Contacts of the helix formed by residues 206 - 221 (chain C) in PDB entry 2AXZ
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 ASN 206 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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165C TYR* 4.9 12.2 - - - +
201C SER* 2.7 22.9 + - - +
204C ASN* 3.2 40.0 - - - +
205C ARG* 1.3 73.1 - - - +
207C LEU* 1.3 53.3 - - - +
208C LYS* 3.1 3.4 - - - -
209C GLU* 2.8 44.6 + - + -
210C ALA* 3.0 10.3 + - - +
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Residues in contact with LEU 207 (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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202C ILE* 5.9 4.5 - - + +
205C ARG* 3.3 39.0 + - + +
206C ASN* 1.3 72.9 - - - +
208C LYS* 1.3 60.7 + - - +
209C GLU 3.4 0.2 - - - -
210C ALA* 3.8 5.8 - - + -
211C GLN* 3.2 19.1 + - - +
243C TYR* 3.4 43.1 + - + +
246C LEU* 4.3 20.6 - - + +
247C THR* 3.9 18.8 - - + -
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Residues in contact with LYS 208 (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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206C ASN 2.9 3.4 + - - -
207C LEU* 1.3 73.8 - - - +
209C GLU* 1.3 69.3 + - + +
211C GLN* 3.6 16.3 + - + -
212C TYR* 3.3 22.1 + - - +
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Residues in contact with GLU 209 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165C TYR* 2.9 38.1 + - + +
169C SER* 3.8 9.4 + - - -
173C LYS* 3.7 18.3 + - - -
201C SER* 3.6 15.5 - - - +
206C ASN* 2.8 23.4 + - + +
208C LYS* 1.3 80.5 - - + +
210C ALA* 1.3 65.9 + - - +
212C TYR* 3.1 17.0 + - - +
213C TYR* 3.1 20.3 + - - -
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Residues in contact with ALA 210 (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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198C LEU* 3.2 9.7 - - + +
201C SER* 3.7 12.9 - - - -
202C ILE* 3.8 31.0 - - + +
206C ASN 3.0 10.2 + - - +
207C LEU* 3.7 12.6 - - + +
209C GLU* 1.3 77.1 - - - +
211C GLN* 1.3 62.3 + - - +
213C TYR* 3.3 2.6 + - - -
214C ILE* 3.0 27.4 + - - +
243C TYR* 4.1 12.3 - - + -
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Residues in contact with GLN 211 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207C LEU 3.2 10.4 + - - +
208C LYS* 3.7 19.7 - - + +
209C GLU 3.2 0.2 - - - -
210C ALA* 1.3 78.2 - - - +
212C TYR* 1.3 60.8 + - - +
214C ILE* 3.1 14.4 + - - +
215C ASN* 2.6 54.9 + - - +
243C TYR* 3.3 40.8 + - - +
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Residues in contact with TYR 212 (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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172C ILE* 4.4 1.0 - - - +
173C LYS* 3.3 51.6 + - + +
176C TYR* 3.8 25.4 - + + +
208C LYS* 3.3 14.7 + - - +
209C GLU* 3.1 14.5 + - - +
211C GLN* 1.3 79.4 - - - +
213C TYR* 1.3 97.1 + + - +
215C ASN* 3.2 11.4 + - + +
216C GLN* 2.9 51.3 + - + +
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Residues in contact with TYR 213 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165C TYR* 2.6 38.8 + - - -
169C SER* 5.4 0.2 - - - -
172C ILE* 3.8 25.0 - - + +
173C LYS* 4.5 2.8 - - - -
193C VAL 5.0 0.7 - - - -
194C LEU* 3.3 32.5 - - + +
197C ALA* 3.1 29.1 - - + +
198C LEU* 3.9 21.3 - - + +
201C SER* 3.4 19.7 - - - -
209C GLU 3.1 22.4 + - - -
210C ALA 3.7 4.9 - - - +
212C TYR* 1.3 100.9 - + - +
214C ILE* 1.3 65.2 + - - +
216C GLN* 3.2 1.9 + - - +
217C PHE* 3.0 25.1 + - - +
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Residues in contact with ILE 214 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198C LEU* 3.2 33.4 - - + -
210C ALA 3.0 22.6 + - - +
211C GLN* 3.4 20.0 - - - +
213C TYR* 1.3 76.4 - - - +
215C ASN* 1.3 64.9 + - - +
217C PHE* 3.7 3.7 + - - +
218C GLU* 2.6 44.4 + - + +
236C ILE* 4.4 4.0 - - + +
239C LEU 5.0 0.4 - - - +
240C LYS* 3.7 50.3 - - + -
243C TYR* 4.8 11.0 - - + -
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Residues in contact with ASN 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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211C GLN* 2.6 53.5 + - - +
212C TYR* 3.4 9.4 - - + +
214C ILE* 1.3 79.4 - - - +
216C GLN* 1.3 63.4 + - + +
218C GLU* 3.3 7.2 + - - +
219C HIS* 2.9 28.1 + - - +
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Residues in contact with GLN 216 (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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176C TYR* 3.0 32.0 - - + +
177C PRO* 3.0 30.0 - - - +
178C ILE 4.2 0.7 + - - -
194C LEU* 3.4 28.9 - - + -
212C TYR* 2.9 48.2 + - + +
213C TYR 3.2 0.2 + - - -
215C ASN* 1.3 79.9 - - - +
217C PHE* 1.3 62.4 + - - +
219C HIS* 3.2 11.0 - - - +
220C LEU* 3.2 25.8 + - - +
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Residues in contact with PHE 217 (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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191C GLN* 3.7 33.4 - - + -
194C LEU* 3.3 19.9 - - + +
213C TYR 3.0 15.8 + - - +
214C ILE 4.0 4.3 - - - +
216C GLN* 1.3 73.2 - - - +
218C GLU* 1.3 70.5 + - - +
220C LEU* 3.1 22.7 + - + +
221C LYS* 3.5 32.2 + - - +
228C ILE* 4.5 17.4 - - + +
229C ASN 5.0 0.2 - - - -
232C TYR* 4.6 3.4 - - + -
233C ASP* 4.2 24.5 - - - -
236C ILE* 3.3 47.8 - - + -
237C ASN* 6.1 0.2 - - - -
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Residues in contact with GLU 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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214C ILE* 2.6 42.9 + - + +
215C ASN* 3.6 9.0 - - - +
216C GLN 3.3 0.2 - - - -
217C PHE* 1.3 85.7 - - - +
219C HIS* 1.3 61.9 + - - +
221C LYS* 3.2 49.8 + - + +
222C THR* 3.8 9.4 - - - +
236C ILE* 5.5 2.6 - - - +
237C ASN* 4.9 6.1 - - - +
240C LYS* 3.8 23.3 + - - +
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Residues in contact with HIS 219 (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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177C PRO* 3.6 27.6 - - + +
178C ILE 2.6 34.1 + - - -
179C VAL* 5.5 1.1 - - + +
215C ASN 2.9 14.6 + - - +
216C GLN* 3.2 15.3 - - - +
217C PHE 3.1 0.2 - - - -
218C GLU* 1.3 75.7 - - - +
220C LEU* 1.3 67.5 + - + +
222C THR* 2.5 45.7 + - - +
223C ILE* 3.7 9.9 + - + +
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Residues in contact with LEU 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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176C TYR* 5.4 1.1 - - + -
178C ILE* 3.7 35.0 - - + +
190C ILE* 4.0 20.6 - - + +
191C GLN* 4.0 27.4 - - + -
194C LEU* 4.2 17.3 - - + -
216C GLN* 3.3 17.0 - - - +
217C PHE* 3.1 12.1 + - + +
219C HIS* 1.3 86.6 - - + +
221C LYS* 1.3 61.0 + - - +
222C THR 3.0 0.2 - - - -
223C ILE* 3.1 26.2 + - + +
226C ILE* 3.7 21.1 - - + +
228C ILE* 5.0 7.0 - - + +
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Residues in contact with LYS 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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217C PHE* 3.5 23.4 + - - +
218C GLU* 3.2 39.2 + - + +
219C HIS 3.1 0.8 - - - -
220C LEU* 1.3 78.0 - - - +
222C THR* 1.3 59.8 + - + +
223C ILE 3.4 1.9 + - - -
224C LYS* 5.2 0.5 + - - -
228C ILE* 4.0 29.3 - - + +
233C ASP* 3.4 33.5 + - - -
237C ASN* 5.1 1.4 + - - -
267D ILE 4.5 10.0 + - - -
268D GLY* 6.0 2.9 - - - -
269D LYS* 5.2 3.1 - - - +
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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