Contacts of the helix formed by residues 192 - 214 (chain C) in PDB entry 7A62
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 GLU 192 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187C ALA* 2.9 15.7 + - - +
190C MET* 3.7 41.3 - - + +
191C GLN* 1.3 76.3 - - - +
193C ARG* 1.3 66.3 + - - +
194C ASP 3.4 2.5 - - - -
195C THR* 3.4 25.0 + - + +
196C LEU* 3.1 22.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 193 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191C GLN 3.7 4.8 + - - -
192C GLU* 1.3 73.0 - - - +
194C ASP* 1.3 83.3 + - - +
196C LEU* 3.3 9.8 + - - +
197C LEU* 3.1 45.8 + - - +
319C PHE* 6.2 2.2 - - - -
325C ASP* 2.7 41.6 + - - +
327C GLY* 3.9 6.7 - - - +
328C LEU* 4.2 16.8 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 194 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192C GLU 3.4 0.4 - - - -
193C ARG* 1.3 105.1 + - - +
195C THR* 1.3 62.6 + - - +
197C LEU* 3.2 13.4 + - - +
198C LYS* 3.1 33.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 195 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183C THR* 3.8 24.4 - - + +
186C LYS* 4.2 11.9 - - - +
187C ALA* 3.9 10.5 - - + -
192C GLU* 3.4 29.1 + - + +
193C ARG 3.3 0.4 - - - -
194C ASP* 1.3 78.3 - - - +
196C LEU* 1.3 63.8 + - - +
198C LYS* 3.6 7.3 + - - +
199C ALA* 3.1 21.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 196 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184C VAL* 3.9 36.8 - - + +
187C ALA* 3.6 15.9 - - + +
188C MET* 4.3 7.6 - - + +
192C GLU 3.1 7.7 + - - +
193C ARG* 3.6 8.3 - - - +
195C THR* 1.3 79.9 - - - +
197C LEU* 1.3 62.7 + - - +
199C ALA* 3.3 3.0 + - - +
200C LEU* 3.1 34.1 + - + +
316C VAL* 5.3 2.7 - - + -
319C PHE* 3.9 34.3 - - + -
320C VAL* 4.9 6.7 - - + -
328C LEU* 4.0 23.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 197 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193C ARG* 3.1 43.7 + - - +
194C ASP* 3.2 8.3 + - - +
196C LEU* 1.3 80.0 - - - +
198C LYS* 1.3 68.5 + - + +
200C LEU* 3.4 3.5 + - - +
201C LEU* 3.1 44.3 + - + +
327C GLY* 3.3 38.6 - - - +
328C LEU* 3.8 13.0 - - + +
331C ALA* 3.8 7.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 198 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194C ASP* 3.1 28.2 + - - +
195C THR* 4.1 5.8 - - - +
197C LEU* 1.3 79.4 - - + +
199C ALA* 1.3 57.4 + - - +
201C LEU* 2.9 9.9 + - - +
202C GLU* 2.6 38.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 199 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180C VAL* 3.6 18.2 - - + +
183C THR* 4.2 15.5 - - + -
184C VAL* 3.9 21.5 - - + +
195C THR 3.1 17.2 + - - +
196C LEU* 3.5 7.6 - - - +
197C LEU 3.3 0.2 - - - -
198C LYS* 1.3 77.5 - - - +
200C LEU* 1.3 62.8 + - - +
202C GLU* 3.4 3.0 + - - +
203C ILE* 3.0 29.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 200 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184C VAL* 4.7 12.6 - - + -
196C LEU* 3.1 34.7 + - + +
197C LEU 3.7 5.6 - - - +
199C ALA* 1.3 75.5 - - - +
201C LEU* 1.3 64.5 + - - +
203C ILE* 3.2 6.6 + - + +
204C ALA* 2.9 20.1 + - - +
276C LEU* 5.6 2.9 - - + -
277C LEU* 4.8 7.2 - - + -
316C VAL* 4.5 18.4 - - + -
320C VAL* 4.5 10.5 - - + -
328C LEU* 4.3 10.5 - - + +
331C ALA* 3.8 18.8 - - + +
332C TYR* 4.0 25.1 - - + +
335C CYS* 3.2 24.1 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 201 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197C LEU* 3.1 38.2 + - + +
198C LYS* 2.9 10.0 + - - +
200C LEU* 1.3 75.7 - - - +
202C GLU* 1.3 64.2 + - - +
204C ALA* 3.3 5.2 + - + +
205C SER* 2.9 24.3 + - - -
330C GLU* 5.3 1.6 - - + -
331C ALA* 3.5 27.1 - - + +
334C ALA* 4.6 11.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 202 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176C SER* 4.9 1.6 - - - +
180C VAL* 3.9 23.7 - - + +
198C LYS 2.6 22.0 + - - +
199C ALA* 3.7 7.2 - - - +
201C LEU* 1.3 72.2 - - - +
203C ILE* 1.3 61.9 + - - +
205C SER* 3.2 10.2 + - - -
206C CYS* 3.0 42.6 + - - -
209C LYS* 5.0 6.2 + - - -
----------------------------------------------------------
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
----------------------------------------------------------
177C ALA* 3.6 28.2 - - + +
180C VAL* 3.7 21.3 - - + -
181C ILE* 4.6 2.9 - - + -
184C VAL* 4.0 19.3 - - + -
199C ALA 3.0 21.8 + - - +
200C LEU* 3.5 8.7 - - + +
202C GLU* 1.3 75.3 - - - +
204C ALA* 1.3 64.7 + - - +
206C CYS* 3.1 4.5 + - - +
207C LEU* 2.9 26.4 + - + +
273C PHE* 3.8 27.6 - - + -
276C LEU* 4.1 18.4 - - + -
335C CYS* 3.8 14.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 204 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200C LEU 2.9 13.2 + - - +
201C LEU* 3.7 5.6 - - + +
203C ILE* 1.3 77.4 - - - +
205C SER* 1.3 56.8 + - - +
207C LEU* 3.2 6.8 + - - +
208C GLU* 2.9 39.1 + - - +
334C ALA* 3.5 45.5 - - + +
335C CYS* 3.6 10.1 - - - +
338C ALA* 3.9 0.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 205 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201C LEU 2.9 17.2 + - - -
202C GLU* 3.5 13.5 + - - -
203C ILE 3.2 0.2 - - - -
204C ALA* 1.3 77.0 - - - +
206C CYS* 1.3 57.6 + - - +
208C GLU* 3.1 20.7 + - - +
209C LYS* 3.0 46.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 206 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173C ALA 4.6 4.4 - - - +
174C ALA* 6.1 0.2 - - - -
176C SER* 3.7 34.8 - - - +
177C ALA* 3.7 19.3 - - + +
202C GLU* 3.0 39.8 + - - +
203C ILE 3.6 5.8 - - - +
205C SER* 1.3 74.2 - - - +
207C LEU* 1.3 62.1 + - - +
209C LYS* 3.1 21.2 + - - +
210C ALA* 2.9 27.0 + - - +
----------------------------------------------------------
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
----------------------------------------------------------
174C ALA* 5.0 8.3 - - + -
177C ALA* 4.3 8.1 - - + -
203C ILE* 2.9 22.1 + - + +
204C ALA* 3.2 4.2 + - - +
206C CYS* 1.3 75.4 - - - +
208C GLU* 1.3 63.3 + - - +
210C ALA* 3.3 10.6 + - + +
211C LEU* 3.1 21.3 + - - +
269C VAL* 5.2 2.7 - - + -
273C PHE* 4.0 49.8 - - + -
277C LEU* 6.1 0.4 - - + -
335C CYS* 4.5 12.1 - - + +
338C ALA* 3.6 25.1 - - + +
339C LEU* 4.6 9.4 - - + +
342C LEU* 4.0 24.2 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 208 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204C ALA* 2.9 33.3 + - - +
205C SER* 3.1 17.9 + - - +
207C LEU* 1.3 75.1 - - - +
209C LYS* 1.3 64.3 + - + +
211C LEU* 3.3 20.9 + - + +
212C GLN* 3.4 17.9 + - - +
334C ALA* 4.4 9.9 - - - +
338C ALA* 4.2 12.2 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 209 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173C ALA* 4.8 4.3 - - + -
176C SER* 5.8 1.1 - - - +
202C GLU* 5.0 4.4 + - - -
205C SER* 3.0 33.7 + - - +
206C CYS* 3.1 22.6 + - + +
208C GLU* 1.3 74.6 - - + +
210C ALA* 1.3 64.4 + - - +
212C GLN* 3.0 19.2 + - - +
213C VAL* 3.1 17.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 210 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170C VAL* 4.0 15.9 - - + +
173C ALA* 3.8 26.1 - - + +
174C ALA* 4.5 6.7 - - + +
206C CYS 2.9 13.1 + - - +
207C LEU* 3.3 18.6 + - + +
209C LYS* 1.3 76.3 - - - +
211C LEU* 1.3 60.5 + - - +
213C VAL* 3.5 3.6 + - - +
214C PHE* 3.2 20.1 + - - +
342C LEU* 4.1 11.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 211 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207C LEU 3.1 12.7 + - - +
208C GLU* 3.5 15.0 - - + +
209C LYS 3.1 0.2 - - - -
210C ALA* 1.3 78.3 - - - +
212C GLN* 1.3 73.8 + - - +
214C PHE* 3.2 12.8 - - + +
215C HIS* 3.0 20.1 + - + -
338C ALA* 5.4 0.7 - - - +
341C SER* 3.7 33.0 - - - +
342C LEU* 3.6 20.4 - - + +
345C TYR* 3.6 37.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 212 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208C GLU 3.4 12.1 + - - +
209C LYS* 3.0 11.0 + - - +
211C LEU* 1.3 91.4 - - - +
213C VAL* 1.3 66.1 + - + +
215C HIS* 3.0 40.4 + - - +
216C GLN* 4.3 1.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 213 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166C VAL* 4.4 3.9 - - + +
169C LEU* 3.7 31.4 - - + +
170C VAL* 3.6 18.4 - - + -
173C ALA* 4.2 14.6 - - + -
209C LYS* 3.1 14.8 + - + +
210C ALA* 3.7 9.2 - - - +
211C LEU 3.4 0.2 - - - -
212C GLN* 1.3 75.1 - - + +
214C PHE* 1.3 63.3 + - - +
215C HIS 2.9 1.6 + - - -
216C GLN* 3.0 31.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 214 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166C VAL* 4.5 3.5 - - + +
170C VAL* 3.9 14.4 - - + -
210C ALA 3.2 11.0 + - - +
211C LEU* 3.2 15.7 - - + +
212C GLN 3.1 0.2 - - - -
213C VAL* 1.3 76.9 - - - +
215C HIS* 1.3 60.4 + - - +
216C GLN 3.2 0.9 + - - -
217C ILE* 3.2 24.3 + - + +
270C PHE* 4.9 7.6 - + - -
342C LEU* 4.3 21.3 - - + -
345C TYR* 3.9 20.4 - + + -
346C HIS* 3.9 34.8 - + + -
349C ILE* 4.4 13.0 - - + -
504C HEM 3.5 55.2 - + + -
----------------------------------------------------------
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