Contacts of the helix formed by residues 170 - 188 (chain C) in PDB entry 4KIS
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 170 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159C GLY 2.9 18.3 + - - +
160C TYR 4.2 0.9 - - - +
161C ASP* 3.2 35.8 + - - +
168C TYR 3.7 0.2 + - - -
169C ILE* 1.3 75.1 - - - +
171C GLU* 1.3 64.0 + - - +
172C GLU* 3.0 14.9 + - - +
173C GLU* 2.9 38.3 + - + +
174C ALA* 2.8 21.5 + - - +
175D LYS* 5.8 0.4 - - - +
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Residues in contact with GLU 171 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171B GLU* 4.2 21.3 - - + +
169C ILE* 3.7 18.5 + - + +
170C ASN* 1.3 71.6 - - - +
172C GLU* 1.3 66.5 + - + +
174C ALA* 3.7 3.2 - - - +
175C LYS* 3.1 25.5 + - - +
178C ARG* 4.5 14.9 + - - -
171D GLU* 3.8 27.9 - - + +
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Residues in contact with GLU 172 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170C ASN* 2.9 13.0 + - - +
171C GLU* 1.3 80.6 - - + +
173C GLU* 1.3 67.2 + - + +
175C LYS* 3.4 23.0 - - - +
176C GLN* 3.5 12.2 + - - +
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Residues in contact with GLU 173 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157C THR 4.0 3.8 - - - +
158C PHE* 3.2 43.8 - - + -
159C GLY* 2.8 35.5 + - - +
160C TYR 4.1 4.2 + - - +
161C ASP* 5.4 0.7 - - - +
170C ASN* 2.9 28.2 + - - +
172C GLU* 1.3 73.0 - - + +
174C ALA* 1.3 67.4 + - - +
176C GLN* 2.9 19.5 + - - +
177C LEU* 2.9 14.9 + - - +
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Residues in contact with ALA 174 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159C GLY* 4.0 1.9 - - - -
169C ILE* 3.6 22.7 - - + -
170C ASN 2.8 17.6 + - - +
171C GLU* 3.7 6.1 - - - +
173C GLU* 1.3 77.6 - - - +
175C LYS* 1.3 61.2 + - - +
177C LEU* 3.1 14.7 + - - +
178C ARG* 3.2 30.7 + - - +
238C ILE* 3.6 25.8 - - + +
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Residues in contact with LYS 175 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161B ASP* 3.2 26.9 + - - +
163B ILE* 4.5 17.6 - - + +
168B TYR* 3.9 27.9 - - + -
169B ILE 3.6 18.6 + - - -
170B ASN* 4.9 0.8 - - - +
171B GLU 5.6 1.0 - - - +
171C GLU 3.1 12.5 + - - +
172C GLU* 3.4 19.7 - - - +
173C GLU 3.1 0.2 - - - -
174C ALA* 1.3 79.7 - - - +
176C GLN* 1.3 64.3 + - + +
178C ARG* 2.9 30.4 + - - +
179C LEU* 3.1 11.8 + - - +
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Residues in contact with GLN 176 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158C PHE* 3.8 25.2 - - + -
172C GLU 3.5 9.4 + - - +
173C GLU* 2.9 14.2 + - - +
175C LYS* 1.3 78.3 - - + +
177C LEU* 1.3 52.9 + - - +
179C LEU* 3.1 9.5 + - + +
180C ILE* 2.7 46.3 + - + +
197C LEU* 5.6 3.3 - - - +
202C PHE* 3.9 36.4 - - + +
205C ARG* 3.4 23.7 + - - +
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Residues in contact with LEU 177 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158C PHE* 3.2 43.7 - - + +
159C GLY* 4.6 1.6 - - - -
173C GLU 2.9 10.8 + - - +
174C ALA 3.1 10.7 + - - +
176C GLN* 1.3 77.6 - - - +
178C ARG* 1.3 56.5 + - - +
180C ILE* 3.4 12.1 - - + +
181C TYR* 2.7 44.4 + - + +
213C TRP* 4.5 9.2 - - + -
219C TYR* 3.4 46.7 - - + -
238C ILE* 4.2 20.6 - - + -
239C ILE* 4.4 4.3 - - + -
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Residues in contact with ARG 178 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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168B TYR* 4.1 19.4 - - + +
236B GLU* 3.6 36.1 + - - -
169C ILE* 5.2 7.5 - - - +
171C GLU* 4.5 11.5 + - - -
174C ALA* 3.6 20.4 - - - +
175C LYS* 2.9 36.6 + - - +
177C LEU* 1.3 75.0 - - - +
179C LEU* 1.3 67.6 + - - +
181C TYR* 3.9 2.1 - - - +
182C ASP* 2.9 33.5 + - - +
238C ILE* 3.8 21.2 + - - +
239C ILE* 4.4 17.0 - - + -
243C GLN* 5.6 2.2 - - - +
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Residues in contact with LEU 179 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163B ILE* 3.4 37.2 - - + -
164B ASP* 4.2 8.5 - - + -
166B LYS* 4.3 1.1 - - - -
168B TYR* 3.6 27.9 - - + +
175C LYS 3.1 10.7 + - - +
176C GLN* 3.5 11.2 - - + +
178C ARG* 1.3 75.7 - - - +
180C ILE* 1.3 55.3 + - - +
182C ASP* 3.0 2.4 + - - +
183C ILE* 2.7 59.4 + - + +
197C LEU* 4.3 9.9 - - + -
200C LEU* 4.2 6.1 - - + -
202C PHE* 3.6 29.6 - - + -
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Residues in contact with ILE 180 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158C PHE* 4.7 1.3 - - + -
176C GLN* 2.7 37.9 + - + +
177C LEU* 3.4 11.4 - - + +
179C LEU* 1.3 74.6 - - - +
181C TYR* 1.3 67.2 + - + +
183C ILE* 3.2 1.6 + - - +
184C PHE* 2.8 23.7 + - - +
193C LEU* 4.2 19.0 - - + +
197C LEU* 4.3 17.0 - - + -
205C ARG* 6.2 0.4 - - - +
210C TYR* 3.7 31.2 - - + -
213C TRP* 3.9 22.9 - - + -
214C LEU* 3.3 25.4 - - + -
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Residues in contact with TYR 181 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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177C LEU* 2.7 37.0 + - + +
178C ARG* 3.9 4.5 - - - +
180C ILE* 1.3 76.2 - - + +
182C ASP* 1.3 57.7 + - - +
184C PHE* 3.3 2.4 + - - +
185C GLU* 2.9 30.8 + - - +
213C TRP* 2.8 30.0 + - + -
214C LEU* 3.5 35.7 - - + -
219C TYR* 4.2 7.8 - - + +
239C ILE* 3.7 42.2 - - + -
243C GLN* 4.0 16.5 + - + +
244C PHE* 3.5 26.1 - + - -
247C VAL* 3.9 29.2 - - + +
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Residues in contact with ASP 182 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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166B LYS* 3.9 10.1 - - + -
168B TYR* 2.5 37.5 + - - +
234B ILE* 4.1 33.4 - - + +
178C ARG* 2.9 20.9 + - - +
179C LEU 3.3 2.9 - - - +
181C TYR* 1.3 76.0 - - - +
183C ILE* 1.3 65.2 + - - +
185C GLU* 3.0 15.6 + - - +
186C GLU* 3.2 16.3 + - - +
243C GLN* 2.9 26.0 + - - +
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Residues in contact with ILE 183 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164B ASP* 4.1 20.4 - - - +
166B LYS* 4.2 4.0 - - - -
179C LEU* 2.7 50.5 + - + +
180C ILE 3.7 2.5 - - - +
182C ASP* 1.3 72.2 - - - +
184C PHE* 1.3 63.3 + - - +
186C GLU* 3.0 13.4 + - + +
187C GLU* 2.9 31.5 + - + +
193C LEU* 3.7 32.5 - - + +
196C ARG* 5.1 16.4 - - + +
197C LEU* 4.6 11.7 - - + -
200C LEU* 4.3 14.8 - - + -
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Residues in contact with PHE 184 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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180C ILE 2.8 20.9 + - - +
181C TYR 3.7 2.9 - - - +
183C ILE* 1.3 75.7 - - - +
185C GLU* 1.3 60.8 + - - +
187C GLU* 5.2 0.7 - - - -
188C GLN* 2.8 39.3 + - - +
189C SER* 3.2 39.5 - - - -
190C ILE* 3.8 9.0 - - + -
193C LEU* 4.3 8.5 - - + +
214C LEU* 3.4 28.5 - - + -
247C VAL* 3.4 34.8 - - + -
250C ILE* 3.9 24.6 - - + +
251C PHE* 3.7 27.8 - + - -
254C MET* 5.4 3.4 - - + -
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Residues in contact with GLU 185 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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234B ILE* 6.1 1.0 - - - +
181C TYR 2.9 17.1 + - - +
182C ASP* 3.0 6.6 + - - +
184C PHE* 1.3 78.7 - - - +
186C GLU* 1.3 60.4 + - + +
188C GLN* 3.6 17.2 + - - -
243C GLN* 3.1 29.9 + - - +
246C ARG* 2.8 55.3 + - - +
247C VAL* 4.4 8.7 - - + -
250C ILE* 4.1 13.2 - - + -
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Residues in contact with GLU 186 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148B LEU* 4.2 18.7 - - + +
164B ASP* 4.4 1.0 - - - +
165B THR* 5.0 2.8 - - - +
166B LYS* 2.7 41.4 + - - +
182C ASP 3.5 11.8 - - - +
183C ILE* 3.0 13.5 + - - +
185C GLU* 1.3 80.2 - - + +
187C GLU* 1.3 75.7 + - + +
188C GLN* 3.5 10.2 + - - +
196C ARG* 5.1 6.0 + - - -
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Residues in contact with GLU 187 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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183C ILE* 2.9 23.4 + - + +
184C PHE* 5.2 1.1 - - - -
186C GLU* 1.3 87.2 - - + +
188C GLN* 1.3 76.1 + - - +
189C SER* 3.2 9.5 + - - +
192C PHE* 3.4 49.9 - - + +
193C LEU 4.8 1.8 - - - +
196C ARG* 5.1 16.2 + - - +
427C ARG* 4.3 11.8 + - - -
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Residues in contact with GLN 188 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184C PHE* 2.8 35.0 + - - +
185C GLU 3.6 18.4 + - - +
186C GLU 3.5 11.1 + - - +
187C GLU* 1.3 76.9 - - - +
189C SER* 1.3 56.0 + - - +
250C ILE* 3.8 27.4 - - + +
253C ARG* 2.9 27.9 + - - +
254C MET* 4.7 2.3 - - - +
261C ASN* 2.8 22.3 + - - +
427C ARG* 3.4 18.4 + - - +
431C LEU* 3.8 12.2 - - - +
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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