Contacts of the helix formed by residues 169 - 185 (chain C) in PDB entry 3KQ4
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 169 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129C ALA* 4.0 15.4 - - + +
130C SER* 4.5 11.3 - - - +
133C TYR* 5.2 0.2 - - - -
167C PRO 3.4 3.6 + - - +
168C PHE* 1.3 79.4 - - - +
170C VAL* 1.3 59.8 + - - +
171C ASP* 3.0 27.2 + - - +
172C THR* 2.6 44.5 + - - +
173C GLY* 2.9 22.7 + - - -
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Residues in contact with VAL 170 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168C PHE* 3.7 23.9 + - + -
169C ASN* 1.3 70.8 - - - +
171C ASP* 1.3 68.8 + - - +
173C GLY* 2.8 1.7 + - - -
174C ALA* 2.7 23.6 + - - +
210C ILE* 4.6 10.7 - - + +
213C LYS* 3.9 22.9 - - + +
220C ILE* 4.4 6.5 - - + +
221C GLY* 3.9 20.6 - - - -
225C SER* 3.5 22.7 - - - +
229C ALA* 4.0 24.2 - - + -
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Residues in contact with ASP 171 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133C TYR* 4.0 19.4 - - + -
169C ASN* 3.0 25.6 + - - +
170C VAL* 1.3 79.9 + - - +
172C THR* 1.3 62.4 + - - +
174C ALA* 3.3 6.0 + - - +
175C MET* 3.2 22.5 + - - +
222C ASP* 4.5 3.3 - - - +
224C TYR 4.2 3.5 - - - +
225C SER* 3.2 34.7 + - - -
228C LEU* 4.2 15.1 - - + +
270C GLN* 5.4 1.6 - - - +
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Residues in contact with THR 172 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129C ALA* 3.6 16.2 - - + +
130C SER* 3.1 18.9 - - - -
132C PHE* 3.5 15.5 - - + +
133C TYR* 3.3 41.2 - - - +
136C SER* 4.8 1.3 - - - +
161C LEU* 5.1 3.4 - - + -
169C ASN* 2.6 33.4 + - - -
171C ASP* 1.3 68.1 - - - +
173C GLY* 1.3 68.7 + - - +
174C ALA 3.1 1.6 - - - -
175C MET* 4.6 0.4 - - - -
176C ALA* 2.9 25.6 + - + +
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Residues in contact with GLY 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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161C LEU* 6.5 0.2 - - - -
168C PHE* 3.7 27.8 - - - -
169C ASN 2.9 10.1 + - - -
170C VAL 2.8 10.1 + - - -
172C THR* 1.3 73.5 - - - +
174C ALA* 1.3 54.4 + - - +
176C ALA* 3.5 2.3 - - - +
177C THR* 2.5 37.8 + - - +
206C ILE* 4.1 11.1 - - - +
210C ILE* 4.3 2.7 - - - -
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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
----------------------------------------------------------
170C VAL 2.7 15.8 + - - +
171C ASP 3.4 9.2 - - - +
173C GLY* 1.3 71.3 - - - +
175C MET* 1.3 63.1 + - - +
177C THR* 3.1 16.0 + - - -
178C LEU* 3.3 14.3 + - - +
210C ILE* 4.1 4.7 - - + +
228C LEU* 3.7 15.0 - - + +
229C ALA* 3.7 34.1 - - + +
232C ALA* 3.7 14.3 - - + +
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Residues in contact with MET 175 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94C LEU* 6.1 0.4 - - + -
133C TYR* 3.6 45.3 - - + +
136C SER* 3.7 19.9 - - - +
137C LEU* 3.3 28.7 - - + -
140C LEU* 5.5 2.8 - - - +
171C ASP 3.2 8.0 + - - +
172C THR* 3.9 2.9 - - - +
174C ALA* 1.3 76.1 - - - +
176C ALA* 1.3 67.9 + - - +
178C LEU* 3.1 28.2 + - + +
179C ALA* 3.1 11.3 + - - +
228C LEU* 3.7 22.4 - - + -
270C GLN* 4.5 2.5 - - - +
280C TYR* 3.4 31.6 - - + -
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Residues in contact with ALA 176 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136C SER* 3.3 19.1 + - - +
157C PHE* 4.2 6.1 - - + -
161C LEU* 3.9 19.5 - - + -
172C THR* 2.9 18.0 + - + +
173C GLY* 3.5 4.0 - - - +
175C MET* 1.3 76.9 - - - +
177C THR* 1.3 58.0 + - - +
179C ALA* 3.3 2.4 + - - +
180C LEU* 2.8 34.8 + - + +
206C ILE* 3.9 19.1 - - + -
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Residues in contact with THR 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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173C GLY 2.5 30.5 + - - +
174C ALA* 3.1 11.0 + - - +
176C ALA* 1.3 74.1 - - - +
178C LEU* 1.3 53.5 + - - +
180C LEU 3.6 0.2 - - - -
181C THR* 2.5 42.0 + - - -
203C LEU* 3.7 11.4 - - - +
206C ILE* 3.2 26.0 - - + -
207C VAL* 5.3 0.7 - - + -
210C ILE* 4.7 2.5 - - + -
232C ALA* 3.3 24.8 + - + +
235C VAL* 4.9 0.5 - - - +
236C THR* 3.6 24.4 - - + +
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Residues in contact with LEU 178 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140C LEU* 4.0 16.4 - - + +
174C ALA 3.3 12.1 + - - +
175C MET* 3.1 27.2 + - + +
177C THR* 1.3 75.6 + - - +
179C ALA* 1.3 65.4 + - - +
181C THR* 3.3 3.4 + - - -
182C CYS* 3.0 25.5 + - - +
228C LEU* 5.3 3.1 - - + +
231C GLN* 3.8 39.5 - - + +
232C ALA* 4.6 2.7 - - - +
235C VAL* 4.1 12.3 - - + -
279C THR* 4.4 7.4 - - - -
280C TYR* 4.4 15.3 - - + +
281C LEU* 4.0 26.4 - - + +
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Residues in contact with ALA 179 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136C SER* 3.5 30.5 - - - +
139C ILE* 4.2 13.6 - - + +
140C LEU* 4.0 19.6 - - - +
143C CYS* 5.0 0.9 - - - +
157C PHE* 4.9 6.5 - - + -
175C MET 3.1 7.7 + - - +
176C ALA* 3.6 7.6 - - - +
178C LEU* 1.3 79.3 - - - +
180C LEU* 1.3 63.4 + - - +
182C CYS* 3.5 3.5 + - - +
183C MET* 3.3 25.8 + - - +
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Residues in contact with LEU 180 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139C ILE* 5.4 1.1 - - + -
154C ALA* 4.7 3.8 - - + +
157C PHE* 3.6 37.9 - - + -
158C ALA* 4.2 7.6 - - + -
161C LEU* 4.4 4.9 - - + -
176C ALA 2.8 16.7 + - - +
179C ALA* 1.3 79.1 - - + +
181C THR* 1.3 64.0 + - - +
183C MET* 4.0 8.2 - - + +
184C TYR* 3.2 24.3 + - - +
199C PHE* 4.1 35.5 - - + +
202C VAL* 3.8 27.8 - - + -
203C LEU* 3.5 20.9 - - + +
206C ILE* 5.6 0.7 - - + -
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Residues in contact with THR 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 THR 2.5 28.2 + - - -
178C LEU 3.3 3.1 + - - -
180C LEU* 1.3 72.2 - - - +
182C CYS* 1.3 68.0 + - - +
184C TYR* 3.3 3.3 + - - +
185C ASN* 3.0 42.8 + - - +
203C LEU* 3.8 14.9 - - - +
235C VAL* 3.4 42.7 - - + +
236C THR* 3.8 7.8 - - - -
237C PRO* 4.0 10.7 - - + +
281C LEU* 4.4 6.1 - - + -
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Residues in contact with CYS 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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140C LEU* 4.1 10.8 - - + -
143C CYS* 2.1 50.3 - - - -
144C GLN* 4.4 8.5 - - - -
178C LEU 3.0 17.1 + - - +
179C ALA 3.8 3.4 - - - +
181C THR* 1.3 77.7 - - - +
183C MET* 1.3 61.8 + - - +
185C ASN* 3.2 14.4 + - - +
186C LYS* 3.4 19.7 - - - +
281C LEU* 3.7 22.8 - - + +
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Residues in contact with MET 183 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139C ILE* 4.6 4.0 - - + -
143C CYS* 3.8 27.6 - - + -
147C SER* 3.8 14.1 - - - +
150C THR* 3.9 12.6 - - - -
151C LEU* 3.3 53.8 - - + +
154C ALA* 3.6 19.5 - - + -
179C ALA 3.3 14.6 + - - +
180C LEU* 4.1 7.6 - - + +
181C THR 3.2 0.4 - - - -
182C CYS* 1.3 73.0 - - - +
184C TYR* 1.3 67.1 + - - +
186C LYS* 2.9 20.1 + - - +
187C ILE* 3.5 12.7 - - + +
199C PHE* 3.9 15.3 - - + -
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Residues in contact with TYR 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 LEU 3.2 17.9 + - - +
181C THR 3.4 4.5 - - - +
183C MET* 1.3 78.7 - - - +
185C ASN* 1.3 75.1 + - - +
186C LYS 3.4 1.0 + - - -
187C ILE* 3.8 14.8 - - - +
196C ARG* 3.1 78.0 + - + +
199C PHE* 4.0 13.1 - - + -
200C GLY* 3.9 22.7 - - - -
203C LEU* 4.1 8.3 - - + -
237C PRO* 3.6 34.2 - - + +
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Residues in contact with ASN 185 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181C THR* 3.0 39.2 + - - +
182C CYS* 3.2 7.6 + - - +
183C MET 3.1 1.4 - - - -
184C TYR* 1.3 93.8 - - - +
186C LYS* 1.3 71.5 + - + +
187C ILE 3.7 1.8 - - - -
196C ARG* 5.2 2.1 + - - +
237C PRO* 5.7 0.6 - - - +
281C LEU* 6.1 0.2 - - - +
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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
------------------------------------------------------------
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