Contacts of the helix formed by residues 203 - 222 (chain A) in PDB entry 3Q7I
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 203 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A ILE* 3.7 24.5 - - + -
198A SER* 4.4 1.4 + - - -
200A SER* 3.3 4.5 + - - -
201A PHE 3.8 0.6 - - - -
202A SER* 1.3 76.1 - - - +
204A GLU* 1.3 64.6 + - - +
205A GLU* 3.4 22.2 - - - +
206A THR* 3.2 9.5 + - - +
207A LEU* 2.9 23.0 + - - +
505A LYS* 2.9 37.8 + - + +
601A 6PG 2.7 25.3 + - - +
----------------------------------------------------------
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
----------------------------------------------------------
175A VAL* 5.6 6.8 - - - +
202A SER 3.4 4.2 + - - -
203A THR* 1.3 72.4 - - - +
205A GLU* 1.3 78.5 + - - +
207A LEU* 3.3 11.9 + - - +
208A LEU* 3.0 49.1 + - + +
505A LYS* 5.3 11.7 + - - +
507A LEU 5.6 2.2 - - - +
509A LYS* 6.5 0.7 - - - -
512A LEU* 3.6 26.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 205 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A ILE* 3.7 26.7 - - + +
173A SER 3.8 17.5 - - - +
175A VAL* 3.5 40.4 - - + +
203A THR* 3.3 17.2 - - - +
204A GLU* 1.3 89.9 + - + +
206A THR* 1.3 57.6 + - - +
208A LEU* 3.4 1.6 + - - +
209A ASN* 2.9 36.2 + - - -
505A LYS* 5.6 1.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 206 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A ILE* 3.8 24.9 - - + +
144A GLY* 3.6 17.2 - - - -
145A ILE* 3.7 16.3 + - - +
173A SER 5.3 0.3 + - - -
196A ILE* 3.8 21.3 - - + -
197A ALA 4.1 8.7 + - - +
198A SER* 4.2 8.5 - - - -
203A THR* 3.2 15.8 + - - +
205A GLU* 1.3 73.3 - - - +
207A LEU* 1.3 59.7 + - - +
209A ASN* 4.0 6.2 - - - +
210A SER* 2.8 36.4 + - - +
601A 6PG 4.6 1.9 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 207 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201A PHE* 4.0 21.3 - - + +
202A SER* 3.4 30.7 - - - +
203A THR 2.9 17.9 + - - +
204A GLU* 3.5 10.1 - - - +
206A THR* 1.3 76.2 - - - +
208A LEU* 1.3 62.2 + - + +
210A SER* 3.8 4.4 - - - -
211A ILE* 2.9 46.0 + - + +
244A PHE* 5.8 8.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 208 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175A VAL* 3.7 27.8 - - + -
204A GLU* 3.0 42.9 + - + +
205A GLU 3.9 2.9 - - - +
207A LEU* 1.3 82.1 - - + +
209A ASN* 1.3 58.9 + - - +
211A ILE* 3.9 10.4 - - + +
212A SER* 2.9 35.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 209 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A ILE* 3.5 22.9 - - + +
172A VAL* 3.7 17.5 - - + +
173A SER* 3.1 20.4 + - - +
174A ASN 3.0 27.8 + - - +
175A VAL* 4.3 8.2 - - - +
176A ASP 5.3 0.3 - - - +
177A ALA* 5.4 1.2 - - - -
180A LEU* 4.0 21.0 - - + +
205A GLU 2.9 19.8 + - - +
206A THR* 4.8 0.4 - - - +
208A LEU* 1.3 78.3 - - - +
210A SER* 1.3 56.0 + - - +
212A SER* 3.3 5.2 + - - -
213A ALA* 2.9 29.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 210 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A ILE* 3.9 16.3 - - - +
196A ILE* 3.4 46.0 - - - +
206A THR 2.8 24.2 + - - -
207A LEU* 3.8 3.8 - - - -
209A ASN* 1.3 72.7 - - - +
211A ILE* 1.3 60.9 + - - +
213A ALA* 3.3 1.9 + - - +
214A ARG* 2.9 30.5 + - - +
231A PHE* 4.3 2.4 - - - -
244A PHE* 3.9 13.1 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 211 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207A LEU* 2.9 34.2 + - + +
208A LEU* 3.9 8.7 - - + +
210A SER* 1.3 75.0 - - - +
212A SER* 1.3 60.6 + - - +
214A ARG* 3.3 28.9 + - - +
215A GLU* 2.9 53.4 + - - +
244A PHE* 4.1 14.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 212 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180A LEU* 3.5 27.0 - - - +
184A LEU* 5.2 0.3 - - - +
208A LEU* 2.9 21.5 + - - +
209A ASN* 3.7 0.9 - - - -
211A ILE* 1.3 78.9 - - - +
213A ALA* 1.3 60.6 + - - +
215A GLU* 3.3 14.4 + - - +
216A TRP* 3.0 22.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 213 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A ILE* 3.8 22.2 - - + -
180A LEU* 4.3 14.5 - - + +
184A LEU* 5.2 1.1 - - + -
194A LEU* 4.1 16.6 - - + +
209A ASN 2.9 16.8 + - - +
210A SER 3.7 4.3 - - - +
211A ILE 3.3 0.2 - - - -
212A SER* 1.3 73.2 - - - +
214A ARG* 1.3 64.5 + - - +
216A TRP* 3.3 15.6 + - + +
217A LEU* 3.0 21.0 + - - +
231A PHE* 4.2 6.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 214 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210A SER 2.9 16.8 + - - +
211A ILE* 3.7 28.1 + - - +
213A ALA* 1.3 76.7 - - - +
215A GLU* 1.3 60.6 + - + +
217A LEU* 3.2 2.0 + - - +
218A LEU* 2.9 55.0 + - + +
227A VAL* 4.2 21.5 - - + -
231A PHE* 3.8 17.2 - - + -
244A PHE* 3.3 55.4 + - + +
----------------------------------------------------------
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 ILE* 2.9 37.1 + - + +
212A SER* 3.6 14.4 + - - +
213A ALA 3.2 0.2 - - - -
214A ARG* 1.3 80.2 - - + +
216A TRP* 1.3 56.1 + - - +
218A LEU* 3.7 4.2 - - - +
219A ASP* 2.8 31.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 216 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184A LEU* 3.7 48.5 + - + +
187A VAL* 3.7 36.1 - - + -
188A ASP 3.9 1.6 - - - -
189A PRO* 3.5 50.7 - - + +
192A THR* 4.4 4.5 - - - -
194A LEU* 4.3 23.3 - - + -
212A SER 3.0 13.8 + - - +
213A ALA* 3.5 13.5 - - - +
215A GLU* 1.3 74.5 - - - +
217A LEU* 1.3 80.3 + - + +
219A ASP* 3.4 9.6 + - - +
220A HIS* 3.3 19.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 217 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189A PRO* 3.7 33.0 - - + +
192A THR 5.3 0.2 - - - +
194A LEU* 4.7 3.8 - - + -
213A ALA 3.0 13.8 + - - +
214A ARG* 3.6 8.1 - - - +
216A TRP* 1.3 90.5 - - + +
218A LEU* 1.3 64.9 + - + +
220A HIS* 3.2 6.4 + - - +
221A TYR* 3.0 37.9 + - + -
226A ALA* 4.0 15.3 - - + +
227A VAL* 4.1 10.8 - - + +
230A HIS* 3.7 33.2 - - + +
231A PHE* 3.9 18.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 218 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214A ARG* 2.9 40.8 + - + +
215A GLU* 4.1 4.0 - - - +
217A LEU* 1.3 82.8 - - + +
219A ASP* 1.3 61.8 + - - +
220A HIS 3.1 1.3 - - - -
221A TYR* 5.0 0.4 - - + -
222A GLU* 2.7 32.8 + - - +
223A ASP 3.3 31.6 - - - +
224A GLU* 4.0 30.1 - - + +
226A ALA* 4.5 3.1 - - + -
227A VAL* 4.2 16.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 219 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215A GLU 2.8 22.4 + - - +
216A TRP* 3.6 10.6 - - - +
218A LEU* 1.3 73.5 - - - +
220A HIS* 1.3 65.9 + - - +
222A GLU* 3.7 15.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 220 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188A ASP* 5.2 2.2 - - - -
189A PRO* 3.6 27.6 - - + +
190A GLU* 2.6 45.0 + - + +
216A TRP 3.3 5.6 + - - +
217A LEU 3.2 9.1 + - - +
218A LEU 3.1 0.4 - - - -
219A ASP* 1.3 86.7 + - - +
221A TYR* 1.3 80.2 + + - +
222A GLU* 4.0 5.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 221 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A PHE* 3.4 28.2 + + + -
133A SER* 3.4 22.9 + - - -
189A PRO 3.9 5.8 - - - -
190A GLU* 3.4 30.5 + - + +
217A LEU* 3.0 32.9 + - + +
218A LEU* 4.8 1.1 - - - -
220A HIS* 1.3 90.4 - + + +
222A GLU* 1.3 71.8 + - - +
223A ASP* 3.1 13.1 + - + +
226A ALA* 3.5 23.6 - - + -
230A HIS* 2.9 37.9 + + - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 222 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218A LEU* 2.7 24.5 + - - +
219A ASP* 3.7 19.9 - - - +
220A HIS 4.0 4.4 - - - +
221A TYR* 1.3 74.8 - - - +
223A ASP* 1.3 58.1 + - - +
----------------------------------------------------------
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