Contacts of the helix formed by residues 192 - 210 (chain C) in PDB entry 4CFE
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 GLY 192 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136C VAL* 3.5 26.2 - - - +
164C MET* 4.5 2.0 - - - -
170C LEU* 4.4 6.3 - - - -
190C TYR* 3.5 14.2 - - - -
191C ALA* 1.3 76.6 - - - +
193C PRO* 1.3 64.8 - - - +
194C GLU* 2.7 13.0 + - - -
195C VAL* 3.1 19.9 + - - +
196C ASP 3.5 0.7 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 193 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131C HIS* 3.5 33.5 - - + +
164C MET* 3.6 28.7 - - + -
191C ALA* 3.5 13.0 - - + +
192C GLY* 1.3 88.7 - - - +
194C GLU* 1.3 64.7 + - + +
196C ASP 3.1 11.6 + - - -
197C ILE* 3.1 18.9 + - + +
233D HIS* 4.3 9.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 194 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183C GLU* 4.2 3.0 - - - +
190C TYR* 4.0 8.0 - - - +
191C ALA* 3.4 15.3 + - + -
192C GLY 2.7 34.3 + - - -
193C PRO* 1.3 74.6 - - + +
195C VAL* 1.3 70.7 + - - +
197C ILE* 3.5 10.4 + - - +
198C TRP 3.3 12.3 + - - -
253C PRO* 4.0 21.7 - - + +
256C ARG* 2.8 36.2 + - + +
257C ALA 5.5 2.5 - - - +
209D HIS* 3.1 34.2 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 195 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138C ARG* 4.9 20.0 - - + +
180C ALA* 6.2 0.7 - - - -
181C ALA* 4.1 12.9 - - + +
183C GLU* 4.2 4.9 - - - +
184C VAL* 3.7 28.5 - - + -
190C TYR* 3.5 35.9 - - + -
192C GLY 3.1 9.3 + - - +
193C PRO 3.1 0.4 - - - -
194C GLU* 1.3 80.6 + - - +
196C ASP* 1.3 73.0 + - - +
198C TRP* 3.2 14.2 + - - +
199C SER* 3.3 16.4 + - - +
256C ARG* 4.1 4.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 196 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127C VAL* 4.1 11.4 - - + +
130C CYS* 5.8 0.3 - - - +
131C HIS* 2.9 35.4 + - + +
136C VAL* 3.2 17.5 - - - +
137C HIS* 2.7 44.7 + - - +
138C ARG* 3.9 5.0 - - - -
140C LEU* 3.9 8.3 - - + +
192C GLY 3.5 0.4 + - - -
193C PRO 3.1 3.8 + - - +
195C VAL* 1.3 75.8 - - - +
197C ILE* 1.3 66.2 + - - +
199C SER* 3.2 6.8 + - - +
200C CYS* 3.0 27.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 197 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124C LEU* 4.8 8.3 - - + -
127C VAL* 5.1 1.3 - - + -
131C HIS* 4.4 5.6 - - + +
193C PRO* 3.1 19.5 + - + +
194C GLU* 3.7 14.4 - - - +
196C ASP* 1.3 77.3 - - - +
198C TRP* 1.3 58.1 + - - +
200C CYS* 3.2 4.6 + - - -
201C GLY* 2.9 23.6 + - - -
248C MET* 3.4 34.8 - - + +
256C ARG* 4.7 2.2 - - + -
257C ALA 3.7 24.7 - - - +
258C THR* 5.0 2.2 - - - -
259C ILE* 3.6 37.7 - - + +
262C ILE* 4.0 10.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 198 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179C TYR* 3.7 20.6 - - - -
180C ALA 3.1 32.1 - - - -
181C ALA* 3.7 9.6 - - + -
182C PRO* 3.4 18.2 - - + +
194C GLU 3.3 1.8 + - - -
195C VAL 3.2 11.3 + - - +
197C ILE* 1.3 79.7 - - - +
199C SER* 1.3 59.7 + - - +
201C GLY 3.3 6.6 + - - +
202C VAL* 3.2 23.5 + - + +
214C PHE* 3.5 42.2 - + - -
226C ILE* 3.8 22.9 - - + -
229C GLY* 6.1 0.4 - - - -
248C MET 3.9 15.2 + - - -
249C LEU* 3.4 26.9 + - + +
250C GLN 4.1 1.4 + - - -
251C VAL* 5.0 0.4 - - - +
256C ARG* 3.5 39.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 199 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138C ARG 4.9 6.4 + - - -
140C LEU* 3.6 34.4 + - - +
179C TYR* 2.6 27.5 + - - -
195C VAL* 3.3 12.8 + - - +
196C ASP* 3.2 11.2 + - - -
198C TRP* 1.3 77.2 - - - +
200C CYS* 1.3 59.6 + - - +
202C VAL* 3.2 6.6 - - - +
203C ILE* 3.0 34.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 200 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120C PHE* 3.4 21.5 - - + -
123C ILE* 4.4 13.0 - - + -
124C LEU* 4.2 14.8 - - + -
127C VAL* 3.9 17.5 - - - -
140C LEU* 3.7 20.9 - - - -
196C ASP 3.0 19.3 + - - +
197C ILE* 3.2 10.5 + - - +
199C SER* 1.3 75.0 - - - +
201C GLY* 1.3 59.3 + - - +
203C ILE* 3.7 9.2 - - + +
204C LEU* 3.0 21.7 + - - +
248C MET* 3.6 12.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 201 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197C ILE 2.9 10.9 + - - -
198C TRP 3.3 4.6 + - - -
199C SER 3.2 0.6 - - - -
200C CYS* 1.3 77.6 - - - +
202C VAL* 1.3 55.7 + - - +
204C LEU* 3.4 2.0 + - - +
205C TYR* 3.0 21.7 + - - +
245C LEU* 3.4 14.9 - - - +
248C MET* 3.4 22.9 - - - +
249C LEU* 3.9 16.4 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 202 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178C ASN* 3.9 11.0 - - - +
179C TYR* 3.4 47.6 - - + -
198C TRP* 3.2 23.0 + - + +
199C SER 3.2 18.6 - - - +
201C GLY* 1.3 69.8 - - - +
203C ILE* 1.3 53.0 + - - +
205C TYR* 3.0 7.1 + - - +
206C ALA* 2.6 34.7 + - - +
212C LEU* 4.6 2.5 - - + -
213C PRO* 3.5 32.5 - - + -
249C LEU* 3.7 6.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 203 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101C LEU* 5.1 7.4 - - + -
105C ILE* 5.1 0.9 - - - +
120C PHE* 5.3 5.4 - - + -
123C ILE* 4.2 27.1 - - + -
140C LEU* 4.0 13.0 - - + -
141C LYS* 3.7 32.1 - - - +
142C PRO* 3.8 23.5 - - + +
145C VAL* 4.6 10.5 - - + -
179C TYR* 4.4 4.3 - - + -
199C SER 3.0 27.0 + - - +
200C CYS* 3.7 10.3 - - - +
201C GLY 3.3 0.2 - - - -
202C VAL* 1.3 77.1 - - - +
204C LEU* 1.3 54.6 + - - +
206C ALA* 3.3 7.8 + - - +
207C LEU* 2.8 37.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 204 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116C ALA 4.8 1.1 - - - +
120C PHE* 3.7 38.8 - - + -
200C CYS 3.0 18.1 + - - +
201C GLY* 3.6 5.2 - - - +
202C VAL 3.2 0.2 - - - -
203C ILE* 1.3 74.2 - - - +
205C TYR* 1.3 61.0 + - - +
207C LEU* 3.1 13.2 + - + +
208C LEU* 2.8 42.0 + - + +
241C VAL* 4.7 4.5 - - + -
244C LEU* 4.5 11.7 - - + -
245C LEU* 3.7 22.2 - - + -
248C MET* 4.7 3.6 - - - -
267C TRP* 3.8 35.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 205 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201C GLY 3.0 13.2 + - - +
202C VAL* 3.0 13.3 + - - +
204C LEU* 1.3 76.7 - - - +
206C ALA* 1.3 54.1 + - - +
208C LEU* 4.9 0.9 - - - -
209C CYS* 2.7 64.3 + - + +
211C THR* 3.3 24.1 + - - -
212C LEU 3.8 3.9 + - - -
213C PRO* 3.4 37.4 - - + +
231C PHE* 3.7 19.5 - + - -
232C TYR* 2.4 38.1 + - - +
233C ILE* 5.0 1.3 - - - -
234C PRO* 4.0 8.3 - - + +
245C LEU* 4.0 27.5 - - + +
249C LEU* 5.1 1.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 206 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105C ILE* 3.4 20.9 - - + +
142C PRO* 4.7 9.2 - - + -
179C TYR* 4.8 0.9 - - + +
202C VAL 2.6 19.7 + - - +
203C ILE* 3.7 9.0 - - - +
205C TYR* 1.3 73.9 - - - +
207C LEU* 1.3 57.3 + - - +
210C GLY* 3.1 25.1 + - - -
211C THR 3.3 18.8 - - - +
212C LEU* 4.0 18.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 207 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101C LEU* 4.1 24.5 - - + -
105C ILE* 3.7 21.7 - - + +
110C ARG* 4.1 1.4 - - - +
111C VAL* 3.2 49.1 + - + +
116C ALA* 3.3 39.7 - - + +
119C LEU* 4.2 15.9 - - + -
120C PHE* 4.5 6.5 - - + +
123C ILE* 5.7 1.1 - - + -
203C ILE* 2.8 22.1 + - + +
204C LEU* 3.3 16.8 - - + +
206C ALA* 1.3 79.9 - - - +
208C LEU* 1.3 58.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 208 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110C ARG* 3.4 23.6 - - - +
111C VAL 4.0 9.7 + - - +
113C GLU* 4.2 17.9 - - + -
116C ALA* 3.8 24.5 - - + -
204C LEU* 2.8 35.0 + - + +
205C TYR* 4.1 2.0 - - - +
207C LEU* 1.3 78.4 - - - +
209C CYS* 1.3 61.0 + - - +
210C GLY 3.6 0.2 - - - -
236C TYR* 4.1 7.1 - - - -
237C LEU* 4.2 28.2 - - + +
241C VAL* 3.6 32.1 - - + -
245C LEU* 4.9 3.8 - - + -
267C TRP* 4.5 3.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 209 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110C ARG* 3.2 24.0 + - - +
205C TYR* 2.7 61.8 + - + +
208C LEU* 1.3 76.7 - - - +
210C GLY* 1.3 56.8 + - - +
211C THR* 3.2 14.1 + - - +
234C PRO* 3.8 25.4 - - + -
236C TYR* 3.6 12.8 + - - +
237C LEU* 4.0 16.8 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 210 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105C ILE* 4.0 17.4 - - - +
109C GLY 4.1 13.8 - - - +
110C ARG* 4.0 2.4 - - - +
206C ALA* 3.1 21.6 + - - -
208C LEU 3.6 1.0 - - - -
209C CYS* 1.3 76.8 - - - +
211C THR* 1.3 64.8 + - - +
212C LEU* 5.7 0.2 - - - +
----------------------------------------------------------
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