Contacts of the helix formed by residues 206 - 219 (chain E) 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 E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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163E VAL* 5.8 0.7 - - - -
205E THR* 1.3 80.2 - - - +
207E LYS* 1.3 66.5 + - - +
208E THR 3.3 2.0 - - - -
209E LEU* 3.7 8.7 - - - +
210E LEU* 2.8 34.2 + - - +
328E VAL* 4.8 0.2 - - - -
1604E ADP 3.0 35.6 + - - -
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Residues in contact with LYS 207 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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199E LEU* 3.3 52.3 - - + +
201E GLY 2.8 34.3 - - - +
202E PRO 3.5 8.9 + - - -
203E PRO* 4.3 2.0 - - - +
205E THR* 3.6 7.1 - - - +
206E GLY* 1.3 79.1 - - - +
208E THR* 1.3 63.2 + - - +
210E LEU* 3.6 0.6 - - - +
211E ALA* 3.2 15.2 + - - +
258E PHE* 4.6 2.0 - - - -
260E ASP* 5.3 2.0 + - - -
305E ALA* 3.9 18.0 - - + +
306E THR 3.8 11.9 - - - +
307E ASN* 4.6 1.3 - - - +
328E VAL* 4.3 15.0 - - + +
1604E ADP 2.3 48.2 + - - +
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Residues in contact with THR 208 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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207E LYS* 1.3 74.8 - - - +
209E LEU* 1.3 65.6 + - - +
211E ALA* 2.9 5.0 + - - +
212E ARG* 2.9 40.3 + - + +
224E HIS* 3.6 32.8 - - + +
258E PHE* 3.7 26.9 - - + -
260E ASP* 4.1 7.1 + - - -
1604E ADP 2.6 36.8 + - - -
1605E MG 4.1 0.5 - - - -
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Residues in contact with LEU 209 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158E VAL* 3.9 16.6 - - + +
162E ASP* 3.5 16.6 - - + +
163E VAL* 4.2 13.0 - - + -
206E GLY* 3.7 10.3 - - - +
208E THR* 1.3 74.9 - - - +
210E LEU* 1.3 57.9 + - - +
212E ARG* 3.4 28.4 + - - +
213E ALA* 2.8 28.1 + - - +
1604E ADP 3.0 81.4 + - + +
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Residues in contact with LEU 210 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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160E PHE* 4.3 7.9 - - + -
163E VAL* 4.1 17.7 - - + -
166E ALA* 4.5 9.0 - - + -
169E ALA* 4.2 14.4 - - + -
170E ILE* 3.8 27.1 - - + -
173E LEU* 3.6 27.8 - - + -
199E LEU* 4.5 5.6 - - + -
205E THR 5.4 0.7 - - - +
206E GLY* 2.8 26.3 + - - +
207E LYS* 3.6 4.0 - - - +
209E LEU* 1.3 69.9 - - - +
211E ALA* 1.3 67.2 + - - +
213E ALA* 2.8 14.6 + - - +
214E VAL* 2.9 18.8 + - - +
328E VAL* 3.8 29.2 - - + -
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Residues in contact with ALA 211 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199E LEU* 4.5 1.4 - - - +
207E LYS 3.2 4.1 + - - +
208E THR 2.9 8.9 + - - +
210E LEU* 1.3 78.7 - - - +
212E ARG* 1.3 63.1 + - - +
214E VAL* 3.3 5.0 + - - +
215E ALA 3.2 15.2 + - - -
222E PHE* 3.7 13.9 - - + -
256E ILE* 3.8 7.3 - - - +
258E PHE* 3.3 39.3 - - + -
303E MET* 4.1 23.3 - - + -
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Residues in contact with ARG 212 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155E ASN* 4.0 15.7 - - - +
156E LYS* 2.9 38.8 + - - +
158E VAL* 3.4 35.4 + - + +
208E THR* 2.9 32.0 + - + +
209E LEU* 3.5 20.1 - - - +
211E ALA* 1.3 75.8 - - - +
213E ALA* 1.3 64.4 + - - +
215E ALA* 3.2 3.4 + - - +
216E GLY* 2.9 19.2 + - - -
222E PHE* 3.9 32.3 - - + -
224E HIS* 5.7 1.8 - - - -
1604E ADP 4.5 8.7 + - - -
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Residues in contact with ALA 213 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158E VAL* 3.4 15.4 - - + +
159E THR 3.9 12.6 - - - +
160E PHE* 3.8 24.9 - - + -
163E VAL* 4.0 10.8 - - + -
209E LEU 2.8 18.7 + - - +
210E LEU 2.8 9.8 + - - +
212E ARG* 1.3 73.2 - - - +
214E VAL* 1.3 52.8 + - - +
216E GLY 3.2 1.0 + - - -
217E GLU* 2.7 40.0 + - - +
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Residues in contact with VAL 214 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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160E PHE* 4.3 7.4 - - + -
173E LEU* 3.9 39.5 - - + -
176E VAL* 4.1 14.8 - - + -
177E VAL* 4.1 15.4 - - + +
180E LEU* 3.6 16.4 - - + -
210E LEU 2.9 16.4 + - - +
211E ALA* 3.4 8.1 - - - +
213E ALA* 1.3 75.8 - - - +
215E ALA* 1.3 62.9 + - - +
217E GLU* 3.1 2.6 + - - +
218E ALA* 3.0 22.7 + - - +
256E ILE* 3.3 18.8 - - + -
303E MET* 4.7 6.1 - - - -
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Residues in contact with ALA 215 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211E ALA 3.2 1.6 + - - -
212E ARG 3.2 9.0 + - - +
214E VAL* 1.3 78.8 - - - +
216E GLY* 1.3 58.0 + - - +
218E ALA* 3.4 1.3 + - - -
219E ASN 2.8 23.7 + - - -
220E VAL* 3.0 30.7 + - - +
221E PRO 4.6 1.8 - - - +
222E PHE* 3.8 27.8 - - + -
256E ILE* 3.4 20.8 - - + +
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Residues in contact with GLY 216 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157E ARG* 2.0 49.6 + - - -
158E VAL 3.4 16.4 - - - -
159E THR* 4.3 0.2 - - - -
212E ARG 2.9 11.6 + - - -
215E ALA* 1.3 77.5 - - - +
217E GLU* 1.3 62.2 + - - +
219E ASN* 3.1 9.2 + - - +
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Residues in contact with GLU 217 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157E ARG* 4.3 0.9 - - - +
158E VAL 4.1 0.8 + - - -
159E THR* 3.1 17.8 - - - +
160E PHE* 2.7 58.5 + - + +
161E LYS* 5.4 5.0 + - - -
177E VAL* 3.9 24.3 - - + +
181E LYS* 4.6 7.6 - - - +
213E ALA 2.7 17.9 + - - +
214E VAL 3.1 4.5 + - - +
216E GLY* 1.3 73.5 - - - +
218E ALA* 1.3 58.4 + - - +
219E ASN* 5.2 0.5 - - - +
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Residues in contact with ALA 218 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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177E VAL* 3.9 16.2 - - + +
180E LEU* 3.7 32.5 - - + -
181E LYS* 4.0 22.6 - - + +
214E VAL 3.0 15.0 + - - +
215E ALA 4.1 1.6 - - - +
217E GLU* 1.3 75.7 - - - +
219E ASN* 1.3 73.7 + - - +
220E VAL* 3.7 9.0 - - + +
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Residues in contact with ASN 219 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157E ARG* 4.0 24.7 + - - +
215E ALA 2.8 9.2 + - - -
216E GLY 3.1 10.0 + - - +
217E GLU 5.2 0.7 - - - +
218E ALA* 1.3 84.2 - - - +
220E VAL* 1.3 58.0 + - - +
221E PRO* 4.9 0.2 - - - +
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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