Contacts of the strand formed by residues 160 - 167 (chain C) in PDB entry 1FTA
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 VAL 160 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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30C LEU* 3.8 21.3 - - + -
113C TYR* 4.4 4.9 - - + -
138C ILE* 2.9 20.8 + - + +
139C TYR 4.3 4.0 - - - -
140C ARG* 4.1 30.7 - - + +
158C ASN 4.4 4.7 - - - +
159C LEU* 1.3 76.1 - - - +
161C ALA* 1.3 60.1 + - - +
177C MET* 4.0 11.1 - - - +
178C ASP* 4.2 4.3 + - - +
286C TYR* 3.7 10.8 + - - -
338C AMP 3.5 35.0 - - - +
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Residues in contact with ALA 161 (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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30C LEU* 5.3 4.7 - - + -
34C LEU* 5.1 3.4 - - + -
137C GLY* 3.8 0.2 - - - -
138C ILE* 3.0 48.1 + - + +
159C LEU* 3.5 3.8 - - - +
160C VAL* 1.3 84.5 - - + +
162C ALA* 1.3 64.0 + - - +
175C LEU* 4.6 7.9 - - + -
176C ALA 3.2 11.9 - - - +
177C MET* 3.8 17.5 - - + +
286C TYR* 4.5 3.4 - - - -
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Residues in contact with ALA 162 (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* 3.4 23.5 - - - +
137C GLY* 4.2 1.8 - - - -
159C LEU* 4.2 9.2 - - + -
161C ALA* 1.3 77.3 - - - +
163C GLY* 1.3 58.7 + - - +
175C LEU* 3.6 3.5 - - - +
176C ALA* 2.7 31.8 + - - +
283C PRO* 3.9 22.2 - - + +
286C TYR* 3.8 19.5 - - + -
287C VAL* 4.5 2.2 - - + -
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Residues in contact with GLY 163 (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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135C ILE* 3.7 5.1 - - - +
136C PHE* 3.0 40.0 + - - +
162C ALA* 1.3 77.6 - - - +
164C TYR* 1.3 64.0 + - - +
174C VAL 3.1 13.9 - - - -
283C PRO* 4.5 3.1 - - - +
284C MET* 5.8 0.2 - - - -
287C VAL* 4.1 14.7 - - - +
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Residues in contact with TYR 164 (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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134C THR 3.1 14.4 - - - +
135C ILE* 4.3 2.7 - - + -
136C PHE* 3.8 8.4 - - - -
163C GLY* 1.3 78.3 - - - +
165C ALA* 1.3 61.9 + - - +
166C LEU* 4.2 9.2 - - + -
172C MET* 5.5 0.7 - - + -
173C LEU* 3.3 3.3 - - - +
174C VAL* 2.8 59.7 + - + +
249C VAL* 3.5 23.8 - - + -
252C VAL* 4.3 4.5 + - + +
253C HIS* 2.7 55.0 + + + -
256C LEU* 3.8 11.1 - - - +
284C MET* 3.7 37.9 - - + -
287C VAL* 4.3 12.8 - - + -
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Residues in contact with ALA 165 (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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41C VAL* 3.8 33.4 - - + -
133C GLY* 3.0 6.1 - - - -
134C THR* 2.8 32.6 + - - +
136C PHE* 5.7 0.7 - - + -
164C TYR* 1.3 78.3 - - - +
166C LEU* 1.3 59.0 + - - +
167C TYR* 3.9 14.4 - - + +
171C THR* 5.2 1.1 - - + -
172C MET 3.1 10.3 - - - +
173C LEU* 4.0 10.5 - - + -
249C VAL* 3.9 2.3 - - - +
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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
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131C SER* 3.9 22.4 - - - -
132C VAL 3.8 10.8 - - - +
164C TYR* 4.2 8.3 - - + -
165C ALA* 1.3 73.0 - - - +
167C TYR* 1.3 65.3 + - - +
168C GLY* 3.5 9.1 + - - +
170C ALA 3.5 0.2 - - - +
171C THR* 3.2 5.7 - - - +
172C MET* 2.7 39.5 + - + +
249C VAL* 3.8 19.7 - - + +
250C ALA* 4.3 13.5 - - + +
253C HIS* 3.9 37.0 - - + +
128D CYS 4.2 2.9 - - - +
129D LEU* 4.2 24.5 - - + +
130D VAL* 6.5 0.7 - - + -
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Residues in contact with TYR 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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41C VAL* 3.9 12.1 - - + +
44C ILE* 3.8 17.1 - - + +
45C SER* 3.7 31.0 - - - -
48C VAL* 4.1 16.8 - - + -
49C ARG* 4.0 6.5 - - - +
120C LEU* 4.0 11.2 - - + -
131C SER* 3.5 5.2 - - - -
132C VAL* 2.8 58.9 + - + +
133C GLY* 3.5 13.5 - - - -
134C THR* 2.8 32.3 + - - -
165C ALA* 3.9 15.1 - - + +
166C LEU* 1.3 72.1 - - - +
168C GLY* 1.3 59.3 + - - +
171C THR* 3.6 28.9 - - + +
169D SER* 4.2 5.8 - - - -
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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