Contacts of the strand formed by residues 192 - 199 (chain C) in PDB entry 1FTA
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
----------------------------------------------------------
39A THR* 2.9 32.0 + - + +
42A LYS* 3.0 26.7 + - - -
12C THR* 3.2 40.1 + - + -
13C LEU* 5.8 0.2 - - - +
14C THR* 3.7 17.3 + - - -
42C LYS* 5.2 0.7 - - - -
185C MET 3.5 0.2 - - - +
186C LEU* 3.4 6.4 - - - +
187C ASP* 2.8 29.4 + - - +
190C ILE* 3.7 23.1 - - + +
191C GLY* 1.3 76.5 - - - +
193C PHE* 1.3 62.2 + - - +
194C ILE* 3.7 9.2 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 193 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12C THR* 3.2 4.9 - - - -
13C LEU* 2.8 44.8 + - + +
38C CYS* 3.8 33.0 - - - -
41C VAL* 3.6 25.6 - - + -
42C LYS* 3.7 29.4 - - + -
171C THR* 4.4 11.2 - - + -
172C MET 4.7 0.2 - - - -
173C LEU* 4.0 26.9 - - + -
184C PHE* 3.8 15.4 - - + -
185C MET 3.2 4.7 - - - -
186C LEU* 3.8 30.5 - - + -
192C GLU* 1.3 75.2 + - - +
194C ILE* 1.3 59.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 194 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10C VAL* 4.2 13.2 - - + -
11C VAL 3.6 9.0 - - - +
12C THR* 4.3 10.3 - - + -
184C PHE* 3.1 3.1 - - - -
185C MET 2.8 34.5 + - - +
187C ASP* 4.4 2.7 - - + -
190C ILE* 4.6 2.5 - - + -
192C GLU* 4.0 29.6 - - + +
193C PHE* 1.3 71.8 - - - +
195C LEU* 1.3 63.1 + - - +
196C VAL* 3.5 1.9 + - + +
53D ILE* 4.0 22.9 - - + -
54D ALA* 3.9 27.1 - - + +
57D TYR* 3.8 38.4 - - + -
59D ILE* 5.3 1.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 195 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11C VAL* 2.9 45.1 + - + +
16C PHE* 4.5 14.8 - - + -
182C ASN* 4.1 7.6 - - + -
183C CYS 3.6 6.7 - - - +
184C PHE* 3.6 32.0 - - + -
194C ILE* 1.3 71.4 - - - +
196C VAL* 1.3 59.4 + - - +
197C ASP 3.1 31.2 - - - +
198C LYS* 4.3 24.5 - - + +
57D TYR* 3.9 13.2 - - - -
----------------------------------------------------------
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
----------------------------------------------------------
172C MET* 3.6 31.2 - - + -
183C CYS* 3.1 8.5 + - + +
185C MET* 3.8 28.0 - - + +
194C ILE* 3.5 6.9 + - + +
195C LEU* 1.3 77.1 - - - +
197C ASP* 1.3 68.8 + - + +
53D ILE* 4.8 1.3 - - + -
57D TYR* 3.6 45.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 197 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182C ASN* 3.5 0.9 - - - -
183C CYS* 2.9 41.5 + - + -
195C LEU* 3.1 10.1 - - - +
196C VAL* 1.3 82.0 - - + +
198C LYS* 1.3 67.8 + - - +
200C VAL* 3.9 23.1 - - + +
----------------------------------------------------------
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
----------------------------------------------------------
11C VAL* 6.3 1.0 - - - +
16C PHE* 5.9 4.9 - - - -
182C ASN* 3.5 20.2 - - - +
195C LEU* 4.3 19.2 - - + +
197C ASP* 1.3 82.3 + - - +
199C ASP* 1.3 83.3 + - - +
200C VAL 3.4 1.8 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 199 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179C CYS* 4.4 16.2 - - - +
180C GLY* 4.9 2.7 - - - -
181C VAL 3.1 16.3 + - - +
182C ASN* 3.6 11.8 + - - +
198C LYS* 1.3 87.0 - - - +
200C VAL* 1.3 68.4 + - - +
201C LYS* 3.5 21.5 + - - +
----------------------------------------------------------
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