Contacts of the helix formed by residues 147 - 163 (chain E) in PDB entry 2PWZ
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 147 (chain E).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121E VAL* 4.7 0.4 - - + -
145E GLY 3.2 14.2 + - - +
146E VAL* 1.3 74.4 - - - +
148E THR* 1.3 59.7 + - - +
149E LEU 3.2 2.9 - - - -
150E ASP* 3.0 34.1 + - - +
151E ILE* 3.5 10.3 - - - +
173E VAL* 5.2 2.2 + - - -
176E GLY 4.9 3.1 - - - +
177E HIS* 3.5 31.9 - - + +
234E PHE* 6.0 0.2 - - - -
251E CYS 3.4 20.3 + - - -
252E ALA* 3.8 0.9 - - - -
253E TYR* 3.8 20.9 - - + -
265E SER* 3.4 18.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 148 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146E VAL* 3.4 8.1 - - - +
147E THR* 1.3 77.6 + - - +
149E LEU* 1.3 60.9 + - - +
150E ASP 3.3 0.2 - - - -
151E ILE* 3.1 13.4 + - + +
152E ILE* 3.0 24.4 + - + +
230E ALA* 3.3 31.9 - - - +
233E ARG* 3.9 34.3 - - + +
234E PHE* 3.5 27.6 - - - +
250E GLU* 4.6 5.0 + - - +
251E CYS 4.3 5.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 149 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147E THR 3.1 1.0 + - - -
148E THR* 1.3 73.9 - - - +
150E ASP* 1.3 66.1 + - - +
152E ILE* 3.6 10.8 - - + +
153E ARG* 2.9 72.9 + - + +
177E HIS* 4.6 11.0 - - + +
223E ALA* 4.3 7.2 - - + -
226E SER* 3.6 40.8 - - - +
227E MET* 3.8 34.8 - - + +
230E ALA* 3.4 13.7 - - + +
48G HIS* 5.1 0.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 150 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147E THR* 3.0 12.9 + - - +
149E LEU* 1.3 75.7 - - - +
151E ILE* 1.3 58.0 + - + +
153E ARG* 3.7 18.3 + - - +
154E SER* 2.8 33.7 + - - -
173E VAL* 3.9 20.1 - - + +
176E GLY 3.8 3.3 - - - +
177E HIS* 2.6 44.5 + - - +
182E ILE* 3.8 32.2 - - + +
206E ILE* 4.3 6.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 151 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147E THR* 3.5 28.3 - - - +
148E THR* 3.1 16.4 + - + +
150E ASP* 1.3 81.1 - - + +
152E ILE* 1.3 58.2 + - - +
154E SER* 3.1 3.5 + - - -
155E ASN* 2.9 42.4 + - - +
170E GLU* 3.5 24.9 - - - +
171E VAL 3.8 18.2 - - - +
173E VAL* 3.7 26.7 - - + +
233E ARG* 4.0 14.1 - - - +
250E GLU* 5.7 1.3 - - - +
251E CYS* 4.1 23.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 152 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148E THR* 3.0 26.2 + - + +
149E LEU* 3.6 16.8 - - + +
151E ILE* 1.3 72.8 - - - +
153E ARG* 1.3 65.2 + - - +
155E ASN* 3.6 6.2 + - - +
156E THR* 2.8 29.5 + - - -
226E SER* 3.8 12.1 - - - +
229E GLN* 4.5 11.4 - - + -
230E ALA* 3.7 27.4 - - + +
233E ARG* 4.0 28.0 - - + +
48G HIS 3.8 12.6 - - - +
49G ILE* 4.6 4.5 - - + -
50G PRO* 3.6 25.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 153 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149E LEU* 2.9 55.3 + - + +
150E ASP* 3.7 19.1 + - - +
152E ILE* 1.3 75.7 - - - +
154E SER* 1.3 59.7 + - - +
156E THR* 3.3 3.5 + - - -
157E PHE* 2.9 45.7 + - + -
177E HIS* 5.9 0.8 - - - -
206E ILE* 5.0 7.5 + - + -
209E ALA* 3.4 23.3 + - + +
210E GLY* 3.4 31.3 - - - +
213E VAL* 4.4 1.0 - - - +
223E ALA* 3.9 15.6 - - - +
48G HIS* 3.1 44.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 154 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150E ASP 2.8 23.3 + - - -
151E ILE 3.1 5.1 + - - -
153E ARG* 1.3 73.2 - - - +
155E ASN* 1.3 68.1 + - - +
157E PHE* 4.5 0.4 - - - +
158E VAL* 2.8 29.3 + - - +
171E VAL* 3.7 26.5 - - - -
173E VAL* 3.8 8.9 - - - +
184E PRO* 4.0 0.7 - - - +
206E ILE* 3.2 37.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 155 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151E ILE* 2.9 22.3 + - - +
152E ILE* 3.7 12.0 - - - +
154E SER* 1.3 73.9 - - - +
156E THR* 1.3 55.8 + - - +
158E VAL 3.8 0.2 - - - -
159E ALA* 2.8 33.6 + - - +
166E PRO 4.2 2.2 + - - +
169E VAL* 3.0 31.1 + - - +
170E GLU* 2.8 25.1 + - - +
171E VAL* 2.7 28.6 + - - -
233E ARG* 4.1 5.1 - - - +
50G PRO* 4.0 17.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 156 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152E ILE 2.8 17.4 + - - -
153E ARG* 3.5 8.3 - - - -
155E ASN* 1.3 78.4 - - - +
157E PHE* 1.3 68.8 + - + +
159E ALA* 3.4 5.0 + - - +
160E GLU* 2.9 32.2 + - + +
166E PRO* 5.4 1.8 - - + -
47G SER 3.2 24.5 - - - +
48G HIS* 2.9 15.2 + - - -
49G ILE 4.4 4.0 - - - +
50G PRO* 3.2 21.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 157 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153E ARG* 2.9 28.2 + - + +
154E SER* 4.1 2.5 - - - +
156E THR* 1.3 87.1 - - + +
158E VAL* 1.3 58.0 + - - +
160E GLU* 3.4 10.2 + - - +
161E LEU* 3.0 29.6 + - - +
202E LEU* 3.8 20.9 - - + +
205E ARG* 3.5 58.5 + - + +
206E ILE* 3.8 21.8 - - + -
209E ALA* 3.9 17.3 - - + -
212E GLU* 4.4 0.2 - - - -
48G HIS* 3.6 42.0 - + - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 158 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154E SER* 2.8 21.0 + - - +
155E ASN 4.0 2.0 - - - +
157E PHE* 1.3 76.3 - - - +
159E ALA* 1.3 63.5 + - - +
161E LEU* 3.3 2.2 + - - +
162E LYS* 3.0 30.0 + - + +
164E LYS* 5.3 1.1 - - + -
169E VAL* 3.7 22.7 - - + -
171E VAL* 3.9 7.0 - - + -
186E LEU* 3.6 31.6 - - + -
189E VAL* 4.6 7.0 - - + -
192E VAL* 4.8 3.4 - - + -
194E PHE* 3.6 23.1 - - + -
202E LEU* 3.7 18.6 - - + -
206E ILE* 5.4 0.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 159 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155E ASN 2.8 23.6 + - - +
156E THR 3.8 3.6 - - - +
158E VAL* 1.3 73.8 - - - +
160E GLU* 1.3 56.1 + - - +
163E GLY* 3.1 10.4 + - - -
164E LYS* 2.9 49.8 + - - +
166E PRO* 3.6 26.5 - - + -
169E VAL* 3.9 9.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 160 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156E THR* 2.9 21.8 + - + +
157E PHE* 3.7 10.1 - - - +
159E ALA* 1.3 71.8 - - - +
161E LEU* 1.3 67.2 + - - +
163E GLY* 3.8 5.7 + - - -
205E ARG* 3.2 28.9 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 161 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157E PHE 3.0 17.4 + - - +
158E VAL* 3.8 4.0 - - - +
160E GLU* 1.3 80.4 - - - +
162E LYS* 1.3 73.9 + - + +
163E GLY 3.3 0.9 + - - -
194E PHE* 4.1 5.6 - - + -
198E GLU* 4.0 36.8 - - + +
202E LEU* 3.7 32.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 162 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158E VAL* 3.0 17.1 + - + +
161E LEU* 1.3 86.9 - - + +
163E GLY* 1.3 65.4 + - - +
164E LYS* 3.5 26.6 + - + +
192E VAL* 3.3 28.7 - - + -
193E SER 3.1 15.4 + - - +
194E PHE* 3.8 14.8 - - + -
198E GLU* 2.8 39.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 163 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
276A GLU* 4.1 11.8 - - - +
159E ALA 3.1 8.2 + - - -
160E GLU 3.8 5.1 + - - -
161E LEU 3.3 4.6 + - - -
162E LYS* 1.3 79.3 - - - +
164E LYS* 1.3 62.0 + - - +
----------------------------------------------------------
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