Contacts of the helix formed by residues 206 - 218 (chain C) in PDB entry 2CEA
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 GLY 206 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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163C VAL* 5.3 1.9 - - - +
204C GLY 3.4 0.2 - - - -
205C THR* 1.3 80.5 - - - +
207C LYS* 1.3 67.3 + - - +
208C THR 3.4 1.6 - - - -
209C LEU* 3.2 12.8 - - - +
210C LEU* 2.8 31.7 + - - +
328C VAL* 5.4 0.4 - - - -
1608C ADP 3.0 34.2 + - - -
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Residues in contact with LYS 207 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199C LEU* 3.9 41.0 - - + +
201C GLY 3.2 30.6 + - - +
202C PRO 3.0 18.3 + - - -
205C THR* 3.5 6.7 - - - +
206C GLY* 1.3 78.8 - - - +
208C THR* 1.3 67.1 + - - +
210C LEU* 3.1 10.4 + - - +
211C ALA* 3.3 8.7 + - - +
258C PHE* 4.8 1.6 - - - -
260C ASP* 5.3 1.8 + - - -
305C ALA* 4.0 18.2 - - + +
306C THR* 4.0 3.6 - - - +
307C ASN* 3.8 21.2 + - - +
328C VAL* 4.7 12.8 - - + +
1608C ADP 2.8 33.0 + - - +
1609C MG 3.2 17.1 - - - -
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Residues in contact with THR 208 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207C LYS* 1.3 76.7 - - - +
209C LEU* 1.3 65.3 + - - +
211C ALA* 3.1 13.5 + - - +
212C ARG* 3.2 33.1 + - - +
224C HIS* 4.0 19.9 - - + +
258C PHE* 3.6 33.9 - - + -
260C ASP* 4.1 10.2 + - - -
1608C ADP 3.0 32.7 + - - -
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Residues in contact with LEU 209 (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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158C VAL* 3.8 23.4 - - + +
162C ASP* 4.0 20.4 - - + +
163C VAL* 3.9 16.8 - - + -
206C GLY* 3.2 14.8 - - - +
207C LYS 3.2 0.2 - - - -
208C THR* 1.3 78.1 - - - +
210C LEU* 1.3 52.4 + - - +
212C ARG* 3.0 17.1 + - - +
213C ALA* 2.7 34.3 + - - +
343C HIS* 5.9 0.7 - - + -
1608C ADP 3.4 60.1 + - + +
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Residues in contact with LEU 210 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160C PHE* 4.3 20.6 - - + -
163C VAL* 3.9 28.0 - - + -
166C ALA* 4.7 8.1 - - + -
169C ALA* 3.9 24.5 - - + -
170C ILE* 4.4 12.8 - - + +
173C LEU* 4.3 15.0 - - + -
199C LEU* 4.1 21.1 - - + -
205C THR 5.9 0.2 - - - +
206C GLY 2.8 22.4 + - - +
207C LYS 3.7 3.6 - - - +
209C LEU* 1.3 72.4 - - - +
211C ALA* 1.3 64.3 + - - +
213C ALA* 3.0 5.1 + - - +
214C VAL* 2.8 29.3 + - - +
303C MET* 4.8 0.2 - - - -
328C VAL* 4.1 11.4 - - + -
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Residues in contact with ALA 211 (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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207C LYS 3.3 7.5 + - - +
208C THR 3.1 11.2 + - - +
210C LEU* 1.3 79.3 - - - +
212C ARG* 1.3 63.8 + - - +
214C VAL* 3.2 6.1 + - - +
215C ALA* 3.2 15.8 + - - +
222C PHE* 3.7 20.7 - - + -
256C ILE* 3.9 7.1 - - - +
258C PHE* 3.9 21.3 - - + -
303C MET* 3.6 28.2 - - + +
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Residues in contact with ARG 212 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153C SER* 5.7 2.2 + - - -
155C ASN* 2.8 45.2 + - - +
156C LYS* 3.5 22.2 + - - +
158C VAL* 3.3 25.2 + - + +
208C THR* 3.4 30.2 - - - +
209C LEU* 3.0 15.7 + - - +
211C ALA* 1.3 73.0 - - - +
213C ALA* 1.3 55.7 + - - +
215C ALA* 3.1 5.9 + - - +
216C GLY* 2.7 32.6 + - - -
222C PHE* 3.6 34.4 - - + -
224C HIS* 5.6 1.1 - - - -
1608C ADP 6.0 0.2 + - - -
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Residues in contact with ALA 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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158C VAL* 3.0 21.3 - - + +
159C THR 3.8 11.0 - - - +
160C PHE* 3.5 26.9 - - + -
163C VAL* 4.0 6.3 - - + -
209C LEU 2.7 16.9 + - - +
210C LEU* 3.0 12.3 + - - +
212C ARG* 1.3 72.5 - - - +
214C VAL* 1.3 56.4 + - - +
217C GLU* 2.8 34.8 + - - +
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Residues in contact with VAL 214 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160C PHE* 4.1 17.0 - - + -
173C LEU* 3.7 34.3 - - + -
176C VAL* 3.5 27.1 - - + -
177C VAL* 4.0 8.1 - - + +
180C LEU* 3.7 4.0 - - + -
210C LEU 2.8 20.7 + - - +
211C ALA 3.3 8.3 - - - +
213C ALA* 1.3 76.5 - - - +
215C ALA* 1.3 56.0 + - - +
217C GLU* 3.4 1.9 + - - +
218C ALA* 3.1 27.5 + - - +
256C ILE* 3.3 19.1 - - + -
303C MET* 4.3 8.1 - - - -
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Residues in contact with ALA 215 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157C ARG* 5.3 0.4 - - - -
180C LEU* 4.9 0.4 - - - -
211C ALA 3.2 1.6 + - - +
212C ARG* 3.1 8.8 + - - +
214C VAL* 1.3 77.3 - - - +
216C GLY* 1.3 58.4 + - - +
218C ALA* 3.5 2.5 + - - -
219C ASN* 3.0 7.3 + - - -
220C VAL* 2.9 39.1 + - - +
221C PRO 4.5 0.9 - - - +
222C PHE* 3.7 35.2 - - + -
256C ILE* 3.4 21.5 - - + +
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Residues in contact with GLY 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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157C ARG* 3.1 45.7 + - - -
158C VAL 3.2 19.5 - - - -
159C THR* 4.4 1.3 - - - -
212C ARG 2.7 14.7 + - - -
215C ALA* 1.3 73.7 - - - +
217C GLU* 1.3 56.6 + - - +
219C ASN* 3.1 16.1 + - - +
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Residues in contact with GLU 217 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158C VAL 3.9 0.8 + - - -
159C THR* 2.8 21.5 - - - +
160C PHE* 2.8 59.8 + - + -
161C LYS 5.5 0.2 - - - -
177C VAL* 3.7 14.1 - - + -
181C LYS* 2.7 35.7 + - - +
213C ALA 2.8 16.2 + - - +
214C VAL 3.8 4.0 - - - +
216C GLY* 1.3 76.1 - - - +
218C ALA* 1.3 52.8 + - - +
219C ASN* 3.3 0.6 + - - +
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Residues in contact with ALA 218 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177C VAL* 4.0 12.3 - - + +
180C LEU* 3.4 37.0 - - + -
181C LYS* 3.8 20.4 - - + +
214C VAL 3.1 16.3 + - - +
215C ALA 3.5 2.0 + - - +
216C GLY 3.2 0.2 - - - -
217C GLU* 1.3 77.0 - - - +
219C ASN* 1.3 71.1 + - - +
220C VAL* 3.1 9.8 + - + +
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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