Contacts of the helix formed by residues 192 - 206 (chain C) in PDB entry 6TXA
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 192 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190C GLN 3.5 4.2 + - - -
191C ILE* 1.3 74.5 - - - +
193C GLU* 1.3 59.0 + - - +
194C ARG* 3.0 14.0 - - - +
195C ASP* 2.9 48.5 + - - +
196C VAL* 3.1 15.4 + - - +
294C LYS* 4.6 2.7 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 193 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191C ILE 4.3 0.2 + - - -
192C SER* 1.3 72.1 - - - +
194C ARG* 1.3 60.3 + - - +
196C VAL* 3.9 11.7 - - + +
197C LEU* 3.2 28.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 194 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192C SER* 3.5 12.3 - - - +
193C GLU* 1.3 76.7 - - - +
195C ASP* 1.3 65.9 + - - +
197C LEU* 3.4 2.4 + - - +
198C CYS* 3.1 28.8 + - - -
257C TYR 5.7 1.3 - - - -
258C GLY 3.4 26.9 - - - +
259C LEU* 4.1 13.7 - - + -
260C ILE* 3.4 25.4 - - - +
263C GLU* 2.9 28.9 + - - +
264C ASP* 3.0 41.3 + - - +
290C ARG* 3.9 15.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 195 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179C VAL* 5.3 0.2 - - - -
191C ILE* 3.8 9.1 - - + -
192C SER* 2.9 35.5 + - - +
194C ARG* 1.3 74.1 - - - +
196C VAL* 1.3 62.6 + - - +
198C CYS* 3.3 3.8 + - - +
199C VAL* 3.0 28.1 + - - +
267C PHE* 4.4 1.0 - - - -
290C ARG* 2.8 38.8 + - - +
294C LYS* 2.8 31.9 + - - +
297C LEU* 3.9 21.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 196 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176C GLY* 5.0 3.8 - - - +
179C VAL* 3.9 29.3 - - + +
180C HIS* 5.0 20.2 - - + +
191C ILE* 4.0 15.0 - - + +
192C SER 3.1 13.9 + - - +
193C GLU* 3.9 11.7 - - + +
194C ARG 3.2 0.2 - - - -
195C ASP* 1.3 76.4 - - - +
197C LEU* 1.3 63.2 + - + +
199C VAL* 3.3 3.5 + - - +
200C GLN* 3.0 40.9 + - - +
----------------------------------------------------------
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
----------------------------------------------------------
129C HIS* 3.7 55.6 - - + +
131C LEU* 4.1 13.2 - - + -
132C LEU* 4.4 13.2 - - + -
193C GLU 3.2 18.3 + - - +
194C ARG 3.8 4.0 - - - +
195C ASP 3.4 0.2 - - - -
196C VAL* 1.3 79.0 - - + +
198C CYS* 1.3 56.3 - - - +
200C GLN* 3.3 14.8 + - - +
201C ILE* 2.9 37.0 + - + +
257C TYR* 4.3 9.2 - - + +
259C LEU* 3.8 25.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 198 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194C ARG 3.1 20.9 + - - +
195C ASP 3.6 1.1 - - - +
197C LEU* 1.3 76.6 - - - +
199C VAL* 1.3 58.3 + - - +
201C ILE* 3.4 1.6 + - - -
202C ALA* 3.0 23.0 + - - +
259C LEU* 3.8 14.8 - - - -
264C ASP* 3.6 40.2 - - - -
267C PHE* 3.5 25.6 - - + -
268C ILE* 3.6 18.0 - - + +
271C GLN* 3.3 8.7 - - - +
290C ARG* 3.9 5.4 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 199 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175C ALA* 3.7 34.7 - - + +
179C VAL* 4.2 8.1 - - + -
195C ASP 3.0 20.0 + - - +
196C VAL 3.7 4.3 - - - +
198C CYS* 1.3 74.3 - - - +
200C GLN* 1.3 57.9 + - - +
202C ALA* 3.3 3.3 + - - +
203C GLY 3.0 24.6 + - - -
267C PHE* 4.4 6.1 - - + -
271C GLN* 3.2 26.7 - - - +
297C LEU* 4.2 24.9 - - + -
300C ILE* 3.9 20.0 - - + -
301C VAL* 3.8 1.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 200 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127C GLU 4.8 9.3 + - - -
129C HIS* 5.2 4.1 - - - +
132C LEU* 3.7 30.6 - - + +
172C GLY* 3.7 26.6 + - - +
173C TYR* 5.5 2.8 - - - +
175C ALA* 4.5 1.1 - - - -
176C GLY* 3.8 21.5 - - - -
196C VAL* 3.0 30.9 + - - +
197C LEU* 3.6 19.9 - - - +
199C VAL* 1.3 73.4 - - - +
201C ILE* 1.3 59.5 + - - +
203C GLY* 3.3 1.0 + - - -
204C LEU* 2.8 31.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 201 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131C LEU* 3.7 29.6 - - + -
132C LEU* 3.4 22.9 - - + -
135C ILE* 3.9 19.3 - - + -
197C LEU* 2.9 23.2 + - + +
198C CYS 3.7 4.5 - - - +
200C GLN* 1.3 75.1 - - - +
202C ALA* 1.3 58.6 + - - +
204C LEU* 3.3 3.2 + - - +
205C CYS* 2.9 31.3 + - - +
241C PHE* 3.8 22.7 - - + -
254C MET* 5.1 3.8 - - + -
259C LEU* 4.1 15.9 - - + -
268C ILE* 3.7 22.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 202 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198C CYS 3.0 6.6 + - - +
199C VAL 3.5 5.6 - - - +
201C ILE* 1.3 76.1 - - - +
203C GLY* 1.3 63.4 + - - +
205C CYS 3.1 2.4 + - - -
206C HIS* 2.9 27.4 + - - +
268C ILE* 4.0 18.3 - - + +
271C GLN* 3.1 45.8 - - + +
272C ILE* 4.1 5.9 - - + +
301C VAL* 4.1 7.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 203 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168C SER 3.7 0.9 - - - +
171C VAL* 3.4 24.4 - - - +
172C GLY* 3.6 11.9 - - - -
175C ALA* 4.5 0.2 - - - -
199C VAL 3.0 13.9 + - - -
200C GLN 3.7 3.1 - - - -
202C ALA* 1.3 75.3 - - - +
204C LEU* 1.3 57.1 + - - +
206C HIS* 2.8 27.9 + - - -
301C VAL* 3.7 13.8 - - - +
----------------------------------------------------------
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
----------------------------------------------------------
128C LEU* 5.3 4.3 - - + -
132C LEU* 3.9 41.3 - - + +
135C ILE* 4.6 10.5 - - + -
136C ILE* 3.9 15.5 - - + -
141C PHE* 3.2 42.0 - - + -
168C SER* 3.3 36.0 + - - +
169C LEU* 3.9 24.7 - - + +
172C GLY* 3.6 5.5 - - - -
200C GLN 2.8 16.2 + - - +
201C ILE* 3.5 6.3 - - - +
203C GLY* 1.3 75.5 - - - +
205C CYS* 1.3 58.5 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 205 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135C ILE* 3.8 29.2 - - - -
141C PHE* 4.8 2.2 - - - -
201C ILE* 2.9 20.6 + - - +
202C ALA 3.5 2.2 - - - +
204C LEU* 1.3 81.6 - - - +
206C HIS* 1.3 63.0 + - - +
207C ASP 3.3 2.5 - - - -
208C LEU* 3.2 46.7 + - + +
237C SER* 3.8 6.9 - - - +
241C PHE* 3.8 25.1 - - + -
272C ILE* 3.9 9.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 206 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167C HIS* 3.4 20.4 - + - -
168C SER* 4.3 7.4 + - - -
171C VAL* 3.5 21.1 - - + +
202C ALA 2.9 14.9 + - - +
203C GLY 2.8 17.8 + - - +
204C LEU 3.4 0.6 - - - -
205C CYS* 1.3 78.1 - - - +
207C ASP* 1.3 95.7 + - + +
208C LEU 3.5 0.2 - - - -
233C HIS* 4.4 3.6 + - - -
234C GLU* 4.9 1.9 - - - +
237C SER* 2.9 16.5 + - - -
272C ILE* 3.7 21.6 - - + +
301C VAL* 3.8 17.7 - - + -
302C SER* 6.4 1.6 - - - -
311C ASP* 2.5 37.3 + - + -
----------------------------------------------------------
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