Contacts of the strand formed by residues 182 - 192 (chain C) in PDB entry 4BEI
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 GLY 182 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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177C VAL* 3.7 20.3 - - - +
181C GLY* 1.3 75.8 - - - -
183C PHE* 1.3 58.0 + - - -
237C ASN* 3.5 6.5 + - - +
238C PHE* 2.7 42.4 + - - +
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Residues in contact with PHE 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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174C ILE* 4.5 9.0 - - - +
177C VAL* 4.4 1.3 - - - +
182C GLY* 1.3 74.8 - - - +
184C VAL* 1.3 63.5 + - - +
185C PRO* 3.9 31.2 - - + +
235C GLY* 3.6 33.0 - - - -
236C ILE 3.5 14.6 - - - -
237C ASN* 3.8 17.0 - - + +
100D GLN* 4.5 12.8 - - - -
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Residues in contact with VAL 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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170C ASN* 3.7 22.0 - - - +
174C ILE* 4.0 17.9 - - + +
177C VAL* 3.8 24.2 - - + -
183C PHE* 1.3 79.4 - - - +
185C PRO* 1.3 69.7 - - + +
186C PHE* 3.5 33.7 - - + -
235C GLY* 3.4 1.4 - - - -
236C ILE 2.9 29.6 + - - -
238C PHE* 3.8 18.4 - - + -
268C VAL* 4.4 7.9 - - + -
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Residues in contact with PRO 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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170C ASN* 4.1 0.7 - - - +
171C GLN* 3.2 42.3 + - - +
172C PHE* 3.6 25.4 - - + +
174C ILE* 4.5 7.6 - - + -
183C PHE* 3.9 23.1 - - + +
184C VAL* 1.3 92.3 - - + +
186C PHE* 1.3 65.3 + - - +
233C VAL* 4.0 11.9 - - + -
235C GLY* 3.7 8.5 - - - -
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Residues in contact with PHE 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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168C ILE* 4.7 2.5 - - + -
169C LYS 3.3 7.4 - - - +
170C ASN* 3.5 34.5 - - + -
184C VAL* 3.5 34.8 - - + -
185C PRO* 1.3 76.6 - - - +
187C THR* 1.3 67.0 + - - +
188C VAL* 3.8 3.3 + - + +
204C MET* 4.5 16.6 - - + -
216C VAL* 5.6 1.3 - - + -
233C VAL* 3.4 4.0 - - - -
234C ARG 2.8 47.5 + - - +
235C GLY* 4.8 0.2 - - - -
236C ILE* 3.7 19.7 - - + -
249C ILE* 3.7 29.4 - - + -
266C MET* 4.0 27.1 - - + -
268C VAL* 4.1 7.2 - - + -
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Residues in contact with THR 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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167C ASP 3.5 1.9 + - - +
168C ILE* 3.3 7.4 - - - +
169C LYS* 2.9 51.7 + - - +
171C GLN* 3.6 37.1 - - + +
186C PHE* 1.3 73.8 - - - +
188C VAL* 1.3 62.9 + - - +
189C ASP* 4.4 11.4 + - - -
232C LYS 3.7 4.7 - - - +
233C VAL* 4.4 9.9 - - + +
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Residues in contact with VAL 188 (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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167C ASP 3.6 2.0 - - - -
168C ILE* 4.1 16.2 - - + -
186C PHE 4.1 9.4 - - - +
187C THR* 1.3 78.1 - - - +
189C ASP* 1.3 66.5 + - - +
190C LEU* 3.7 23.3 - - + -
202C PHE* 4.0 21.5 - - + -
204C MET* 4.2 22.2 - - + -
230C TYR* 3.7 10.7 - - + +
231C SER* 3.4 3.6 - - - -
232C LYS* 2.8 46.7 + - + +
234C ARG* 4.4 10.1 - - + -
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Residues in contact with ASP 189 (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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165C THR* 3.8 1.9 + - - +
166C ILE* 3.6 1.0 - - - -
167C ASP* 2.7 59.2 + - + +
169C LYS* 5.5 2.6 + - - -
187C THR* 4.4 13.0 + - - -
188C VAL* 1.3 78.3 - - - +
190C LEU* 1.3 62.9 + - - +
191C ASN* 3.9 3.2 + - + +
229C THR* 4.2 9.5 - - + +
230C TYR 3.5 2.2 - - - -
231C SER* 2.6 30.7 + - - -
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Residues in contact with LEU 190 (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 LEU* 4.4 5.6 - - + -
165C THR 3.4 5.4 - - - +
166C ILE* 4.2 30.3 - - + -
168C ILE* 4.7 2.0 - - + -
188C VAL* 3.7 21.5 - - + -
189C ASP* 1.3 77.3 - - - +
191C ASN* 1.3 60.2 + - - +
192C ASN 3.9 1.6 + - - -
200C VAL* 4.5 9.6 - - + -
202C PHE* 4.4 24.2 - - + -
222C TRP* 5.9 1.3 - - + -
224C ILE* 4.2 18.3 - - + +
228C ASP 4.1 0.3 - - - +
229C THR* 3.5 4.0 - - - -
230C TYR* 2.9 59.6 + - + +
253C VAL* 4.4 11.0 - - + -
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Residues in contact with ASN 191 (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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163C GLY 3.5 0.7 - - - +
164C LEU* 3.5 2.7 - - - -
165C THR* 2.8 57.5 + - - +
189C ASP* 3.9 3.5 - - + +
190C LEU* 1.3 71.8 - - - +
192C ASN* 1.3 68.9 + - - +
193C GLY* 3.2 10.5 + - - +
227C GLY* 4.2 6.6 - - - +
228C ASP 3.5 9.8 - - - +
229C THR* 4.1 16.6 + - + -
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Residues in contact with ASN 192 (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 LEU* 3.5 12.5 - - + +
190C LEU 3.9 1.0 + - - -
191C ASN* 1.3 73.4 + - - +
193C GLY* 1.3 58.7 + - - +
194C ARG* 3.0 29.5 + - - +
196C GLY 3.2 19.3 + - - -
198C ALA* 3.4 13.7 - - - +
224C ILE* 2.8 46.3 + - + -
225C ALA 3.2 12.2 + - - +
226C SER* 3.9 2.0 - - - +
227C GLY* 3.0 28.4 + - - -
228C ASP 3.1 6.7 + - - +
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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