Contacts of the strand formed by residues 182 - 192 (chain A) in PDB entry 1ZTU
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 182 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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176A TYR* 5.4 0.2 + - - -
178A PHE* 3.5 23.1 - - - -
179A ALA 2.9 13.7 + - - +
180A PRO 3.3 2.9 - - - +
181A ASP* 1.3 78.7 + - - +
183A THR* 1.3 63.0 + - - +
184A GLY 3.7 0.3 + - - -
205A ALA* 3.4 24.3 - - + +
213A ARG* 3.2 34.2 - - - +
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Residues in contact with THR 183 (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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178A PHE* 4.6 0.4 - - - -
179A ALA* 2.8 30.5 + - - +
181A ASP* 2.7 31.3 + - - +
182A ALA* 1.3 76.2 - - - +
184A GLY* 1.3 59.6 + - - +
202A ARG* 2.9 29.0 + - - +
203A PHE 3.4 14.1 - - - +
204A PRO* 4.3 4.3 - - + -
205A ALA* 3.9 20.2 - - + +
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Residues in contact with GLY 184 (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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176A TYR* 3.2 32.3 + - - -
177A LYS 3.3 11.2 - - - -
178A PHE* 4.4 1.1 - - - -
182A ALA 3.7 2.8 + - - -
183A THR* 1.3 73.6 - - - +
185A GLU* 1.3 61.0 + - - +
202A ARG* 3.3 10.1 + - - +
203A PHE 3.0 29.8 + - - +
204A PRO 5.1 0.2 - - - -
205A ALA* 5.4 0.2 - - - +
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Residues in contact with GLU 185 (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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154A ARG* 4.9 8.6 + - - -
176A TYR* 3.4 5.6 - - - -
177A LYS* 2.9 34.2 + - + +
184A GLY* 1.3 74.4 - - - +
186A VAL* 1.3 68.6 + - - +
187A ILE* 3.2 29.9 + - + +
200A GLY* 4.2 16.5 - - - +
201A HIS 3.6 7.4 - - - +
202A ARG* 3.8 36.3 + - + +
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Residues in contact with VAL 186 (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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174A MSE 3.7 37.0 - - + -
175A LEU 3.7 3.6 - - - +
176A TYR* 4.0 18.4 - - + -
185A GLU* 1.3 71.6 - - - +
187A ILE* 1.3 59.1 + - - +
188A ALA 3.4 22.9 - - - +
189A GLU* 4.2 1.3 - - + -
198A PHE* 3.7 18.6 - - + +
199A LEU* 3.5 20.3 - - - +
200A GLY* 2.8 31.0 + - - -
201A HIS 3.2 7.5 + - - -
203A PHE* 4.2 13.7 - - + -
328A BLA 4.3 1.3 - - + -
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Residues in contact with ILE 187 (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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153A LEU* 4.7 11.2 - - + +
154A ARG* 3.4 51.5 + - - +
157A ALA* 4.2 10.4 - - + +
158A GLU* 4.1 0.7 - - - +
175A LEU* 3.0 34.4 + - + +
177A LYS* 4.1 24.5 - - + -
185A GLU* 3.9 33.2 - - + +
186A VAL* 1.3 75.7 - - - +
188A ALA* 1.3 60.5 + - - +
199A LEU* 3.6 6.6 - - - +
284A TRP* 4.0 27.4 - - + -
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Residues in contact with ALA 188 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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157A ALA* 3.5 40.8 - - + +
158A GLU* 3.6 19.3 - - - +
161A THR* 4.0 7.9 - - + +
174A MSE 3.2 3.8 - - - -
175A LEU* 2.9 26.6 + - + -
186A VAL* 3.4 7.9 - - - +
187A ILE* 1.3 81.5 - - - +
189A GLU* 1.3 60.4 + - - +
199A LEU* 3.7 2.5 - - - -
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Residues in contact with GLU 189 (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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158A GLU* 3.4 18.3 + - - +
161A THR* 4.0 0.9 - - - -
172A ARG* 3.0 31.1 + - + -
173A VAL 3.5 4.7 - - - -
174A MSE 4.0 11.7 - - + +
186A VAL* 4.2 2.9 - - + -
188A ALA* 1.3 77.3 - - - +
190A ALA* 1.3 60.7 + - - +
191A ARG* 3.2 38.2 + - + +
197A ALA* 3.5 0.2 - - - -
198A PHE* 2.9 29.5 + - - +
199A LEU* 2.8 36.2 + - + +
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Residues in contact with ALA 190 (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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158A GLU* 5.5 0.4 - - - +
161A THR* 3.6 33.1 + - - +
162A GLN* 3.7 23.8 - - + +
165A ARG* 3.9 12.3 - - + -
172A ARG* 3.4 1.4 - - - +
173A VAL 2.8 34.5 + - - +
189A GLU* 1.3 72.8 - - - +
191A ARG* 1.3 63.4 + - - +
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Residues in contact with ARG 191 (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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162A GLN* 5.6 0.2 + - - -
165A ARG* 3.6 16.2 + - - +
171A ASP 3.2 10.5 - - - +
172A ARG* 3.8 21.1 - - + +
189A GLU* 3.2 41.9 + - + +
190A ALA* 1.3 77.4 - - - +
192A ARG* 1.3 71.5 + - - +
193A GLU* 3.5 10.6 + - - +
195A LEU* 3.1 36.4 + - + +
197A ALA* 3.6 20.0 - - - +
199A LEU* 5.1 2.2 - - - +
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Residues in contact with ARG 192 (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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165A ARG* 3.4 20.2 - - - +
171A ASP* 2.7 47.1 + - + +
191A ARG* 1.3 86.9 + - - +
193A GLU* 1.3 80.4 + - - +
194A GLY* 3.7 1.8 + - - -
195A LEU* 3.3 41.9 + - + +
292A GLN* 4.1 22.5 + - - +
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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