Contacts of the helix formed by residues 207 - 229 (chain E) in PDB entry 6BCR
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 ASN 207 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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205E THR 5.4 0.5 - - - +
206E LEU* 1.3 77.0 - - - +
208E GLU* 1.3 57.2 + - - +
209E ASP* 3.2 15.2 - - + +
210E SER* 4.2 16.2 + - - +
211E TYR* 2.7 37.1 + - - +
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Residues in contact with GLU 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 ASN* 1.3 72.1 - - - +
209E ASP* 1.3 64.9 + - - +
211E TYR* 3.2 33.8 - - - -
212E LYS* 3.0 30.1 + - - +
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Residues in contact with ASP 209 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207E ASN* 3.2 12.0 - - + +
208E GLU* 1.3 81.0 - - - +
210E SER* 1.3 63.1 + - - +
212E LYS* 3.6 4.0 + - - +
213E ASP* 3.2 29.3 + - - +
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Residues in contact with SER 210 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165E PRO* 5.6 1.7 - - - +
206E LEU* 3.9 32.9 - - - +
207E ASN* 3.4 17.4 + - - -
208E GLU 3.4 0.2 - - - -
209E ASP* 1.3 74.7 + - - +
211E TYR* 1.3 66.8 + - - +
212E LYS 3.1 2.0 - - - -
213E ASP* 3.0 11.8 + - - +
214E SER* 3.0 26.1 + - - -
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Residues in contact with TYR 211 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203E LEU* 4.0 40.6 - - + +
206E LEU* 4.1 13.1 - - + +
207E ASN 2.7 24.3 + - - +
208E GLU* 3.2 33.2 - - - +
210E SER* 1.3 72.4 - - - +
212E LYS* 1.3 60.9 + - + +
214E SER* 4.1 1.9 - - - -
215E THR* 2.5 63.4 + - + +
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Residues in contact with LYS 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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208E GLU* 3.0 24.8 + - - +
209E ASP* 3.7 6.7 - - - +
210E SER 3.1 0.2 - - - -
211E TYR* 1.3 82.1 - - + +
213E ASP* 1.3 65.7 + - - +
215E THR* 3.3 5.0 + - - +
216E LEU* 3.0 27.2 + - + +
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Residues in contact with ASP 213 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165E PRO* 4.0 23.9 - - + +
209E ASP* 3.2 26.1 - - - +
210E SER* 3.0 10.0 + - - +
212E LYS* 1.3 80.8 - - - +
214E SER* 1.3 62.9 + - - +
216E LEU* 3.5 13.5 + - - +
217E ILE* 3.5 18.5 + - - +
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Residues in contact with SER 214 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163E THR* 2.5 29.7 + - - -
165E PRO* 4.5 6.3 - - - +
168E LEU* 3.9 14.3 - - - +
203E LEU* 4.1 21.1 - - - -
206E LEU* 3.8 9.6 - - - +
210E SER* 3.0 16.1 + - - -
211E TYR 4.1 0.2 - - - -
213E ASP* 1.3 74.8 - - - +
215E THR* 1.3 66.3 + - - +
216E LEU 3.1 0.3 + - - -
217E ILE* 3.2 3.0 + - - -
218E MET* 2.9 29.1 + - - +
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Residues in contact with THR 215 (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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203E LEU* 4.4 6.6 - - + +
211E TYR* 2.5 56.5 + - + +
212E LYS* 3.8 5.6 - - - +
214E SER* 1.3 76.6 - - - +
216E LEU* 1.3 56.6 + - - +
218E MET* 3.8 10.0 - - + +
219E GLN* 2.9 33.8 + - + +
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Residues in contact with LEU 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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212E LYS* 3.0 15.2 + - + +
213E ASP* 3.6 12.1 - - - +
214E SER 3.1 0.2 - - - -
215E THR* 1.3 75.9 - - - +
217E ILE* 1.3 69.8 + - + +
219E GLN* 3.2 8.6 + - - +
220E LEU* 3.2 42.8 + - + +
341G LEU* 5.0 6.5 - - + -
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Residues in contact with ILE 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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165E PRO* 3.1 46.7 - - + +
168E LEU* 3.5 36.3 - - + +
169E GLY* 3.8 6.3 - - - +
172E LEU* 4.6 8.1 - - + -
213E ASP 3.5 9.6 + - - +
214E SER 3.2 5.6 + - - +
216E LEU* 1.3 77.3 - - + +
218E MET* 1.3 67.2 + - - +
220E LEU* 2.9 18.8 + - - +
221E LEU* 2.9 14.2 + - + +
341G LEU* 3.6 26.5 - - + -
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Residues in contact with MET 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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168E LEU* 3.9 15.9 - - + -
196E PHE* 3.3 32.0 - - + +
199E ALA* 3.7 19.3 - - + -
200E ILE* 3.5 48.9 - - + +
203E LEU* 3.8 29.2 - - + -
214E SER* 2.9 26.4 + - - +
215E THR* 3.8 7.2 - - + +
217E ILE* 1.3 76.4 - - - +
219E GLN* 1.3 62.4 + - - +
221E LEU* 3.3 9.7 + - + +
222E ARG 3.0 18.2 + - - -
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Residues in contact with GLN 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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196E PHE* 5.3 0.7 - - - -
215E THR* 2.9 23.6 + - + +
216E LEU* 3.4 7.6 - - - +
217E ILE 3.1 0.2 - - - -
218E MET* 1.3 76.5 - - - +
220E LEU* 1.3 57.6 + - + +
222E ARG* 3.3 19.0 + - - +
223E ASP* 2.9 59.8 + - - +
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Residues in contact with LEU 220 (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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172E LEU* 3.7 17.0 - - + -
216E LEU* 3.2 26.6 + - + +
217E ILE* 2.9 7.9 + - - +
219E GLN* 1.3 75.0 - - + +
221E LEU* 1.3 65.5 + - - +
223E ASP* 3.2 14.9 + - - +
224E ASN* 3.0 26.7 + - - -
339G ASN* 3.8 29.1 - - + +
340G TPO 5.4 0.9 - - - +
341G LEU* 3.7 42.4 - - + -
343G VAL* 6.2 0.4 - - + -
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Residues in contact with LEU 221 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168E LEU* 3.9 34.8 - - + +
171E ALA* 4.2 2.7 - - + -
172E LEU* 3.6 40.4 - - + +
175E SER* 4.6 0.2 - - - +
192E ALA* 3.6 37.8 - - + +
195E ALA* 4.2 11.2 - - + -
196E PHE* 4.3 11.7 - - + +
217E ILE 2.9 18.1 + - - +
218E MET* 3.5 11.7 - - - +
220E LEU* 1.3 76.1 - - - +
222E ARG* 1.3 63.0 + - - +
224E ASN* 3.2 5.9 + - - +
225E LEU* 3.0 27.4 + - - +
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Residues in contact with ARG 222 (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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196E PHE* 4.0 29.6 - - + -
218E MET 3.0 15.2 + - - +
219E GLN* 3.7 18.2 - - - +
221E LEU* 1.3 75.8 - - - +
223E ASP* 1.3 57.9 + - - +
225E LEU* 3.6 19.9 - - + +
226E THR* 2.9 41.4 + - - +
301E ETF 3.9 24.0 - - - -
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Residues in contact with ASP 223 (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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219E GLN* 2.9 48.0 + - - +
220E LEU* 3.4 19.5 + - - +
222E ARG* 1.3 77.2 - - - +
224E ASN* 1.3 63.7 + - - +
226E THR* 3.3 7.7 + - - -
227E LEU* 3.0 23.4 + - - +
339G ASN* 4.1 15.5 + - - +
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Residues in contact with ASN 224 (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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172E LEU* 3.4 17.2 + - - +
175E SER* 4.7 1.0 + - - +
176E VAL* 3.5 15.0 - - - +
192E ALA* 5.6 1.1 - - + -
220E LEU 3.0 11.0 + - - -
221E LEU* 3.6 8.0 - - - +
223E ASP* 1.3 75.4 - - - +
225E LEU* 1.3 58.5 + - - +
227E LEU* 3.2 7.5 + - - +
228E TRP* 2.8 62.9 + - + -
338G SER* 3.7 4.5 - - - -
339G ASN* 3.0 53.2 + - - -
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Residues in contact with LEU 225 (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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189E CYS* 3.4 44.2 - - + +
192E ALA* 4.1 10.8 - - + +
193E LYS* 3.8 42.8 - - + +
196E PHE* 5.3 7.4 - - + -
221E LEU 3.0 18.4 + - - +
222E ARG* 3.6 24.5 - - + +
223E ASP 3.3 0.2 - - - -
224E ASN* 1.3 74.4 - - - +
226E THR* 1.3 64.2 + - - +
228E TRP* 3.1 4.5 + - + -
229E THR* 2.9 33.0 + - + +
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Residues in contact with THR 226 (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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222E ARG* 2.9 27.8 + - - +
223E ASP* 3.6 7.4 - - - -
225E LEU* 1.3 75.4 - - - +
227E LEU* 1.3 64.6 + - - +
229E THR* 3.5 6.5 + - - -
230E SER* 3.1 25.3 + - - -
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Residues in contact with LEU 227 (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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179E TYR* 5.5 0.4 + - - +
223E ASP 3.0 13.8 + - - +
224E ASN* 3.6 10.5 - - - +
226E THR* 1.3 79.0 - - - +
228E TRP* 1.3 79.3 + - + +
230E SER* 2.9 30.5 + - - +
336G SER* 3.3 39.9 - - - +
337G TYR 4.3 10.8 - - - +
338G SER* 4.7 4.3 - - - +
339G ASN* 6.1 0.7 - - - +
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Residues in contact with TRP 228 (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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175E SER* 3.6 33.0 - - - -
176E VAL* 3.9 11.7 - - + -
179E TYR* 3.3 59.6 + + + -
185E PRO* 5.7 2.3 - - + +
188E ALA* 3.8 24.7 - - + -
189E CYS* 3.8 32.4 - - - -
192E ALA* 4.6 4.7 - - + -
224E ASN* 2.8 46.2 + - + +
225E LEU* 3.9 2.9 - - + +
227E LEU* 1.3 87.8 - - + +
229E THR* 1.3 60.3 + - - +
230E SER 3.4 0.4 - - - -
231E ASP 5.4 0.7 + - - -
338G SER* 3.4 26.5 + - - -
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Residues in contact with THR 229 (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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189E CYS* 4.0 19.1 - - + -
193E LYS* 5.0 13.0 - - - +
225E LEU* 2.9 25.3 + - + +
226E THR* 3.7 5.7 + - - -
228E TRP* 1.3 78.2 - - - +
230E SER* 1.3 65.8 + - - +
231E ASP* 3.5 8.4 - - - +
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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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
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