Contacts of the helix formed by residues 171 - 189 (chain E) in PDB entry 1UNL
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 PRO 171 (chain E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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153E ARG* 4.7 9.9 - - + +
156E GLY* 3.3 34.3 - - - +
157E GLU* 4.3 28.3 - - + +
160E CYS* 3.7 16.1 - - + -
169E LEU 4.4 2.0 - - - +
170E SER* 1.3 94.0 - - - +
172E THR* 1.3 65.7 + - + +
174E PRO* 3.5 5.7 - - - +
175E VAL* 3.8 5.8 - - - +
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Residues in contact with THR 172 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153E ARG* 5.6 8.3 - - + -
170E SER* 3.2 7.0 - - - +
171E PRO* 1.3 83.8 - - + +
173E ASP* 1.3 66.9 + - - +
174E PRO 3.6 0.4 - - - -
175E VAL* 3.4 13.3 + - - +
176E LEU* 2.9 29.3 + - - +
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Residues in contact with ASP 173 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168E HIS 4.8 1.0 - - - +
169E LEU* 3.7 17.3 - - + +
170E SER* 2.8 38.4 + - - +
172E THR* 1.3 78.2 + - - +
174E PRO* 1.3 75.4 - - + +
176E LEU* 3.2 26.0 + - + +
177E TRP* 3.3 28.7 - - + -
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Residues in contact with PRO 174 (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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156E GLY* 4.3 13.5 - - - +
159E LEU* 3.4 38.8 - - + -
169E LEU* 4.5 10.8 - - + -
170E SER 3.5 10.8 - - - +
171E PRO 3.5 9.2 - - - +
173E ASP* 1.3 94.8 - - + +
175E VAL* 1.3 60.0 + - - +
177E TRP* 3.2 37.9 + - + +
178E LEU* 3.3 21.0 + - + +
222E LEU* 4.8 2.2 - - + -
226E LEU* 4.3 3.9 - - + +
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Residues in contact with VAL 175 (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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152E LEU* 3.1 55.9 - - + +
153E ARG* 4.1 6.3 - - + +
156E GLY* 4.4 2.2 - - - -
171E PRO 3.8 14.1 - - - +
172E THR* 3.4 15.0 + - - +
173E ASP 3.2 0.6 - - - -
174E PRO* 1.3 72.9 - - - +
176E LEU* 1.3 65.8 + - - +
178E LEU* 3.3 11.1 + - + +
179E ARG* 3.1 27.7 + - + +
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Residues in contact with LEU 176 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172E THR 2.9 13.9 + - - +
173E ASP* 3.2 18.3 + - + +
175E VAL* 1.3 77.2 - - - +
177E TRP* 1.3 83.7 + - + +
179E ARG* 3.4 5.1 + - - +
180E SER* 2.9 36.6 + - - -
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Residues in contact with TRP 177 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169E LEU* 4.4 16.8 - - + -
173E ASP* 3.3 17.3 - - + -
174E PRO* 3.3 28.9 - - + +
175E VAL 3.2 0.6 - - - -
176E LEU* 1.3 100.9 - - + +
178E LEU* 1.3 57.2 + - + +
180E SER* 3.2 8.2 + - - -
181E VAL* 2.9 34.8 + - - +
219E ASP* 4.3 22.4 - - - -
222E LEU* 4.1 26.2 - - + -
223E GLN* 3.2 48.8 - - + +
226E LEU* 4.0 11.9 - - + -
227E LEU* 4.6 10.1 - - + -
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Residues in contact with LEU 178 (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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152E LEU* 3.8 28.0 - - + +
155E LEU* 4.0 11.9 - - + -
174E PRO* 3.3 19.1 + - + +
175E VAL* 3.3 7.8 + - + +
177E TRP* 1.3 75.8 - - - +
179E ARG* 1.3 63.6 + - - +
181E VAL* 3.8 5.8 + - - +
182E ASP* 3.3 23.0 + - - +
196E ILE* 4.1 15.9 - - + +
204E LEU* 3.9 28.3 - - + -
226E LEU* 3.9 26.7 - - + +
227E LEU* 4.9 3.1 - - + -
230E LEU* 3.9 25.5 - - + +
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Residues in contact with ARG 179 (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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148E THR* 4.1 19.0 - - - +
149E SER* 4.3 15.6 + - - +
152E LEU* 3.6 27.9 - - - +
175E VAL* 3.1 20.8 + - + +
176E LEU* 3.8 6.1 - - - +
178E LEU* 1.3 77.6 - - - +
180E SER* 1.3 59.6 + - - +
182E ASP* 3.9 7.5 + - - +
183E ARG* 3.0 31.4 + - - +
196E ILE* 3.8 26.9 + - - +
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Residues in contact with SER 180 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176E LEU* 2.9 25.5 + - - -
177E TRP* 3.2 10.3 + - - -
179E ARG* 1.3 74.5 - - - +
181E VAL* 1.3 65.9 + - - +
183E ARG* 3.8 8.8 - - - +
184E SER* 3.1 27.4 + - - -
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Residues in contact with VAL 181 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177E TRP 2.9 20.5 + - - +
178E LEU 4.0 1.6 - - - +
180E SER* 1.3 78.9 - - - +
182E ASP* 1.3 61.3 + - - +
184E SER* 3.9 4.6 + - - -
185E LEU* 3.3 28.8 + - + +
227E LEU* 4.0 24.9 - - + -
230E LEU* 3.5 27.6 - - + -
234E TYR* 4.2 2.5 - - - +
247E PRO* 3.9 24.1 - - + +
248E PHE* 3.6 27.8 - - + -
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Residues in contact with ASP 182 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178E LEU 3.3 15.9 + - - +
179E ARG* 4.0 10.1 + - - +
181E VAL* 1.3 77.8 - - - +
183E ARG* 1.3 62.9 + - - +
185E LEU* 3.7 1.7 + - - -
186E LEU* 3.4 21.5 + - - +
191E GLN* 3.2 16.4 + - - -
194E GLY* 3.5 16.6 - - - -
195E PHE* 2.9 20.9 + - - +
196E ILE* 3.5 24.9 + - + +
234E TYR* 2.8 26.0 + - - +
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Residues in contact with ARG 183 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179E ARG* 3.0 20.3 + - + +
180E SER* 3.8 8.3 - - - +
181E VAL 3.3 0.2 - - - -
182E ASP* 1.3 76.8 - - - +
184E SER* 1.3 59.1 + - - +
186E LEU* 3.4 7.6 + - - +
187E LEU* 3.0 60.0 + - + +
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Residues in contact with SER 184 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180E SER* 3.1 17.7 + - - -
181E VAL* 3.9 4.9 + - - -
183E ARG* 1.3 76.2 - - - +
185E LEU* 1.3 61.3 + - - +
187E LEU* 3.9 7.0 - - - +
188E GLN* 3.0 44.8 + - - +
247E PRO* 4.1 15.2 - - - +
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Residues in contact with LEU 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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181E VAL* 3.3 20.8 + - + +
182E ASP 4.0 3.8 - - - +
183E ARG 3.2 0.4 - - - -
184E SER* 1.3 80.2 + - - +
186E LEU* 1.3 65.0 + - - +
188E GLN* 3.5 2.8 + - - +
189E GLY 3.1 18.5 + - - -
190E TRP* 3.1 27.1 + - + +
191E GLN* 3.7 14.9 + - + +
234E TYR* 3.6 33.0 - - + +
243E TYR* 4.6 6.1 - - + -
244E PRO* 3.7 37.5 - - + -
247E PRO* 4.7 8.1 - - + -
248E PHE* 3.8 22.0 - - + -
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Residues in contact with LEU 186 (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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182E ASP* 3.4 10.9 + - - +
183E ARG* 3.4 11.1 + - - +
185E LEU* 1.3 81.2 - - - +
187E LEU* 1.3 63.5 + - + +
189E GLY* 3.6 8.0 + - - -
191E GLN* 3.4 41.6 - - - +
192E ASP* 3.5 23.6 - - - +
193E GLN* 4.1 2.0 - - - -
194E GLY* 3.8 22.9 - - - +
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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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183E ARG* 3.0 56.6 + - + +
184E SER* 4.5 4.0 - - - +
186E LEU* 1.3 79.1 - - + +
188E GLN* 1.3 63.8 + - - +
189E GLY* 3.2 2.9 + - - -
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Residues in contact with GLN 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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184E SER* 3.0 33.5 + - - +
185E LEU* 5.3 0.2 - - - +
187E LEU* 1.3 76.5 - - - +
189E GLY* 1.3 59.6 + - - +
190E TRP* 3.5 34.1 + - + +
244E PRO* 5.6 0.6 - - - +
246E LYS* 5.8 3.6 + - - +
247E PRO* 4.1 18.2 - - - +
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Residues in contact with GLY 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 LEU 3.1 5.5 + - - -
186E LEU 3.9 8.5 - - - -
187E LEU 3.2 3.7 - - - -
188E GLN* 1.3 78.7 - - - +
190E TRP* 1.3 61.3 + - - +
191E GLN* 3.3 8.9 + - - -
192E ASP* 5.4 2.6 - - - +
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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