Contacts of the helix formed by residues 212 - 227 (chain C) in PDB entry 2WOE
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 212 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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124C ALA* 3.4 20.0 - - + -
162C LEU* 3.6 12.9 - - + +
199C ASP* 4.6 7.1 + - - -
210C SER* 3.1 17.4 + - - +
211C ALA* 1.3 74.4 - - - +
213C ILE* 1.3 74.8 + - + +
214C VAL* 3.4 36.9 - - + +
215C ASP* 3.0 22.9 + - - -
216C THR* 2.9 20.1 + - - -
401C AR6 3.3 65.6 + + - +
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Residues in contact with ILE 213 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124C ALA* 2.9 27.8 + - + +
125C GLY 4.1 6.3 - - - +
126C ASN* 3.6 17.5 - - + -
129C ALA* 3.5 32.3 - - + -
162C LEU* 3.8 35.7 - - + +
163C SER* 4.1 5.2 - - - +
166C ALA* 3.4 25.8 - - + -
200C PHE* 4.1 4.0 - - + -
211C ALA 3.4 3.2 + - - -
212C TYR* 1.3 72.7 - - + +
214C VAL* 1.3 62.0 + - + +
216C THR* 4.2 6.7 - - + -
217C MET* 2.8 36.9 + - + +
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Residues in contact with VAL 214 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162C LEU* 4.0 21.5 - - + -
199C ASP* 3.3 40.6 - - + +
200C PHE* 3.8 13.9 - - + +
212C TYR* 3.2 40.7 - - + +
213C ILE* 1.3 75.3 - - + +
215C ASP* 1.3 67.1 + - - +
217C MET* 3.8 1.0 - - - +
218C GLN* 2.9 40.5 + - + +
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Residues in contact with ASP 215 (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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274B MET* 3.8 13.0 - - - +
208C GLN* 3.2 30.7 - - - +
209C SER* 4.3 0.4 - - - -
210C SER* 2.5 47.0 + - - +
212C TYR* 3.0 24.4 + - - +
214C VAL* 1.3 75.7 - - - +
216C THR* 1.3 64.1 + - - +
218C GLN* 3.4 9.1 + - - +
219C THR* 3.0 28.6 + - - -
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Residues in contact with THR 216 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126C ASN* 2.8 40.0 + - + +
210C SER 2.8 17.0 + - - -
212C TYR 2.9 11.8 + - - -
213C ILE* 3.6 7.6 - - + +
215C ASP* 1.3 77.4 - - - +
217C MET* 1.3 58.6 + - - +
219C THR* 3.3 2.6 + - - -
220C VAL* 3.0 29.6 + - + +
243C ASP* 4.5 0.3 + - - +
246C THR* 4.7 1.8 - - + -
247C THR* 4.1 21.3 - - + +
250C LEU* 3.9 28.0 - - + -
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Residues in contact with MET 217 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166C ALA* 3.8 17.5 - - + +
169C THR* 4.5 4.9 - - + -
170C LEU* 3.8 45.5 - - + -
193C LEU* 3.9 22.2 - - + -
200C PHE* 3.7 26.5 - - + -
213C ILE* 2.8 30.3 + - + +
216C THR* 1.3 69.2 - - - +
218C GLN* 1.3 61.1 + - - +
220C VAL* 4.5 5.8 - - - +
221C LEU* 2.9 57.4 + - + +
250C LEU* 4.9 7.9 - - - -
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Residues in contact with GLN 218 (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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199C ASP 2.9 19.6 + - - -
200C PHE* 3.7 11.9 + - - +
201C HIS* 2.9 34.8 + - - +
202C PHE* 3.6 16.7 - - + +
205C TYR* 3.7 12.8 - - + -
206C LYS* 5.6 9.4 + - - +
208C GLN* 4.6 9.8 + - - +
214C VAL* 2.9 29.4 + - - +
215C ASP* 3.7 16.0 - - - +
217C MET* 1.3 75.8 - - - +
219C THR* 1.3 56.8 + - - +
222C HIS* 3.1 31.0 + - - +
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Residues in contact with THR 219 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205C TYR* 2.7 30.2 + - - +
208C GLN 2.8 20.3 + - - -
209C SER* 3.2 17.0 - - - -
215C ASP 3.0 9.6 + - - -
216C THR 3.7 3.6 - - - -
218C GLN* 1.3 74.4 - - - +
220C VAL* 1.3 66.4 + - - +
222C HIS 3.4 0.5 + - - -
223C TYR* 3.2 46.2 + - + +
237C THR* 4.3 5.8 - - + +
240C GLN* 4.2 5.6 - - + -
241C GLY 5.8 0.2 - - - +
247C THR* 4.0 18.2 - - + -
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Residues in contact with VAL 220 (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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170C LEU* 5.1 4.7 - - + -
216C THR* 3.0 24.1 + - + +
217C MET* 4.1 7.0 - - - +
219C THR* 1.3 77.3 - - - +
221C LEU* 1.3 61.1 + - + +
223C TYR* 4.0 0.9 - - - +
224C TYR* 2.9 32.4 + - + +
237C THR* 4.9 5.9 + - - -
247C THR* 3.3 39.0 - - - +
250C LEU* 3.8 17.3 - - + -
251C ALA* 4.1 14.9 - - - +
254C LEU* 3.7 28.5 - - + -
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Residues in contact with LEU 221 (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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173C MET* 3.6 33.0 - - + -
190C ALA* 3.9 20.9 - - + +
193C LEU* 4.7 9.4 - - + -
200C PHE* 5.4 3.4 - - + +
202C PHE* 3.9 28.3 - - + -
217C MET* 2.9 49.8 + - + +
220C VAL* 1.3 73.8 - - + +
222C HIS* 1.3 63.0 + - - +
224C TYR* 4.4 2.9 - - + -
225C PHE* 3.0 40.1 + - + -
254C LEU* 4.5 12.3 - - + -
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Residues in contact with HIS 222 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202C PHE* 3.8 12.0 - - - +
203C GLU* 2.7 29.1 + - - +
205C TYR* 3.4 45.1 - + + +
218C GLN 3.1 20.9 + - - +
219C THR 3.9 1.8 - - - +
220C VAL 3.4 0.2 - - - -
221C LEU* 1.3 76.8 - - - +
223C TYR* 1.3 82.6 + + - +
225C PHE* 3.9 0.9 - - - +
226C VAL* 3.1 57.6 + - + +
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Residues in contact with TYR 223 (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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32C LYS* 4.6 7.6 + - - -
205C TYR* 3.8 22.6 - + - -
219C THR* 3.2 31.7 + - + +
220C VAL 4.2 0.4 - - - +
222C HIS* 1.3 97.8 + + - +
224C TYR* 1.3 58.1 + - - +
226C VAL* 3.8 3.4 - - + -
227C THR* 2.7 38.8 + - - +
233C CYS* 4.3 4.0 - - - +
236C GLN* 3.5 43.9 + - + -
237C THR* 3.3 28.5 - - - +
240C GLN* 2.6 38.0 + - + +
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Residues in contact with TYR 224 (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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173C MET* 5.7 0.4 - - - -
177C LEU* 3.3 18.8 - - + +
183C MET* 3.4 36.1 - - + +
186C CYS* 4.2 11.9 - - + -
220C VAL* 2.9 21.9 + - + +
221C LEU* 3.9 4.7 - - + +
223C TYR* 1.3 78.6 - - - +
225C PHE* 1.3 92.4 + + - +
227C THR* 3.6 9.9 + - - +
233C CYS* 3.8 20.0 - - - -
251C ALA* 5.7 0.9 - - - -
254C LEU* 3.9 41.3 - - + -
255C ALA* 4.2 6.5 - - - -
258C THR* 2.6 36.8 + - - +
259C TYR* 4.7 4.7 + + - -
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Residues in contact with PHE 225 (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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173C MET* 4.4 2.9 - - + -
183C MET* 3.6 38.4 - - + +
186C CYS* 3.6 11.2 - - + -
187C ARG* 3.6 68.3 + - - +
190C ALA* 3.8 20.2 - - + -
202C PHE* 3.8 22.0 - + + -
203C GLU* 6.1 0.2 - - - +
221C LEU* 3.0 35.9 + - + +
222C HIS* 4.1 2.0 - - - +
224C TYR* 1.3 94.0 - + - +
226C VAL* 1.3 61.8 + - + +
227C THR 3.4 2.3 - - - +
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Residues in contact with VAL 226 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203C GLU* 4.6 6.7 - - - +
222C HIS* 3.1 51.2 + - + +
223C TYR* 3.7 12.8 - - + +
225C PHE* 1.3 81.1 - - + +
227C THR* 1.3 69.1 + - + +
236C GLN* 4.1 9.2 - - - +
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Residues in contact with THR 227 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183C MET* 4.1 6.9 - - - +
223C TYR 2.7 24.1 + - - +
224C TYR 3.6 11.1 + - - +
225C PHE 4.4 2.1 - - - +
226C VAL* 1.3 83.0 - - + +
228C ASP* 1.3 62.6 + - - +
229C THR 3.9 0.7 + - - -
232C SER* 3.6 22.4 - - - +
233C CYS* 3.2 22.4 - - - +
236C GLN* 3.2 40.2 - - + +
259C TYR* 3.5 8.9 + - - -
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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