Contacts of the strand formed by residues 160 - 168 (chain A) in PDB entry 2ZTH
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 LEU 160 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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134A THR* 4.2 5.0 - - - +
135A LEU* 4.9 0.4 - - + -
138A VAL* 4.3 5.8 - - + -
151A THR* 4.1 8.1 - - + +
154A LEU* 4.0 22.6 + - + -
155A GLU* 3.6 37.9 - - + +
158A GLY* 3.4 5.6 - - - -
159A LEU* 1.3 86.4 - - - +
161A ARG* 1.3 58.0 + - - +
164A THR* 3.6 25.6 - - + +
166A LEU* 4.3 13.5 - - + -
189A PHE* 4.7 7.9 - - + -
212A TYR* 3.6 42.2 - - + -
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Residues in contact with ARG 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133A ASP* 5.7 0.2 - - - -
134A THR* 3.1 35.4 - - + +
135A LEU 4.0 1.6 - - - +
136A ASP* 2.4 44.9 + - - +
160A LEU* 1.3 72.2 - - - +
162A LYS* 1.3 83.4 + - - +
163A GLY* 3.2 17.4 + - - -
164A THR* 2.9 27.9 + - - +
212A TYR* 3.3 15.0 - - - +
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Residues in contact with LYS 162 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161A ARG* 1.3 90.2 + - - +
163A GLY* 1.3 60.9 + - - +
212A TYR* 3.4 12.0 - - - +
213A GLN* 3.4 47.1 + - - +
214A GLY* 4.6 3.2 - - - +
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Residues in contact with GLY 163 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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57A TYR* 5.4 2.3 - - - -
136A ASP 4.5 1.6 - - - +
161A ARG* 3.8 14.5 + - - -
162A LYS* 1.3 75.3 - - - +
164A THR* 1.3 67.9 + - - +
165A VAL* 3.0 15.8 + - - +
211A ILE* 3.8 12.5 - - - +
212A TYR 2.7 17.3 + - - -
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Residues in contact with THR 164 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135A LEU 2.8 30.6 + - - +
136A ASP* 3.8 11.4 - - - +
137A MET 4.2 1.6 - - - +
138A VAL* 4.3 5.2 - - + -
160A LEU* 3.6 15.1 - - + -
161A ARG* 2.9 35.2 + - - +
162A LYS 3.4 1.4 + - - -
163A GLY* 1.3 74.3 - - - +
165A VAL* 1.3 64.1 + - - +
166A LEU* 3.8 20.8 + - + +
211A ILE* 3.4 1.2 - - - -
212A TYR* 2.8 37.0 + - - +
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Residues in contact with VAL 165 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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53A VAL* 3.9 22.4 - - + -
57A TYR* 3.6 41.7 - - + -
136A ASP 3.4 11.7 + - - +
137A MET* 3.1 11.9 - - + +
138A VAL 2.9 23.9 + - - -
163A GLY 3.0 13.7 + - - +
164A THR* 1.3 72.4 - - - +
166A LEU* 1.3 67.3 + - - +
167A LEU* 5.1 0.9 - - + -
209A LYS* 3.7 25.8 - - + -
210A ALA 4.0 2.0 - - - -
211A ILE* 4.2 10.3 - - + +
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Residues in contact with LEU 166 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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138A VAL* 3.4 23.3 - - + +
140A LEU* 4.1 12.1 - - + -
151A THR* 3.9 36.6 - - + +
154A LEU* 5.3 3.8 - - + -
160A LEU* 4.3 12.3 - - + -
164A THR* 3.8 24.0 - - + +
165A VAL* 1.3 79.6 - - - +
167A LEU* 1.3 61.1 + - - +
179A PHE* 4.7 10.1 - - + -
189A PHE* 4.1 14.8 - - + -
208A GLU 3.9 2.0 - - - -
209A LYS* 3.2 9.9 - - - +
210A ALA* 2.8 45.6 + - + +
212A TYR* 5.2 0.4 - - + +
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Residues in contact with LEU 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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49A ILE* 4.4 6.3 - - + +
50A MET* 4.3 21.1 - - + +
53A VAL* 3.7 39.7 - - + -
76A MET* 5.5 1.3 - - + -
137A MET* 5.2 8.1 - - + -
138A VAL 2.8 12.2 + - - +
139A PHE* 3.4 26.5 - - + -
140A LEU* 2.6 34.9 + - - +
165A VAL* 5.1 4.3 - - + -
166A LEU* 1.3 73.7 - - - +
168A ALA* 1.3 55.3 + - - +
169A ASP 4.0 0.2 - - - -
194A TYR* 4.9 2.2 - - + -
207A LEU* 4.2 22.4 - - + -
208A GLU 3.2 19.3 - - - +
209A LYS* 4.3 10.8 - - + +
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Residues in contact with ALA 168 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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140A LEU* 3.5 8.3 - - + -
147A TYR* 3.6 20.6 - - + -
167A LEU* 1.3 74.2 - - - +
169A ASP* 1.3 62.3 + - - +
171A VAL* 3.9 7.3 - - + +
179A PHE* 3.5 36.3 - - + -
207A LEU* 3.1 7.8 - - - -
208A GLU 2.9 30.2 + - - +
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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