Contacts of the helix formed by residues 177 - 196 (chain B) in PDB entry 1HTI
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 THR 177 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175B THR* 4.0 13.7 - - - +
176B ALA* 1.3 72.2 - - - +
178B PRO* 1.3 63.9 - - - +
179B GLN* 3.2 5.1 + - - +
180B GLN* 2.6 61.2 + - - +
181B ALA 3.2 3.1 + - - -
----------------------------------------------------------
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 ALA 4.4 1.8 - - - +
177B THR* 1.3 82.2 - - + +
179B GLN* 1.3 60.5 + - + +
181B ALA* 3.5 1.6 - - - +
182B GLN 3.2 16.8 + - - -
216B THR* 5.5 3.4 - - + +
219B GLU* 3.9 52.7 - - + +
220B LEU* 3.9 27.6 - - + +
223B GLN* 3.1 30.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 179 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177B THR* 2.7 8.7 + - - +
178B PRO* 1.3 75.5 - - + +
180B GLN* 1.3 54.9 + - - +
182B GLN* 3.2 4.4 + - - +
183B GLU* 2.9 30.0 + - - +
223B GLN* 4.1 9.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 180 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134B ARG* 3.7 22.9 + - - +
168B TRP* 2.9 27.9 - - - -
175B THR 3.6 4.4 + - - -
176B ALA* 3.5 13.0 - - + +
177B THR* 2.6 58.7 + - - +
179B GLN* 1.3 70.3 - - - +
181B ALA* 1.3 67.3 + - - +
183B GLU* 3.5 10.1 + - - +
184B VAL* 3.1 18.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 181 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164B TYR* 4.9 2.7 - - - -
176B ALA* 3.8 14.2 - - + +
177B THR 3.2 3.4 + - - +
178B PRO 3.5 10.3 - - - +
180B GLN* 1.3 77.6 - - - +
182B GLN* 1.3 55.9 + - - +
184B VAL* 2.9 26.4 - - - +
185B HIS* 3.0 18.7 + - + -
208B TYR* 4.6 10.3 - - + -
220B LEU* 3.8 26.2 - - + -
226B VAL* 4.1 12.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 182 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178B PRO 3.2 5.8 + - - +
179B GLN* 3.2 4.2 + - - +
181B ALA* 1.3 77.0 - - - +
183B GLU* 1.4 67.0 + - - +
185B HIS* 3.9 4.7 - - - -
186B GLU* 3.1 25.8 + - - +
223B GLN* 3.1 36.9 - - + +
224B PRO* 3.1 19.4 - - + +
225B ASP* 2.7 58.0 + - - +
226B VAL* 4.4 1.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 183 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134B ARG* 4.8 9.2 + - - -
139B THR* 5.1 4.2 - - - +
140B GLU* 5.0 1.9 - - - +
179B GLN 2.9 19.0 + - - +
180B GLN* 3.9 7.9 - - - +
181B ALA 3.4 0.2 + - - -
182B GLN* 1.4 74.6 - - - +
184B VAL* 1.3 72.0 - - - +
186B GLU* 3.4 8.5 - - - +
187B LYS* 3.0 57.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 184 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134B ARG* 3.9 22.0 - - - +
139B THR* 4.0 13.5 - - + -
140B GLU* 5.7 0.7 - - - +
143B VAL* 5.4 5.9 - - + +
164B TYR* 3.2 37.2 - - + +
180B GLN 3.1 12.8 - - - +
181B ALA 2.9 23.6 - - - +
183B GLU* 1.3 94.2 - - - +
185B HIS* 1.3 64.9 + - - +
187B LYS* 3.8 10.3 - - + +
188B LEU* 3.1 26.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 185 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164B TYR* 3.2 39.6 - + + +
181B ALA 3.0 27.5 + - - +
182B GLN* 4.2 4.9 - - - -
184B VAL* 1.3 71.1 - - - +
186B GLU* 1.3 65.1 + - - +
188B LEU* 3.2 7.3 + - + +
189B ARG* 2.9 21.0 + - - +
206B ILE* 3.4 30.3 + - + +
207B ILE 3.5 18.1 + - - -
208B TYR* 3.8 10.7 - - + -
225B ASP* 2.6 36.6 + - + +
226B VAL* 3.3 19.2 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 186 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182B GLN* 3.1 33.9 + - - +
183B GLU* 3.4 7.3 - - - +
185B HIS* 1.3 77.3 - - - +
187B LYS* 1.3 53.6 + - + +
188B LEU 2.8 1.7 + - - -
189B ARG* 2.8 23.7 + - - +
190B GLY* 2.8 12.8 + - - -
224B PRO* 5.3 3.5 - - - +
225B ASP* 3.2 19.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 187 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140B GLU* 3.0 41.1 + - - +
144B PHE* 2.9 31.9 - - + -
183B GLU* 3.0 49.8 + - + +
184B VAL* 3.8 9.4 - - + +
185B HIS 3.5 0.2 - - - -
186B GLU* 1.3 74.2 - - + +
188B LEU* 1.3 56.1 + - - +
190B GLY* 3.9 3.5 - - - +
191B TRP 3.2 11.8 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 188 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127B ILE* 4.1 15.5 - - + -
143B VAL* 3.7 24.2 - - + -
144B PHE* 3.9 11.9 - - + -
147B THR* 3.3 38.1 - - + +
162B LEU* 5.5 3.1 - - + -
164B TYR* 4.7 12.1 - - + -
184B VAL 3.1 20.9 - - - +
185B HIS* 3.3 4.0 - - - +
186B GLU 3.0 0.2 - - - -
187B LYS* 1.3 74.5 - - - +
189B ARG* 1.3 66.6 + - - +
190B GLY 3.1 0.9 - - - -
191B TRP* 3.3 3.3 + - + +
192B LEU* 3.1 27.3 + - + +
206B ILE* 4.2 27.1 - - + -
----------------------------------------------------------
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
----------------------------------------------------------
4B ARG* 3.0 36.1 - - - +
185B HIS 2.9 11.6 + - - +
186B GLU* 2.8 11.2 + - - +
188B LEU* 1.3 76.5 - - - +
190B GLY* 1.3 62.3 + - - +
192B LEU* 3.4 9.1 + - + +
193B LYS* 3.2 14.9 + - - +
201B ALA* 3.2 39.5 + - + +
202B GLN* 5.0 6.1 - - - +
204B THR* 2.7 28.5 + - - -
206B ILE* 3.8 17.2 - - + +
225B ASP* 2.9 41.9 + - - +
227B ASP* 2.9 20.8 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 190 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186B GLU 2.8 13.3 + - - -
187B LYS* 4.0 3.1 - - - -
189B ARG* 1.3 77.5 - - - +
191B TRP* 1.4 50.4 + - - +
193B LYS* 2.8 28.0 + - - +
194B SER* 3.0 17.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 191 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144B PHE* 3.5 59.2 + + + +
147B THR* 3.8 24.2 - - + -
148B LYS* 3.4 49.4 - - + -
151B ALA* 3.9 11.9 - - + -
187B LYS 3.2 9.0 + - - -
188B LEU* 3.3 6.5 + - + +
190B GLY* 1.4 71.5 - - - +
192B LEU* 1.3 87.5 + - + +
194B SER* 3.4 7.2 + - - -
195B ASN* 2.9 63.7 + - + +
196B VAL* 4.5 3.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 192 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147B THR* 4.3 9.0 - - + -
157B TRP* 4.1 21.5 - - + -
162B LEU* 3.9 22.4 - - + -
188B LEU* 3.1 13.3 + - + +
189B ARG* 3.5 13.0 - - + +
190B GLY 3.3 0.2 - - - -
191B TRP* 1.3 106.1 - - + +
193B LYS* 1.4 54.5 + - - +
196B VAL* 2.8 31.2 + - + +
197B SER 3.2 12.6 + - - +
200B VAL* 4.2 10.8 - - + -
201B ALA* 4.1 15.3 - - - +
204B THR* 4.1 19.5 - - + +
206B ILE* 4.8 3.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 193 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189B ARG 3.2 10.3 + - - +
190B GLY* 2.8 21.7 + - - +
192B LEU* 1.4 73.8 - - - +
194B SER* 1.3 62.9 + - - +
195B ASN 3.2 0.9 + - - -
196B VAL 3.7 4.5 + - - -
197B SER* 4.0 8.8 + - - -
198B ASP* 3.0 42.3 + - + +
201B ALA* 4.1 8.1 - - + -
202B GLN* 4.9 5.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 194 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190B GLY 3.0 16.7 + - - -
191B TRP* 3.5 9.6 - - - -
193B LYS* 1.3 75.9 - - - +
195B ASN* 1.3 73.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 195 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191B TRP* 2.9 68.2 + - + +
194B SER* 1.3 89.4 - - - +
196B VAL* 1.3 64.9 + - + +
----------------------------------------------------------
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
----------------------------------------------------------
151B ALA* 4.8 4.0 - - + -
157B TRP* 3.9 22.9 - - + +
191B TRP* 4.5 6.3 - - + -
192B LEU* 2.8 41.6 + - + +
193B LYS 3.7 1.7 + - - -
195B ASN* 1.3 85.0 - - + +
197B SER* 1.3 68.1 + - - +
200B VAL* 3.8 29.8 - - + -
----------------------------------------------------------
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