Contacts of the helix formed by residues 183 - 199 (chain E) in PDB entry 3UNE
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 ASN 183 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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181E GLU 4.0 1.4 + - - -
182E CYS* 1.3 74.7 - - - +
184E LEU* 1.3 64.7 + - - +
185E ASP* 3.3 26.1 + - - +
186E GLU* 3.0 27.8 + - + +
187E LEU* 2.7 33.5 + - - +
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Residues in contact with LEU 184 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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43E HIS* 3.5 54.4 - - + +
45E VAL* 4.9 2.0 - - + -
182E CYS 4.0 0.6 + - - -
183E ASN* 1.3 79.8 - - - +
185E ASP* 1.3 62.3 + - - +
187E LEU* 3.5 5.5 + - + +
188E VAL* 3.3 32.4 + - + +
214E ILE* 3.8 26.2 - - + -
218E ASP* 4.8 6.7 - - - +
219E LEU* 4.7 10.8 - - + -
232E PHE* 6.1 2.5 - - + -
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Residues in contact with ASP 185 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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183E ASN* 3.3 14.1 + - - +
184E LEU* 1.3 80.3 - - - +
186E GLU* 1.3 64.1 + - + +
188E VAL* 3.8 5.4 + - - +
189E LYS* 3.4 46.8 + - - +
231E PRO 4.9 6.9 - - - +
232E PHE* 4.9 15.2 - - - -
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Residues in contact with GLU 186 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181E GLU 5.2 0.7 - - - +
182E CYS* 4.5 13.6 - - - -
183E ASN* 3.0 35.7 + - + +
185E ASP* 1.3 78.7 - - + +
187E LEU* 1.3 65.5 + - - +
189E LYS* 3.3 10.8 + - + +
190E HIS* 3.1 34.8 + - + +
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Residues in contact with LEU 187 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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38E LEU* 3.6 22.5 - - + +
39E LYS* 4.2 14.1 - - - +
40E SER* 3.5 34.5 - - - +
43E HIS* 3.9 19.3 - - + +
45E VAL* 3.9 22.0 - - + -
179E PHE* 4.2 24.9 - - + +
182E CYS* 4.3 9.6 - - + +
183E ASN 2.7 20.4 + - - +
184E LEU* 3.7 7.6 - - - +
185E ASP 3.4 0.2 - - - -
186E GLU* 1.3 72.7 - - - +
188E VAL* 1.3 60.8 + - - +
190E HIS* 3.4 7.1 + - - +
191E GLY 3.4 13.3 + - - -
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Residues in contact with VAL 188 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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45E VAL* 3.9 22.9 - - + -
47E VAL* 4.4 1.8 - - + +
184E LEU* 3.3 19.8 + - + +
185E ASP* 4.1 4.5 - - - +
187E LEU* 1.3 75.0 - - - +
189E LYS* 1.3 60.4 + - + +
191E GLY* 2.8 18.1 + - - +
192E LEU* 3.1 23.4 + - + +
212E ILE* 3.7 28.3 - - + -
214E ILE* 3.9 25.4 - - + -
232E PHE* 3.7 28.5 - - + -
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Residues in contact with LYS 189 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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185E ASP* 3.4 38.3 + - - +
186E GLU* 3.3 15.4 + - + +
188E VAL* 1.3 77.4 - - + +
190E HIS* 1.3 60.6 + - + +
192E LEU* 3.7 9.7 + - + +
193E ARG* 3.3 46.1 + - - +
232E PHE* 3.9 17.4 + - - +
234E ASP 3.3 20.4 + - - -
235E GLY* 2.9 29.7 + - - +
236E LEU* 4.8 1.6 - - - +
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Residues in contact with HIS 190 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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38E LEU* 3.9 4.0 - - + +
171E TYR* 3.4 32.8 + - - -
172E LEU* 4.9 0.2 - - - +
175E HIS* 4.0 25.8 - + + +
178E GLU* 4.8 11.6 + - + +
179E PHE* 3.6 29.2 - + + -
182E CYS* 4.2 19.1 - - - -
186E GLU* 3.1 29.5 + - + +
187E LEU 3.5 10.1 - - - +
188E VAL 3.2 0.2 - - - -
189E LYS* 1.3 76.3 - - + +
191E GLY* 1.3 62.8 + - - +
193E ARG* 3.8 12.4 + - - +
194E ALA* 3.4 18.0 + - - +
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Residues in contact with GLY 191 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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36E VAL* 4.0 11.3 - - - +
38E LEU* 3.7 17.2 - - - +
47E VAL* 3.9 19.2 - - - +
187E LEU 3.4 5.3 + - - -
188E VAL 2.8 10.9 + - - -
190E HIS* 1.3 76.9 - - - +
192E LEU* 1.3 57.5 + - - -
194E ALA* 3.4 4.9 + - - +
195E LEU* 3.1 24.8 + - - +
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Residues in contact with LEU 192 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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47E VAL* 4.1 13.9 - - + +
188E VAL* 3.1 44.8 + - + +
189E LYS* 3.7 11.0 + - + +
191E GLY* 1.3 73.3 - - - +
193E ARG* 1.3 60.6 + - - +
195E LEU* 3.1 1.8 + - - +
196E ARG* 2.8 29.4 + - - +
205E LEU* 3.3 22.6 - - + +
210E VAL* 3.9 23.3 - - + -
212E ILE* 4.3 9.2 - - + -
232E PHE 4.2 14.6 - - - +
233E LEU* 3.8 33.7 - - + -
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Residues in contact with ARG 193 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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171E TYR* 3.0 41.0 + - + +
189E LYS* 3.3 50.3 + - - +
190E HIS* 3.8 19.1 + - - +
191E GLY 3.3 0.2 - - - -
192E LEU* 1.3 77.6 - - - +
194E ALA* 1.3 60.9 + - - +
196E ARG* 3.7 31.8 + - - +
197E GLU* 3.4 27.9 + - - +
235E GLY 5.8 0.8 + - - -
236E LEU* 6.1 0.6 - - - +
237E GLU* 2.9 47.7 + - - +
240E PRO* 5.8 5.2 - - + -
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Residues in contact with ALA 194 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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36E VAL* 4.0 20.2 - - + -
168E ALA* 3.2 26.6 - - + +
171E TYR* 3.7 21.5 - - + -
172E LEU* 4.2 10.8 - - + -
190E HIS 3.4 12.6 + - - +
191E GLY 3.5 9.0 - - - +
192E LEU 3.2 0.4 - - - -
193E ARG* 1.3 77.6 - - - +
195E LEU* 1.3 63.4 + - - +
196E ARG 3.2 0.2 - - - -
197E GLU* 3.2 15.2 + - - +
198E THR 3.9 0.9 + - - -
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Residues in contact with LEU 195 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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34E ALA* 3.4 33.0 - - + +
36E VAL* 3.8 14.1 - - + +
47E VAL* 3.8 29.2 - - + +
48E ALA 3.7 23.6 - - - +
49E LEU* 3.8 16.8 - - + +
191E GLY 3.1 14.3 + - - +
192E LEU* 3.1 8.5 + - - +
194E ALA* 1.3 76.0 - - - +
196E ARG* 1.3 57.4 + - - +
198E THR* 2.6 28.9 + - - +
199E LEU* 4.0 3.8 + - - +
205E LEU* 3.9 25.4 - - + +
210E VAL* 4.6 4.7 - - + -
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Residues in contact with ARG 196 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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192E LEU* 2.8 15.3 + - - +
193E ARG* 3.8 34.9 - - - +
194E ALA 3.2 0.4 - - - -
195E LEU* 1.3 77.1 - - - +
197E GLU* 1.3 64.5 + - + +
199E LEU* 3.3 11.0 + - + +
204E ASP* 4.8 10.0 - - + +
205E LEU* 4.1 28.8 - - + +
236E LEU* 3.8 29.2 - - - +
237E GLU* 2.8 34.4 + - - +
238E GLU 3.8 11.8 + - - -
239E ARG* 3.3 59.7 + - - +
240E PRO* 3.8 11.1 - - - +
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Residues in contact with GLU 197 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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167E SER* 3.4 42.1 + - - +
171E TYR* 4.5 15.6 - - + -
193E ARG* 3.4 18.9 - - - +
194E ALA 3.2 11.1 + - - +
196E ARG* 1.3 76.7 - - - +
198E THR* 1.3 63.8 + - - +
199E LEU 3.6 5.8 - - - +
239E ARG* 4.5 7.0 + - - +
240E PRO* 4.0 29.8 - - - +
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Residues in contact with THR 198 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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34E ALA* 3.8 21.0 - - + +
49E LEU* 4.2 11.0 - - - +
160E SER* 5.0 0.4 - - - +
163E ALA 4.2 9.4 - - - -
164E ARG* 2.7 61.5 + - - +
165E SER* 4.1 0.2 - - - -
167E SER* 5.6 0.2 + - - -
168E ALA* 3.7 25.8 - - + -
194E ALA 4.0 0.7 - - - +
195E LEU* 2.6 26.7 + - - +
197E GLU* 1.3 80.1 - - - +
199E LEU* 1.3 60.3 + - - +
200E PRO 3.9 0.2 - - - -
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Residues in contact with LEU 199 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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49E LEU* 3.9 44.0 - - + -
164E ARG* 3.9 7.2 - - - +
195E LEU 4.4 2.9 - - - +
196E ARG* 3.3 12.0 + - - +
197E GLU 3.6 5.9 - - - +
198E THR* 1.3 85.4 + - - +
200E PRO* 1.3 64.0 - - + +
203E GLN* 4.0 40.2 - - + +
204E ASP* 4.2 20.6 - - - +
205E LEU* 3.9 19.7 - - + -
209E ASN* 5.6 0.7 - - - +
239E ARG* 2.8 20.4 + - - -
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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