Contacts of the helix formed by residues 191 - 210 (chain A) in PDB entry 2EJU
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 A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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187A LEU* 4.4 11.2 - - + -
188A ARG 5.0 0.6 + - - -
189A GLY 3.1 1.2 + - - -
190A GLU* 1.3 97.6 - - + +
192A CYS* 1.3 65.6 + - - +
193A HIS 3.3 2.9 - - - -
194A GLU* 3.1 7.4 + - - +
195A VAL* 3.0 30.3 + - + +
252A PHE* 3.7 32.7 - - + -
257A GLY 5.4 0.7 - - - +
259A PHE* 4.3 14.6 - - + -
320A LEU* 4.4 20.0 - - + -
321A PHE* 3.5 47.8 - - + +
323A ASP 5.1 1.1 - - - +
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Residues in contact with CYS 192 (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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170A LEU 4.0 0.9 - - - +
171A CYS* 2.0 58.6 - - - +
187A LEU 3.1 26.7 + - - +
188A ARG 4.9 0.2 - - - -
189A GLY 3.1 23.1 + - - +
190A GLU 3.5 0.6 - - - -
191A LEU* 1.3 78.0 - - - +
193A HIS* 1.3 68.2 + - - +
195A VAL* 4.3 3.4 - - - -
196A GLY* 2.8 28.9 + - - -
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Residues in contact with HIS 193 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171A CYS* 3.5 20.9 - - - -
190A GLU 4.9 4.8 + - - +
191A LEU 3.2 1.4 + - - -
192A CYS* 1.3 81.7 - - - +
194A GLU* 1.3 59.8 + - - +
197A THR* 2.8 27.2 + - - -
222A TYR* 3.3 52.9 + + + +
225A HIS* 4.9 7.5 + + - -
227A PHE* 3.4 8.2 - - - -
321A PHE* 6.0 0.2 - - + -
357A PHE* 2.7 36.6 + - + +
358A SER* 5.1 2.4 - - - -
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Residues in contact with GLU 194 (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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191A LEU 3.1 8.4 + - - +
193A HIS* 1.3 79.2 - - - +
195A VAL* 1.3 60.9 + - - +
197A THR* 3.0 2.8 + - - -
198A ARG* 2.6 65.8 + - - +
281A LEU* 4.1 0.7 - - + -
320A LEU* 2.7 27.5 + - + -
321A PHE* 3.2 23.2 - - + -
357A PHE* 3.5 33.8 - - + +
363A LYS* 2.7 24.6 + - - -
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Residues in contact with VAL 195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170A LEU 5.3 0.9 - - - +
185A VAL 5.2 1.8 - - - +
186A PRO* 4.9 0.9 - - + -
187A LEU* 4.0 40.6 - - + +
191A LEU* 3.0 20.4 + - + +
192A CYS* 4.1 6.3 - - - +
194A GLU* 1.3 75.8 - - - +
196A GLY* 1.3 52.9 + - - +
198A ARG* 3.1 9.2 + - - +
199A ILE* 2.7 55.2 + - + +
250A ILE* 3.9 22.4 - - + -
273A TYR* 5.4 2.0 - - + -
276A VAL* 4.1 13.9 - - + -
320A LEU* 4.2 9.6 - - + -
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Residues in contact with GLY 196 (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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170A LEU* 3.3 34.4 + - - +
192A CYS 2.8 14.6 + - - -
195A VAL* 1.3 79.0 - - - +
197A THR* 1.3 60.0 + - - +
199A ILE* 3.3 7.6 + - - +
200A LEU* 3.1 20.6 + - - +
227A PHE* 3.8 13.8 - - - -
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Residues in contact with THR 197 (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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193A HIS 2.8 19.5 + - - -
194A GLU 3.0 8.6 + - - -
196A GLY* 1.3 75.2 - - - +
198A ARG* 1.3 57.8 + - - +
200A LEU* 3.4 7.2 + - + +
201A VAL* 3.1 26.2 + - + +
220A ALA* 3.8 38.8 - - + +
221A TYR 4.0 6.4 + - - +
222A TYR* 3.8 5.0 - - - +
227A PHE* 3.3 16.5 - - + -
228A ARG 4.5 2.9 - - - +
229A ALA* 5.8 0.4 - - + -
281A LEU* 4.5 7.0 - - + -
357A PHE* 3.4 19.8 - - + -
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Residues in contact with ARG 198 (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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194A GLU* 2.6 50.3 + - - +
195A VAL* 3.6 5.2 - - - +
197A THR* 1.3 73.2 - - - +
199A ILE* 1.3 61.3 + - - +
201A VAL* 4.5 2.5 - - - +
202A GLY* 3.0 21.8 + - - -
250A ILE* 5.2 1.6 - - - -
276A VAL* 3.7 15.9 - - + -
277A TRP* 3.0 48.9 + - - +
278A LEU* 3.8 11.7 + - - +
279A GLY 2.9 26.7 + - - -
281A LEU* 3.5 33.7 - - + +
317A ASP* 4.3 5.1 + - - -
318A ILE 3.6 7.5 + - - -
319A PRO* 3.4 24.7 - - - +
320A LEU* 4.3 9.2 - - - +
363A LYS* 4.5 0.8 - - - +
601A GOL 5.8 0.2 + - - -
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Residues in contact with ILE 199 (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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170A LEU* 3.6 24.5 - - + +
178A CYS* 4.3 8.7 - - - -
182A TYR* 3.8 22.2 - - + +
184A ALA* 3.9 14.6 - - + -
185A VAL 4.4 3.4 - - - +
186A PRO* 4.0 28.3 - - + -
195A VAL* 2.7 34.5 + - + +
196A GLY* 3.5 4.9 - - - +
197A THR 3.3 0.2 - - - -
198A ARG* 1.3 76.7 - - - +
200A LEU* 1.3 58.5 + - - +
202A GLY* 3.3 1.4 + - - -
203A VAL* 2.9 28.1 + - - +
206A ARG* 4.7 1.6 + - - -
274A GLY* 5.1 0.2 - - - -
275A PRO 4.1 11.0 - - - +
276A VAL* 3.8 14.8 - - + -
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Residues in contact with LEU 200 (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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143A PRO* 4.5 4.0 - - + -
144A MET* 5.4 0.4 - - - -
162A VAL* 4.1 23.3 - - + +
164A ALA* 4.3 13.9 - - + +
170A LEU* 4.9 6.3 - - + -
182A TYR* 4.2 22.4 - - + -
196A GLY 3.1 12.3 + - - +
197A THR* 3.6 10.3 - - + +
198A ARG 3.3 0.2 - - - -
199A ILE* 1.3 76.0 - - - +
201A VAL* 1.3 66.1 + - - +
203A VAL* 3.1 27.4 - - + +
204A ILE* 3.2 16.4 - - + +
227A PHE* 3.9 33.9 - - + +
228A ARG 4.4 0.9 - - - +
229A ALA* 4.0 24.2 - - + -
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Residues in contact with VAL 201 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197A THR 3.1 16.3 + - - +
198A ARG 4.0 0.4 - - - +
199A ILE 3.4 0.2 - - - -
200A LEU* 1.3 75.6 - - - +
202A GLY* 1.3 61.5 + - - +
204A ILE* 3.2 12.1 + - - +
205A ALA* 3.0 20.8 + - - +
215A ILE* 3.9 8.9 - - + +
217A VAL* 3.5 22.2 - - + -
220A ALA* 3.8 27.4 - - + -
229A ALA* 4.1 11.0 - - + -
231A VAL* 4.9 3.6 - - + -
277A TRP* 3.4 35.9 - - + -
281A LEU* 4.3 8.3 - - + -
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Residues in contact with GLY 202 (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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198A ARG 3.0 17.9 + - - -
199A ILE* 3.6 2.5 - - - -
200A LEU 3.2 0.2 - - - -
201A VAL* 1.3 78.2 - - - +
203A VAL* 1.3 56.3 + - - +
205A ALA* 3.4 3.0 + - - +
206A ARG* 2.9 39.6 + - - +
247A LEU* 4.0 20.3 - - - +
275A PRO 5.3 1.6 - - - -
276A VAL* 4.7 2.5 - - - -
277A TRP* 3.9 6.0 - - - +
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Residues in contact with VAL 203 (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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144A MET* 3.6 41.1 - - + -
147A LEU* 4.3 1.3 - - + -
181A LYS 4.8 0.2 - - - +
182A TYR* 3.8 28.7 - - + +
183A LEU* 5.6 0.9 - - + -
199A ILE 2.9 14.0 + - - +
200A LEU* 3.1 24.0 - - + +
202A GLY* 1.3 74.1 - - - +
204A ILE* 1.3 69.6 + - + +
206A ARG* 3.4 16.2 + - - +
207A TYR* 3.0 42.1 + - + -
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Residues in contact with ILE 204 (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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147A LEU* 4.1 27.6 - - + -
151A LEU* 4.1 7.4 - - + +
160A LEU* 4.6 7.2 - - + -
162A VAL* 3.9 30.3 - - + -
200A LEU* 3.2 21.1 - - + +
201A VAL* 3.2 9.5 + - - +
203A VAL* 1.3 78.9 - - + +
205A ALA* 1.3 67.0 + - - +
207A TYR* 3.3 2.4 + - - +
208A ALA* 3.0 23.2 + - - +
215A ILE* 4.6 9.6 - - + -
229A ALA* 4.3 18.4 - - + -
231A VAL* 4.1 28.7 - - + -
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Residues in contact with ALA 205 (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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201A VAL 3.0 8.7 + - - +
202A GLY* 3.6 8.7 - - - +
204A ILE* 1.3 78.7 - - - +
206A ARG* 1.3 61.4 + - - +
208A ALA* 3.4 1.9 + - - +
209A ALA* 3.2 22.9 + - - +
213A LEU 5.0 0.7 - - - +
215A ILE* 3.6 30.7 - - + +
243A THR* 3.7 22.9 - - + +
244A LEU* 4.3 4.4 - - + +
247A LEU* 4.5 7.0 - - + -
277A TRP* 4.2 10.8 - - + -
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Residues in contact with ARG 206 (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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182A TYR 2.8 25.2 + - - -
183A LEU* 2.9 33.2 + - - +
184A ALA* 4.1 5.5 - - - +
199A ILE 4.7 1.6 + - - -
202A GLY* 2.9 21.3 + - - +
203A VAL* 3.8 23.4 - - - +
205A ALA* 1.3 79.0 - - - +
207A TYR* 1.3 66.3 + - + +
209A ALA* 3.6 13.3 + - - +
210A LYS* 4.5 2.3 + - - +
244A LEU* 4.3 9.2 - - + -
247A LEU* 3.6 28.4 - - + +
265A PHE* 4.9 13.0 - - + -
275A PRO* 3.4 29.1 + - - +
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Residues in contact with TYR 207 (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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144A MET* 3.8 20.5 + - + +
147A LEU* 4.1 7.2 - - + -
148A ASP* 3.9 37.9 - - + -
151A LEU* 3.5 17.0 - - + -
181A LYS 5.1 1.9 + - - -
183A LEU* 4.6 20.9 - - + +
203A VAL* 3.0 46.2 + - + +
204A ILE 4.0 0.2 - - - +
206A ARG* 1.3 79.7 - - + +
208A ALA* 1.3 61.7 + - - +
209A ALA 3.4 0.2 - - - -
210A LYS* 2.9 36.8 + - - +
211A TYR* 3.7 4.9 - - - -
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Residues in contact with ALA 208 (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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151A LEU* 3.7 22.2 - - + +
204A ILE 3.0 18.0 + - - +
205A ALA 3.7 4.7 - - - +
206A ARG 3.3 0.2 - - - -
207A TYR* 1.3 79.5 - - - +
209A ALA* 1.3 66.4 + - - +
211A TYR* 3.0 25.1 + - - +
213A LEU* 3.6 26.1 + - + +
214A GLY* 5.5 0.2 - - - -
215A ILE* 4.4 15.3 - - + -
233A LEU* 4.7 0.9 - - + -
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Residues in contact with ALA 209 (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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205A ALA 3.2 11.5 + - - +
206A ARG 3.7 12.1 - - - +
207A TYR 3.4 0.6 - - - -
208A ALA* 1.3 76.6 - - - +
210A LYS* 1.3 57.4 + - - +
212A ASP* 2.8 26.5 + - - +
213A LEU 3.6 11.2 - - - +
240A GLY* 4.9 7.2 - - - +
244A LEU* 3.9 31.4 - - + -
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Residues in contact with LYS 210 (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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148A ASP* 2.6 34.2 + - - -
206A ARG 4.5 1.9 + - - +
207A TYR* 2.9 41.3 + - - +
209A ALA* 1.3 77.1 - - - +
211A TYR* 1.3 81.7 + - + +
212A ASP* 3.1 7.6 + - - +
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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