Contacts of the helix formed by residues 219 - 238 (chain B) in PDB entry 2BZI
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 HIS 219 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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195B ASP 3.5 24.2 + - - -
196B THR* 3.8 11.5 - - - -
197B VAL* 3.8 29.0 + - + +
198B TYR* 4.3 2.2 - - - -
211B GLU* 5.1 0.6 + - - -
217B ARG* 5.2 4.9 - - - -
218B TYR* 1.3 79.0 - - - +
220B GLY* 1.3 66.1 + - - +
221B ARG 3.5 1.6 - - - +
222B SER* 3.5 14.7 + - - +
223B ALA* 3.1 24.8 + - - +
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Residues in contact with GLY 220 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164B LEU* 3.6 36.5 - - - +
193B LEU* 4.9 4.7 - - - -
194B LYS 4.9 4.6 + - - -
196B THR 5.3 0.2 + - - -
198B TYR* 3.7 14.6 - - - -
218B TYR* 4.7 2.0 - - - -
219B HIS* 1.3 73.9 - - - +
221B ARG* 1.3 58.8 + - - +
223B ALA* 3.8 1.7 - - - +
224B ALA* 2.9 28.4 + - - +
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Residues in contact with ARG 221 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159B HIS* 3.0 46.8 + - + +
193B LEU* 3.3 32.0 - - + +
195B ASP* 4.8 12.2 + - - -
219B HIS* 3.5 1.0 - - - +
220B GLY* 1.3 74.0 - - - +
222B SER* 1.3 57.9 + - - +
224B ALA* 3.2 7.7 + - - +
225B VAL* 2.9 35.1 + - + +
281B PHE* 4.1 16.5 - - + -
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Residues in contact with SER 222 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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211B GLU* 4.6 0.9 + - - -
219B HIS* 3.5 22.1 + - - +
221B ARG* 1.3 75.6 - - - +
223B ALA* 1.3 62.0 + - - +
225B VAL* 3.3 7.0 + - - +
226B TRP 3.0 18.7 + - - -
275B PRO* 3.6 40.5 - - - +
278B ARG* 3.0 22.7 + - - +
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Residues in contact with ALA 223 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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207B TYR 5.1 0.5 - - - +
209B PRO* 4.0 21.7 - - + +
211B GLU* 4.3 1.5 + - - -
218B TYR* 3.5 26.9 - - + -
219B HIS 3.1 19.7 + - - +
220B GLY 3.8 2.9 - - - +
222B SER* 1.3 74.0 + - - +
224B ALA* 1.3 65.6 + - - +
226B TRP* 3.3 5.4 + - - +
227B SER* 3.2 20.4 + - - -
278B ARG* 4.0 7.1 - - - +
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Residues in contact with ALA 224 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155B VAL* 5.0 0.2 - - + -
159B HIS* 4.3 21.5 - - + +
164B LEU* 4.6 4.5 - - + -
168B ILE* 4.8 13.2 - - + -
220B GLY 2.9 14.4 + - - +
221B ARG 3.4 10.1 - - - +
223B ALA* 1.3 76.4 - - - +
225B VAL* 1.3 61.9 + - - +
227B SER* 2.7 25.0 + - - +
228B LEU* 3.0 15.1 + - + +
281B PHE* 4.3 7.9 - - + -
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Residues in contact with VAL 225 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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221B ARG* 2.9 22.5 + - + +
222B SER* 3.7 7.9 - - - +
223B ALA 3.3 0.2 - - - -
224B ALA* 1.3 74.1 - - - +
226B TRP* 1.3 63.8 + - - +
228B LEU* 3.2 9.9 + - - +
229B GLY 3.0 17.8 + - - -
270B CYS* 3.7 17.9 - - + +
278B ARG* 3.9 9.4 - - + -
279B PRO* 3.4 47.8 - - + +
280B THR* 4.9 1.8 - - - -
281B PHE* 3.8 26.7 - - + +
284B ILE* 4.2 5.2 - - + -
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Residues in contact with TRP 226 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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206B VAL 5.0 0.4 + - - -
207B TYR 3.4 19.2 + - - -
208B SER 3.3 12.7 + - - -
209B PRO* 3.6 14.6 - - + -
210B PRO* 3.4 35.2 - - + -
222B SER 3.0 6.7 + - - -
223B ALA 3.4 8.1 - - - +
224B ALA 3.3 0.2 - - - -
225B VAL* 1.3 76.1 - - - +
227B SER* 1.3 56.7 + - - +
229B GLY 2.9 16.3 + - - -
230B ILE* 3.0 22.9 + - + +
242B PHE* 3.7 29.8 - + - -
248B ILE* 3.7 26.2 - - + +
251B GLY* 4.7 0.9 - - - -
270B CYS 3.5 11.1 + - - -
271B LEU* 3.3 55.9 - - + +
272B ALA 4.0 2.9 - - - -
273B LEU* 4.7 3.6 - - + -
278B ARG* 3.7 26.7 - - - +
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Residues in contact with SER 227 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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168B ILE* 3.8 36.3 + - - +
207B TYR* 3.6 27.5 - - - -
223B ALA 3.2 7.3 + - - -
224B ALA* 2.7 24.8 + - - -
226B TRP* 1.3 78.6 - - - +
228B LEU* 1.3 57.3 + - - +
230B ILE* 3.3 7.2 + - - +
231B LEU* 2.9 28.4 + - - +
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Residues in contact with LEU 228 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148B PHE* 3.3 27.8 - - + -
151B VAL* 3.6 31.0 - - + -
152B LEU* 4.0 21.3 - - + -
155B VAL* 4.5 13.0 - - + -
168B ILE* 4.2 13.7 - - + -
224B ALA* 3.0 20.8 + - + +
225B VAL* 3.4 10.1 - - + +
227B SER* 1.3 77.7 + - - +
229B GLY* 1.3 59.1 + - - +
231B LEU* 3.2 5.0 + - + +
232B LEU* 2.8 25.8 + - - +
270B CYS* 5.3 2.2 - - - -
281B PHE* 3.7 31.2 - - + -
284B ILE* 4.9 2.5 - - + -
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Residues in contact with GLY 229 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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225B VAL 3.0 7.1 + - - -
226B TRP 2.9 9.0 + - - -
228B LEU* 1.3 74.8 - - - +
230B ILE* 1.3 60.9 + - - +
232B LEU* 3.3 6.2 + - - +
233B TYR* 3.1 25.5 + - - +
267B ILE* 4.1 7.6 - - - +
270B CYS* 3.5 25.7 - - - +
271B LEU* 3.8 12.3 - - - -
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Residues in contact with ILE 230 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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206B VAL 4.0 11.4 - - - +
207B TYR* 3.5 36.3 - - + -
226B TRP* 3.0 44.0 + - + +
227B SER* 3.4 9.0 - - - +
228B LEU 3.3 0.2 - - - -
229B GLY* 1.3 75.3 - - - +
231B LEU* 1.3 58.5 + - - +
233B TYR* 3.5 2.4 + - - +
234B ASP* 3.0 27.9 + - - +
240B ILE* 3.9 14.4 - - + -
241B PRO* 3.7 30.1 - - + +
242B PHE* 3.7 16.2 - - + -
271B LEU* 3.7 8.7 - - + +
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Residues in contact with LEU 231 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129B LEU* 4.2 2.7 - - + -
148B PHE* 4.4 5.8 - - + -
151B VAL* 4.0 20.2 - - + -
168B ILE* 4.2 9.2 - - + -
169B LYS* 4.1 2.2 - - - -
170B ASP* 3.7 33.7 - - + +
173B ILE* 3.9 23.1 - - + -
207B TYR* 4.0 9.8 - - + +
227B SER 2.9 17.9 + - - +
228B LEU* 3.2 10.7 + - + +
230B ILE* 1.3 74.7 - - - +
232B LEU* 1.3 63.4 + - - +
234B ASP* 3.4 7.1 + - - +
235B MET* 3.1 48.7 + - + +
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Residues in contact with LEU 232 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144B ALA* 4.6 4.0 - - + +
148B PHE* 3.9 39.2 - - + -
228B LEU 2.8 19.4 + - - +
229B GLY* 3.3 5.8 + - - +
231B LEU* 1.3 68.9 - - - +
233B TYR* 1.3 66.0 + - - +
235B MET* 3.2 5.6 + - + +
236B VAL* 3.1 30.8 + - + +
263B CYS* 4.4 4.7 - - - -
266B LEU* 3.9 23.8 - - + -
267B ILE* 3.6 26.5 - - + +
270B CYS* 5.7 1.1 - - - -
289B TRP* 3.6 34.1 - - + -
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Residues in contact with TYR 233 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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229B GLY 3.1 16.8 + - - +
230B ILE 3.7 3.8 - - - +
232B LEU* 1.3 76.0 - - - +
234B ASP* 1.3 52.9 + - - +
236B VAL* 3.3 1.6 + - - -
237B CYS* 2.8 50.9 + - + +
239B ASP 3.1 22.0 - - - -
241B PRO* 3.5 34.2 - - + +
253B VAL* 3.8 22.9 - - + -
254B PHE 2.5 29.9 + - - -
255B PHE* 3.7 25.5 - + - -
256B ARG* 3.3 34.0 + - - +
267B ILE* 3.9 15.4 - - + +
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Residues in contact with ASP 234 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133B ILE* 3.4 20.4 - - - +
170B ASP* 2.9 33.1 - - - +
207B TYR* 3.7 8.9 + - - +
230B ILE 3.0 18.5 + - - +
231B LEU* 3.5 8.0 - - - +
233B TYR* 1.3 76.9 - - - +
235B MET* 1.3 54.6 + - - +
238B GLY* 2.6 35.3 + - - +
239B ASP* 3.3 33.7 + - - -
240B ILE* 3.5 13.6 + - + +
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Residues in contact with MET 235 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129B LEU* 3.6 25.6 - - + -
133B ILE* 4.0 17.4 - - + +
137B GLY 4.8 0.2 - - - +
138B ALA* 3.6 2.4 - - - -
139B LEU* 2.7 47.5 + - + +
144B ALA* 3.8 35.4 - - + +
147B PHE* 3.8 22.9 - - + -
148B PHE* 4.1 16.2 - - + +
151B VAL* 4.6 4.0 - - + -
231B LEU* 3.1 39.9 + - + +
232B LEU* 3.2 9.8 + - - +
234B ASP* 1.3 78.3 - - - +
236B VAL* 1.3 54.6 + - - +
238B GLY* 4.7 0.2 - - - -
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Residues in contact with VAL 236 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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138B ALA* 3.3 13.9 - - - +
139B LEU 4.0 9.2 - - - +
141B GLU* 4.3 13.9 - - + -
144B ALA* 3.5 28.5 - - + -
232B LEU* 3.1 17.9 + - + +
233B TYR 3.8 3.8 - - - +
235B MET* 1.3 76.6 - - - +
237B CYS* 1.3 64.1 + - - +
257B GLN* 4.3 5.0 - - - +
258B ARG 5.0 1.2 - - - +
259B VAL* 3.8 38.3 - - + +
263B CYS* 4.0 16.2 - - - -
267B ILE* 4.0 14.1 - - + -
289B TRP* 4.7 0.2 - - + -
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Residues in contact with CYS 237 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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138B ALA* 3.6 7.1 - - - +
233B TYR* 2.8 58.6 + - + +
236B VAL* 1.3 84.3 - - - +
238B GLY* 1.3 58.2 + - - +
239B ASP* 3.3 3.0 + - - +
255B PHE* 3.9 17.7 - - - -
256B ARG* 4.1 20.7 - - + -
257B GLN* 3.5 29.3 + - - +
259B VAL* 4.0 9.4 - - - -
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Residues in contact with GLY 238 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133B ILE* 3.7 24.8 - - - +
134B THR* 6.1 0.3 - - - -
137B GLY* 4.4 1.9 - - - -
138B ALA* 3.7 18.1 - - - +
234B ASP* 2.6 25.1 + - - +
236B VAL 3.7 0.2 - - - -
237B CYS* 1.3 71.6 - - - +
239B ASP* 1.3 61.2 + - - +
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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