Contacts of the strand formed by residues 197 - 204 (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 197 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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191A PRO* 3.4 2.9 - - - +
192A ARG* 2.6 42.4 + - - +
194A GLU* 2.4 67.4 + - + +
195A GLN 3.6 3.6 - - - +
196A GLY* 1.3 85.6 - - - +
198A TYR* 1.3 62.4 + - - +
212A LEU* 4.3 12.3 - - + -
213A ILE 3.3 10.3 - - - +
214A SER* 4.5 9.9 - - - +
215A GLN 4.7 1.6 - - - +
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Residues in contact with TYR 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158A HIS* 3.7 28.7 - + - -
164A TYR* 4.2 10.3 - + - -
189A LEU* 5.3 3.1 - - + -
190A ARG 3.1 14.1 - - - +
191A PRO* 3.3 30.5 - - + -
192A ARG* 3.5 7.2 - - - +
196A GLY* 4.0 9.5 + - - -
197A THR* 1.3 89.5 - - - +
199A ALA* 1.3 58.9 + - - +
212A LEU* 3.6 5.2 - - - +
213A ILE* 2.7 47.1 + - + +
215A GLN* 4.7 1.2 + - - -
221A TYR* 3.1 49.8 + + - -
232A LEU* 4.2 14.8 - - + -
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Residues in contact with ALA 199 (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* 3.8 12.1 - - - +
189A LEU* 3.3 7.1 - - - +
190A ARG* 2.7 71.0 + - - +
192A ARG* 3.9 7.8 - - + +
198A TYR* 1.3 75.4 - - - +
200A LEU* 1.3 61.5 + - - +
201A SER* 3.8 2.4 + - - +
210A HIS* 5.4 0.2 - - - +
211A TYR 3.4 9.4 - - - +
213A ILE* 4.4 4.0 - - - -
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Residues in contact with LEU 200 (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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187A PHE* 4.0 22.0 - - + -
188A LEU 3.5 12.8 - - - +
189A LEU* 3.6 16.8 - - + -
199A ALA* 1.3 71.2 - - - +
201A SER* 1.3 63.7 + - - +
202A LEU* 4.5 2.7 - - + -
209A TYR 3.4 1.4 - - - +
210A HIS* 3.3 4.0 - - - -
211A TYR* 2.8 55.6 + - + +
213A ILE* 4.0 15.2 - - + +
236A VAL* 6.4 0.2 - - + -
239A LEU* 4.3 12.1 - - + -
246A LEU* 4.0 30.1 - - + -
250A LEU* 4.0 22.7 - - + -
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Residues in contact with SER 201 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173A ALA* 4.4 2.5 - - - -
177A LEU* 3.7 20.9 - - - +
187A PHE* 3.2 2.8 - - - -
188A LEU* 3.1 44.9 + - - +
190A ARG* 3.2 22.6 + - - -
199A ALA 3.8 1.1 + - - -
200A LEU* 1.3 73.3 - - - +
202A LEU* 1.3 60.4 + - - +
209A TYR 3.1 5.8 - - - -
210A HIS* 2.9 27.5 + - - -
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Residues in contact with LEU 202 (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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177A LEU* 4.1 2.4 - - - +
185A GLY* 4.9 2.7 - - - +
186A LYS 3.0 13.0 - - - +
187A PHE* 3.7 9.4 - - + -
200A LEU* 4.5 6.3 - - + +
201A SER* 1.3 75.9 - - - +
203A ILE* 1.3 72.7 - - - +
204A TYR* 5.5 0.2 - - + -
207A THR 3.5 1.0 - - - +
208A VAL* 3.3 2.0 - - - -
209A TYR* 2.7 68.0 + - + +
211A TYR* 3.4 22.0 - - + -
246A LEU* 4.5 3.8 - - + -
247A ILE* 4.8 7.9 - - + -
248A TYR* 3.7 19.7 - - + +
249A CYS 5.2 1.3 - - - +
250A LEU* 3.5 26.0 - - + -
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Residues in contact with ILE 203 (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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177A LEU* 3.5 33.4 - - + +
178A TYR* 4.6 8.1 - - + -
182A GLN* 4.1 19.3 - - + -
183A THR 3.6 20.4 - - - +
184A ASP* 4.3 0.2 - - - -
185A GLY* 2.6 31.5 + - - -
186A LYS* 2.7 24.9 + - + +
202A LEU* 1.3 76.3 - - - +
204A TYR* 1.3 66.3 + - - +
206A LYS* 4.2 15.9 - - - +
207A THR 3.5 2.5 - - - +
208A VAL* 3.2 38.4 - - + +
248A TYR* 4.9 0.5 - - - -
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Residues in contact with TYR 204 (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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184A ASP* 3.7 20.9 - - - -
202A LEU* 5.5 0.7 - - + -
203A ILE* 1.3 75.9 - - - +
205A GLY* 1.3 68.7 + - - +
206A LYS 3.1 0.9 - - - -
207A THR* 2.7 37.2 + - - +
209A TYR* 3.7 9.4 + + + -
247A ILE* 3.4 50.5 - - + -
248A TYR* 3.3 47.3 - + + -
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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
------------------------------------------------------------
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