 14.9 + - - +
198B ARG* 4.0 0.4 - - - +
200B LEU* 1.3 75.6 - - - +
202B GLY* 1.3 56.8 + - - +
204B ILE* 3.3 12.1 + - - +
205B ALA* 3.0 25.8 + - - +
215B ILE* 3.9 9.7 - - + +
217B VAL* 3.6 22.7 - - + -
220B ALA* 3.9 26.7 - - + -
229B ALA* 4.2 12.3 - - + -
231B VAL* 4.9 3.1 - - + -
277B TRP* 3.3 35.7 - - + -
281B LEU* 4.1 7.6 - - + -
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Residues in contact with GLY 202 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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198B ARG 3.0 19.1 + - - -
199B ILE* 3.7 2.5 - - - -
201B VAL* 1.3 76.0 - - - +
203B VAL* 1.3 58.8 + - - +
205B ALA* 3.8 3.9 - - - +
206B ARG* 3.0 39.6 + - - +
247B LEU* 4.0 20.2 - - - +
275B PRO 5.5 0.4 - - - -
276B VAL* 4.8 2.2 - - - -
277B TRP* 3.8 6.5 - - - +
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Residues in contact with VAL 203 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144B MET* 3.6 38.1 - - + -
147B LEU* 4.2 2.5 - - + -
182B TYR* 3.9 29.2 - - + +
183B LEU* 5.6 1.1 - - + -
199B ILE 3.0 13.4 + - - +
200B LEU* 2.9 35.6 + - + +
202B GLY* 1.3 74.0 - - - +
204B ILE* 1.3 63.9 + - + +
206B ARG* 3.3 14.8 + - - +
207B TYR* 2.9 46.7 + - + -
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Residues in contact with ILE 204 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147B LEU* 4.1 28.3 - - + -
151B LEU* 4.3 12.1 - - + +
160B LEU* 4.6 2.9 - - + -
162B VAL* 4.1 16.6 - - + -
200B LEU* 3.3 33.0 - - + +
201B VAL* 3.5 9.4 - - - +
203B VAL* 1.3 78.3 - - + +
205B ALA* 1.3 66.0 + - - +
207B TYR* 3.3 2.4 + - - +
208B ALA* 3.0 22.3 + - - +
215B ILE* 4.6 8.3 - - + -
229B ALA* 4.0 21.3 - - + +
231B VAL* 4.1 29.4 - - + -
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Residues in contact with ALA 205 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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201B VAL 3.0 16.1 + - - +
202B GLY* 3.9 5.8 - - - +
204B ILE* 1.3 76.5 - - - +
206B ARG* 1.3 63.8 + - + +
208B ALA* 3.4 2.6 + - - +
209B ALA* 3.3 21.5 + - - +
213B LEU 5.0 0.5 - - - +
215B ILE* 3.7 18.3 - - + +
243B THR* 3.5 31.2 - - + +
244B LEU* 4.1 5.6 - - + +
247B LEU* 4.8 5.6 - - + -
277B TRP* 4.1 10.3 - - + -
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Residues in contact with ARG 206 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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180A ARG 4.7 0.9 - - - +
183A LEU* 3.6 46.9 - - + +
207A TYR* 5.2 0.5 + - - -
265A PHE* 5.6 0.4 - - - -
182B TYR 3.0 22.8 + - - -
183B LEU* 3.0 35.5 + - - +
184B ALA* 4.2 4.8 - - - +
199B ILE 4.5 1.8 + - - -
202B GLY* 3.0 17.9 + - - +
203B VAL* 3.7 24.7 - - - +
204B ILE 3.2 0.2 - - - -
205B ALA* 1.3 81.5 - - - +
207B TYR* 1.3 65.4 + - + +
208B ALA 3.3 0.3 + - - -
209B ALA* 3.5 8.7 + - - +
210B LYS* 4.6 1.9 + - - +
244B LEU* 4.2 3.8 - - + -
247B LEU* 3.6 29.5 - - + +
265B PHE* 5.0 7.0 - - + -
275B PRO* 3.4 29.4 + - - +
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Residues in contact with TYR 207 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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183A LEU* 5.4 4.0 - - + -
206A ARG 5.1 0.7 + - - -
207A TYR* 3.8 28.9 - + - -
210A LYS* 2.9 40.3 + - - +
144B MET* 3.7 20.1 - - + +
147B LEU* 3.8 12.3 - - + -
148B ASP* 3.9 31.9 - - + -
151B LEU* 3.4 17.0 - - + -
181B LYS 4.9 1.3 + - - -
183B LEU* 4.7 21.4 - - + +
203B VAL* 2.9 37.0 + - + +
204B ILE 3.9 1.1 - - - +
206B ARG* 1.3 79.5 - - + +
208B ALA* 1.3 60.7 + - - +
210B LYS* 2.9 35.6 + - - +
211B TYR* 3.7 4.7 - - - -
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Residues in contact with ALA 208 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151B LEU* 3.7 21.7 - - + +
204B ILE 3.0 17.2 + - - +
205B ALA 3.8 4.7 - - - +
206B ARG 3.2 0.2 - - - -
207B TYR* 1.3 74.9 - - - +
209B ALA* 1.3 65.5 + - - +
210B LYS 3.2 2.7 - - - -
211B TYR* 3.0 21.3 + - - +
213B LEU* 3.4 32.0 + - + +
215B ILE* 4.5 14.6 - - + -
233B LEU* 4.8 0.7 - - + -
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Residues in contact with ALA 209 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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179A LEU 4.9 0.4 - - - +
180A ARG* 3.3 45.6 - - + +
183A LEU* 5.0 0.2 - - + -
205B ALA 3.3 10.6 + - - +
206B ARG 3.9 9.9 - - - +
207B TYR 3.5 0.8 - - - -
208B ALA* 1.3 77.7 - - - +
210B LYS* 1.3 56.4 + - - +
211B TYR 3.1 0.2 - - - -
212B ASP* 2.8 22.5 + - - +
213B LEU 3.6 10.1 + - - +
240B GLY* 4.8 3.6 - - - +
244B LEU* 4.0 18.8 - - + -
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Residues in contact with LYS 210 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144A MET* 3.4 43.7 - - + +
145A GLU* 4.8 3.9 - - - +
148A ASP* 5.8 0.2 - - - -
180A ARG 2.9 21.2 + - - +
181A LYS* 3.7 22.9 - - + +
207A TYR* 2.7 35.0 + - - +
148B ASP* 2.7 30.7 + - - -
206B ARG 4.6 1.3 + - - +
207B TYR* 2.9 32.5 + - - +
209B ALA* 1.3 74.7 - - - +
211B TYR* 1.3 75.4 + - + +
212B ASP* 3.2 6.4 + - - +
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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