Contacts of the helix formed by residues 177 - 203 (chain B) in PDB entry 1IZO
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 177 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176B VAL* 1.3 80.7 - - - +
178B PRO* 1.3 65.9 - - - -
180B HIS* 2.7 30.8 + - - +
181B TRP* 2.9 22.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 178 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176B VAL 3.9 3.6 - - - +
177B GLY* 1.3 81.3 - - - -
179B ARG* 1.3 64.0 + - - +
181B TRP* 3.2 10.0 + - + +
182B LYS* 3.1 28.3 + - - +
185B ARG* 5.0 1.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 179 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168B ASP 4.4 1.4 - - - +
171B ASP* 3.0 39.0 + - + +
172B ALA* 3.4 14.6 - - - +
174B GLY 3.9 1.8 + - - -
175B ALA* 3.2 34.1 - - + +
176B VAL 4.0 4.2 + - - +
177B GLY 3.3 0.8 - - - -
178B PRO* 1.3 81.1 - - - +
180B HIS* 1.3 62.6 + - - +
182B LYS* 3.4 21.4 + - + +
399B ARG* 3.4 30.3 - - - +
400B MET 2.3 43.9 + - - +
401B PRO* 3.8 1.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 180 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73B ARG* 3.4 54.1 + - + +
77B SER* 4.0 10.5 - - - -
172B ALA* 3.1 31.6 + - - +
173B PHE 5.7 0.2 - - - -
175B ALA* 3.6 14.1 - - - +
176B VAL 3.9 8.2 + - - -
177B GLY 2.7 17.6 + - - +
179B ARG* 1.3 73.2 - - - +
181B TRP* 1.3 68.9 + + - +
183B GLY 3.1 11.3 + - - -
184B ARG* 2.5 49.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 181 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177B GLY* 2.9 20.4 + - - +
178B PRO* 3.6 12.3 - - + +
180B HIS* 1.3 81.2 - + - +
182B LYS* 1.3 64.0 + - - +
184B ARG* 3.0 41.6 + - + +
185B ARG* 3.0 52.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 182 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168B ASP* 3.4 36.9 + - + +
178B PRO* 3.1 18.8 + - - +
179B ARG* 3.6 15.3 - - + +
180B HIS 3.1 0.8 - - - -
181B TRP* 1.3 75.5 - - - +
183B GLY* 1.3 58.9 + - - +
185B ARG* 3.2 19.1 + - - +
186B ALA* 2.9 29.5 + - - +
189B ARG* 4.8 1.7 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 183 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77B SER* 4.6 7.0 - - - -
168B ASP 3.4 26.7 + - - -
169B MET* 3.9 7.0 - - - +
172B ALA* 3.8 7.2 - - - -
179B ARG 3.7 1.4 + - - -
180B HIS 3.1 8.2 + - - -
182B LYS* 1.3 80.1 - - - +
184B ARG* 1.3 61.9 + - - +
186B ALA* 3.9 1.2 - - - +
187B ARG* 3.1 30.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 184 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73B ARG* 4.4 11.4 - - - +
76B LYS* 3.4 56.3 - - - +
77B SER* 4.8 0.2 - - - +
180B HIS* 2.5 63.5 + - + +
181B TRP* 3.0 41.6 + - + +
183B GLY* 1.3 78.2 - - - +
185B ARG* 1.3 58.8 + - - +
187B ARG* 4.1 0.5 - - - +
188B PRO* 3.0 23.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 185 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178B PRO 5.0 1.0 + - - -
181B TRP* 3.0 50.4 + - + +
182B LYS* 4.0 29.3 - - - +
184B ARG* 1.3 77.0 - - - +
186B ALA* 1.3 67.3 + - - +
187B ARG 3.4 0.4 - - - -
188B PRO* 3.4 10.6 - - - +
189B ARG* 3.4 33.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 186 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165B ASP* 3.4 41.2 - - + +
168B ASP* 4.0 5.6 - - + -
169B MET* 4.1 6.1 - - + -
182B LYS 2.9 17.9 + - - +
183B GLY 3.4 2.9 + - - +
185B ARG* 1.3 78.9 - - - +
187B ARG* 1.3 64.6 + - - +
189B ARG* 3.0 20.1 + - - +
190B ALA* 2.9 23.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 187 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75B GLN 4.1 1.8 - - - -
76B LYS* 3.2 22.2 - - - +
77B SER 2.9 26.3 + - - +
78B LEU 2.9 22.4 + - - -
79B PHE 3.3 9.1 + - - -
80B GLY* 3.3 23.0 - - - +
169B MET* 3.8 19.6 - - - +
183B GLY 3.1 13.7 + - - +
186B ALA* 1.3 76.8 - - - +
188B PRO* 1.3 68.5 - - + +
190B ALA* 3.2 1.6 + - - +
191B GLU* 2.8 79.9 + - - +
235B ILE* 4.1 9.5 - - - +
238B ILE* 3.7 16.9 - - - +
239B ASN* 4.4 0.6 + - - -
242B ARG* 3.1 16.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 188 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184B ARG 3.0 28.0 - - - +
185B ARG* 3.4 9.4 - - - +
187B ARG* 1.3 88.9 - - + +
189B ARG* 1.3 62.5 + - + +
191B GLU* 4.0 11.6 - - + +
192B GLU* 3.0 39.6 + - + +
231B ARG* 5.4 3.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 189 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161B GLU* 5.4 8.7 + - - +
162B ARG* 4.1 8.9 + - - +
165B ASP* 2.7 42.4 + - - +
168B ASP* 5.0 5.1 + - - -
182B LYS 4.8 1.6 + - - -
185B ARG* 3.4 35.1 + - - +
186B ALA* 3.0 20.7 + - - +
188B PRO* 1.3 78.6 - - + +
190B ALA* 1.3 64.1 + - - +
192B GLU* 3.9 6.5 - - - +
193B TRP* 3.1 25.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 190 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162B ARG* 4.9 2.0 - - - +
165B ASP* 4.5 5.8 + - + +
166B PHE* 4.6 9.0 - - + -
169B MET* 3.7 31.6 - - + -
186B ALA 2.9 8.3 + - - +
187B ARG 3.7 2.5 - - - +
189B ARG* 1.3 77.5 - - - +
191B GLU* 1.3 57.8 + - - +
193B TRP* 3.5 13.4 + - + +
194B ILE* 2.9 34.5 + - - +
238B ILE* 3.5 13.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 191 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80B GLY* 4.1 3.6 - - - -
81B VAL 4.7 1.2 + - - -
187B ARG* 2.8 67.1 + - - +
188B PRO* 4.0 7.8 - - + +
190B ALA* 1.3 73.7 - - - +
192B GLU* 1.3 59.5 + - - +
194B ILE* 3.3 0.7 + - - -
195B GLU* 2.8 32.9 + - - +
231B ARG* 3.1 35.2 + - - +
234B ALA* 4.0 4.9 - - + +
235B ILE* 3.5 25.2 - - + +
238B ILE* 3.7 11.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 192 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188B PRO* 3.0 30.3 + - - +
189B ARG* 3.9 4.9 - - - +
191B GLU* 1.3 75.1 - - - +
193B TRP* 1.3 62.9 + - - +
195B GLU* 3.3 4.6 + - - +
196B VAL* 3.2 29.8 + - + +
231B ARG* 3.3 24.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 193 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147B CYS* 4.2 15.0 - - - -
152B VAL* 4.1 5.4 - - + -
153B PRO 3.8 14.0 + - - -
154B LEU* 3.9 17.9 - - + -
158B GLU* 4.1 7.5 + - - -
162B ARG* 3.3 63.3 - - + +
166B PHE* 4.0 22.4 - + - -
189B ARG 3.1 15.1 + - - +
190B ALA* 3.5 11.0 - - + +
192B GLU* 1.3 81.3 - - - +
194B ILE* 1.3 82.6 + - + +
196B VAL* 3.6 5.6 + - - +
197B MET* 3.0 44.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 194 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152B VAL* 4.0 13.0 - - + -
190B ALA 2.9 20.7 + - - +
193B TRP* 1.3 101.1 - - + +
195B GLU* 1.3 66.0 + - - +
197B MET* 3.1 27.1 + - + +
198B ILE* 3.0 20.0 + - + +
234B ALA* 3.7 27.6 - - + +
237B LEU* 3.6 25.6 - - + -
238B ILE* 3.9 15.3 - - + -
241B LEU* 4.0 11.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 195 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191B GLU 2.8 22.5 + - - +
192B GLU* 3.3 5.4 + - - +
194B ILE* 1.3 73.7 - - - +
196B VAL* 1.3 64.5 + - + +
198B ILE* 3.2 3.8 + - - +
199B GLU* 2.9 38.4 + - - +
230B SER* 2.8 30.9 - - - -
231B ARG* 2.7 48.3 + - - +
234B ALA* 3.5 14.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 196 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192B GLU* 3.2 16.9 + - + +
193B TRP* 4.1 5.2 - - - +
195B GLU* 1.3 78.5 - - + +
197B MET* 1.3 55.0 + - + +
199B GLU* 3.3 15.4 + - - +
200B ASP* 2.7 52.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 197 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152B VAL* 3.5 26.2 - - - -
153B PRO* 3.7 28.3 - - + +
193B TRP* 3.0 52.5 + - + +
194B ILE* 3.1 19.7 + - + +
196B VAL* 1.3 77.5 - - + +
198B ILE* 1.3 59.6 + - - +
200B ASP* 3.2 4.5 + - - +
201B ALA* 2.8 30.3 + - - +
206B LEU* 3.7 25.5 - - + +
214B LEU* 4.6 10.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 198 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194B ILE* 3.0 19.3 + - + +
195B GLU 3.5 7.4 - - - +
197B MET* 1.3 74.3 - - - +
199B GLU* 1.3 64.7 + - - +
201B ALA* 3.0 7.5 + - - +
202B ARG* 2.9 55.5 + - - +
214B LEU* 3.9 16.6 - - + +
217B MET* 4.4 2.9 - - + -
218B ALA* 3.8 24.0 - - + +
230B SER* 4.2 9.9 - - - +
233B ALA* 3.9 33.7 - - + +
234B ALA* 4.0 12.1 - - - +
237B LEU* 4.4 4.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 199 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195B GLU* 2.9 34.0 + - - +
196B VAL* 3.5 18.3 - - + +
198B ILE* 1.3 78.6 - - - +
200B ASP* 1.3 65.7 + - - +
202B ARG* 3.2 10.0 + - - +
203B ALA* 3.1 23.1 + - - +
230B SER* 3.4 25.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 200 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196B VAL* 2.7 39.1 + - - +
197B MET* 3.2 7.3 + - - +
199B GLU* 1.3 75.8 - - - +
201B ALA* 1.3 61.3 + - - +
203B ALA* 3.4 5.2 + - - +
204B GLY 3.1 2.3 + - - -
205B LEU* 2.8 44.7 + - + +
206B LEU* 3.2 22.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 201 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197B MET 2.8 13.9 + - - +
198B ILE* 3.0 11.0 + - - +
200B ASP* 1.3 77.4 - - - +
202B ARG* 1.3 57.6 + - - +
204B GLY* 2.9 19.2 + - - -
206B LEU* 4.2 5.6 - - + +
208B THR* 3.7 29.5 - - + +
214B LEU* 3.9 13.0 - - + -
218B ALA* 4.0 15.5 - - + -
219B PHE* 3.7 13.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 202 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198B ILE* 2.9 30.7 + - + +
199B GLU* 3.7 10.3 - - - +
201B ALA* 1.3 76.7 - - - +
203B ALA* 1.3 59.8 + - - +
204B GLY 3.1 0.9 + - - -
217B MET 4.5 0.6 + - - -
218B ALA* 3.0 31.8 + - + +
219B PHE* 4.0 20.9 - - + -
227B GLN* 3.5 29.3 + - - +
228B LEU* 2.7 34.6 + - - +
229B ASP* 4.7 0.4 - - - +
230B SER* 3.6 24.7 + - - +
233B ALA* 4.1 12.5 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 203 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199B GLU 3.1 15.1 + - - +
200B ASP* 3.4 6.7 + - - +
201B ALA 3.2 0.2 - - - -
202B ARG* 1.3 75.8 - - - +
204B GLY* 1.3 60.1 + - - +
205B LEU* 3.1 29.7 + - + +
----------------------------------------------------------
Back to top of page
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