Contacts of the strand formed by residues 181 - 190 (chain C) in PDB entry 2ZUQ
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 TYR 181 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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150C GLY 3.3 13.3 + - - -
151C TYR* 2.8 52.4 + + + +
152C PHE* 3.6 32.8 - + - -
154C GLU* 3.6 45.0 - - + +
174C ALA* 3.9 9.0 - - + -
175C VAL 3.1 19.1 - - - -
176C LEU* 4.4 25.6 - - + +
179C ASP* 5.4 3.1 - - - -
180C LEU* 1.3 72.6 - - - +
182C THR* 1.3 67.9 + - - +
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Residues in contact with THR 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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203B THR* 5.5 10.1 - - + +
147C LEU* 5.0 11.2 - - + -
148C VAL 3.3 11.4 - - - +
149C LYS* 3.4 23.8 + - + +
150C GLY 3.1 14.4 + - - -
151C TYR* 4.7 0.4 - - - -
173C PRO 4.7 0.3 - - - +
174C ALA* 3.4 2.1 - - - -
175C VAL* 3.2 32.5 + - - +
177C GLN* 2.7 27.5 + - - -
181C TYR* 1.3 79.9 + - - +
183C LEU* 1.3 65.1 + - - +
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Residues in contact with LEU 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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147C LEU* 3.9 3.4 - - - -
148C VAL* 2.7 49.5 + - + +
151C TYR* 4.1 11.7 - - + +
154C GLU* 5.1 2.7 - - - +
156C VAL* 4.4 15.0 - - + -
158C LEU* 3.7 29.4 - - + -
171C THR* 3.9 13.9 - - + +
172C PHE 3.3 24.7 - - - +
173C PRO* 4.8 1.3 - - + -
174C ALA* 3.7 24.9 - - + +
182C THR* 1.3 76.0 - - - +
184C SER* 1.3 63.9 + - - +
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Residues in contact with SER 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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158B VAL* 5.5 1.1 - - - -
160B PHE* 3.7 15.7 - - - -
201B SER* 2.7 28.9 + - - -
203B THR* 5.0 5.4 - - - -
146C CYS 3.5 5.2 - - - -
147C LEU* 3.8 19.3 - - - -
171C THR* 3.8 6.6 - - - +
172C PHE* 3.0 31.9 + - - +
183C LEU* 1.3 76.5 - - - +
185C SER* 1.3 64.0 + - - +
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Residues in contact with SER 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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160B PHE* 3.7 4.8 - - - -
145C GLY* 3.0 6.1 - - - -
146C CYS 2.7 37.7 + - - -
158C LEU* 3.3 32.0 - - - +
160C TRP* 2.9 31.3 + - - -
170C HIS 3.4 5.3 + - - -
171C THR* 3.5 16.4 + - - -
184C SER* 1.3 77.3 - - - +
186C SER* 1.3 59.0 + - - +
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Residues in contact with SER 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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160B PHE* 3.5 34.5 - - - -
162B ASN* 2.9 32.1 + - - -
143C THR* 5.2 2.5 - - - -
144C LEU 3.6 5.4 - - - -
169C VAL* 3.2 9.4 - - - +
170C HIS* 2.8 39.4 + - - +
172C PHE* 3.8 5.5 - - - -
185C SER* 1.3 75.0 - - - +
187C VAL* 1.3 61.5 + - - +
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Residues in contact with VAL 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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142C VAL 4.1 0.3 - - - +
143C THR* 4.2 2.2 - - - -
144C LEU* 3.0 41.1 + - + +
160C TRP* 3.6 43.5 - - + -
165C LEU* 3.9 26.5 - - + -
167C SER 5.7 1.6 - - - +
168C GLY 3.4 17.5 - - - +
169C VAL* 4.0 11.4 - - + -
186C SER* 1.3 75.1 - - - +
188C THR* 1.3 70.8 + - - +
189C VAL* 5.8 0.7 - - + -
199C ILE* 4.8 2.9 - - + -
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Residues in contact with THR 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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162B ASN* 3.7 16.3 + - - +
163B ASN* 5.6 1.0 + - - -
141C SER* 3.9 24.9 - - - +
142C VAL 3.4 4.0 - - - -
143C THR* 3.4 26.4 - - + +
167C SER 5.3 1.7 - - - +
168C GLY* 3.1 17.0 + - - +
170C HIS* 5.9 0.2 - - - -
186C SER* 4.8 1.2 + - - -
187C VAL* 1.3 86.7 - - - +
189C VAL* 1.3 81.9 + - - +
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Residues in contact with VAL 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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141C SER* 4.4 3.1 - - - -
142C VAL* 2.7 39.2 + - - +
144C LEU* 5.2 4.0 - - + -
165C LEU* 5.1 17.7 - - + -
167C SER 5.9 2.5 - - - +
187C VAL* 5.4 1.3 - - + +
188C THR* 1.3 85.1 - - - +
190C THR* 1.3 73.7 + - - +
193C THR* 3.1 32.3 - - + +
194C TRP* 4.5 5.2 - - + +
199C ILE* 3.9 23.6 - - + -
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Residues in contact with THR 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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140C SER 4.0 8.5 - - - +
141C SER* 4.6 4.4 + - - +
189C VAL* 1.3 78.8 - - - +
191C SER* 1.3 61.0 + - - +
192C SER* 3.0 17.9 - - - +
193C THR* 2.9 39.5 + - + +
194C TRP* 3.2 10.7 + - - +
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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