Contacts of the helix formed by residues 211 - 223 (chain A) 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 A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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174A ARG 5.7 0.4 - - - +
175A ARG* 3.5 22.6 + - + +
176A SER* 5.6 1.8 - - - +
210A LEU* 1.3 80.9 - - - +
212A THR* 1.3 66.7 - - - +
213A ASP* 2.7 22.1 + - - -
214A GLU* 3.3 9.0 + - - +
215A THR* 3.0 20.0 + - - -
275B GLY 4.9 0.2 - - - -
301B ASN* 3.4 21.3 - - - +
302B MSE 3.9 21.5 - - - +
303B ARG* 3.6 26.1 + - + +
327B ASN* 6.0 1.3 - - + -
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Residues in contact with THR 212 (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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211A THR* 1.3 71.6 - - - +
213A ASP* 1.3 64.1 + - - +
215A THR* 3.2 6.8 + - - -
216A ILE* 3.0 46.7 + - + +
241A ALA* 3.6 10.8 - - + +
244A VAL* 4.2 16.2 - - + -
245A ILE* 3.9 16.8 - - + +
274B CYS 5.8 1.3 - - - -
275B GLY* 5.5 5.2 - - - -
300B TYR 4.6 2.1 + - - -
301B ASN* 2.9 36.4 + - - +
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Residues in contact with ASP 213 (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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211A THR* 2.7 28.8 + - - -
212A THR* 1.3 78.1 - - - +
214A GLU* 1.3 63.7 + - - -
216A ILE* 3.3 8.8 + - - +
217A ARG* 3.0 26.9 + - - +
252B PRO* 3.7 30.3 - - + +
275B GLY* 4.0 20.7 - - - +
276B ILE* 3.6 13.5 - - - +
303B ARG* 2.7 33.7 + - - -
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Residues in contact with GLU 214 (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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182A ILE* 3.8 24.3 - - + +
210A LEU* 3.8 23.1 - - + +
211A THR* 3.3 9.6 + - - +
213A ASP* 1.3 81.5 + - - +
215A THR* 1.3 59.5 + - - +
217A ARG* 2.7 44.0 + - - +
218A PHE* 2.9 29.8 + - - +
228B CYS* 5.2 2.6 - - - -
303B ARG* 2.6 44.7 + - - +
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Residues in contact with THR 215 (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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206A LEU* 4.1 13.5 - - + -
209A GLY* 4.1 0.2 - - - -
210A LEU* 3.0 33.8 + - - +
211A THR 3.0 16.4 + - - -
212A THR* 3.2 6.5 + - - -
214A GLU* 1.3 73.1 - - - +
216A ILE* 1.3 67.8 + - - +
218A PHE* 3.2 6.3 + - - +
219A CYS* 2.9 26.9 + - - -
233A PRO* 3.3 36.6 + - + +
245A ILE* 4.2 10.8 - - + -
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Residues in contact with ILE 216 (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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212A THR* 3.0 39.0 + - + +
213A ASP* 3.6 8.1 - - - +
215A THR* 1.3 75.8 - - - +
217A ARG* 1.3 64.1 + - - +
219A CYS* 3.2 2.3 + - - +
220A ARG* 3.0 62.9 + - - +
244A VAL* 4.6 3.8 - - + -
245A ILE* 4.2 17.3 - - + -
248A GLN* 3.7 32.5 - - + +
249A ILE* 3.9 12.3 - - + -
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Residues in contact with ARG 217 (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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182A ILE* 6.1 5.2 - - + -
213A ASP 3.0 13.8 + - - +
214A GLU* 2.7 50.3 + - - +
215A THR 3.2 0.2 - - - -
216A ILE* 1.3 79.0 - - - +
218A PHE* 1.3 62.8 + - - +
220A ARG* 3.4 9.0 + - - +
221A LYS* 3.1 26.0 + - + +
226B ASP* 4.8 12.4 + - - -
227B ILE 2.7 29.7 + - - -
228B CYS* 3.3 16.0 + - - +
250B PRO 5.3 2.2 + - - -
251B LEU* 5.6 0.4 - - - +
252B PRO* 3.3 29.6 - - + +
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Residues in contact with PHE 218 (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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160A PRO* 4.3 6.5 - - + -
161A LEU* 4.4 9.0 - - + -
177A MSE 5.9 0.9 - - + -
182A ILE* 4.2 22.0 - - + -
185A ALA* 3.7 19.7 - - + -
186A TYR* 3.6 31.2 - - + -
189A VAL* 4.1 13.7 - - + -
204A VAL* 4.8 0.2 - - + -
206A LEU* 4.0 33.7 - - + -
210A LEU* 5.5 5.8 - - + -
214A GLU 2.9 17.4 + - - +
215A THR* 3.2 6.5 + - - +
217A ARG* 1.3 77.5 - - - +
219A CYS* 1.3 63.1 + - - +
221A LYS* 3.2 11.2 + - + +
222A ILE* 3.1 51.8 + - + +
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Residues in contact with CYS 219 (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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206A LEU* 4.0 24.7 - - - -
215A THR* 2.9 27.0 + - - +
218A PHE* 1.3 79.2 - - - +
220A ARG* 1.3 61.3 + - - +
222A ILE* 3.5 11.6 - - - +
223A GLY* 3.1 19.2 + - - -
230A VAL* 4.2 11.7 - - - -
233A PRO* 5.0 1.3 - - - -
249A ILE* 3.7 36.6 - - + -
250A PRO* 4.5 1.4 - - - +
251A LEU* 3.6 20.5 - - + +
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Residues in contact with ARG 220 (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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216A ILE* 3.0 34.5 + - + +
217A ARG* 3.7 8.2 - - - +
219A CYS* 1.3 76.7 - - - +
221A LYS* 1.3 58.7 + - - +
223A GLY* 3.3 5.0 + - - -
224A GLU* 2.8 24.8 - - - +
248A GLN* 2.7 54.4 + - - +
249A ILE* 4.8 0.4 - - - -
250A PRO* 4.1 22.9 - - + +
249B ILE 4.9 2.8 + - - -
250B PRO* 4.0 33.1 + - - +
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Residues in contact with LYS 221 (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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182A ILE* 6.0 4.9 - - + +
183A GLU* 3.9 15.3 + - - +
186A TYR* 3.6 57.7 + - + -
187A ARG* 6.0 1.0 - - - +
217A ARG* 3.1 16.8 + - + +
218A PHE* 3.2 15.2 + - + +
220A ARG* 1.3 77.2 - - - +
222A ILE* 1.3 56.2 + - + +
224A GLU* 2.7 20.0 + - - +
225A LEU* 5.1 0.5 - - - +
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Residues in contact with ILE 222 (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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186A TYR* 3.9 20.9 - - + -
189A VAL* 4.2 16.2 - - + -
204A VAL* 4.2 23.1 - - + -
218A PHE* 3.1 44.3 + - + +
219A CYS* 3.5 17.5 - - - +
221A LYS* 1.3 72.2 - - - +
223A GLY* 1.3 59.3 + - - +
224A GLU 3.1 3.6 - - - -
225A LEU* 2.8 37.1 + - + +
227A ILE* 3.6 18.5 - - + +
230A VAL* 5.6 1.3 - - + -
251A LEU* 4.0 18.4 - - + -
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Residues in contact with GLY 223 (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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219A CYS 3.1 15.2 + - - -
220A ARG 3.3 3.9 + - - -
221A LYS 3.3 2.8 - - - -
222A ILE* 1.3 77.4 - - - +
224A GLU* 1.3 65.7 + - - +
225A LEU 3.1 1.5 + - - -
226A ASP* 3.4 12.1 + - - -
227A ILE* 4.6 1.4 + - - -
250A PRO* 4.7 7.6 - - - -
251A LEU* 3.7 21.2 - - - +
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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