Contacts of the strand formed by residues 157 - 160 (chain C) in PDB entry 3UNF
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 ALA 157 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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33C GLY 3.3 8.7 - - - +
34C VAL* 3.8 12.3 - - + -
143C LEU* 3.9 0.9 - - - -
155C TRP* 3.3 19.4 - - - -
156C LYS* 1.3 79.3 - - - +
158C ASN* 1.3 66.9 + - - +
171C LEU* 3.8 22.9 - - + -
175C TYR* 3.6 24.5 - - + -
50D LEU* 3.6 16.2 + - + +
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Residues in contact with ASN 158 (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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32C VAL* 3.2 9.0 - - - +
33C GLY 2.9 31.7 + - - +
131C LEU* 4.0 15.0 - - + +
143C LEU* 5.3 1.1 - - + -
145C GLN* 3.2 45.1 - - - +
155C TRP* 3.3 37.5 - - + -
157C ALA* 1.3 75.9 - - - +
159C ALA* 1.3 81.2 + - - +
160C ILE* 4.7 0.2 - - - +
168C ARG* 3.6 16.2 + - - +
171C LEU* 4.9 4.0 - - - +
50D LEU* 5.5 2.2 - - - -
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Residues in contact with ALA 159 (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 THR* 5.3 2.7 - - + -
31C ALA 3.2 9.6 - - - +
32C VAL* 4.3 3.6 - - + -
131C LEU* 5.0 0.4 - - - -
158C ASN* 1.3 80.7 + - - +
160C ILE* 1.3 69.8 + - - +
164C ALA* 3.6 21.8 - - - +
167C VAL* 3.9 33.7 - - + -
168C ARG* 3.5 26.6 + - - +
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Residues in contact with ILE 160 (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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25C VAL* 4.7 2.0 - - + -
29C SER 3.7 1.0 - - - +
30C THR* 3.7 4.7 - - - +
31C ALA* 2.9 43.8 + - + +
71C ALA 4.6 0.2 - - - +
72C PHE 4.4 3.1 - - - -
73C ALA* 4.0 14.1 - - + +
129C SER* 3.4 46.2 - - - +
130C ALA 4.0 4.0 - - - +
131C LEU* 3.8 26.0 - - + +
145C GLN* 3.5 27.1 - - - +
158C ASN* 4.7 1.6 - - - +
159C ALA* 1.3 78.8 - - - +
161C GLY* 1.3 60.8 + - - +
164C ALA* 3.8 5.8 - - - -
168C ARG* 5.1 3.6 - - - +
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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