Contacts of the helix formed by residues 211 - 222 (chain G) 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 G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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174G ARG 5.6 0.4 - - - +
175G ARG* 3.7 22.4 + - + +
210G LEU* 1.3 78.9 - - - +
212G THR* 1.3 68.8 + - - +
213G ASP* 2.6 22.4 + - - -
214G GLU* 3.0 9.9 + - - +
215G THR* 3.0 18.9 + - - -
275H GLY 4.8 0.4 - - - -
301H ASN* 3.3 23.3 - - - +
302H MSE 4.1 7.6 - - - +
303H ARG* 3.2 42.7 + - + -
327H ASN* 6.2 1.1 - - + -
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Residues in contact with THR 212 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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211G THR* 1.3 71.2 - - - +
213G ASP* 1.3 63.5 + - - +
215G THR* 3.3 5.8 + - - -
216G ILE* 3.0 48.2 + - + +
241G ALA* 3.6 9.9 - - + +
244G VAL* 4.0 17.5 - - + -
245G ILE* 3.9 16.2 - - + -
274H CYS 5.9 0.9 - - - -
275H GLY* 5.5 5.2 - - - -
300H TYR 4.6 2.3 + - - -
301H ASN* 2.7 40.3 + - - +
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Residues in contact with ASP 213 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211G THR* 2.6 31.5 + - - -
212G THR* 1.3 78.6 - - - +
214G GLU* 1.3 69.6 + - - +
216G ILE* 3.4 8.2 + - - +
217G ARG* 3.2 22.2 + - - +
252H PRO* 3.9 30.8 - - + +
275H GLY* 4.1 21.7 - - - +
276H ILE* 3.8 13.0 - - - +
303H ARG* 2.9 26.5 + - - -
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Residues in contact with GLU 214 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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175G ARG 6.0 0.7 - - - +
182G ILE* 4.4 16.0 - - + +
210G LEU* 3.5 29.5 - - + +
211G THR* 3.0 9.8 + - - +
213G ASP* 1.3 83.6 + - - +
215G THR* 1.3 65.9 + - - +
217G ARG* 3.4 37.3 + - - +
218G PHE* 3.0 24.4 + - - +
228H CYS* 5.0 4.7 - - - +
252H PRO* 5.1 0.3 - - - +
303H ARG* 2.9 44.7 + - - +
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Residues in contact with THR 215 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206G LEU* 4.4 7.6 - - + -
210G LEU* 3.0 34.0 + - - +
211G THR 3.0 10.3 + - - -
212G THR* 3.6 10.3 - - - -
214G GLU* 1.3 78.6 - - - +
216G ILE* 1.3 58.4 + - - +
218G PHE* 3.4 5.2 + - - +
219G CYS* 2.9 37.8 + - - -
233G PRO* 3.2 37.9 + - + +
245G ILE* 4.3 10.5 - - + +
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Residues in contact with ILE 216 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
212G THR* 3.0 39.9 + - + +
213G ASP* 3.7 7.2 - - - +
215G THR* 1.3 76.6 - - - +
217G ARG* 1.3 63.8 + - - +
219G CYS* 3.3 2.4 + - - +
220G ARG* 3.0 58.2 + - - +
244G VAL* 4.4 2.9 - - + -
245G ILE* 4.1 17.7 - - + -
248G GLN* 3.7 36.8 - - + +
249G ILE* 3.9 13.2 - - + +
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Residues in contact with ARG 217 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182G ILE* 6.6 0.2 - - - -
213G ASP 3.2 11.0 + - - +
214G GLU* 3.4 41.2 + - - +
215G THR 3.3 0.2 - - - -
216G ILE* 1.3 81.3 - - - +
218G PHE* 1.3 63.0 + - - +
220G ARG* 3.3 11.5 + - - +
221G LYS* 3.0 25.6 + - + +
226H ASP* 4.6 13.8 + - - -
227H ILE 2.7 31.5 + - - +
228H CYS* 3.5 13.6 + - - +
250H PRO 5.3 1.8 + - - -
251H LEU* 5.3 0.4 - - - +
252H PRO* 3.3 27.0 - - + +
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Residues in contact with PHE 218 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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160G PRO* 4.4 4.5 - - + -
161G LEU* 4.2 11.9 - - + -
177G MSE 6.0 0.7 - - + -
182G ILE* 4.1 23.8 - - + -
185G ALA* 3.7 25.8 - - + -
186G TYR* 3.6 30.5 - - + -
189G VAL* 4.2 6.7 - - + -
206G LEU* 4.1 33.7 - - + -
210G LEU* 5.7 3.6 - - + -
214G GLU 3.0 16.9 + - - +
215G THR* 3.7 5.6 - - - +
217G ARG* 1.3 78.3 - - - +
219G CYS* 1.3 65.0 + - - +
221G LYS* 3.1 20.6 + - + +
222G ILE* 3.1 45.3 + - + +
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Residues in contact with CYS 219 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206G LEU* 4.3 6.5 - - - -
215G THR* 2.9 35.1 + - - +
218G PHE* 1.3 77.4 - - - +
220G ARG* 1.3 61.6 + - - +
222G ILE* 3.4 9.5 - - - +
223G GLY* 3.3 15.1 + - - -
230G VAL* 4.2 18.8 - - - -
233G PRO* 5.0 1.3 - - - -
245G ILE* 5.3 0.2 - - - -
249G ILE* 3.7 33.0 - - + -
250G PRO* 4.4 2.0 - - - +
251G LEU* 3.4 32.6 - - + +
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Residues in contact with ARG 220 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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216G ILE* 3.0 33.9 + - - +
217G ARG* 3.6 9.2 - - - +
219G CYS* 1.3 75.7 - - - +
221G LYS* 1.3 65.1 + - - +
223G GLY* 3.0 12.5 + - - -
224G GLU* 3.1 12.8 - - - +
248G GLN* 3.1 49.1 + - - +
249G ILE* 4.8 0.2 - - - -
250G PRO* 4.0 23.4 - - + +
249H ILE 4.9 2.6 + - - -
250H PRO* 3.8 36.3 + - - +
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Residues in contact with LYS 221 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182G ILE* 6.3 2.2 - - + -
183G GLU* 4.5 13.6 + - - +
186G TYR* 3.5 61.9 + - + -
187G ARG* 6.0 0.4 - - - +
217G ARG* 3.0 16.8 + - + +
218G PHE* 3.1 15.9 + - + +
220G ARG* 1.3 78.5 - - - +
222G ILE* 1.3 57.9 + - + +
224G GLU* 3.3 16.4 + - - +
225G LEU* 5.2 0.3 - - - +
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Residues in contact with ILE 222 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186G TYR* 3.9 20.9 - - + -
189G VAL* 4.2 16.2 - - + -
204G VAL* 4.7 16.4 - - + -
206G LEU* 6.2 0.4 - - + -
218G PHE* 3.1 45.5 + - + +
219G CYS* 3.4 16.6 - - - +
221G LYS* 1.3 74.3 - - - +
223G GLY* 1.3 64.5 + - - +
224G GLU 3.2 3.4 - - - -
225G LEU* 2.9 30.2 + - + +
227G ILE* 3.5 20.5 - - + +
230G VAL* 5.9 1.1 - - + -
251G LEU* 3.7 21.1 - - + -
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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