Contacts of the helix formed by residues 177 - 194 (chain A) in PDB entry 4OWT
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 A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175A ASP* 2.7 29.4 + - - +
176A VAL* 1.3 80.1 - - - +
178A ALA* 1.3 65.7 + - - +
179A LYS* 4.0 6.0 + - - +
180A ASN* 3.2 15.1 + - - +
181A ILE* 3.1 21.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 178 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176A VAL 3.8 1.0 + - - -
177A THR* 1.3 74.0 - - - +
179A LYS* 1.3 60.4 + - + +
181A ILE* 3.6 7.8 + - - +
182A TRP* 3.0 29.2 + - - +
224A GLN* 5.6 5.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 179 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A LEU* 4.7 16.4 - - - +
134A TYR* 5.0 0.9 + - - -
137A LEU 5.6 0.4 + - - -
139A ASP* 3.4 34.0 + - - +
142A ARG* 3.7 34.2 + - - +
177A THR* 3.2 6.3 + - - +
178A ALA* 1.3 76.0 - - + +
180A ASN* 1.3 65.3 + - - +
182A TRP* 3.5 12.6 + - + +
183A LEU* 3.2 20.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 180 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170A GLN 3.8 4.9 - - - +
171A ILE* 3.6 13.6 - - - +
172A ALA* 2.9 44.9 + - - +
175A ASP* 2.8 51.3 + - - +
177A THR* 3.2 6.5 + - - +
179A LYS* 1.3 76.0 - - - +
181A ILE* 1.3 67.0 + - - +
183A LEU* 3.2 7.7 + - - +
184A ALA* 3.0 22.2 + - - +
215A LEU* 5.5 0.6 - - - +
219A HIS* 5.9 1.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 181 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175A ASP 4.8 1.3 - - - +
176A VAL* 3.1 34.8 - - + +
177A THR 3.1 15.1 + - - +
178A ALA* 3.8 6.1 - - - +
180A ASN* 1.3 73.5 - - - +
182A TRP* 1.3 67.6 + - - +
184A ALA* 3.3 7.8 + - - +
185A GLU* 3.1 25.7 + - - +
219A HIS* 5.0 6.5 - - - +
222A THR* 6.1 0.2 - - + -
224A GLN* 3.8 36.3 - - + +
225A LEU* 3.5 33.7 - - + -
228A LEU* 4.1 16.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 182 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A TYR* 4.0 17.9 - - - -
142A ARG* 3.5 39.3 - - + -
143A THR* 3.8 27.7 + - + +
146A VAL* 3.6 16.4 - - + -
167A PHE* 5.9 0.2 - + - -
178A ALA 3.0 19.8 + - - +
179A LYS* 3.5 13.2 - - - +
180A ASN 3.2 0.2 - - - -
181A ILE* 1.3 78.3 - - - +
183A LEU* 1.3 83.8 + - + +
185A GLU* 3.5 5.3 + - - +
186A SER* 2.8 48.5 + - - -
224A GLN* 5.5 2.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 183 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A TYR* 3.6 32.1 - - + +
146A VAL* 4.3 4.5 - - + -
167A PHE* 3.4 33.9 - - + +
170A GLN* 3.9 24.2 - - + +
171A ILE* 3.7 23.6 - - + -
179A LYS 3.2 9.0 + - - +
180A ASN* 3.2 12.3 + - - +
182A TRP* 1.3 92.3 - - + +
184A ALA* 1.3 66.1 + - - +
186A SER* 4.3 0.7 - - - -
187A VAL* 2.9 32.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 184 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171A ILE* 3.7 28.2 - - + +
180A ASN* 3.0 13.2 + - - +
181A ILE* 3.3 9.2 + - - +
183A LEU* 1.3 75.9 - - - +
185A GLU* 1.3 57.8 + - - +
188A LEU* 3.1 14.1 + - - +
212A TYR* 2.7 24.7 + - + -
215A LEU* 4.5 2.9 - - + -
219A HIS* 4.2 8.3 - - + +
228A LEU* 4.2 15.9 - - + -
232A GLU* 4.2 9.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 185 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181A ILE* 3.1 18.0 + - - +
182A TRP* 3.9 5.1 - - - +
184A ALA* 1.3 78.0 - - - +
186A SER* 1.3 58.7 + - - +
188A LEU* 3.6 2.3 - - + +
189A ASP* 2.9 40.6 + - - +
224A GLN* 4.6 17.0 + - - +
227A ALA* 5.6 2.3 - - - +
228A LEU* 3.8 31.3 + - + +
231A LYS* 2.7 37.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 186 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A VAL* 3.9 31.3 - - - +
150A ARG* 4.4 2.0 + - - +
182A TRP* 2.8 47.3 + - - -
183A LEU* 3.2 6.5 + - - -
185A GLU* 1.3 77.2 - - - +
187A VAL* 1.3 61.8 + - - +
189A ASP* 3.3 9.0 + - - +
190A ILE* 3.3 25.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 187 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A VAL* 5.4 2.0 - - + -
164A CYS* 4.9 6.3 - - + +
167A PHE* 4.3 24.0 - - + +
168A MSE 3.7 25.6 - - + -
171A ILE* 4.4 5.6 - - + -
183A LEU* 2.9 38.7 + - + +
186A SER* 1.3 71.5 - - - +
188A LEU* 1.3 66.7 + - - +
190A ILE* 3.1 14.4 + - + +
191A LEU* 3.0 33.0 + - + +
212A TYR* 3.4 15.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 188 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184A ALA 3.1 18.7 + - - +
185A GLU 3.6 4.3 - - - +
186A SER 3.3 0.2 - - - -
187A VAL* 1.3 76.4 - - - +
189A ASP* 1.3 59.9 + - - +
191A LEU* 3.2 5.8 + - - +
192A THR* 2.8 39.4 + - - +
212A TYR* 3.1 23.8 + - + +
228A LEU* 4.1 9.4 - - + -
231A LYS* 3.6 37.9 - - + +
232A GLU* 3.7 21.5 - - + +
235A PHE* 3.7 42.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 189 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150A ARG* 3.7 19.4 + - - +
185A GLU* 2.9 27.0 + - - +
186A SER* 3.7 5.6 - - - +
187A VAL 3.2 0.2 - - - -
188A LEU* 1.3 77.4 - - - +
190A ILE* 1.3 57.6 + - - +
192A THR* 4.0 6.3 - - - -
193A GLU* 3.0 31.9 + - - +
231A LYS* 3.0 35.7 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 190 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A VAL* 3.7 33.9 - - + +
149A VAL* 4.3 11.2 - - + -
150A ARG* 3.8 40.2 - - + +
153A VAL* 4.3 24.9 - - + -
164A CYS* 4.8 9.9 - - - -
167A PHE* 6.0 1.8 - - + -
186A SER 3.3 13.4 + - - +
187A VAL* 3.1 15.1 + - + +
189A ASP* 1.3 78.1 - - - +
191A LEU* 1.3 60.0 + - + +
194A GLN* 2.9 38.4 + - + +
197A TRP* 5.7 0.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 191 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164A CYS* 4.5 19.7 - - + -
168A MSE 4.2 12.8 - - - -
187A VAL* 3.0 30.7 + - + +
188A LEU* 3.7 6.1 - - - +
190A ILE* 1.3 78.3 - - + +
192A THR* 1.3 61.4 + - - +
194A GLN* 5.1 0.2 - - - -
195A ARG* 3.2 23.9 + - - +
197A TRP* 4.5 13.2 - - + -
198A VAL* 3.5 26.5 - - + +
204A LEU* 4.7 7.6 - - + -
208A ALA* 4.2 13.9 - - + -
212A TYR* 4.1 19.1 - - + -
235A PHE* 3.8 21.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 192 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188A LEU* 2.8 33.2 + - - +
189A ASP* 4.0 6.5 - - - -
191A LEU* 1.3 72.1 - - - +
193A GLU* 1.3 65.4 + - - +
194A GLN 3.4 0.2 + - - -
195A ARG* 3.5 18.6 + - - +
231A LYS 5.4 0.5 + - - -
235A PHE* 3.7 23.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 193 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150A ARG* 2.5 37.2 + - - +
154A LYS* 4.7 2.4 - - - +
189A ASP 3.0 18.5 + - - +
190A ILE 4.0 0.7 - - - +
192A THR* 1.3 79.2 - - - +
194A GLN* 1.3 84.4 + - - +
195A ARG 3.4 2.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 194 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150A ARG* 5.4 1.8 - - + +
153A VAL* 3.7 31.6 - - + +
154A LYS* 3.6 31.4 - - + +
190A ILE* 2.9 22.8 + - + +
191A LEU* 3.5 4.5 - - - -
193A GLU* 1.3 112.5 + - - +
195A ARG* 1.3 62.2 + - - +
196A GLU* 3.2 3.6 - - - -
197A TRP* 3.1 13.6 + - + +
198A VAL* 3.0 20.4 + - - +
----------------------------------------------------------
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