Contacts of the helix formed by residues 202 - 218 (chain B) in PDB entry 4UN0
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 GLU 202 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25B TYR* 3.6 26.5 - - + +
201B TRP* 1.3 76.2 - - - +
203B PRO* 1.3 72.3 - - + +
204B GLU* 3.1 18.2 - - + +
205B ILE* 3.0 39.0 + - + +
206B ILE* 3.1 9.5 + - - +
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Residues in contact with PRO 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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25B TYR* 3.5 14.4 - - - +
76B ILE* 6.0 1.8 - - + -
158B GLU* 3.2 26.2 - - + +
159B HIS* 3.7 5.8 - - - -
160B PRO* 3.6 34.2 - - + +
163B PHE* 3.8 13.0 - - + -
201B TRP 3.8 2.0 - - - +
202B GLU* 1.3 85.7 - - + +
204B GLU* 1.3 64.6 + - - +
206B ILE* 3.6 4.4 - - + +
207B ALA* 2.8 31.7 + - - +
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Residues in contact with GLU 204 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158B GLU* 5.9 0.2 - - - -
163B PHE* 3.6 45.1 - - + -
167B TYR* 3.7 18.4 - - - +
202B GLU* 3.3 15.7 - - + +
203B PRO* 1.3 88.5 - - - +
205B ILE* 1.3 64.8 + - + +
207B ALA* 3.6 2.9 + - - +
208B VAL* 3.3 25.5 + - - +
239B VAL* 3.7 13.4 - - + +
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Residues in contact with ILE 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 TRP* 3.7 28.9 - - + -
202B GLU* 3.0 37.8 + - + +
204B GLU* 1.3 73.9 - - + +
206B ILE* 1.3 62.0 + - - +
208B VAL* 3.2 7.9 + - - +
209B ALA* 2.9 26.2 + - - +
239B VAL* 4.7 9.4 - - + -
242B VAL* 4.3 25.8 - - + -
246B VAL* 4.1 14.4 - - + -
247B LEU* 4.1 10.0 - - + +
250B ILE* 3.9 20.9 - - + -
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Residues in contact with ILE 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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160B PRO* 3.7 22.7 - - + -
189B VAL* 5.2 0.4 - - + -
192B SER* 4.2 20.0 - - - +
197B LEU* 4.1 22.4 - - + +
198B SER* 5.6 1.8 - - - -
201B TRP* 3.7 30.3 - - + +
202B GLU 3.1 15.5 + - - +
203B PRO* 3.6 7.6 - - + +
205B ILE* 1.3 76.1 - - - +
207B ALA* 1.3 62.1 + - - +
209B ALA* 3.2 5.2 + - - +
210B VAL* 3.0 35.9 + - + +
250B ILE* 3.9 24.0 - - + -
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Residues in contact with ALA 207 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160B PRO* 3.5 25.7 - - - +
163B PHE* 3.8 10.8 - - + -
164B LEU* 3.7 17.2 - - - +
167B TYR* 4.3 3.6 - - + -
203B PRO 2.8 18.0 + - - +
204B GLU 3.6 6.1 - - - +
206B ILE* 1.3 76.6 - - - +
208B VAL* 1.3 60.8 + - - +
210B VAL* 3.2 21.5 - - - +
211B MET* 3.2 17.3 - - - +
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Residues in contact with VAL 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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167B TYR* 4.0 19.3 - - + -
204B GLU 3.3 13.0 + - - +
205B ILE* 3.2 10.3 + - - +
207B ALA* 1.3 76.3 - - - +
209B ALA* 1.3 60.1 + - - +
211B MET* 3.1 11.8 + - - +
212B TYR* 2.9 24.4 + - - +
234B TRP* 3.8 11.6 - - + -
235B TRP* 3.5 30.3 - - + -
238B PHE* 4.6 4.9 - - + -
239B VAL* 3.9 20.6 - - + -
247B LEU* 3.8 23.8 - - + -
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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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205B ILE 2.9 16.4 + - - +
206B ILE 3.2 4.9 + - - +
208B VAL* 1.3 77.8 - - - +
210B VAL* 1.3 57.1 + - - +
212B TYR* 3.2 7.1 + - - +
213B LEU* 3.0 28.1 + - - +
247B LEU* 4.0 18.4 - - + +
250B ILE* 3.6 41.7 - - + -
251B CYS* 3.8 4.4 - - - -
254B ILE* 5.8 1.1 - - - -
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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
----------------------------------------------------------
164B LEU* 4.3 3.1 - - + -
185B ALA* 3.7 29.7 - - + +
188B PHE* 3.6 27.2 - - + +
189B VAL* 3.8 23.6 - - + +
192B SER* 5.4 0.2 - - - -
206B ILE* 3.0 20.6 + - + +
207B ALA* 3.2 20.2 - - - +
209B ALA* 1.3 75.9 - - + +
211B MET* 1.3 57.6 + - - +
213B LEU* 4.4 5.4 - - - -
214B ALA* 3.2 26.7 + - - +
254B ILE* 4.0 17.0 - - + -
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Residues in contact with MET 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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164B LEU* 3.6 26.7 - - + +
167B TYR* 4.3 26.9 - - + +
168B ALA* 4.8 6.1 - - + -
171B LEU* 3.9 28.0 - - + -
181B LEU* 3.7 22.5 - - + +
182B VAL* 6.4 0.4 - - + -
185B ALA* 4.4 5.8 - - + -
207B ALA 3.2 19.5 - - - +
208B VAL* 3.1 9.9 + - - +
210B VAL* 1.3 78.1 - - - +
212B TYR* 1.3 59.3 + - - +
214B ALA* 4.6 1.6 - - - -
215B GLY* 2.9 26.5 + - - -
222B ILE* 4.4 5.3 - - + +
234B TRP* 3.9 28.7 - - + -
238B PHE* 5.6 1.3 - - + -
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Residues in contact with TYR 212 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208B VAL 2.9 11.9 + - - +
209B ALA* 3.2 12.1 + - - +
211B MET* 1.3 77.9 - - - +
213B LEU* 1.3 61.3 + - - +
215B GLY* 3.3 0.9 + - - -
216B ARG* 3.1 55.9 + - + +
222B ILE* 4.9 5.2 - - + +
234B TRP* 4.1 19.9 - + + -
235B TRP* 4.2 27.4 - + - -
244B VAL* 3.8 17.1 - - + +
247B LEU* 4.5 14.6 - - + -
248B GLU* 2.4 45.6 + - + -
251B CYS* 3.5 19.5 - - - -
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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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188B PHE* 3.6 40.4 - - + -
209B ALA 3.0 12.0 + - - +
210B VAL* 4.0 5.2 - - - +
212B TYR* 1.3 77.6 - - - +
214B ALA* 1.3 62.1 + - - +
216B ARG* 3.2 8.0 + - + +
217B LEU* 3.1 35.9 + - + +
251B CYS* 3.6 30.5 - - + +
254B ILE* 4.1 19.1 - - + -
255B LEU* 3.8 39.5 - - + -
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Residues in contact with ALA 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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181B LEU* 3.6 33.0 - - + +
184B MET* 4.0 13.0 - - + -
185B ALA 4.2 0.7 - - - +
188B PHE* 3.7 18.1 - - + -
210B VAL 3.2 16.7 + - - +
211B MET 4.0 0.4 - - - +
212B TYR 3.4 0.2 - - - -
213B LEU* 1.3 79.8 - - - +
215B GLY* 1.3 60.9 + - - +
217B LEU* 3.9 4.8 - - - +
218B CYS* 3.1 30.3 + - - +
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Residues in contact with GLY 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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181B LEU* 3.5 9.1 - - - +
211B MET 2.9 17.8 + - - -
212B TYR 3.3 2.2 + - - -
213B LEU 3.1 0.2 - - - -
214B ALA* 1.3 78.4 - - - +
216B ARG* 1.3 57.6 + - - +
218B CYS 3.5 0.2 + - - -
219B LYS* 3.0 7.6 + - - -
220B PHE* 2.9 37.6 + - - +
222B ILE* 3.8 16.8 - - - -
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Residues in contact with ARG 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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212B TYR* 3.1 51.8 + - + +
213B LEU* 3.8 7.6 - - + +
215B GLY* 1.3 77.9 - - - +
217B LEU* 1.3 63.6 + - + +
219B LYS* 3.3 33.0 + - - +
220B PHE 6.0 0.4 - - - -
222B ILE* 6.1 2.5 - - + -
248B GLU* 5.4 0.7 - - - +
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Residues in contact with LEU 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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184B MET* 4.2 11.9 - - + -
188B PHE* 3.6 31.6 - - + -
213B LEU* 3.1 33.7 + - + +
214B ALA* 3.9 4.0 - - - +
216B ARG* 1.3 82.3 - - + +
218B CYS* 1.3 64.5 + - - +
219B LYS* 3.3 6.0 + - - +
255B LEU* 4.9 12.6 - - + -
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Residues in contact with CYS 218 (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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180B LYS* 5.0 13.9 - - - -
181B LEU* 5.8 1.3 - - - -
184B MET* 3.5 30.5 - - - -
214B ALA* 3.1 20.3 + - - +
217B LEU* 1.3 79.0 - - - +
219B LYS* 1.3 68.5 + - - +
220B PHE* 3.0 49.0 + - + -
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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