Contacts of the helix formed by residues 200 - 223 (chain F) in PDB entry 2ZXX
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 PRO 200 (chain F).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187F HIS* 4.7 0.7 - - - -
198F VAL 4.1 0.2 - - - +
199F LEU* 1.3 89.6 - - + +
201F TYR* 1.3 55.9 + - - +
202F LYS* 3.4 5.6 + - + +
203F TYR* 3.4 17.0 + - + +
204F GLN* 2.6 33.8 + - - +
318F VAL* 3.9 18.2 - - + -
349F VAL* 3.5 15.7 - - + +
350F ASP* 3.3 35.2 - - - +
352F VAL* 3.3 27.4 - - + -
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Residues in contact with TYR 201 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115D GLU* 4.5 5.2 + - - -
183F TYR* 3.5 30.1 + + - -
184F GLN* 3.4 60.1 - - + +
187F HIS* 3.8 33.8 + + + -
200F PRO* 1.3 71.2 - - - +
202F LYS* 1.3 62.6 + - + +
204F GLN* 2.7 24.4 + - + +
205F VAL* 3.0 33.0 + - + +
350F ASP* 2.9 10.6 + - + +
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Residues in contact with LYS 202 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184F GLN* 5.9 2.2 - - - +
200F PRO* 4.8 5.2 - - + -
201F TYR* 1.3 81.8 - - + +
203F TYR* 1.3 74.6 + - + +
205F VAL* 3.2 23.9 + - - +
206F LEU* 3.2 14.5 + - + +
350F ASP 4.6 5.0 + - - +
351F GLU 3.0 11.9 + - - -
352F VAL* 2.4 37.8 + - - -
353F PRO* 3.7 12.0 - - - +
354F ASP* 3.5 36.0 + - - +
355F ILE 5.5 0.2 - - - +
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Residues in contact with TYR 203 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199F LEU* 3.7 18.8 - - + -
200F PRO* 3.4 14.3 + - + +
201F TYR 3.3 0.4 - - - -
202F LYS* 1.3 86.1 - - + +
204F GLN* 1.3 64.6 + - - +
206F LEU* 3.4 10.9 + - + +
207F VAL* 3.0 24.6 + - - +
314F LEU* 3.7 23.5 - - + +
317F ARG* 4.0 24.0 - - + +
318F VAL* 3.8 31.6 - - + -
352F VAL* 4.0 18.9 - - + +
353F PRO* 3.0 33.1 + - - +
355F ILE* 3.9 32.3 - - + +
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Residues in contact with GLN 204 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187F HIS* 4.2 20.9 - - + -
191F GLN* 5.9 1.4 - - - +
199F LEU* 3.5 27.2 - - + +
200F PRO 2.6 20.1 + - - +
201F TYR* 2.7 18.9 + - + +
203F TYR* 1.3 71.7 - - - +
205F VAL* 1.3 60.1 + - - +
207F VAL* 3.1 30.7 + - - +
208F GLU* 3.2 11.5 + - - +
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Residues in contact with VAL 205 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201F TYR* 3.0 31.8 + - + +
202F LYS* 3.2 21.8 - - - +
204F GLN* 1.3 70.3 - - - +
206F LEU* 1.3 56.3 + - + +
208F GLU* 2.7 31.9 + - + +
209F MSE 2.8 44.8 + - + +
240F MSE 5.4 1.1 - - + -
242F LYS* 6.6 0.2 - - + -
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Residues in contact with LEU 206 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202F LYS 3.2 12.8 + - - +
203F TYR* 3.4 16.6 - - + +
205F VAL* 1.3 77.1 - - + +
207F VAL* 1.3 63.9 + - - +
208F GLU 3.0 0.3 + - - -
209F MSE 3.1 19.2 + - - +
210F PHE* 2.9 20.8 + - - +
248F ASN 4.8 0.9 - - - +
251F GLN* 4.0 35.0 - - + +
252F ILE* 4.8 13.2 - - + +
255F VAL* 4.6 9.9 - - + -
310F PHE* 3.6 16.9 - - + -
314F LEU* 4.7 2.7 - - + -
355F ILE* 3.8 37.2 - - + -
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Residues in contact with VAL 207 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199F LEU* 3.6 26.7 - - + -
203F TYR 3.0 16.1 + - - +
204F GLN* 3.1 21.0 + - - +
206F LEU* 1.3 75.5 - - - +
208F GLU* 1.3 58.0 + - - +
210F PHE* 3.9 1.2 - - - +
211F ARG* 2.9 29.8 + - + +
307F ARG* 5.9 7.0 - - + +
310F PHE* 3.7 14.5 - - + -
311F ARG* 4.9 16.2 - - + +
314F LEU* 3.9 11.2 - - + -
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Residues in contact with GLU 208 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B LYS* 5.1 14.0 + - - +
204F GLN 3.2 9.6 + - - +
205F VAL* 2.7 20.9 + - + +
207F VAL* 1.3 72.7 - - - +
209F MSE 1.3 64.0 + - - +
211F ARG* 3.3 18.1 + - - +
212F SER* 3.1 20.6 + - - -
240F MSE 3.6 30.8 - - + +
242F LYS* 3.5 27.9 + - - -
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Residues in contact with MSE 209 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205F VAL* 2.8 38.7 + - + +
206F LEU* 3.7 17.7 - - + +
208F GLU* 1.3 75.1 - - - +
210F PHE* 1.3 60.3 + - - +
212F SER* 3.2 1.7 + - - -
213F MSE 2.8 31.0 + - - +
236F VAL* 5.0 1.3 - - - +
240F MSE 2.8 48.5 - - + -
242F LYS* 6.2 0.4 - - + -
243F ARG 4.1 7.4 - - - +
244F PHE* 4.0 14.6 - - + -
248F ASN* 3.3 46.9 - - - +
251F GLN* 5.2 0.2 - - - +
252F ILE* 4.2 6.5 - - + -
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Residues in contact with PHE 210 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206F LEU 2.9 15.9 + - - +
207F VAL 4.2 0.9 - - - +
209F MSE 1.3 73.5 - - - +
211F ARG* 1.3 56.8 + - - +
212F SER 2.6 16.0 + - - -
213F MSE 4.4 0.9 - - + -
214F ASP* 3.3 39.4 + - + +
252F ILE* 3.5 34.1 - - + +
256F TYR* 3.9 24.7 - + - -
259F SER* 4.6 1.6 - - - -
260F TYR* 3.6 29.4 - + - -
306F ARG* 3.9 23.3 - - + -
307F ARG* 4.2 10.3 - - + -
310F PHE* 3.7 42.8 - + + -
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Residues in contact with ARG 211 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B LYS* 4.3 31.2 + - - +
139B ALA* 3.4 30.9 - - - +
140B GLU* 4.5 3.8 - - - +
143B GLU* 4.0 13.3 + - - -
207F VAL* 2.9 25.2 + - + +
208F GLU* 3.3 16.1 + - - +
210F PHE* 1.3 77.5 - - - +
212F SER* 1.3 59.0 + - - +
214F ASP* 5.0 1.6 - - - -
215F THR* 2.8 21.9 + - - -
239F MSE 3.4 27.8 - - - +
303F LEU* 5.6 1.2 - - - +
307F ARG* 3.6 48.7 + - + +
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Residues in contact with SER 212 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208F GLU* 3.1 19.3 - - - -
209F MSE 3.4 5.2 - - - -
210F PHE 2.6 4.0 + - - -
211F ARG* 1.3 81.8 - - - +
213F MSE 1.3 65.9 + - - -
214F ASP 3.2 0.7 - - - -
215F THR* 3.0 7.7 + - - -
216F ILE* 3.0 27.4 + - - +
236F VAL* 4.0 15.1 + - - +
239F MSE 3.3 35.7 - - - +
240F MSE 4.5 6.5 - - - +
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Residues in contact with MSE 213 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209F MSE 2.8 18.5 + - - +
210F PHE* 4.2 2.7 - - + +
212F SER* 1.3 73.8 - - - +
214F ASP* 1.3 52.3 + - - +
216F ILE* 2.9 7.6 + - - +
217F VAL* 2.7 45.7 + - + +
229F PHE* 5.7 0.2 - - + -
232F VAL* 4.1 20.9 - - + -
236F VAL* 4.4 5.8 - - - +
244F PHE* 4.3 8.1 - - + -
249F VAL* 3.6 43.3 - - + -
252F ILE* 3.7 25.1 - - + -
260F TYR* 3.8 18.8 - - + +
262F PHE* 4.5 0.2 - - + -
284F ILE* 3.8 35.7 - - + -
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Residues in contact with ASP 214 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210F PHE* 3.3 27.8 + - + +
211F ARG* 5.0 1.3 - - - -
212F SER 3.2 0.2 - - - -
213F MSE 1.3 76.4 - - - +
215F THR* 1.3 61.3 + - - +
217F VAL* 3.9 3.3 - - - +
218F SER* 2.8 29.5 + - - -
260F TYR* 2.6 28.1 + - - +
298F LEU* 4.3 6.9 - - - +
303F LEU* 4.0 25.2 - - + +
306F ARG* 3.1 40.4 + - - +
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Residues in contact with THR 215 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143B GLU* 4.4 14.3 + - - +
211F ARG* 2.8 24.6 + - - +
212F SER* 3.0 13.4 + - - -
214F ASP* 1.3 79.2 - - - +
216F ILE* 1.3 56.0 - - - +
218F SER* 3.3 8.1 + - - -
219F MSE 3.0 42.5 + - + +
239F MSE 4.0 21.0 - - + +
303F LEU* 4.4 12.5 - - + +
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Residues in contact with ILE 216 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
212F SER 3.0 16.1 + - - +
213F MSE 2.9 7.5 + - - +
215F THR* 1.3 74.9 - - - +
217F VAL* 1.3 65.9 + - - +
219F MSE 3.1 29.8 + - + +
220F LEU* 3.1 23.8 + - + +
231F LYS 4.3 7.0 - - - +
232F VAL* 4.1 30.3 - - + -
235F GLY* 3.5 38.8 - - - +
236F VAL* 3.8 4.5 - - + +
239F MSE 4.0 17.9 - - + -
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Residues in contact with VAL 217 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
213F MSE 2.7 54.9 + - + +
214F ASP* 3.9 5.2 - - - +
216F ILE* 1.3 71.2 - - - +
218F SER* 1.3 66.9 + - - +
220F LEU* 4.1 2.6 - - - +
221F HIS* 3.0 28.6 + - + +
227F VAL* 4.1 19.0 - - + +
232F VAL* 4.3 13.2 - - + -
260F TYR* 3.7 28.3 - - + +
284F ILE* 4.6 7.4 - - + -
286F PRO* 4.4 21.5 - - + -
298F LEU* 4.6 0.4 - - + -
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Residues in contact with SER 218 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214F ASP 2.8 21.2 + - - -
215F THR 3.3 6.2 + - - -
217F VAL* 1.3 78.8 - - - +
219F MSE 1.3 64.5 + - - +
221F HIS* 4.8 0.2 - - - -
222F ASN* 2.9 38.3 + - - +
298F LEU* 3.2 29.3 + - - -
303F LEU* 3.7 23.6 - - - +
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Residues in contact with MSE 219 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215F THR* 3.0 27.7 + - + +
216F ILE* 3.1 22.8 + - + +
218F SER* 1.3 84.7 + - - +
220F LEU* 1.3 65.8 + - + +
222F ASN* 3.2 10.4 + - - +
223F ARG* 3.2 41.5 + - - +
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Residues in contact with LEU 220 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
216F ILE* 3.1 29.3 + - + +
217F VAL 4.1 1.8 - - - +
219F MSE 1.3 80.9 - - + +
221F HIS* 1.3 58.6 + - - +
223F ARG* 3.0 29.9 - - - +
225F GLU* 2.7 63.4 + - + +
226F THR 4.4 0.7 - - - +
227F VAL* 4.0 30.5 - - + -
231F LYS* 3.9 29.6 - - + -
232F VAL* 4.8 2.0 - - + -
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Residues in contact with HIS 221 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217F VAL 3.0 19.9 + - - +
218F SER* 4.1 1.8 - - - +
220F LEU* 1.3 75.8 - - - +
222F ASN* 1.3 80.2 + - - +
224F SER* 2.8 17.4 + - - +
225F GLU 4.2 8.7 - - - -
227F VAL* 4.5 9.2 - - + +
285F GLU* 5.3 5.0 - - + +
286F PRO* 3.5 40.4 + - + +
288F LEU* 4.9 0.7 - - + -
296F THR* 3.7 45.9 + - + +
297F GLN* 4.1 2.2 - - - -
298F LEU* 4.2 5.3 + - - +
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Residues in contact with ASN 222 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218F SER* 2.9 27.8 + - - +
219F MSE 3.2 6.2 + - - +
221F HIS* 1.3 85.3 + - - +
223F ARG* 1.3 54.6 + - - +
224F SER* 3.3 6.6 + - - -
296F THR 5.6 0.2 - - - -
297F GLN* 3.0 45.4 + - - +
298F LEU* 2.7 49.9 - - - +
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Residues in contact with ARG 223 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219F MSE 3.2 37.0 + - - +
220F LEU* 3.0 34.0 - - - +
222F ASN* 1.3 74.7 - - - +
224F SER* 1.3 68.7 + - - +
225F GLU* 2.7 40.4 + - - +
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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) + - + + + + + -
------------------------------------------------------------
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