Contacts of the strand formed by residues 166 - 173 (chain C) in PDB entry 5FLZ
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 ILE 166 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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604A MET* 4.2 16.2 - - + +
134C GLU* 3.6 23.1 + - + +
135C GLY* 3.2 8.6 - - - -
136C PHE* 3.0 25.3 + - - +
165C LYS* 1.4 73.7 - - - +
167C LEU* 1.4 68.6 + - - +
168C THR* 4.6 8.1 - - + -
199C ASP* 4.1 13.2 - - + +
200C ALA* 6.0 0.4 - - + -
252C MET* 3.7 41.3 - - + +
253C SER* 5.2 2.9 - - - +
256C TYR* 4.3 30.7 - - + -
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Residues in contact with LEU 167 (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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136C PHE* 3.8 22.0 - - + +
138C LEU* 4.3 9.0 - - + -
155C LEU* 4.1 12.8 - - + +
158C LEU* 4.4 29.2 - - + -
159C CYS* 5.6 0.9 - - - +
165C LYS 3.8 2.2 + - - +
166C ILE* 1.4 75.7 - - - +
168C THR* 1.4 76.5 + - - +
169C THR* 4.2 6.7 - - + -
197C ASP 3.4 25.6 - - - +
198C SER* 3.9 16.6 - - - +
199C ASP* 3.6 18.8 + - - +
200C ALA* 3.3 22.3 + - - +
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Residues in contact with THR 168 (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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136C PHE 3.0 22.3 + - - +
137C GLN* 3.3 19.4 - - - +
138C LEU 2.8 22.2 + - - -
166C ILE* 4.6 10.5 - - + -
167C LEU* 1.4 74.7 - - - +
169C THR* 1.4 67.6 + - - +
170C TYR* 3.7 14.3 + - - +
200C ALA* 3.4 18.4 - - + -
202C VAL* 5.7 2.9 - - - -
252C MET* 4.1 31.5 - - + +
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Residues in contact with THR 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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138C LEU* 3.4 24.2 - - + -
140C HIS* 3.9 10.5 - - - -
167C LEU* 4.2 5.4 - - + -
168C THR* 1.4 81.2 - - - +
170C TYR* 1.3 58.9 + - - +
171C SER* 2.9 21.2 + - - -
194C LEU* 3.7 5.5 - - + +
198C SER* 3.4 26.2 - - - +
200C ALA 3.1 8.5 + - - +
201C THR* 3.0 14.4 + - - -
202C VAL* 2.8 36.0 + - - +
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Residues in contact with TYR 170 (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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137C GLN* 3.8 31.1 + - + -
138C LEU 2.8 16.2 + - - +
139C LEU* 4.0 20.9 - - + -
140C HIS* 3.3 27.1 + - - +
168C THR* 3.7 24.2 + - - +
169C THR* 1.3 68.9 - - - +
171C SER* 1.3 60.9 + - - +
172C VAL* 4.1 1.0 - - - +
202C VAL* 3.5 34.8 - - + +
204C PHE* 3.6 34.1 - + + -
235C ILE* 4.0 21.5 - - + +
238C VAL* 5.5 10.2 - - + +
239C THR* 5.6 1.9 - - - +
252C MET* 5.0 7.4 - - - +
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Residues in contact with SER 171 (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 HIS* 3.3 20.6 + - - -
142C VAL* 4.8 6.5 - - - -
169C THR* 2.9 22.5 + - - -
170C TYR* 1.3 71.7 - - - +
172C VAL* 1.4 63.4 + - - +
173C PHE 3.8 0.7 + - - -
194C LEU* 3.5 23.3 - - - +
201C THR* 3.6 4.8 + - - -
202C VAL 3.1 9.1 + - - +
203C VAL* 3.8 9.2 - - - +
204C PHE* 2.9 24.4 + - - -
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Residues in contact with VAL 172 (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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13C CYS* 4.1 14.1 - - + -
17C VAL* 6.3 1.6 - - + -
140C HIS 3.2 26.1 + - - +
141C SER* 3.5 20.2 - - - +
142C VAL* 3.5 25.0 + - - +
143C ALA* 5.0 1.1 + - + +
170C TYR 5.7 0.4 - - - +
171C SER* 1.4 70.7 - - - +
173C PHE* 1.4 58.7 + - - +
174C PRO 4.3 0.2 - - - -
204C PHE* 3.2 7.2 - - + +
206C ASN* 3.6 28.0 - - - +
228C ASN* 5.0 4.9 - - - +
231C ILE* 3.6 36.8 - - + -
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Residues in contact with PHE 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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142C VAL* 5.3 3.4 - - + -
171C SER 3.8 1.4 + - - -
172C VAL* 1.4 69.7 - - - +
174C PRO* 1.4 93.2 - - + +
176C ARG 5.5 4.9 - - - -
187C THR* 4.6 20.9 - - + -
203C VAL* 4.7 13.9 - - + -
204C PHE 3.0 6.5 + - - +
205C ASP* 3.2 37.2 - - + +
206C ASN* 3.1 21.1 + - - +
207C ALA* 6.4 0.2 - - + -
386C VAL* 3.3 32.5 - - + -
387C PHE* 6.4 0.7 - + - -
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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