Contacts of the helix formed by residues 164 - 187 (chain C) in PDB entry 1SL0
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 ASN 164 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139C TYR* 3.4 16.4 + - - -
159C GLU 5.1 0.6 + - - -
162C ASN 3.4 18.6 + - - -
163C PHE* 1.3 98.3 - - - +
165C GLU* 1.3 58.7 + - - +
166C GLU* 3.0 13.3 + - - +
167C MET* 2.9 22.9 + - - +
168C MET 2.9 21.7 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 165 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C ARG* 6.1 2.0 - - - +
163C PHE* 4.8 0.9 - - - -
164C ASN* 1.3 72.1 - - - +
166C GLU* 1.3 69.1 + - - +
168C MET* 2.7 11.0 + - - +
169C ASP* 2.7 27.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 166 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139C TYR* 4.1 13.2 - - + -
142C ASP* 3.9 22.0 - - - +
143C PHE* 5.7 3.6 - - + -
164C ASN* 3.0 10.8 + - - +
165C GLU* 1.3 75.1 - - - +
167C MET* 1.3 58.4 + - - +
169C ASP* 2.8 25.0 + - - +
170C TYR* 2.9 18.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 167 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7C GLU* 4.1 23.2 - - + +
19C HIS* 3.3 50.3 - - + +
20C CYS* 4.4 1.8 - - - -
139C TYR* 3.3 40.8 - - + +
159C GLU 3.6 12.6 - - - +
160C TRP* 3.7 16.6 - - + -
162C ASN 3.9 11.7 - - - +
163C PHE* 3.8 10.8 - - - -
164C ASN* 2.9 15.0 + - - +
166C GLU* 1.3 77.7 - - - +
168C MET* 1.3 56.5 + - - +
170C TYR* 3.9 2.4 - - - +
171C ASN* 2.9 28.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 168 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20C CYS* 3.6 24.7 - - + -
21C GLY 4.6 0.2 - - - +
22C VAL* 3.8 7.2 - - + -
33C SER* 3.1 30.3 - - - +
34C TYR 4.1 1.1 - - - +
35C ARG* 3.6 38.8 - - - +
163C PHE* 3.6 5.8 - - + -
164C ASN 2.9 14.3 + - - +
165C GLU* 2.7 19.4 + - - +
167C MET* 1.3 73.1 - - - +
169C ASP* 1.3 60.4 + - - +
171C ASN* 3.2 32.6 - - + +
172C VAL* 3.4 8.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 169 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165C GLU* 2.7 12.8 + - - +
166C GLU* 2.8 13.4 + - - +
168C MET* 1.3 77.6 - - - +
170C TYR* 1.3 66.8 + - + +
171C ASN 2.8 6.4 + - - -
172C VAL* 2.9 32.6 - - - +
173C GLN* 3.0 4.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 170 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7C GLU* 4.6 7.6 - - - +
135C MET* 3.4 36.9 - - + +
138C GLU* 2.5 35.9 + - + +
139C TYR* 3.2 48.7 - + + -
142C ASP* 3.9 21.6 + - - +
166C GLU* 2.9 22.8 + - + +
167C MET* 4.0 4.3 - - - +
169C ASP* 1.3 74.4 - - + +
171C ASN* 1.3 64.2 + - - +
173C GLN* 3.8 7.6 - - + -
174C ASP* 3.1 26.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 171 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5C ASP* 2.4 40.5 + - - +
6C ILE 4.3 0.2 - - - +
7C GLU* 3.8 15.3 + - + +
20C CYS* 3.3 15.3 - - - -
21C GLY* 3.4 5.2 + - - -
22C VAL* 3.0 33.4 + - + +
167C MET 2.9 19.3 + - - +
168C MET* 3.2 21.2 - - + +
169C ASP 2.8 1.2 + - - -
170C TYR* 1.3 74.0 - - - +
172C VAL* 1.3 55.2 + - - +
174C ASP* 2.6 34.2 + - - +
175C VAL 3.5 2.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 172 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22C VAL* 3.0 29.9 - - + +
31C TYR* 4.5 24.2 - - + +
33C SER* 5.9 4.9 - - - -
168C MET* 3.4 6.0 + - + +
169C ASP* 2.9 29.0 + - + +
171C ASN* 1.3 78.4 - - - +
173C GLN* 1.3 64.4 + - + +
174C ASP 3.5 0.2 + - - -
175C VAL* 3.5 5.2 + - - +
176C VAL* 3.5 22.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 173 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135C MET* 4.3 10.8 - - + -
169C ASP 3.0 7.2 + - - +
170C TYR* 3.8 13.2 - - - +
171C ASN 2.9 0.2 + - - -
172C VAL* 1.3 82.0 - - + +
174C ASP* 1.3 65.6 + - - +
176C VAL* 2.7 32.1 - - + +
177C VAL* 3.1 9.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 174 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5C ASP* 3.7 27.7 - - - +
7C GLU* 4.1 13.3 - - - +
132C LEU* 3.6 23.9 - - - +
135C MET* 3.2 24.9 - - - +
170C TYR* 3.1 17.9 + - - +
171C ASN* 2.6 19.1 + - - +
173C GLN* 1.3 72.4 - - - +
175C VAL* 1.3 55.4 + - - +
177C VAL* 3.2 4.1 + - - +
178C THR* 2.8 31.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 175 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3C VAL* 2.8 38.8 - - + +
4C SER* 3.8 2.0 - - - +
5C ASP* 3.6 29.6 - - + +
22C VAL* 3.9 24.7 - - + +
24C TYR* 3.8 22.2 - - + +
31C TYR* 4.7 4.5 - - + -
171C ASN 3.5 2.4 + - - +
172C VAL 3.5 6.9 + - - +
173C GLN 3.3 0.6 - - - -
174C ASP* 1.3 79.1 - - - +
176C VAL* 1.3 53.9 + - - +
178C THR* 3.0 6.4 + - - -
179C LYS* 2.6 34.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 176 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31C TYR* 3.7 37.2 - - + +
172C VAL* 3.5 12.9 + - + +
173C GLN* 2.7 33.4 + - + +
175C VAL* 1.3 77.1 - - - +
177C VAL* 1.3 63.6 + - + +
178C THR 3.1 0.2 + - - -
179C LYS* 3.1 5.6 + - - +
180C ALA* 2.6 37.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 177 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128C TRP* 3.8 29.3 - - + -
131C ARG* 4.1 8.5 - - + +
132C LEU* 3.8 26.0 - - + -
135C MET* 4.4 15.7 - - - -
173C GLN* 3.1 17.6 + - + +
174C ASP 3.6 4.7 - - - +
176C VAL* 1.3 82.1 - - + +
178C THR* 1.3 58.1 + - - +
180C ALA* 3.1 7.4 - - - +
181C LEU* 2.8 27.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 178 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3C VAL* 3.4 18.8 - - + -
4C SER 5.1 2.6 + - - +
5C ASP* 5.4 4.3 + - - +
57C VAL* 4.0 12.8 - - + +
58C PHE* 4.7 0.4 - - - -
59C HIS* 3.8 22.1 + - + +
91C THR* 4.0 22.7 - - + -
132C LEU* 4.3 9.4 - - - +
174C ASP* 2.8 19.0 + - - +
175C VAL* 3.2 12.9 - - - -
177C VAL* 1.3 73.3 - - - +
179C LYS* 1.3 69.1 + - - +
181C LEU* 2.8 18.6 + - - +
182C LEU* 2.8 12.4 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 179 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3C VAL* 3.8 12.1 - - + +
24C TYR* 3.7 34.5 - - + -
26C TYR* 4.0 12.5 + - - +
31C TYR* 5.2 1.3 - - - +
175C VAL 2.6 18.9 + - - +
176C VAL* 3.7 5.4 - - - +
178C THR* 1.3 73.3 - - - +
180C ALA* 1.3 62.3 + - - +
182C LEU* 3.6 7.7 - - - +
183C GLU* 3.2 23.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 180 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128C TRP* 3.8 21.4 + - + +
176C VAL 2.6 17.9 + - - +
177C VAL* 3.1 15.0 - - - +
179C LYS* 1.3 75.5 - - - +
181C LEU* 1.3 64.2 + - - +
183C GLU* 3.4 5.5 + - - +
184C LYS* 3.2 17.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 181 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59C HIS* 5.2 1.1 - - + -
91C THR* 2.8 29.6 - - - +
95C SER* 4.3 7.2 - - - +
126C GLU* 3.3 26.9 - - - +
128C TRP* 3.5 27.3 - - + -
129C GLY 5.2 0.2 - - - +
132C LEU* 4.9 8.5 - - + -
177C VAL 2.8 12.1 + - - +
178C THR* 2.8 15.6 + - - +
180C ALA* 1.3 68.2 - - - +
182C LEU* 1.3 67.2 + - - +
183C GLU 2.7 2.8 + - - -
184C LYS* 2.7 19.6 + - + +
185C LEU* 3.1 43.4 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 182 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1C MET* 4.2 8.1 - - - -
3C VAL* 3.9 18.2 - - + -
26C TYR* 4.2 17.5 - - + +
57C VAL* 3.7 37.7 - - + -
89C ILE* 4.8 9.4 - - + -
91C THR* 4.5 8.4 + - - -
178C THR 2.8 15.2 + - - +
179C LYS* 3.6 9.9 - - - +
181C LEU* 1.3 75.6 - - - +
183C GLU* 1.3 58.4 + - - +
185C LEU* 3.4 7.1 + - + +
186C LEU* 3.0 50.9 + - + +
199C THR* 5.8 0.7 - - + -
206C PHE* 5.5 2.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 183 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26C TYR* 5.4 4.0 - - - +
179C LYS 3.2 9.0 + - - +
180C ALA* 3.5 9.6 - - - +
181C LEU 2.7 4.6 + - - -
182C LEU* 1.3 74.1 - - - +
184C LYS* 1.3 54.3 + - - +
185C LEU 2.5 15.9 + - - -
186C LEU* 2.7 20.0 + - - -
187C SER* 2.8 15.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 184 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98C ILE* 5.8 1.2 - - - +
128C TRP* 5.5 5.2 - - + +
180C ALA 3.2 9.0 + - - +
181C LEU* 2.7 18.9 + - + +
183C GLU* 1.3 73.8 - - - +
185C LEU* 1.3 64.8 + - + +
187C SER* 2.9 21.7 + - - -
188C ASP* 4.3 3.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 185 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91C THR* 4.0 2.5 - - - +
94C LEU* 3.4 22.4 - - + +
95C SER* 3.3 37.9 - - - +
98C ILE* 3.8 24.4 - - + +
99C HIS* 5.5 8.3 - - + -
126C GLU* 6.0 0.2 - - - +
181C LEU* 3.1 40.7 + - + +
182C LEU* 3.6 9.4 - - + +
183C GLU 2.5 6.1 + - - -
184C LYS* 1.3 81.4 - - + +
186C LEU* 1.3 65.1 + - + +
187C SER 3.0 1.6 - - - -
188C ASP* 3.0 19.3 + - - +
192C PHE* 3.2 15.2 - - + -
----------------------------------------------------------
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
----------------------------------------------------------
1C MET* 5.4 1.1 - - - -
182C LEU* 3.0 44.2 + - + +
183C GLU* 2.7 10.0 + - - +
185C LEU* 1.3 73.6 - - + +
187C SER* 1.3 61.8 + - - +
188C ASP 4.1 0.2 - - - -
192C PHE* 3.0 63.8 - - + +
198C PHE* 3.9 22.7 - - + -
199C THR* 4.0 21.5 - - + +
206C PHE* 3.7 20.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 187 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183C GLU 2.8 12.5 + - - -
184C LYS* 2.9 27.1 + - - -
185C LEU 3.0 0.2 - - - -
186C LEU* 1.3 78.4 - - - +
188C ASP* 1.3 61.2 + - - +
189C LYS* 3.0 7.3 + - - +
192C PHE 4.8 0.7 - - - +
194C PRO* 5.7 2.1 - - - +
----------------------------------------------------------
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