Contacts of the strand formed by residues 207 - 215 (chain A) in PDB entry 2OZO
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 207 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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178A TYR* 3.8 9.0 - - - +
203A ILE* 3.5 3.3 - - - -
204A TYR 2.7 41.7 + - - +
205A GLY 3.2 10.4 + - - -
206A LYS* 1.3 76.8 + - - +
208A VAL* 1.3 72.1 + - - +
209A TYR* 3.1 25.3 - - + +
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Residues in contact with VAL 208 (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 GLU* 3.9 20.8 - - + +
177A LEU* 3.6 22.9 - - + -
178A TYR* 3.2 35.0 + - + +
202A LEU 3.3 5.4 - - - +
203A ILE* 3.2 21.8 - - + -
207A THR* 1.3 78.7 - - - +
209A TYR* 1.3 71.4 + - - +
210A HIS* 3.7 32.8 - - + +
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Residues in contact with TYR 209 (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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200A LEU 3.4 0.7 - - - +
201A SER* 3.1 6.8 - - - -
202A LEU* 2.7 53.2 + - + +
204A TYR* 3.7 19.0 + + + -
207A THR* 3.1 43.2 - - + +
208A VAL* 1.3 75.5 - - - +
210A HIS* 1.3 65.3 + - - +
211A TYR* 3.7 13.0 - + + -
247A ILE* 3.3 47.0 - - + +
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Residues in contact with HIS 210 (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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170A ARG* 3.6 45.9 - - + +
173A ALA* 5.2 0.2 - - + -
174A GLU* 3.0 26.2 + - + -
190A ARG* 3.2 14.6 + - - +
199A ALA* 5.4 0.2 - - + -
200A LEU 3.3 2.9 - - - +
201A SER* 2.9 29.2 + - - -
208A VAL* 3.7 24.1 - - + +
209A TYR* 1.3 78.2 + - - +
211A TYR* 1.3 71.1 + - - +
212A LEU 4.2 0.6 + - - -
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Residues in contact with TYR 211 (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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170A ARG* 5.9 0.2 - - - -
199A ALA* 3.4 3.2 - - - +
200A LEU* 2.8 52.3 + - + +
202A LEU* 3.4 33.4 - - + -
209A TYR* 3.7 15.1 - + + +
210A HIS* 1.3 79.6 - - - +
212A LEU* 1.3 65.7 + - - +
213A ILE* 3.5 4.8 + - + +
224A PRO* 4.3 24.7 - - + -
245A GLY 3.0 23.1 + - - -
246A LEU* 3.7 25.4 - - + -
247A ILE* 2.9 33.6 + - - +
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Residues in contact with LEU 212 (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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170A ARG* 5.8 1.9 - - - +
192A ARG* 3.9 28.9 - - - +
197A THR* 4.3 11.9 - - + -
198A TYR 3.7 9.0 - - - +
199A ALA* 4.6 2.5 - - - +
210A HIS 4.2 0.8 - - - -
211A TYR* 1.3 72.5 - - - +
213A ILE* 1.3 79.1 + - - +
214A SER* 3.4 21.3 + - - +
222A CYS 4.0 1.6 - - - +
224A PRO* 3.3 30.9 - - + +
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Residues in contact with ILE 213 (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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189A LEU* 3.9 28.5 - - + -
196A GLY 4.0 0.2 - - - +
197A THR* 3.3 7.4 - - - -
198A TYR* 2.7 44.3 + - + +
199A ALA 4.4 1.3 - - - -
200A LEU* 4.0 23.6 - - + +
211A TYR* 3.6 9.9 - - + +
212A LEU* 1.3 81.0 - - - +
214A SER* 1.3 58.7 + - - +
221A TYR* 4.3 12.3 - - + -
222A CYS 3.3 15.7 - - - +
223A ILE* 5.6 2.7 - - + -
224A PRO* 5.7 0.4 - - + -
232A LEU* 4.2 12.6 - - + -
235A LEU* 3.8 30.1 - - + -
239A LEU* 6.2 0.7 - - + -
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Residues in contact with SER 214 (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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196A GLY 4.2 1.1 - - - -
197A THR* 4.5 8.0 - - - +
212A LEU* 3.4 27.5 + - - +
213A ILE* 1.3 74.8 - - - +
215A GLN* 1.3 61.1 + - - +
221A TYR* 3.6 2.6 - - - -
222A CYS* 2.7 50.6 + - - +
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Residues in contact with GLN 215 (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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65A LEU* 5.2 6.1 - - - +
194A GLU* 5.6 2.4 - - - +
195A GLN 5.4 1.6 - - - +
196A GLY* 2.8 50.4 + - - +
197A THR* 4.7 2.2 - - - +
198A TYR* 4.7 0.9 + - - -
214A SER* 1.3 76.7 - - - +
216A ASP* 1.3 63.1 + - - +
217A LYS* 4.7 4.3 + - - -
219A GLY* 3.0 38.9 + - - +
220A LYS 3.7 3.6 - - - -
221A TYR* 3.1 36.9 + - + -
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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