Contacts of the helix formed by residues 165 - 183 (chain C) in PDB entry 4OE5
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 165 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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161C ASP* 3.1 21.4 + - + +
164C ALA* 1.3 80.2 - - + +
166C LEU* 1.3 62.0 + - - +
167C ILE 3.6 0.4 - - - -
169C PHE* 2.9 47.0 + - + +
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Residues in contact with LEU 166 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135C LEU* 3.7 34.1 - - + -
143C ILE* 4.0 14.1 - - + -
161C ASP 3.2 7.5 + - - +
162C ALA* 3.5 15.0 - - - +
165C GLU* 1.3 79.3 - - - +
167C ILE* 1.3 63.2 + - + +
169C PHE* 4.1 1.1 - - - +
170C PHE* 3.2 40.5 + - + -
215C ILE* 4.8 10.1 - - + -
217C GLY* 4.6 16.6 - - - +
218C ASN 5.6 0.4 - - - +
245C VAL* 3.8 37.5 - - + -
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Residues in contact with ILE 167 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C GLU* 3.9 20.9 - - + -
132C ALA* 3.8 14.6 - - + +
135C LEU* 3.8 27.6 - - + +
136C SER* 3.7 26.2 - - - +
140C ARG* 4.3 7.2 - - + +
143C ILE* 6.1 0.4 - - + -
162C ALA* 2.9 31.6 + - + +
163C ALA* 3.9 3.6 - - - +
166C LEU* 1.3 70.5 - - + +
168C ASP* 1.3 67.3 + - - +
170C PHE* 3.2 5.5 + - - +
171C ARG* 3.1 56.4 + - - +
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Residues in contact with ASP 168 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33C ALA 4.4 1.6 - - - +
34C ASN* 2.8 33.4 + - - +
35C GLU* 2.8 32.0 + - - +
163C ALA 3.0 22.6 + - - +
164C ALA* 3.6 21.9 - - - +
166C LEU 3.5 0.2 - - - -
167C ILE* 1.3 75.5 - - - +
169C PHE* 1.3 60.7 + - + +
171C ARG* 4.7 3.1 + - - +
172C PHE* 2.9 46.1 + - + +
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Residues in contact with PHE 169 (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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164C ALA 4.1 10.3 - - - -
165C GLU* 2.9 38.8 + - + +
166C LEU* 4.1 2.7 - - - +
168C ASP* 1.3 75.5 - - + +
170C PHE* 1.3 67.5 + - + +
172C PHE* 5.0 1.8 - - + -
173C ASN* 3.0 47.7 + - - +
218C ASN* 3.5 44.6 - - + +
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Residues in contact with PHE 170 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128C PHE* 3.7 47.7 - + - +
131C ALA* 4.0 3.6 - - + -
132C ALA* 3.8 21.5 - - + -
135C LEU* 3.9 23.6 - - + -
166C LEU* 3.2 27.9 + - + -
167C ILE 3.2 8.8 + - - +
169C PHE* 1.3 79.9 - - + +
171C ARG* 1.3 62.5 + - - +
173C ASN* 4.0 4.0 - - - +
174C ALA* 3.2 23.4 + - - +
217C GLY 4.5 10.3 - - - -
218C ASN* 5.4 4.3 - - - -
221C GLY* 4.4 14.1 - - - -
225C LEU* 5.3 0.2 - - - +
245C VAL* 4.3 6.3 - - + -
249C LEU* 3.9 35.4 - - + -
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Residues in contact with ARG 171 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C VAL* 3.9 23.4 - - + +
33C ALA 4.5 12.5 + - - +
35C GLU* 2.8 37.2 + - - +
129C LEU* 3.9 22.1 + - + +
132C ALA* 3.6 16.5 + - + +
133C ASP* 2.9 28.1 + - - -
136C SER* 3.5 20.8 + - - -
167C ILE* 3.1 30.3 + - - +
168C ASP* 4.1 4.1 + - - +
170C PHE* 1.3 76.0 - - - +
172C PHE* 1.3 63.4 + - + +
174C ALA* 3.2 4.7 + - - +
175C LYS* 3.0 25.8 + - - +
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Residues in contact with PHE 172 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C VAL* 3.4 35.2 - - + -
33C ALA* 3.9 19.5 - - - -
34C ASN* 3.6 32.1 - - - -
168C ASP* 2.9 41.1 + - + +
169C PHE* 4.7 2.0 - - + +
171C ARG* 1.3 73.4 - - + +
173C ASN* 1.3 63.1 + - - +
175C LYS* 3.3 16.3 + - + +
176C TYR* 2.9 29.1 + - - +
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Residues in contact with ASN 173 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169C PHE* 3.0 37.0 + - - +
170C PHE* 4.0 4.6 - - - +
172C PHE* 1.3 75.2 - - - +
174C ALA* 1.3 58.9 + - - +
176C TYR* 3.3 6.3 + - - +
177C ALA* 2.9 26.7 + - - +
218C ASN* 2.7 31.7 + - - +
221C GLY 5.1 0.8 - - - -
222C ALA* 3.8 19.4 - - - +
225C LEU* 3.4 23.0 - - + +
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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
----------------------------------------------------------
30C LEU* 4.1 4.3 - - + -
125C ALA* 3.9 25.4 - - + +
128C PHE* 4.9 2.2 - - + -
129C LEU* 4.0 20.0 - - + -
170C PHE 3.2 12.9 + - - +
171C ARG 3.3 10.1 - - - +
172C PHE 3.1 0.2 - - - -
173C ASN* 1.3 81.7 - - - +
175C LYS* 1.3 61.2 + - - +
177C ALA* 3.5 1.7 + - - +
178C VAL* 3.1 29.3 + - - +
225C LEU* 3.8 10.9 - - + +
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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
----------------------------------------------------------
29C SER* 5.3 0.5 + - - -
30C LEU* 3.6 37.3 + - + +
31C LYS* 4.6 6.1 - - - +
32C VAL* 3.7 34.4 + - + +
171C ARG 3.0 13.6 + - - +
172C PHE* 3.6 17.0 - - + +
174C ALA* 1.3 77.2 - - - +
176C TYR* 1.3 59.1 + - - +
178C VAL* 3.2 2.9 + - - +
179C GLU* 2.8 35.1 + - + +
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Residues in contact with TYR 176 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172C PHE 2.9 21.6 + - - +
173C ASN* 3.7 7.2 - - - +
175C LYS* 1.3 74.3 - - - +
177C ALA* 1.3 57.9 + - - +
179C GLU* 3.8 6.0 - - - +
180C LEU* 2.8 32.2 + - - +
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Residues in contact with ALA 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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121C ILE* 3.7 31.1 - - + +
173C ASN 2.9 17.6 + - - +
174C ALA 3.8 3.6 - - - +
176C TYR* 1.3 76.8 - - - +
178C VAL* 1.3 63.1 + - - +
180C LEU* 3.3 8.0 + - - +
181C GLU* 3.1 22.9 + - - +
225C LEU* 4.0 6.7 - - + -
226C MET* 3.8 26.5 - - + -
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Residues in contact with VAL 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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28C SER 3.9 9.0 - - - +
29C SER* 3.8 30.6 + - - +
30C LEU* 4.0 22.4 - - + +
121C ILE* 4.4 8.1 - - + -
122C ALA* 4.3 20.2 - - + +
125C ALA* 4.0 16.6 - - + -
174C ALA 3.1 18.9 + - - +
175C LYS* 3.8 2.9 - - - +
177C ALA* 1.3 77.7 - - - +
179C GLU* 1.3 62.0 + - - +
181C GLU* 3.3 10.6 + - + +
182C GLY* 3.2 16.5 + - - -
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Residues in contact with GLU 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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29C SER* 4.4 15.0 + - - +
175C LYS* 2.8 25.0 + - + +
176C TYR* 3.9 5.8 - - - +
178C VAL* 1.3 74.6 - - - +
180C LEU* 1.3 64.3 + - - +
182C GLY* 3.1 12.5 + - - +
183C GLN* 3.2 11.6 + - - +
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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
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176C TYR 2.8 18.4 + - - +
177C ALA* 3.5 5.8 - - - +
178C VAL 3.2 0.2 - - - -
179C GLU* 1.3 73.3 - - - +
181C GLU* 1.3 66.8 + - - +
183C GLN* 3.0 23.8 + - + +
197C TYR* 3.2 62.4 - - + +
226C MET* 4.1 24.0 - - + -
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Residues in contact with GLU 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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121C ILE* 3.6 32.0 - - + +
177C ALA 3.1 12.8 + - - +
178C VAL* 3.3 11.2 - - + +
180C LEU* 1.3 77.6 - - - +
182C GLY* 1.3 57.7 + - - +
184C GLN* 2.9 30.8 + - - +
195C THR 4.5 8.3 - - - +
196C VAL* 5.2 1.6 - - - +
197C TYR* 3.6 32.1 + - - +
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Residues in contact with GLY 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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178C VAL 3.2 6.6 + - - -
179C GLU* 3.1 10.5 + - - -
181C GLU* 1.3 77.9 - - - +
183C GLN* 1.3 57.9 + - - +
184C GLN* 3.0 15.0 + - - +
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Residues in contact with GLN 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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179C GLU 3.2 8.6 + - - +
180C LEU* 3.0 23.0 + - + +
181C GLU 3.1 0.2 - - - -
182C GLY* 1.3 72.2 - - - +
184C GLN* 1.3 66.1 + - - +
195C THR* 4.6 3.6 - - - -
197C TYR* 3.3 21.4 + - - +
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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