Contacts of the helix formed by residues 195 - 220 (chain B) in PDB entry 4P9O
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 195 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153B TYR* 3.9 6.7 - - + +
185B VAL* 4.9 1.3 - - + -
188B VAL* 3.7 27.4 - - + -
189B MET* 3.9 10.1 - - + +
192B HIS 3.0 16.8 + - - +
193B PRO 3.5 1.2 - - - -
194B ASN* 1.4 74.7 - - - +
196B TRP* 1.3 55.4 + - - +
198B PHE* 3.0 17.8 + - - +
199B PHE* 3.1 32.1 + - + -
303B 2CV 3.6 14.3 + - - +
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Residues in contact with TRP 196 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185B VAL* 4.8 8.3 - - + -
189B MET* 3.7 22.4 - - - +
193B PRO 3.2 27.7 + - - -
194B ASN* 3.0 15.0 + - - +
195B ALA* 1.3 72.9 - - - +
197B VAL* 1.4 82.4 + - + +
198B PHE 3.1 2.7 - - - -
199B PHE 4.0 1.8 - - - +
200B ILE* 3.1 54.7 + - + +
201B PRO* 3.4 1.5 - - + +
302B 2CV 3.6 66.4 + - + -
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Residues in contact with VAL 197 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194B ASN* 2.9 25.6 + - + +
196B TRP* 1.4 112.4 - - + +
198B PHE* 1.3 57.0 + - - +
201B PRO* 3.2 23.0 - - + +
303B 2CV 3.4 32.0 - - + +
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Residues in contact with PHE 198 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145B ALA* 3.4 37.2 - - + -
148B MET* 4.0 17.0 - - + -
149B ALA* 4.0 13.0 - - + -
152B LEU* 4.6 9.2 - - + -
153B TYR* 3.3 24.5 - + - +
171B LEU* 3.9 13.9 - - + -
194B ASN 4.2 0.4 + - - -
195B ALA 3.0 5.6 + - - +
197B VAL* 1.3 78.1 - - - +
199B PHE* 1.3 93.1 + + - +
201B PRO* 3.4 3.6 - - - +
202B PHE* 3.1 31.0 + - + +
303B 2CV 3.9 48.6 - - + +
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Residues in contact with PHE 199 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153B TYR* 3.7 30.5 - + - -
161B PHE* 3.6 33.4 - + - -
171B LEU* 4.1 8.7 - - + -
174B VAL* 4.2 20.2 - - + -
180B TRP* 4.8 1.8 - - + -
184B ILE* 4.7 2.9 - - + -
185B VAL* 3.5 42.4 - - + -
188B VAL* 4.3 8.1 - - + -
195B ALA* 3.1 36.2 + - + +
196B TRP* 4.9 0.7 - - - -
198B PHE* 1.3 90.2 - + - +
200B ILE* 1.4 55.7 - - - +
202B PHE* 3.1 5.3 + + - +
203B ILE* 2.8 45.0 + - + +
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Residues in contact with ILE 200 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180B TRP* 4.2 25.1 - - + -
196B TRP* 3.1 41.2 + - + +
199B PHE* 1.4 74.3 - - - +
201B PRO* 1.4 65.4 - - + +
203B ILE* 3.1 7.9 + - + +
204B MET* 2.9 48.3 + - + +
302B 2CV 3.7 44.0 - - + -
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Residues in contact with PRO 201 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196B TRP* 3.4 7.4 - - + +
197B VAL* 3.2 29.6 - - + +
198B PHE 3.4 5.8 - - - +
200B ILE* 1.4 89.3 - - + +
202B PHE* 1.4 50.9 + - - +
204B MET* 3.2 18.2 + - + +
205B LEU* 2.8 38.4 + - - +
303B 2CV 4.9 10.8 - - + -
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Residues in contact with PHE 202 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141B VAL* 5.5 1.3 - - + -
142B PHE* 4.1 13.7 - + - -
145B ALA* 4.0 26.5 - - + -
171B LEU* 3.3 52.5 - - + -
174B VAL* 3.8 26.2 - - + -
175B MET* 4.1 6.1 - - + -
198B PHE* 3.1 24.2 + + + +
199B PHE* 3.1 9.2 + - - +
201B PRO* 1.4 74.1 - - - +
203B ILE* 1.3 55.2 + - + +
205B LEU* 3.9 2.0 - - - +
206B THR* 2.7 70.6 + - + +
303B 2CV 4.2 18.7 - - + +
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Residues in contact with ILE 203 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174B VAL* 3.8 34.8 - - + +
177B LEU* 3.7 21.3 - - + -
180B TRP* 3.5 49.4 - - + -
199B PHE* 2.8 22.5 + - + +
200B ILE* 3.5 8.3 - - + +
202B PHE* 1.3 72.6 - - + +
204B MET* 1.3 59.5 + - + +
206B THR* 4.0 4.0 - - - -
207B THR* 2.7 48.5 + - + +
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Residues in contact with MET 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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200B ILE* 2.9 38.4 + - + +
201B PRO* 3.7 18.4 - - + +
203B ILE* 1.3 81.1 - - + +
205B LEU* 1.3 56.0 + - - +
207B THR* 4.0 5.2 - - - +
208B PHE* 3.2 24.8 - - - +
302B 2CV 5.2 16.2 - - + -
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Residues in contact with LEU 205 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137B LEU* 5.5 7.0 - - + -
141B VAL* 3.7 38.1 - - + -
201B PRO 2.8 21.5 + - - +
202B PHE* 3.9 2.9 - - - +
204B MET* 1.3 71.2 - - - +
206B THR* 1.3 59.6 + - + +
208B PHE* 3.4 10.1 - - + +
209B THR* 2.6 45.0 + - - +
303B 2CV 4.4 16.6 - - + -
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Residues in contact with THR 206 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138B LEU* 4.3 16.2 - - + -
141B VAL* 4.1 21.8 - - + -
142B PHE* 4.9 4.7 - - + -
175B MET* 3.6 27.4 - - - +
202B PHE* 2.7 52.1 + - + +
203B ILE 3.6 1.7 + - - -
205B LEU* 1.3 70.9 - - + +
207B THR* 1.4 55.3 + - - +
208B PHE 2.7 16.6 + - - -
209B THR* 3.2 0.8 + - - -
210B VAL* 2.9 30.3 + - - +
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Residues in contact with THR 207 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175B MET* 3.0 42.8 - - + +
177B LEU* 4.4 11.5 - - + +
203B ILE* 2.7 47.2 + - + +
204B MET* 4.0 3.7 - - - +
206B THR* 1.4 68.0 - - - +
208B PHE* 1.3 58.8 + - - +
210B VAL* 5.0 2.2 - - - -
211B LEU* 4.2 22.8 - - - +
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Residues in contact with PHE 208 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204B MET 3.2 22.4 - - - +
205B LEU* 3.4 8.1 - - + +
206B THR 2.7 5.9 + - - -
207B THR* 1.3 71.2 - - - +
209B THR* 1.4 67.7 + - + +
210B VAL 3.3 1.1 - - - +
211B LEU* 3.3 11.6 + - - +
212B ASN* 2.7 50.2 + - + +
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Residues in contact with THR 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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134B VAL* 3.9 21.9 - - + +
137B LEU* 3.8 27.1 - - + +
138B LEU* 4.0 21.5 - - + -
205B LEU* 2.6 36.3 + - - +
206B THR 4.0 0.2 - - - -
208B PHE* 1.4 85.3 - - + +
210B VAL* 1.4 53.4 + - - +
212B ASN* 3.4 5.9 + - + +
213B LEU* 2.8 36.1 + - - +
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Residues in contact with VAL 210 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138B LEU* 3.8 24.7 - - + -
175B MET* 3.6 30.1 - - + -
206B THR 2.9 19.4 + - - +
207B THR* 5.0 1.1 - - - -
209B THR* 1.4 75.0 - - - +
211B LEU* 1.3 68.4 + - + +
213B LEU* 3.3 5.7 + - + +
214B PHE* 2.9 48.9 + - + +
301B BR 4.2 23.1 - - + -
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Residues in contact with LEU 211 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207B THR* 4.2 26.9 - - - +
208B PHE* 3.3 12.0 + - - +
210B VAL* 1.3 88.1 - - + +
212B ASN* 1.3 55.7 + - - +
214B PHE* 4.2 3.9 - - - +
215B ILE* 3.1 46.4 + - + +
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Residues in contact with ASN 212 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134B VAL* 4.3 17.1 - - + +
208B PHE* 2.7 37.7 + - + +
209B THR* 3.5 9.9 - - + +
211B LEU* 1.3 71.9 - - - +
213B LEU* 1.4 58.8 + - - +
215B ILE* 3.6 6.5 + - - +
216B GLY* 3.0 25.6 + - - -
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Residues in contact with LEU 213 (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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131B VAL* 3.3 37.6 - - + +
134B VAL* 3.8 13.9 - - + +
135B ALA* 3.9 29.8 - - + +
138B LEU* 4.6 19.1 - - + -
209B THR* 2.8 21.0 + - + +
210B VAL* 3.3 3.8 + - - +
212B ASN* 1.4 73.6 - - - +
214B PHE* 1.3 79.4 + - + +
216B GLY* 3.5 6.8 + - - -
217B ILE* 3.4 25.9 + - + +
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Residues in contact with PHE 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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204A MET* 4.2 16.2 - - + -
207A THR 3.6 22.9 - - - -
208A PHE* 3.6 33.3 - + + -
211A LEU* 4.5 17.0 - - + -
210B VAL* 2.9 36.3 + - + +
211B LEU* 4.2 4.3 - - - +
213B LEU* 1.3 92.8 - - + +
215B ILE* 1.4 62.6 + - + +
216B GLY 3.5 0.5 + - - -
217B ILE* 3.6 19.5 + - + +
218B ILE* 3.4 21.8 + - + +
301B BR 4.5 13.5 - - + -
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Residues in contact with ILE 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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211A LEU* 5.5 6.5 - - + -
215A ILE* 5.6 5.8 - - + -
211B LEU* 3.1 35.6 + - + +
212B ASN* 4.1 5.6 - - - +
214B PHE* 1.4 74.2 - - + +
216B GLY* 1.3 64.5 + - - +
218B ILE* 3.2 18.9 + - + +
219B VAL* 3.1 35.3 + - + +
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Residues in contact with GLY 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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131B VAL* 4.1 14.7 - - - +
212B ASN 3.0 17.4 + - - -
213B LEU 3.5 4.0 + - - -
214B PHE 3.3 0.8 - - - -
215B ILE* 1.3 76.7 - - - +
217B ILE* 1.4 59.4 + - - +
219B VAL* 3.7 6.7 + - - +
220B ASP* 3.0 29.1 + - - +
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Residues in contact with ILE 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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208A PHE* 4.4 23.8 - - + -
131B VAL* 3.9 14.1 - - + -
213B LEU* 3.4 24.2 - - + +
214B PHE* 3.6 21.3 + - + +
215B ILE 3.3 0.6 - - - -
216B GLY* 1.4 72.6 - - - +
218B ILE* 1.4 64.0 + - - +
220B ASP* 3.2 27.5 + - + +
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Residues in contact with ILE 218 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208A PHE* 5.1 2.7 - - + -
211A LEU* 3.8 33.2 - - + -
212A ASN* 3.5 34.1 - - - +
215A ILE* 4.1 36.8 - - + -
214B PHE* 3.4 20.2 - - + +
215B ILE* 3.2 15.4 + - + +
217B ILE* 1.4 77.0 - - - +
219B VAL* 1.4 62.5 + - + +
220B ASP 3.6 2.9 + - - -
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Residues in contact with VAL 219 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215B ILE* 3.1 28.5 + - + +
216B GLY* 4.0 6.1 - - - +
217B ILE 3.4 0.2 - - - -
218B ILE* 1.4 77.8 - - + +
220B ASP* 1.4 62.5 + - - +
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Residues in contact with ASP 220 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131B VAL* 3.4 22.0 - - - +
216B GLY 3.0 17.8 + - - +
217B ILE* 3.2 26.8 + - + +
218B ILE 4.4 2.5 - - - -
219B VAL* 1.4 81.6 - - - +
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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
------------------------------------------------------------
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