Contacts of the helix formed by residues 215 - 229 (chain C) in PDB entry 3QN3
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 215 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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213C ASN* 3.1 15.0 + - - -
214C ASN* 1.3 80.2 - - + +
216C GLU* 1.3 62.5 + - - +
217C PRO* 3.3 2.5 - - - -
218C ILE* 3.1 9.0 + - + +
219C ASP* 2.9 34.3 + - - +
266C ARG* 3.7 27.4 - - - +
270C LEU* 3.7 22.7 - - + -
274C TYR* 3.9 19.3 - - + +
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Residues in contact with GLU 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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211C LEU* 3.0 38.7 - - + +
212C ALA* 3.1 34.3 + - - +
213C ASN* 2.9 17.3 + - - +
215C THR* 1.3 76.5 + - - +
217C PRO* 1.3 66.4 - - + +
219C ASP* 3.3 12.2 + - + +
220C LEU* 2.9 24.4 + - - +
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Residues in contact with PRO 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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149C ILE* 3.5 28.1 - - + +
159C VAL* 4.3 8.5 - - + -
164C PHE* 3.7 33.0 - - + -
211C LEU* 3.8 19.3 - - + -
213C ASN 3.2 23.1 - - - +
214C ASN 3.6 4.7 - - - -
215C THR 3.4 4.7 - - - -
216C GLU* 1.3 91.9 - - + +
218C ILE* 1.3 55.4 + - - +
220C LEU* 3.3 1.7 + - + -
221C LEU* 2.9 32.8 + - - +
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Residues in contact with ILE 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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161C PHE* 5.5 1.1 - - + -
164C PHE* 3.9 14.8 - - + -
214C ASN 3.8 19.5 - - - +
215C THR* 3.1 8.9 + - - +
217C PRO* 1.3 72.3 - - - +
219C ASP* 1.3 66.8 + - - +
221C LEU* 3.1 9.3 + - - +
222C MET* 2.9 23.3 + - - +
236C ILE* 3.6 23.3 - - + -
238C LEU* 4.5 16.4 - - + -
270C LEU* 4.9 7.6 - - + -
274C TYR* 3.5 41.1 - - + -
276C ILE* 4.1 22.2 - - + -
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Residues in contact with ASP 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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215C THR* 2.9 24.9 + - - +
216C GLU* 3.3 13.5 + - + +
218C ILE* 1.3 75.0 - - - +
220C LEU* 1.3 58.3 + - - +
222C MET* 3.4 8.1 + - - +
223C THR* 3.0 31.8 + - - +
273C LYS* 4.2 4.7 + - - -
274C TYR* 2.7 32.6 + - - -
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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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149C ILE* 4.3 9.4 - - + -
188C LEU* 3.5 27.6 - - + -
191C GLU* 4.4 18.4 - - + +
192C LEU* 4.0 20.6 - - + -
209C PRO* 5.3 0.2 - - + -
211C LEU* 4.6 15.0 - - + -
216C GLU 2.9 13.6 + - - +
217C PRO* 3.5 9.0 - - + +
219C ASP* 1.3 74.5 - - - +
221C LEU* 1.3 65.6 + - - +
223C THR* 3.3 9.4 + - + -
224C CYS* 3.0 42.7 + - - -
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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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148C ILE* 3.6 32.3 - - + -
149C ILE* 3.6 21.5 - - + -
164C PHE* 4.1 32.5 - - + +
165C MET 4.2 5.4 - - - +
166C ILE* 4.0 21.1 - - + -
184C ILE* 4.9 1.7 - - + +
188C LEU* 4.8 4.5 - - + -
217C PRO 2.9 17.9 + - - +
218C ILE* 3.1 9.1 + - - +
220C LEU* 1.3 76.2 - - - +
222C MET* 1.3 50.9 + - - +
224C CYS* 3.3 5.1 + - + +
225C ILE* 2.8 40.5 + - + +
236C ILE* 4.1 21.1 - - + -
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Residues in contact with MET 222 (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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218C ILE 2.9 20.5 + - - +
219C ASP* 3.6 8.5 - - - +
221C LEU* 1.3 72.1 - - - +
223C THR* 1.3 65.8 + - - +
225C ILE* 3.4 15.1 + - + +
226C LYS* 2.9 24.8 + - - +
231C GLU* 6.2 3.8 - - + -
234C VAL 6.0 0.2 - - - +
236C ILE* 3.5 26.7 - - + -
274C TYR* 4.4 15.0 - - + -
275C PRO* 3.6 32.5 - - + -
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Residues in contact with THR 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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191C GLU* 4.5 11.2 - - - +
219C ASP* 3.0 18.5 + - - +
220C LEU* 3.7 12.1 - - + -
221C LEU 3.3 0.2 - - - -
222C MET* 1.3 75.7 - - - +
224C CYS* 1.3 59.6 + - - +
226C LYS* 3.2 6.6 + - - +
227C LYS* 2.9 51.0 + - + +
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Residues in contact with CYS 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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184C ILE* 3.9 20.8 - - + +
187C ILE* 3.9 20.5 - - + +
188C LEU* 3.6 39.3 - - + -
191C GLU* 4.1 7.6 - - - -
220C LEU* 3.0 31.6 + - - +
221C LEU* 3.8 5.8 - - + +
223C THR* 1.3 74.4 - - - +
225C ILE* 1.3 63.2 + - - +
227C LYS* 4.1 1.2 - - - +
228C ALA* 3.1 27.0 + - - +
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Residues in contact with ILE 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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166C ILE* 4.3 10.8 - - + -
184C ILE* 4.0 17.9 - - + -
221C LEU 2.8 30.3 + - - +
222C MET* 3.7 21.8 - - + +
224C CYS* 1.3 73.2 - - - +
226C LYS* 1.3 63.0 + - - +
228C ALA* 3.5 2.6 + - - +
229C GLY 3.4 2.9 + - - -
230C TYR* 3.1 48.6 + - + +
231C GLU* 4.0 7.6 - - + +
232C ASN 4.9 1.1 - - - +
234C VAL* 3.6 47.8 - - + +
236C ILE* 4.4 8.3 - - + -
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Residues in contact with LYS 226 (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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222C MET 2.9 16.8 + - - +
223C THR* 3.6 5.4 - - - +
225C ILE* 1.3 79.5 - - - +
227C LYS* 1.3 63.9 + - + +
229C GLY* 3.0 15.2 + - - -
231C GLU* 3.5 44.7 + - + +
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Residues in contact with LYS 227 (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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187C ILE* 4.2 22.2 - - + +
191C GLU* 2.7 41.7 + - + +
223C THR* 2.9 34.4 + - + +
224C CYS 3.5 2.7 + - - +
226C LYS* 1.3 73.7 - - + +
228C ALA* 1.3 60.1 + - - +
229C GLY* 3.4 1.2 + - - -
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Residues in contact with ALA 228 (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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183C GLU* 4.5 4.3 - - + +
184C ILE* 3.7 26.9 - - + +
187C ILE* 3.5 23.3 - - + +
224C CYS 3.1 19.2 + - - +
225C ILE 3.8 1.6 - - - +
226C LYS 3.2 0.2 - - - -
227C LYS* 1.3 76.9 - - - +
229C GLY* 1.3 58.1 + - - +
230C TYR* 3.5 24.7 - - + -
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Residues in contact with GLY 229 (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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225C ILE 3.4 0.2 + - - -
226C LYS 3.0 14.1 + - - -
227C LYS 3.2 1.5 - - - -
228C ALA* 1.3 80.2 - - - +
230C TYR* 1.3 67.2 + - - +
231C GLU* 3.5 4.0 + - - +
233C ARG* 4.5 7.1 + - - -
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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