Contacts of the helix formed by residues 212 - 233 (chain I) in PDB entry 2QC8
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 ILE 212 (chain I).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114I ARG* 3.8 37.2 - - + +
117I CYS* 3.7 23.8 - - + +
118I LYS* 3.5 50.5 - - + +
121I MET* 3.6 12.2 - - + +
210I GLU 3.5 1.2 + - - +
211I GLY* 1.3 70.8 - - - -
213I SER* 1.3 69.3 + - - +
214I MET 3.1 2.1 + - - -
215I GLY* 3.2 11.1 + - - -
216I ASP* 3.3 11.3 + - - +
349I PHE* 3.9 12.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 213 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209I CYS* 3.4 15.2 - - - +
210I GLU* 2.8 21.5 + - - +
211I GLY 3.1 1.8 + - - -
212I ILE* 1.3 81.7 - - - +
214I MET* 1.3 59.9 + - - +
216I ASP* 3.9 11.2 - - - -
217I HIS* 2.9 45.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 214 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131I PHE* 3.4 53.4 - - + +
133I MET* 3.6 38.8 - - + -
206I ILE* 3.6 38.8 - - + +
209I CYS* 3.5 11.3 - - + +
211I GLY 3.1 14.2 + - - +
212I ILE 3.1 0.6 - - - -
213I SER* 1.3 80.3 + - - +
215I GLY* 1.3 58.8 + - - +
217I HIS* 3.7 0.3 - - - -
218I LEU* 2.8 33.2 + - + +
352I THR* 3.9 8.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 215 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211I GLY 4.7 0.2 + - - -
212I ILE 3.2 5.1 + - - -
214I MET* 1.3 78.1 - - - +
216I ASP* 1.3 62.2 + - - +
218I LEU* 3.9 0.2 - - - +
219I TRP* 2.9 31.4 + - - -
348I PRO* 3.8 23.3 - - - -
349I PHE* 3.5 26.2 - - - -
352I THR* 5.1 2.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 216 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82I ALA 4.8 0.2 - - - +
83I ALA* 3.4 28.9 - - + +
85I PHE* 4.9 0.7 - - - -
98I LEU* 3.5 12.7 - - - +
114I ARG* 2.8 46.5 + - - -
212I ILE* 3.3 12.1 + - - +
213I SER* 3.8 14.7 - - - +
214I MET 3.3 0.4 - - - -
215I GLY* 1.3 74.8 - - - +
217I HIS* 1.3 68.2 + - + +
220I VAL* 3.1 31.4 + - - +
349I PHE* 3.5 6.8 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 217 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83I ALA* 6.1 0.2 - - + -
85I PHE* 3.6 27.4 - + - -
187I GLY 3.4 24.7 - - - -
188I VAL* 3.6 6.9 - - + +
189I LYS* 3.0 33.3 + - + +
206I ILE* 3.9 16.6 - - + -
209I CYS* 4.1 6.1 - - - -
213I SER* 2.9 41.8 + - - +
214I MET 3.9 1.6 - - - +
216I ASP* 1.3 77.9 - - + +
218I LEU* 1.3 60.7 + - - +
220I VAL* 3.4 1.9 + - - +
221I ALA* 2.8 30.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 218 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133I MET* 3.9 23.1 - - + +
135I GLN* 3.9 21.3 - - + +
204I PHE* 4.2 22.4 - - + -
206I ILE* 4.3 11.1 - - + +
214I MET* 2.8 25.4 + - + +
215I GLY 3.9 2.5 - - - +
217I HIS* 1.3 77.3 - - - +
219I TRP* 1.3 57.1 + - - +
221I ALA* 3.2 5.2 + - - +
222I ARG* 2.8 52.4 + - + +
252I CYS* 4.4 2.7 - - - -
348I PRO* 3.6 29.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 219 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33I ILE* 3.4 27.4 - - + +
37I GLY 3.9 16.4 - - - -
38I GLU* 3.9 22.2 - - - -
40I LEU* 3.6 36.0 - - + +
98I LEU* 4.2 18.8 - - + -
215I GLY 2.9 25.8 + - - +
216I ASP 4.1 2.5 - - - +
218I LEU* 1.3 75.8 - - - +
220I VAL* 1.3 57.7 + - - +
222I ARG* 3.1 43.1 + - - +
223I PHE* 2.9 27.9 + - - +
238I PHE* 6.0 1.8 - + - -
345I ASN 6.0 0.9 - - - -
346I CYS 5.7 0.2 - - - -
347I ASP* 3.3 36.7 + - - -
348I PRO* 3.3 10.1 - - + +
349I PHE* 3.4 20.5 - + - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 220 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31I ILE* 5.5 5.8 - - + -
85I PHE* 3.4 38.6 - - + -
96I LEU* 4.4 14.4 - - + -
98I LEU* 3.9 27.6 - - + +
188I VAL* 4.1 5.8 - - + -
216I ASP 3.1 19.1 + - - +
217I HIS 4.0 2.0 - - - +
219I TRP* 1.3 73.9 - - - +
221I ALA* 1.3 66.1 + - - +
223I PHE* 3.2 8.1 + - + +
224I ILE* 2.8 48.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 221 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179I HIS* 2.9 28.2 + - - +
183I CYS* 4.5 3.4 - - - -
188I VAL* 4.0 10.1 - - + +
204I PHE* 3.7 26.7 - - + -
206I ILE* 3.8 15.7 - - + -
217I HIS 2.8 21.9 + - - +
218I LEU* 3.3 7.0 - - - +
220I VAL* 1.3 72.7 - - - +
222I ARG* 1.3 55.0 + - - +
224I ILE* 3.2 4.8 + - - +
225I LEU* 2.9 12.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 222 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40I LEU* 4.3 6.7 - - + -
135I GLN* 3.0 22.7 + - + +
204I PHE* 4.9 2.2 - - + -
218I LEU* 2.8 39.8 + - + +
219I TRP* 3.1 50.8 + - + +
221I ALA* 1.3 70.0 - - - +
223I PHE* 1.3 65.1 - - - +
225I LEU* 3.2 7.9 + - - +
226I HIS* 3.0 29.8 + - + -
238I PHE* 3.5 34.7 - - + -
252I CYS* 4.8 0.2 - - - -
344I ALA 3.2 23.2 + - - -
345I ASN 4.9 2.7 - - - -
346I CYS* 2.7 40.2 + - - +
348I PRO* 3.7 0.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 223 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29I MET* 3.7 28.0 - - - -
31I ILE* 3.9 40.6 - - + -
40I LEU* 3.6 18.3 - - + +
41I ARG 5.0 0.9 - - - -
42I CYS* 3.9 20.4 - - + -
89I PHE* 4.6 2.0 - + - -
96I LEU* 4.3 17.0 - - + -
219I TRP 2.9 13.6 + - - +
220I VAL* 3.2 11.0 + - + +
222I ARG* 1.3 76.5 - - - +
224I ILE* 1.3 68.1 + - + +
225I LEU 3.2 0.3 + - - -
226I HIS* 3.2 3.8 + - - +
227I ARG* 2.9 44.6 + - + +
165J VAL* 3.9 30.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 224 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88I PRO* 4.5 1.8 - - + -
89I PHE* 3.9 15.9 - - + -
96I LEU* 4.0 20.2 - - + -
179I HIS* 3.5 18.6 - - + +
182I ALA* 3.6 26.2 - - + +
183I CYS* 4.1 9.4 - - - -
186I ALA* 3.7 30.5 - - + -
188I VAL* 4.0 15.0 - - + -
220I VAL* 2.8 27.1 + - + +
221I ALA* 3.6 4.7 - - - +
223I PHE* 1.3 76.4 - - + +
225I LEU* 1.3 52.2 + - - +
227I ARG* 3.3 2.1 + - - +
228I VAL* 2.8 34.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 225 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137I TYR* 3.8 42.8 - - + +
175I ILE* 4.1 9.6 - - + -
179I HIS* 3.3 33.8 - - + +
204I PHE* 4.2 7.2 - - + -
221I ALA 2.9 8.6 + - - +
222I ARG* 3.4 9.2 - - - +
223I PHE 3.1 0.2 - - - -
224I ILE* 1.3 76.3 - - - +
226I HIS* 1.3 56.8 + - - +
228I VAL* 3.2 1.7 + - + +
229I CYS* 2.8 42.4 + - - -
236I ALA* 3.6 27.6 - - + -
238I PHE* 3.8 20.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 226 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38I GLU 5.8 2.2 + - - -
40I LEU* 4.5 14.8 - - + +
222I ARG 3.0 28.5 + - - -
223I PHE 3.9 4.0 - - - +
225I LEU* 1.3 74.6 - - - +
227I ARG* 1.3 56.9 + - - +
229I CYS* 3.5 6.3 + - - +
230I GLU* 3.0 27.7 + - - +
235I ILE* 5.8 0.8 - - - +
236I ALA* 3.3 40.1 + - + +
238I PHE* 3.4 28.2 - + - -
165J VAL* 4.2 29.1 + - + +
166J GLY* 4.3 6.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 227 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14I LYS* 4.3 13.7 - - - +
29I MET* 5.3 6.4 - - - +
89I PHE* 3.1 60.9 - - + +
223I PHE* 2.9 26.6 + - + +
224I ILE 3.4 2.2 - - - +
226I HIS* 1.3 73.8 - - - +
228I VAL* 1.3 67.5 + - - +
230I GLU* 3.2 16.4 + - - +
231I ASP* 2.9 29.4 + - - +
165J VAL* 3.7 23.6 - - + +
173J ARG* 3.6 36.3 - - - +
177J GLU* 4.8 8.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 228 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17H TYR* 3.7 31.9 - - + +
89I PHE* 4.0 5.6 - - + -
175I ILE* 3.9 18.6 - - + +
178I ALA* 3.9 12.1 - - + -
179I HIS* 4.0 21.3 - - + +
182I ALA* 4.4 0.9 - - + -
224I ILE* 2.8 28.7 + - + +
225I LEU* 3.7 5.2 - - - +
227I ARG* 1.3 70.0 - - - +
229I CYS* 1.3 67.2 + - - +
231I ASP* 2.9 21.1 + - - +
232I PHE* 3.4 28.2 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 229 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139I LEU* 3.8 28.7 - - - -
175I ILE* 4.0 15.3 - - - -
225I LEU* 2.8 26.0 + - - +
226I HIS* 3.6 7.4 - - - +
228I VAL* 1.3 79.5 - - - +
230I GLU* 1.3 61.8 + - - +
232I PHE* 3.0 3.8 + - - +
233I GLY 3.0 18.0 + - - -
234I VAL* 3.1 33.8 + - + +
235I ILE* 4.6 0.2 - - - -
236I ALA* 3.9 23.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 230 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11I LYS* 4.5 3.3 + - - -
226I HIS 3.0 12.9 + - - +
227I ARG* 3.3 16.3 + - - +
229I CYS* 1.3 75.2 - - - +
231I ASP* 1.3 65.2 + - - +
233I GLY* 3.0 13.0 + - - +
234I VAL 4.0 0.9 + - - -
165J VAL* 3.2 5.0 - - - +
166J GLY 2.8 37.4 + - - +
167J ALA* 3.9 15.7 - - - +
170J ALA* 3.6 13.7 - - - +
173J ARG* 2.6 55.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 231 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13H ILE* 3.5 27.7 - - + +
17H TYR* 2.4 32.4 + - - +
11I LYS* 3.2 39.3 + - - +
14I LYS* 4.6 11.9 + - - -
89I PHE* 4.7 0.9 - - - -
227I ARG* 2.9 28.9 + - - -
228I VAL 2.9 9.0 + - - +
230I GLU* 1.3 80.3 - - - +
232I PHE* 1.3 59.9 + - - +
233I GLY 3.5 0.5 + - - -
174J ASP* 4.8 1.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 232 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10H ASN 3.3 42.5 + - - +
13H ILE* 3.5 29.6 - - + -
14H LYS* 3.9 13.2 - - - -
17H TYR* 4.4 0.9 - + - -
174I ASP* 3.7 30.1 - - + -
175I ILE* 3.8 34.1 - - + -
178I ALA* 4.0 8.1 - - + -
228I VAL* 3.4 30.7 - - + -
229I CYS 3.0 7.9 + - - +
231I ASP* 1.3 76.7 - - - +
233I GLY* 1.3 61.9 + - - +
234I VAL* 3.3 9.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 233 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142I THR* 4.5 17.0 + - - +
229I CYS 3.0 3.2 + - - -
230I GLU 3.0 12.2 + - - -
231I ASP 3.2 1.6 + - - -
232I PHE* 1.3 78.3 - - - +
234I VAL* 1.3 64.2 + - - +
167J ALA* 4.0 13.7 - - - +
----------------------------------------------------------
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