Contacts of the helix formed by residues 196 - 217 (chain B) in PDB entry 1OE5
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 ALA 196 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194B PRO* 3.0 4.9 + - + +
195B LYS* 1.3 76.8 - - - +
197B GLN* 1.3 66.7 - - + +
198B ARG 3.7 2.6 - - - +
199B ASP* 3.9 10.1 + - - +
200B THR* 3.1 26.9 + - - -
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Residues in contact with GLN 197 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B LEU* 5.3 3.3 - - + +
57B VAL* 3.5 22.4 - - - +
58B PHE* 3.9 21.0 - - + +
59B GLN* 3.3 51.2 + - - +
62B VAL* 5.3 0.8 - - - +
193B LEU* 4.7 9.0 - - + +
194B PRO* 3.2 33.2 + - - +
196B ALA* 1.3 79.8 - - - +
198B ARG* 1.3 64.4 + - - +
199B ASP 3.4 0.2 + - - -
200B THR* 3.4 4.8 + - - -
201B LEU* 3.1 26.6 + - - +
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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
----------------------------------------------------------
190B PRO 3.6 8.5 - - - +
191B THR* 3.7 36.0 + - - +
192B ASP 5.4 0.2 - - - -
193B LEU* 2.7 56.7 + - + +
194B PRO 3.2 5.3 + - - +
195B LYS* 3.3 52.2 - - - +
196B ALA 3.5 0.2 - - - -
197B GLN* 1.3 76.4 - - - +
199B ASP* 1.3 66.5 + - - +
201B LEU* 3.7 1.8 - - - +
202B LEU* 2.9 53.8 + - + +
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Residues in contact with ASP 199 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195B LYS* 4.7 11.8 - - - +
196B ALA* 3.9 14.0 + - - +
197B GLN 3.4 0.6 - - - -
198B ARG* 1.3 91.0 + - - +
200B THR* 1.3 61.2 + - - +
202B LEU* 4.2 2.4 - - - +
203B GLU* 3.0 48.4 + - - +
231B ARG* 4.9 11.3 + - - +
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Residues in contact with THR 200 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B LEU* 4.9 12.0 - - + +
196B ALA 3.1 17.0 + - - -
197B GLN* 3.4 4.5 + - - -
199B ASP* 1.3 73.6 - - - +
201B LEU* 1.3 67.0 + - - +
203B GLU* 3.2 14.2 + - + +
204B ILE* 2.8 46.3 + - + +
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Residues in contact with LEU 201 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53B LEU* 3.5 29.4 - - + -
56B LEU* 4.2 17.7 - - + +
58B PHE* 4.5 4.9 - - + -
176B CYS* 4.0 16.2 - - - -
178B LEU* 4.2 10.1 - - + -
180B PHE* 3.8 25.4 - - + -
190B PRO* 4.1 13.2 - - + -
193B LEU* 3.9 15.7 - - + -
197B GLN 3.1 20.4 + - - +
198B ARG* 3.7 2.5 - - - +
200B THR* 1.3 77.5 - - - +
202B LEU* 1.3 69.5 + - + +
204B ILE* 3.6 3.1 - - - +
205B CYS* 2.9 35.3 + - - -
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Residues in contact with LEU 202 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175B HIS* 3.7 24.3 - - + +
176B CYS* 5.4 1.1 - - + -
190B PRO* 4.1 24.7 - - + -
191B THR* 4.8 2.7 - - + -
198B ARG* 2.9 49.3 + - + +
199B ASP* 4.2 3.8 - - - +
201B LEU* 1.3 80.2 - - + +
203B GLU* 1.3 52.9 + - - +
205B CYS* 3.2 1.7 + - + -
206B ASP* 2.6 40.7 + - - +
227B PHE* 4.1 20.4 - - + -
231B ARG* 3.4 37.7 - - - +
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Residues in contact with GLU 203 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199B ASP* 3.0 38.6 + - - +
200B THR* 3.7 16.2 - - + +
202B LEU* 1.3 75.5 - - - +
204B ILE* 1.3 65.8 + - + +
206B ASP* 3.3 9.6 + - - +
207B GLU* 3.1 22.6 + - - +
231B ARG* 4.1 8.7 - - - +
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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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49B LEU* 3.6 21.1 - - + -
52B LYS* 3.9 37.6 - - + +
53B LEU* 4.3 7.9 - - + -
56B LEU* 4.4 26.7 - - + -
200B THR* 2.8 35.0 + - + +
201B LEU* 3.6 4.0 - - - +
203B GLU* 1.3 77.4 - - + +
205B CYS* 1.3 60.7 + - - +
207B GLU* 3.1 15.0 + - - +
208B ALA* 3.1 21.7 + - - +
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Residues in contact with CYS 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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49B LEU* 4.2 19.5 - - + -
53B LEU* 4.4 3.1 - - - -
175B HIS* 3.1 46.3 + - + +
176B CYS* 3.7 23.8 - - - -
177B PRO* 4.5 1.1 - - - -
201B LEU* 2.9 36.5 + - - +
204B ILE* 1.3 73.0 - - - +
206B ASP* 1.3 54.8 + - - +
208B ALA* 3.2 2.1 + - - +
209B LEU* 2.6 38.3 + - - +
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Residues in contact with ASP 206 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175B HIS* 2.8 27.5 + - - -
202B LEU 2.6 21.4 + - - +
203B GLU* 3.4 11.0 - - - +
205B CYS* 1.3 70.4 - - - +
207B GLU* 1.3 58.6 + - - +
209B LEU* 3.1 4.3 + - - +
210B CYS* 2.9 35.9 + - - -
231B ARG* 2.5 42.1 + - - +
234B LYS* 4.7 4.2 - - - +
235B ALA* 3.6 28.4 - - + +
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Residues in contact with GLU 207 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52B LYS* 4.3 27.4 + - - +
203B GLU 3.1 11.0 + - - +
204B ILE* 3.1 17.6 + - - +
206B ASP* 1.3 78.4 - - - +
208B ALA* 1.3 63.3 + - - +
210B CYS* 3.3 5.2 + - - +
211B GLN* 3.2 28.6 + - + +
214B ARG* 5.2 0.3 + - - -
239B GLU* 4.5 18.1 - - - +
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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
----------------------------------------------------------
45B VAL* 3.7 13.6 - - + +
49B LEU* 3.9 38.8 - - + +
173B HIS* 5.8 1.8 - - - +
204B ILE 3.1 11.2 + - - +
205B CYS 3.8 5.2 - - - +
207B GLU* 1.3 76.8 - - - +
209B LEU* 1.3 65.2 + - - +
211B GLN* 3.3 13.9 + - - +
212B ALA* 3.0 23.7 + - - +
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Residues in contact with LEU 209 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91B LEU* 4.2 7.6 - - + -
93B LEU* 4.0 33.0 - - + -
173B HIS* 4.6 10.5 - - + +
175B HIS* 4.1 19.5 - - + +
205B CYS 2.6 22.3 + - - +
206B ASP 3.1 3.8 + - - +
208B ALA* 1.3 74.6 - - - +
210B CYS* 1.4 53.2 + - - +
212B ALA* 3.1 6.4 + - + +
213B VAL* 2.7 51.5 + - + +
221B VAL* 5.5 1.1 - - + -
232B ALA* 4.0 34.3 - - + +
235B ALA* 4.1 14.4 - - + -
236B LEU* 4.9 4.7 - - + -
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Residues in contact with CYS 210 (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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206B ASP* 2.9 23.1 + - - -
207B GLU 3.3 7.8 + - - +
209B LEU* 1.4 71.6 - - - +
211B GLN* 1.3 58.5 + - - +
213B VAL* 3.4 2.6 + - - +
214B ARG* 3.0 33.7 + - - +
235B ALA* 3.3 33.0 - - - -
236B LEU* 4.2 7.6 - - - -
239B GLU* 3.6 33.2 - - - +
241B ILE* 3.6 22.4 - - + +
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Residues in contact with GLN 211 (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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45B VAL* 3.9 31.8 - - + +
48B GLU* 5.3 5.4 - - - +
52B LYS* 5.1 9.0 + - - -
207B GLU* 3.2 20.8 + - + +
208B ALA* 3.7 9.1 - - - +
209B LEU 3.2 0.4 - - - -
210B CYS* 1.3 74.4 - - - +
212B ALA* 1.3 57.6 + - - +
214B ARG* 2.9 18.5 + - - +
215B VAL* 2.6 41.4 + - + +
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Residues in contact with ALA 212 (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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42B PHE* 3.9 27.1 - - + -
45B VAL* 4.3 10.9 - - + +
91B LEU* 5.4 0.9 - - + -
173B HIS* 4.2 20.4 - - + +
208B ALA 3.0 11.2 + - - +
209B LEU* 3.5 10.3 - - + +
211B GLN* 1.3 77.5 - - - +
213B VAL* 1.3 59.5 + - - +
215B VAL* 3.8 5.7 - - - +
216B LEU* 2.9 38.9 + - + +
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Residues in contact with VAL 213 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91B LEU* 4.3 4.5 - - + -
209B LEU* 2.7 35.1 + - + +
210B CYS 3.7 4.7 - - - +
212B ALA* 1.3 77.3 - - - +
214B ARG* 1.3 57.9 + - + +
216B LEU* 4.0 2.0 - - - -
217B GLY* 3.1 22.7 + - - -
218B VAL* 3.4 29.8 + - + +
221B VAL* 3.9 19.7 - - + -
236B LEU* 3.8 24.2 - - + -
241B ILE* 4.6 4.7 - - + -
243B VAL* 3.9 26.0 - - + -
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Residues in contact with ARG 214 (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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87B LYS* 4.8 3.5 + - - -
210B CYS* 3.0 24.7 + - - +
211B GLN* 2.9 20.1 + - - +
213B VAL* 1.3 75.4 - - - +
215B VAL* 1.3 67.7 + - + +
216B LEU 3.2 0.9 + - - -
217B GLY* 3.3 11.8 + - - -
239B GLU* 3.2 31.7 + - - -
241B ILE* 3.7 35.6 - - + +
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Residues in contact with VAL 215 (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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38B PRO* 3.6 18.5 - - + +
41B SER* 3.7 32.8 - - - -
42B PHE* 3.7 22.2 - - + +
45B VAL* 4.1 15.7 - - + -
87B LYS* 3.3 20.1 + - - +
211B GLN* 2.6 24.1 + - + +
212B ALA* 3.8 4.9 - - - +
214B ARG* 1.3 74.3 - - + +
216B LEU* 1.4 61.8 + - - +
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Residues in contact with LEU 216 (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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38B PRO* 4.5 8.7 - - + -
42B PHE* 3.7 30.1 - - + -
84B CYS* 3.6 30.1 - - - -
87B LYS* 3.4 9.0 - - - +
88B LYS* 3.0 38.3 + - + +
91B LEU* 3.8 35.0 - - + -
171B PHE* 4.3 8.7 - - + -
212B ALA* 2.9 24.9 + - + +
213B VAL* 4.1 1.8 - - - +
215B VAL* 1.4 77.1 - - - +
217B GLY* 1.3 60.6 + - - +
218B VAL* 3.9 20.2 - - + -
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Residues in contact with GLY 217 (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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87B LYS* 4.2 14.0 - - - +
88B LYS 3.3 9.0 - - - +
213B VAL 3.1 9.1 + - - -
214B ARG* 3.3 9.6 + - - -
216B LEU* 1.3 78.8 - - - +
218B VAL* 1.3 66.4 + - - +
219B LYS* 3.6 20.5 + - - +
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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) + - + + + + + -
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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