Contacts of the helix formed by residues 203 - 216 (chain A) in PDB entry 1ASC
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 LEU 203 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202A THR* 1.3 71.1 - - - +
204A GLU* 1.3 57.7 + - + +
206A TRP* 3.1 10.0 + - + +
207A GLN* 2.9 59.2 + - + +
235A GLU* 5.7 2.0 - - - +
238A GLU* 4.0 46.4 - - + +
242A ALA* 4.8 4.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 204 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202A THR* 3.1 9.5 + - - +
203A LEU* 1.3 79.0 - - - +
205A GLN* 1.3 55.0 + - + +
207A GLN* 3.3 16.4 - - - +
208A THR* 2.5 37.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 205 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169A LEU* 3.4 11.7 - - - +
171A PHE* 3.3 45.7 - - + +
200A ASP* 4.3 2.6 + - - -
201A PRO* 3.3 23.0 - - + +
202A THR* 3.0 46.1 + - - +
204A GLU* 1.3 77.4 - - + +
206A TRP* 1.3 60.0 + - - +
208A THR* 3.6 6.2 - - - -
209A LEU* 2.9 33.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 206 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189A PHE* 3.7 30.3 - + - -
190A HIS 3.2 30.1 - - - -
191A GLY* 3.7 19.4 + - - -
193A CYS* 6.1 1.0 - - - -
200A ASP 4.0 3.8 - - - -
201A PRO* 3.5 39.9 + - + -
202A THR 2.8 23.2 + - - -
203A LEU* 3.5 12.3 - - + +
205A GLN* 1.3 75.7 - - - +
207A GLN* 1.4 51.5 + - - +
209A LEU* 3.0 5.7 + - + -
210A ALA* 2.7 32.3 + - - +
222A PHE* 4.0 13.7 - + - -
231A ARG* 5.9 2.0 - - - +
238A GLU* 4.9 1.3 - - + -
239A GLY* 3.4 32.7 - - - +
242A ALA* 4.4 7.6 - - + -
243A PHE* 3.3 26.8 - + - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 207 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203A LEU* 2.9 45.6 + - + +
204A GLU* 3.3 23.2 + - - +
206A TRP* 1.4 74.1 - - - +
208A THR* 1.3 56.5 + - - +
210A ALA* 3.1 9.3 + - - +
211A GLN* 3.0 31.2 + - - +
242A ALA* 4.6 10.1 - - + -
246A MET* 5.1 2.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 208 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171A PHE* 3.8 23.7 - - + -
175A ILE* 4.2 10.5 - - + -
204A GLU* 2.5 24.7 + - - +
205A GLN* 3.6 9.9 - - - -
207A GLN* 1.3 76.9 - - - +
209A LEU* 1.3 57.1 + - - +
211A GLN* 3.5 7.4 - - - +
212A LEU* 3.2 26.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 209 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171A PHE* 3.9 18.2 - - + -
174A LEU* 4.0 25.1 - - + -
175A ILE* 3.9 31.0 - - + -
178A LEU* 5.3 2.5 - - + -
189A PHE* 4.1 25.9 - - + -
201A PRO* 4.3 16.4 - - + -
205A GLN 2.9 22.7 + - - +
206A TRP* 3.0 7.1 + - + +
208A THR* 1.3 71.2 - - - +
210A ALA* 1.3 62.5 + - - +
211A GLN 3.2 0.2 - - - -
212A LEU* 3.3 12.9 + - + +
213A SER* 3.0 27.4 + - - -
218A TRP* 5.2 2.1 - - + -
243A PHE* 3.6 13.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 210 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206A TRP 2.7 16.6 + - - +
207A GLN* 3.1 11.6 + - - +
209A LEU* 1.3 72.2 - - - +
211A GLN* 1.3 57.8 + - - +
213A SER* 2.9 16.9 + - - -
214A VAL* 3.2 22.9 - - - +
242A ALA* 4.1 4.9 - - + +
243A PHE* 3.5 36.9 - - + +
246A MET* 3.6 16.6 - - + +
247A HIS* 3.3 1.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 211 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207A GLN 3.0 16.6 + - - +
208A THR* 3.5 10.1 - - + +
210A ALA* 1.3 76.7 - - - +
212A LEU* 1.3 57.5 + - + +
213A SER 3.1 5.9 + - - -
214A VAL* 3.1 24.0 + - - +
215A GLU* 3.3 24.9 + - - +
246A MET* 3.6 22.5 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 212 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175A ILE* 4.4 32.1 - - + -
178A LEU* 5.3 0.4 - - + -
179A ASN* 4.6 11.9 - - - +
208A THR* 3.2 18.2 + - + +
209A LEU* 3.3 11.6 + - + +
211A GLN* 1.3 77.4 - - + +
213A SER* 1.3 56.6 + - - +
215A GLU* 4.1 24.7 - - - +
216A LYS* 3.1 37.9 - - + +
218A TRP* 3.4 29.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 213 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187A VAL* 5.5 1.6 - - - -
189A PHE* 5.6 0.4 - - - -
209A LEU 3.0 11.9 + - - -
210A ALA* 2.9 19.8 + - - -
212A LEU* 1.3 76.7 - - - +
214A VAL* 1.3 59.3 + - - +
215A GLU 3.5 0.4 - - - -
216A LYS* 4.5 0.2 - - - -
217A GLY* 3.0 10.3 + - - -
218A TRP* 3.0 56.1 + - - +
220A PRO* 4.8 2.2 - - - -
243A PHE* 3.7 9.6 - - - -
247A HIS* 3.1 22.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 214 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210A ALA 3.2 16.6 - - - +
211A GLN* 3.3 16.2 - - - +
213A SER* 1.3 79.6 + - - +
215A GLU* 1.3 64.6 + - + +
216A LYS 3.6 0.2 + - - -
217A GLY* 3.8 6.6 + - - -
246A MET* 3.4 42.6 - - + +
247A HIS* 3.5 15.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 215 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211A GLN* 3.3 26.3 + - - +
212A LEU* 4.1 24.0 - - - +
214A VAL* 1.3 80.8 - - + +
216A LYS* 1.3 69.7 + - - +
217A GLY 3.6 0.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 216 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179A ASN* 4.4 28.3 - - - +
181A ALA 4.7 3.6 - - - +
182A GLN 4.6 0.5 - - - -
183A ALA* 3.8 16.0 + - - +
212A LEU* 3.1 36.3 - - + +
213A SER 4.0 0.2 + - - -
214A VAL 3.4 0.2 - - - -
215A GLU* 1.3 89.3 + - - +
217A GLY* 1.3 59.5 + - - +
218A TRP* 3.5 34.7 + - + +
----------------------------------------------------------
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