Contacts of the helix formed by residues 211 - 222 (chain C) in PDB entry 2POZ
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 211 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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174C ARG 5.7 0.2 - - - +
175C ARG* 3.8 22.9 + - + +
176C SER* 5.9 0.2 - - - +
210C LEU* 1.3 81.8 - - - +
212C THR* 1.3 68.9 + - - +
213C ASP* 2.6 22.3 + - - -
214C GLU* 3.2 7.6 + - - +
215C THR* 3.0 18.9 + - - -
275D GLY 4.8 0.4 - - - -
301D ASN* 3.2 23.8 - - - +
302D MSE 4.0 18.6 - - - +
303D ARG* 3.6 30.2 + - + +
327D ASN* 6.1 0.9 - - + -
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Residues in contact with THR 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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211C THR* 1.3 72.7 - - - +
213C ASP* 1.3 64.4 + - - +
215C THR* 3.2 5.7 + - - -
216C ILE* 2.9 48.8 + - + +
241C ALA* 3.6 11.7 - - - +
244C VAL* 4.0 17.3 - - + -
245C ILE* 3.8 17.7 - - + +
272D GLN* 5.5 0.9 + - - -
274D CYS 5.7 2.5 - - - -
275D GLY* 5.6 4.9 - - - -
300D TYR 4.7 1.7 + - - -
301D ASN* 2.8 33.9 + - - +
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Residues in contact with ASP 213 (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 THR* 2.6 31.6 + - - -
212C THR* 1.3 75.8 - - - +
214C GLU* 1.3 68.3 + - - -
216C ILE* 3.4 8.8 + - - +
217C ARG* 3.1 22.4 + - - +
252D PRO* 3.8 32.2 - - + +
275D GLY* 4.1 20.5 - - - +
276D ILE* 3.7 14.2 - - - +
303D ARG* 3.0 29.1 + - - -
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Residues in contact with GLU 214 (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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182C ILE* 4.2 20.0 - - + +
210C LEU* 3.5 32.0 - - + +
211C THR* 3.2 3.9 + - - +
213C ASP* 1.3 85.2 + - - +
215C THR* 1.3 57.5 + - - +
217C ARG* 2.8 41.5 + - - +
218C PHE* 3.0 28.2 + - - +
228D CYS* 4.9 2.9 - - - +
303D ARG* 2.6 44.4 + - - +
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Residues in contact with THR 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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206C LEU* 4.0 18.6 - - + -
209C GLY* 4.1 0.2 - - - -
210C LEU* 3.0 33.7 + - - +
211C THR 3.0 14.7 + - - -
212C THR* 3.6 6.3 - - - -
214C GLU* 1.3 75.2 - - - +
216C ILE* 1.3 65.8 - - - +
218C PHE* 3.3 6.2 + - - +
219C CYS* 2.9 31.2 + - - -
233C PRO* 3.3 28.2 + - + +
245C ILE* 4.2 10.3 - - + +
301D ASN* 5.3 0.2 + - - -
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Residues in contact with ILE 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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212C THR* 2.9 41.2 + - + +
213C ASP* 3.7 7.9 - - - +
215C THR* 1.3 75.0 - - - +
217C ARG* 1.3 65.0 + - - +
219C CYS* 3.3 1.6 + - - +
220C ARG* 3.0 58.1 + - - +
244C VAL* 4.5 6.7 - - + -
245C ILE* 4.3 10.3 - - + -
248C GLN* 3.6 33.4 - - + +
249C ILE* 3.9 15.2 - - + +
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Residues in contact with ARG 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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182C ILE* 6.4 2.0 - - + -
213C ASP 3.1 14.5 + - - +
214C GLU* 2.8 48.9 + - - +
216C ILE* 1.3 78.7 - - - +
218C PHE* 1.3 62.4 + - - +
220C ARG* 3.4 7.7 + - - +
221C LYS* 3.0 27.3 + - + +
226D ASP* 4.7 12.7 + - - -
227D ILE 2.7 30.3 + - - -
228D CYS* 3.4 15.4 + - - +
250D PRO 5.4 1.0 + - - -
251D LEU* 6.0 0.4 - - - +
252D PRO* 3.3 29.2 - - + +
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Residues in contact with PHE 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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160C PRO* 4.3 7.9 - - + -
161C LEU* 4.5 9.2 - - + -
177C MSE 6.1 0.4 - - + -
182C ILE* 4.4 23.3 - - + -
185C ALA* 3.6 26.7 - - + -
186C TYR* 3.6 31.0 - - + -
189C VAL* 4.2 6.7 - - + -
206C LEU* 4.1 31.6 - - + -
210C LEU* 5.6 4.0 - - + -
214C GLU 3.0 17.1 + - - +
215C THR* 3.7 5.8 - - - +
217C ARG* 1.3 74.7 - - - +
219C CYS* 1.3 67.9 + - - +
221C LYS* 3.1 11.3 + - + +
222C ILE* 3.1 54.8 + - + +
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Residues in contact with CYS 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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206C LEU* 4.3 15.9 - - - -
215C THR* 2.9 35.8 + - - +
218C PHE* 1.3 78.2 - - - +
220C ARG* 1.3 61.8 + - - +
222C ILE* 3.3 9.5 - - - +
223C GLY* 3.2 16.1 + - - -
230C VAL* 4.4 6.5 - - - -
233C PRO* 4.9 1.1 - - - -
249C ILE* 3.7 32.8 - - + -
250C PRO* 4.3 1.5 - - - +
251C LEU* 3.5 34.2 - - + +
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Residues in contact with ARG 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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216C ILE* 3.0 33.9 + - - +
217C ARG* 3.7 6.3 - - - +
219C CYS* 1.3 76.3 - - - +
221C LYS* 1.3 64.8 + - - +
223C GLY* 3.1 13.7 + - - -
224C GLU* 3.8 9.4 - - - +
248C GLN* 2.8 53.3 + - - +
249C ILE* 4.7 0.7 - - - -
250C PRO* 3.9 25.0 - - + +
249D ILE 4.9 2.8 + - - -
250D PRO* 3.7 37.0 + - - +
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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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182C ILE* 6.3 2.7 - - + -
183C GLU* 4.1 14.9 + - - +
186C TYR* 3.6 59.1 + - + -
217C ARG* 3.0 22.4 + - + +
218C PHE* 3.1 11.9 + - + +
220C ARG* 1.3 78.4 - - - +
222C ILE* 1.3 59.1 + - + +
223C GLY 3.7 0.3 + - - -
224C GLU* 4.4 10.9 + - - +
225C LEU* 5.2 0.5 - - - +
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Residues in contact with ILE 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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186C TYR* 3.8 22.7 - - + -
189C VAL* 4.3 9.9 - - + -
204C VAL* 4.7 16.4 - - + -
218C PHE* 3.1 49.6 + - + +
219C CYS* 3.3 15.3 - - - +
221C LYS* 1.3 74.3 - - - +
223C GLY* 1.3 65.0 + - - +
224C GLU 3.1 3.4 - - - -
225C LEU* 2.9 36.0 + - + +
227C ILE* 3.7 21.1 - - + +
230C VAL* 5.8 1.3 - - + -
251C LEU* 4.1 18.4 - - + -
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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