Contacts of the helix formed by residues 181 - 192 (chain C) in PDB entry 1Z1G
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 THR 181 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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179C ARG* 5.1 1.6 - - + +
180C LEU* 1.3 76.7 - - - +
182C ALA* 1.3 65.9 + - - +
183C ASP* 3.6 16.4 + - - +
184C GLU* 2.6 50.2 + - - +
185C TYR* 3.2 9.7 + - - +
313C LEU* 4.0 6.3 - - - +
345C ASP* 5.8 1.3 - - - +
348C ARG* 4.8 15.7 - - + +
349C GLU* 4.1 32.9 + - + +
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Residues in contact with ALA 182 (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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181C THR* 1.3 74.2 - - - +
183C ASP* 1.3 62.1 + - - +
185C TYR* 3.4 1.6 + - - +
186C LEU* 3.2 28.7 + - - +
250C ALA* 5.2 5.4 - - + +
251C LEU* 3.5 19.1 - - + +
313C LEU* 4.0 16.6 - - - +
317C LEU* 4.0 22.2 - - + +
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Residues in contact with ASP 183 (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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181C THR* 3.6 12.0 + - - +
182C ALA* 1.3 78.0 - - - +
184C GLU* 1.3 65.3 - - + +
186C LEU* 3.2 10.9 + - - +
187C LYS* 3.1 24.3 + - - +
349C GLU* 4.7 8.1 - - - +
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Residues in contact with GLU 184 (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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179C ARG 3.8 4.0 - - - +
180C LEU* 3.4 22.8 - - + +
181C THR* 2.6 53.6 + - - +
183C ASP* 1.3 79.5 - - + +
185C TYR* 1.3 66.9 + - - +
187C LYS* 2.8 5.5 + - - +
188C ILE* 2.8 29.7 + - + +
298C LEU* 3.9 28.9 - - + -
300C PHE* 5.3 9.1 - - + -
305C PRO* 5.3 0.3 - - - +
348C ARG* 3.4 23.8 + - - -
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Residues in contact with TYR 185 (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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180C LEU* 4.7 9.7 - - + +
181C THR 3.2 4.2 + - - +
182C ALA 3.5 6.5 - - - +
184C GLU* 1.3 76.0 - - - +
186C LEU* 1.3 89.4 + - + +
188C ILE* 3.0 11.9 + - - +
189C TYR* 2.7 57.4 + + + +
203C MSE 3.7 29.6 - - + -
204C GLU* 3.9 13.9 + - - +
207C VAL* 4.1 22.7 - - + -
251C LEU* 3.6 22.2 - - + -
253C ILE* 3.1 29.5 - - + +
289C PHE* 6.0 1.3 - + - -
310C LEU* 5.8 7.2 - - + -
313C LEU* 4.1 20.2 - - + -
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Residues in contact with LEU 186 (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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182C ALA 3.2 10.6 + - - +
183C ASP* 3.2 11.0 + - - +
185C TYR* 1.3 91.8 - - + +
187C LYS* 1.3 58.2 + - + +
189C TYR* 3.2 13.4 + - + +
190C GLN* 3.0 37.4 + - + +
250C ALA 5.1 1.6 - - - +
251C LEU* 2.7 46.2 - - + +
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Residues in contact with LYS 187 (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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183C ASP* 3.1 14.4 + - - +
184C GLU 2.8 9.3 + - - +
186C LEU* 1.3 77.7 - - + +
188C ILE* 1.3 55.8 + - - +
190C GLN* 3.4 20.4 - - - +
191C ALA* 3.3 12.0 + - - +
296C SER* 2.5 25.2 + - - +
298C LEU* 4.1 34.7 - - + +
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Residues in contact with ILE 188 (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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180C LEU* 4.3 17.7 - - + -
184C GLU* 2.8 30.6 + - + +
185C TYR* 3.7 6.7 - - - +
187C LYS* 1.3 72.5 - - + +
189C TYR* 1.3 65.7 + - - +
190C GLN 3.0 1.8 - - - -
191C ALA* 2.9 1.7 + - - -
192C ALA* 2.8 23.0 + - - +
203C MSE 4.5 1.6 - - + -
289C PHE* 3.5 42.4 - - + -
292C ALA* 3.6 33.0 - - + +
293C ARG* 3.8 10.8 - - + +
296C SER* 3.5 13.7 - - - +
298C LEU* 5.2 4.7 - - + -
300C PHE* 6.1 4.7 - - + -
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Residues in contact with TYR 189 (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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185C TYR* 2.7 44.2 + + + +
186C LEU* 3.2 20.0 - - + +
188C ILE* 1.3 70.4 - - - +
190C GLN* 1.3 66.2 + - + +
192C ALA* 3.5 16.5 + - - +
193C GLU* 4.2 0.9 + - - +
200C ARG* 2.7 59.1 + - + -
203C MSE 3.8 17.0 - - + +
204C GLU* 3.2 28.8 + - + -
253C ILE* 6.3 0.9 - - + -
261C LYS* 4.3 6.2 + - - -
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Residues in contact with GLN 190 (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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186C LEU* 3.0 19.5 + - + +
187C LYS* 3.4 26.0 - - - +
189C TYR* 1.3 80.6 - - + +
191C ALA* 1.3 60.1 + - - +
192C ALA 3.1 0.6 + - - -
193C GLU* 2.7 46.7 + - - +
200C ARG* 5.7 1.1 - - - +
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Residues in contact with ALA 191 (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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187C LYS 3.3 1.2 + - - -
188C ILE 2.9 7.5 + - - +
190C GLN* 1.3 71.1 - - - +
192C ALA* 1.3 56.2 + - - +
193C GLU* 2.9 12.8 + - - +
194C SER* 3.5 17.0 + - - -
195C SER* 3.9 2.6 + - - -
292C ALA* 3.4 25.0 - - + +
295C ALA* 4.2 10.0 - - + +
296C SER* 3.4 32.3 - - - +
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Residues in contact with ALA 192 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188C ILE 2.8 13.6 + - - +
189C TYR* 3.6 12.6 - - - +
190C GLN 3.1 1.0 - - - -
191C ALA* 1.3 73.4 - - - +
193C GLU* 1.3 61.8 + - - +
195C SER* 3.1 33.5 + - - +
199C LEU* 4.4 18.6 - - + +
200C ARG* 4.6 17.0 - - + +
203C MSE 4.4 10.5 - - - -
292C ALA* 3.9 10.5 - - + +
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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