Contacts of the helix formed by residues 182 - 196 (chain C) in PDB entry 3E7G
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 182 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150C TYR* 5.0 0.7 + - - -
165C ARG* 3.9 18.8 - - - +
181C LEU* 1.3 77.2 - - - +
183C GLY* 1.3 65.5 + - - +
184C ASP* 3.6 6.2 + - - +
185C GLU* 2.9 40.9 + - - +
186C LEU* 3.0 20.8 + - - +
215C ARG* 4.3 1.1 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 183 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182C THR* 1.3 73.8 - - - +
184C ASP* 1.3 61.5 + - - +
186C LEU* 3.4 5.5 + - - +
187C ILE* 3.2 29.4 + - - +
213C ASP* 4.8 4.3 - - - -
215C ARG* 4.1 15.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 184 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150C TYR* 3.5 21.9 - - + +
182C THR* 3.2 6.4 + - - +
183C GLY* 1.3 73.3 - - - +
185C GLU* 1.3 66.8 + - - +
187C ILE* 3.3 16.4 + - - +
188C PHE* 3.0 23.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 185 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146C PHE* 3.7 26.1 - - + -
147C VAL* 5.0 4.3 - - - +
150C TYR* 3.8 38.9 - - + -
151C TYR* 4.8 0.9 + - - -
165C ARG* 2.8 53.2 + - - +
179C TYR* 5.6 0.2 - - - -
181C LEU* 3.4 11.7 - - + +
182C THR* 2.9 33.2 + - - +
184C ASP* 1.3 75.9 - - - +
186C LEU* 1.3 58.1 + - - +
188C PHE* 3.4 1.2 + - - +
189C ALA* 2.9 30.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 186 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181C LEU* 4.2 22.1 - - + +
182C THR 3.0 11.5 + - - +
183C GLY* 3.5 9.6 - - - +
185C GLU* 1.3 78.1 - - - +
187C ILE* 1.3 56.2 + - - +
189C ALA* 3.3 4.9 + - + +
190C THR* 3.0 43.5 + - + +
211C VAL* 4.5 8.5 - - + -
213C ASP* 4.0 19.3 - - + +
215C ARG* 3.6 30.3 - - - +
246C VAL* 4.1 35.4 - - + -
357C LEU* 4.8 4.9 - - + -
364C PHE* 4.4 11.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 187 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183C GLY 3.2 18.0 + - - +
184C ASP* 3.3 18.6 + - - +
186C LEU* 1.3 75.1 - - + +
188C PHE* 1.3 65.8 + - - +
190C THR* 3.1 18.5 + - - -
191C LYS* 3.2 38.7 + - + +
209C LEU 5.5 0.7 - - - +
211C VAL* 4.0 29.2 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 188 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146C PHE* 3.9 18.2 - + - -
149C GLN* 3.9 36.3 - - + -
150C TYR* 3.7 30.5 - + + -
153C SER* 3.6 30.3 - - - -
184C ASP 3.0 17.0 + - - +
185C GLU 3.7 2.0 - - - +
187C ILE* 1.3 79.1 - - - +
189C ALA* 1.3 60.2 + - - +
191C LYS* 3.4 5.9 + - - +
192C GLN* 2.9 66.6 + - + +
206C TRP* 6.5 0.7 - + - -
487C PRO* 5.2 0.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 189 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146C PHE* 4.2 2.0 - - + -
181C LEU* 4.8 1.3 - - + -
185C GLU 2.9 19.4 + - - +
186C LEU* 3.6 9.0 - - + +
187C ILE 3.2 0.2 - - - -
188C PHE* 1.3 80.2 - - - +
190C THR* 1.3 61.0 - - + +
193C ALA* 2.9 31.5 + - - +
357C LEU* 4.9 5.6 - - + -
359C VAL* 3.7 37.7 - - + -
487C PRO* 3.7 11.2 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 190 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186C LEU* 3.0 17.1 + - + +
187C ILE 3.1 13.2 + - - -
189C ALA* 1.3 75.2 - - - +
191C LYS* 1.3 61.3 + - - +
193C ALA* 4.6 0.7 - - - -
194C TRP* 3.2 15.2 + - - +
209C LEU* 3.6 13.6 - - - +
211C VAL* 3.3 20.3 - - + +
244C ILE* 4.1 12.1 - - + -
246C VAL* 4.1 21.1 - - + -
357C LEU* 4.0 22.4 - - + -
489C TYR* 2.9 26.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 191 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187C ILE* 3.2 37.5 + - + +
188C PHE* 3.8 5.6 - - + +
190C THR* 1.3 76.1 + - - +
192C GLN* 1.3 60.5 + - + +
194C TRP* 3.2 6.5 + - - +
195C ARG* 2.9 27.4 + - - +
206C TRP* 3.6 38.8 - - + +
207C SER* 3.2 27.7 + - - +
209C LEU* 3.8 34.3 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 192 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149C GLN* 3.6 18.1 - - - +
188C PHE* 2.9 56.9 + - + +
189C ALA 3.9 1.6 - - - +
191C LYS* 1.3 73.5 - - + +
193C ALA* 1.3 61.0 + - - +
195C ARG* 2.9 36.6 + - - +
196C ASN* 2.8 38.3 + - - +
206C TRP* 4.0 8.1 - - - -
454C ARG* 3.8 21.0 - - - +
487C PRO* 3.9 18.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 193 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189C ALA 2.9 19.1 + - - +
190C THR 3.8 0.2 - - - +
192C GLN* 1.3 76.7 - - - +
194C TRP* 1.3 62.6 + - - +
196C ASN* 3.2 3.1 + - - +
197C ALA* 3.1 17.2 + - - +
357C LEU* 3.7 16.4 - - + -
487C PRO* 3.7 12.7 - - + +
488C PHE* 3.8 13.2 - - - +
489C TYR* 3.3 38.2 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 194 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190C THR 3.2 13.4 + - - +
191C LYS* 3.4 7.4 - - - +
192C GLN 3.1 0.6 - - - -
193C ALA* 1.3 76.9 - - - +
195C ARG* 1.3 65.3 + - - +
197C ALA* 3.0 14.1 + - - +
200C CYS* 3.4 14.8 - - - -
202C GLY 3.7 16.2 - - - -
203C ARG* 3.1 19.4 - - + +
205C GLN* 3.4 36.3 - - + -
206C TRP* 3.5 23.8 - - + -
208C ASN 3.8 13.0 - - - -
209C LEU* 4.0 13.9 - - + -
242C SER* 4.1 10.5 - - - -
489C TYR* 3.4 7.4 - - - -
2901C HEM 3.3 77.8 - + + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 195 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191C LYS 2.9 15.8 + - - +
192C GLN* 2.9 39.0 + - - +
194C TRP* 1.3 77.7 - - - +
196C ASN* 1.3 56.5 + - - +
203C ARG* 3.2 14.8 + - - +
206C TRP* 3.5 45.0 - - + +
446C TYR* 3.1 24.3 + - - +
450C GLU* 3.1 38.8 + - - +
453C SER* 3.3 22.6 + - - -
454C ARG* 3.5 32.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 196 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149C GLN* 5.2 0.6 - - - +
192C GLN* 2.8 23.9 + - - +
193C ALA 3.5 4.7 - - - +
194C TRP 3.1 0.6 - - - -
195C ARG* 1.3 76.5 - - - +
197C ALA* 1.3 56.9 + - - +
198C PRO* 3.1 16.5 - - - +
454C ARG* 2.8 39.1 + - - +
458C PRO* 3.9 13.3 - - - +
483C TYR 5.0 0.3 - - - +
485C LEU* 3.6 29.3 + - + +
486C SER 3.8 11.3 + - - -
487C PRO* 3.0 32.2 + - - +
488C PHE* 3.6 13.0 - - + -
----------------------------------------------------------
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