Contacts of the helix formed by residues 150 - 168 (chain Q) in PDB entry 3K9Q
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 SER 150 (chain Q).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
0Q NAD 4.7 0.7 - - - -
122Q PRO* 3.7 21.0 - - - +
149Q ALA* 1.3 74.8 - - - +
151Q GLY* 1.3 63.8 + - - +
152Q THR* 3.5 5.0 + - - -
153Q THR* 2.7 32.2 + - - -
154Q ASN* 2.7 28.8 + - - -
211Q THR* 5.1 0.6 + - - -
213Q ALA* 4.2 4.9 + - - +
320Q TYR* 3.3 8.3 - - - -
337Q GOL 3.1 27.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 151 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
0Q NAD 3.8 1.2 - - - -
150Q SER* 1.3 70.7 - - - +
152Q THR* 1.3 63.2 + - - +
154Q ASN* 3.1 6.1 + - - +
155Q SER 2.9 18.9 + - - -
289Q GLY 4.9 0.2 - - - +
314Q TYR* 3.4 19.6 - - - -
316Q ASN 4.6 1.8 - - - -
320Q TYR* 3.3 27.4 - - - -
337Q GOL 3.0 21.9 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 152 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150Q SER* 3.2 3.5 - - - -
151Q GLY* 1.3 73.6 - - - +
153Q THR* 1.3 64.4 + - - +
155Q SER* 2.7 21.6 + - - -
156Q LEU* 3.0 8.0 + - - +
174Q MET* 3.8 21.3 - - + -
176Q THR* 3.9 15.5 - - + +
178Q HIS* 3.8 5.4 - - - -
211Q THR* 4.3 2.0 + - - +
213Q ALA* 3.4 24.5 - - + -
243Q THR* 4.0 8.3 - - + +
314Q TYR* 2.7 25.1 + - - +
337Q GOL 2.7 27.0 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 153 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122Q PRO* 5.0 3.3 - - - +
129Q THR* 5.4 0.7 - - + -
131Q VAL* 3.8 18.6 - - + -
149Q ALA* 3.8 15.4 - - + +
150Q SER* 2.7 26.3 + - - -
152Q THR* 1.3 75.2 - - - +
154Q ASN* 1.3 58.8 + - - +
156Q LEU* 3.1 4.2 + - - -
157Q ALA* 2.9 31.0 + - - +
213Q ALA* 3.7 21.5 + - - +
216Q ALA 5.9 0.9 - - - +
217Q ILE* 3.9 16.6 - - + -
220Q VAL* 3.8 18.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 154 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130Q ILE 4.8 0.5 - - - +
131Q VAL* 3.4 22.2 - - + +
148Q GLY 3.3 22.3 + - - +
149Q ALA* 3.8 6.9 - - - +
150Q SER 2.7 27.2 + - - +
151Q GLY* 3.1 9.2 + - - +
153Q THR* 1.3 77.9 - - - +
155Q SER* 1.3 58.9 - - - +
158Q PRO* 3.3 17.0 - - - +
289Q GLY* 3.5 15.9 - - - +
290Q SER* 3.6 3.8 - - - -
320Q TYR* 3.5 11.2 - - + -
323Q GLN* 3.1 44.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 155 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151Q GLY 2.9 6.0 + - - -
152Q THR 2.7 18.9 + - - -
154Q ASN* 1.3 77.4 - - - +
156Q LEU* 1.3 59.2 + - - +
158Q PRO* 4.0 0.7 - - - +
159Q VAL* 3.7 10.9 - - - +
243Q THR* 2.7 26.2 + - - -
289Q GLY 3.7 5.1 + - - -
290Q SER* 2.6 26.4 + - - -
312Q ALA* 4.0 6.6 - - - +
313Q TRP 4.8 0.4 - - - -
314Q TYR* 3.2 38.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 156 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152Q THR 3.0 13.6 + - - +
153Q THR 3.7 2.2 - - - +
155Q SER* 1.3 80.4 + - - +
157Q ALA* 1.3 67.7 + - - +
158Q PRO 3.4 1.8 - - - -
159Q VAL* 3.1 7.3 + - + +
160Q ALA* 2.8 28.4 + - + +
174Q MET* 4.1 13.2 - - - -
213Q ALA* 4.0 12.1 - - + +
214Q ALA* 3.9 29.6 - - + -
217Q ILE* 4.0 15.5 - - + -
228Q LEU* 4.4 4.3 - - + -
243Q THR* 4.5 17.3 - - + -
245Q LEU* 3.7 39.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 157 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131Q VAL* 3.9 12.1 - - + -
134Q THR* 3.8 21.5 - - + +
153Q THR 2.9 16.4 + - - +
156Q LEU* 1.3 76.7 - - - +
158Q PRO* 1.3 72.5 - - + +
160Q ALA* 4.6 0.2 - - - -
161Q LYS* 2.9 21.8 + - - +
217Q ILE* 4.3 9.4 - - + +
220Q VAL* 4.0 14.4 - - + -
221Q ILE* 3.6 14.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 158 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131Q VAL* 4.7 2.9 - - + -
133Q ASN 5.9 0.7 - - - +
134Q THR* 3.9 15.5 - - - +
154Q ASN 3.3 14.4 - - - +
156Q LEU 3.6 1.6 - - - -
157Q ALA* 1.3 95.7 - - + +
159Q VAL* 1.3 60.7 + - - +
161Q LYS* 4.0 5.6 - - + +
162Q VAL* 3.3 27.7 + - - +
270Q SER* 5.4 3.4 - - - +
271Q PHE* 3.7 32.5 - - + -
290Q SER* 3.7 27.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 159 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155Q SER 3.7 15.9 - - - +
156Q LEU* 3.1 9.4 + - + +
158Q PRO* 1.3 76.2 - - - +
160Q ALA* 1.3 65.7 + - - +
162Q VAL 3.3 1.2 + - - -
163Q LEU* 3.1 24.7 + - + +
245Q LEU* 4.0 12.8 - - + -
263Q MET* 3.5 19.0 - - + +
271Q PHE* 3.6 26.5 - - + -
292Q PHE* 4.2 5.8 - - + -
310Q VAL* 3.6 30.7 - - + -
311Q ALA 5.8 0.2 - - - +
312Q ALA* 3.9 17.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 160 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156Q LEU* 2.8 22.4 + - + +
157Q ALA* 3.8 2.9 - - - +
159Q VAL* 1.3 77.5 - - - +
161Q LYS* 1.3 58.1 + - - +
163Q LEU* 3.5 11.0 + - - +
164Q ASN* 2.9 30.0 + - - +
169Q LEU* 5.0 4.3 - - + +
217Q ILE* 4.8 0.9 - - + -
221Q ILE* 4.2 5.6 - - + -
224Q ILE* 3.7 25.5 - - + +
228Q LEU* 4.0 17.5 - - + -
245Q LEU* 4.8 2.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 161 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133Q ASN 6.0 0.2 - - - +
134Q THR* 4.5 25.4 + - + +
157Q ALA 2.9 16.5 + - - +
158Q PRO* 4.0 7.0 - - + +
159Q VAL 3.2 0.2 - - - -
160Q ALA* 1.3 75.2 - - - +
162Q VAL* 1.3 61.3 + - + +
164Q ASN* 3.3 3.8 + - - +
165Q ASP* 2.8 51.7 + - - +
221Q ILE* 3.9 20.7 - - + +
223Q GLU* 3.4 24.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 162 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158Q PRO 3.3 12.2 + - - +
159Q VAL 3.3 1.8 + - - -
161Q LYS* 1.3 75.3 - - + +
163Q LEU* 1.3 68.1 + - - +
165Q ASP* 4.7 4.7 - - - +
166Q ASP* 2.9 30.9 + - + +
167Q PHE* 4.8 2.0 - - + -
262Q ALA* 3.7 32.8 - - + +
263Q MET* 3.6 33.0 - - + -
266Q ALA* 3.4 31.9 - - + -
271Q PHE* 4.7 0.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 163 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159Q VAL* 3.1 26.4 + - + +
160Q ALA* 3.6 5.6 - - - +
162Q VAL* 1.3 76.4 - - - +
164Q ASN* 1.3 62.8 + - - +
167Q PHE* 3.0 43.1 + - + +
168Q GLY 3.3 5.2 + - - -
169Q LEU* 4.2 8.7 + - + -
245Q LEU* 3.8 29.8 - - + -
247Q VAL* 4.1 20.4 - - + -
249Q LEU* 4.3 23.0 - - + +
259Q VAL* 4.6 12.3 - - + -
263Q MET* 3.8 14.1 - - + -
308Q VAL* 5.0 3.6 - - + -
310Q VAL* 4.2 8.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 164 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160Q ALA 2.9 17.4 + - - +
161Q LYS* 4.0 4.5 - - - +
163Q LEU* 1.3 76.9 - - - +
165Q ASP* 1.3 69.2 + - - +
168Q GLY* 2.9 21.7 + - - -
169Q LEU* 2.9 36.4 + - + +
221Q ILE* 5.5 1.1 - - + +
223Q GLU* 3.6 25.0 + - - +
224Q ILE* 3.5 31.2 - - + +
227Q LYS* 4.9 3.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 165 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161Q LYS* 2.8 59.0 + - - +
162Q VAL* 4.1 2.3 - - - +
164Q ASN* 1.3 84.5 + - - +
166Q ASP* 1.3 71.1 + - - +
168Q GLY 5.0 0.2 + - - -
223Q GLU* 4.4 4.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 166 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162Q VAL* 2.9 20.4 + - - +
165Q ASP* 1.3 91.2 - - - +
167Q PHE* 1.3 73.6 + - + +
251Q LYS* 2.6 31.5 + - - -
262Q ALA* 3.4 22.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 167 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162Q VAL* 4.5 2.9 - - + -
163Q LEU* 3.0 34.3 + - + +
166Q ASP* 1.3 93.0 - - + +
168Q GLY* 1.3 63.5 + - - +
249Q LEU* 3.7 21.8 - - + -
250Q GLU* 3.3 2.1 + - - +
251Q LYS* 3.0 58.6 + - + +
254Q VAL* 4.0 27.8 - - + -
258Q GLN* 3.7 33.0 - - + -
259Q VAL* 3.9 17.5 - - + -
262Q ALA* 4.0 13.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 168 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163Q LEU 3.3 2.3 + - - -
164Q ASN* 2.9 19.9 + - - -
165Q ASP 5.0 0.2 + - - -
167Q PHE* 1.3 75.4 - - - +
169Q LEU* 1.3 63.9 + - - -
249Q LEU* 3.1 6.7 - - - -
250Q GLU* 2.8 39.6 + - - -
----------------------------------------------------------
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