Contacts of the helix formed by residues 158 - 184 (chain C) in PDB entry 3NJ0
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 158 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153C ILE* 4.0 2.9 - - - -
156C GLY 5.3 2.2 - - - +
157C ASN* 1.3 78.3 - - - +
159C GLU* 1.3 61.9 + - - +
160C GLU* 3.4 14.5 + - - +
161C ASP* 3.1 38.4 + - - +
162C THR* 2.9 25.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 159 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31C ASP 5.5 0.7 - - - +
32C PRO* 6.1 2.4 - - - +
34C THR 4.2 8.6 - - - +
35C CYS* 4.2 13.5 - - + -
36C THR 5.2 1.6 + - - -
153C ILE* 3.8 31.1 - - + +
158C THR* 1.3 73.4 - - - +
160C GLU* 1.3 78.2 + - + +
162C THR* 3.3 3.4 + - - -
163C LYS* 2.9 28.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 160 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158C THR* 3.4 20.5 - - - +
159C GLU* 1.3 88.9 + - + +
161C ASP* 1.3 64.4 + - - +
163C LYS* 3.5 8.2 + - - +
164C MET* 2.9 32.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 161 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157C ASN* 5.5 4.0 - - - +
158C THR* 3.1 24.2 + - - +
160C GLU* 1.3 79.4 - - - +
162C THR* 1.3 65.3 + - - +
164C MET* 3.5 24.2 - - - +
165C PHE* 3.0 23.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 162 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C CYS* 4.1 17.0 - - + -
121C LEU* 4.2 18.6 - - + -
151C VAL* 4.2 17.9 - - + -
153C ILE* 3.9 4.8 - - - +
154C PRO* 3.7 9.1 - - + +
157C ASN* 3.2 27.9 + - - +
158C THR 2.9 22.6 + - - -
159C GLU* 3.7 5.6 - - - -
161C ASP* 1.3 76.3 - - - +
163C LYS* 1.3 57.5 + - - +
165C PHE* 3.3 5.8 + - + +
166C VAL* 2.9 31.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 163 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C CYS* 3.4 17.7 - - - -
36C THR 4.0 9.4 - - - +
37C SER* 2.9 20.7 + - - +
149C TYR* 3.6 15.0 - - - +
159C GLU* 2.9 19.2 + - + +
160C GLU* 3.8 7.0 - - - +
162C THR* 1.3 73.1 - - - +
164C MET* 1.3 60.3 + - - +
167C ASP* 2.7 64.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 164 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160C GLU* 2.9 19.8 + - + +
161C ASP* 3.5 31.0 - - + +
162C THR 3.2 0.4 - - - -
163C LYS* 1.3 77.4 - - - +
165C PHE* 1.3 56.0 + - - +
167C ASP* 3.8 4.8 - - - +
168C THR* 2.7 37.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 165 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121C LEU* 3.9 23.6 - - + -
161C ASP 3.0 16.8 + - - +
162C THR* 3.6 4.9 - - - +
164C MET* 1.3 77.3 - - - +
166C VAL* 1.3 67.4 + - + +
168C THR* 3.1 17.8 + - - -
169C VAL* 3.1 23.9 + - + +
191C PEG 3.7 52.3 - - - -
192C GOL 3.8 13.9 - - - -
300C PYV 3.5 22.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 166 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121C LEU* 4.4 8.5 - - + -
124C TYR* 4.0 15.9 - - + -
149C TYR* 3.3 42.2 - - + +
151C VAL* 4.3 19.1 - - + -
162C THR* 2.9 23.2 + - + +
165C PHE* 1.3 81.8 - - + +
167C ASP* 1.3 63.4 + - - +
168C THR 3.2 0.3 + - - -
169C VAL* 3.2 1.9 + - - +
170C VAL* 2.9 27.7 + - + +
300C PYV 3.9 23.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 167 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37C SER* 2.7 17.6 + - - -
39C ILE* 3.5 19.9 - - + +
149C TYR* 2.5 28.1 + - - -
163C LYS* 2.7 53.4 + - - +
164C MET* 3.8 5.1 - - - +
166C VAL* 1.3 71.2 - - - +
168C THR* 1.3 57.9 + - - +
170C VAL* 3.8 0.7 - - - +
171C LYS* 2.9 32.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 168 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164C MET* 2.7 20.8 + - - +
165C PHE* 3.1 12.7 + - - -
167C ASP* 1.3 77.2 - - - +
169C VAL* 1.3 60.7 + - + +
171C LYS* 3.8 4.1 - - - +
172C LEU* 2.9 53.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 169 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65C HIS 5.8 0.4 - - - +
66C PHE* 4.7 16.2 - - + -
165C PHE* 3.1 32.7 + - + +
166C VAL 3.9 0.9 - - - +
168C THR* 1.3 78.3 - - + +
170C VAL* 1.3 59.2 + - - +
172C LEU* 3.3 10.2 + - + +
173C ASN* 3.0 42.5 + - - +
191C PEG 4.5 10.3 - - - -
300C PYV 3.6 50.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 170 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C ILE* 3.7 27.4 - - + -
124C TYR* 3.7 22.4 - - - +
147C GLU* 3.9 31.6 - - + +
149C TYR* 4.1 8.1 - - + -
166C VAL* 2.9 33.5 + - + +
167C ASP 3.9 2.7 - - - +
169C VAL* 1.3 75.8 - - - +
171C LYS* 1.3 62.8 + - - +
173C ASN* 3.2 9.2 + - - +
174C LEU* 3.0 22.8 + - + +
300C PYV 4.5 7.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 171 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C ILE* 3.8 18.3 - - + +
40C THR* 2.8 29.3 + - - +
41C GLN* 3.0 26.7 + - - +
42C ARG 5.2 0.2 - - - +
167C ASP 2.9 21.5 + - - +
168C THR* 3.8 4.5 - - - +
170C VAL* 1.3 73.2 - - - +
172C LEU* 1.3 60.3 + - + +
174C LEU* 3.3 3.6 + - + +
175C GLN* 3.0 47.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 172 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65C HIS* 3.7 27.4 + - + +
66C PHE* 5.4 10.8 - - + -
168C THR* 2.9 42.4 + - + +
169C VAL* 3.6 9.9 - - + +
171C LYS* 1.3 78.6 - - + +
173C ASN* 1.3 58.7 + - - +
175C GLN* 3.2 23.4 + - - +
176C LYS 3.0 22.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 173 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C TYR* 3.1 22.2 - - + +
64C LYS* 3.8 29.7 - - + +
65C HIS* 2.9 35.8 + - - +
147C GLU* 5.9 1.8 - - - +
169C VAL* 3.0 35.9 + - - +
170C VAL* 3.6 8.2 - - - +
172C LEU* 1.3 74.1 - - - +
174C LEU* 1.3 61.2 + - + +
176C LYS* 3.1 2.5 + - - -
177C LEU* 2.8 27.6 + - - +
300C PYV 4.6 12.9 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 174 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C ILE* 3.8 36.6 - - + +
40C THR 4.2 1.1 - - - -
41C GLN* 3.4 39.3 - - + +
43C ILE* 4.2 0.7 - - - +
54C ILE* 6.0 0.2 - - + -
63C TYR* 5.1 6.1 - - + -
128C THR* 5.4 1.6 - - + -
145C VAL* 4.0 24.9 - - + +
147C GLU* 3.7 30.7 - - + +
170C VAL* 3.0 16.0 + - + +
171C LYS* 3.3 7.8 + - - +
173C ASN* 1.3 76.1 - - + +
175C GLN* 1.3 57.6 + - - +
177C LEU* 3.4 16.1 - - + +
178C GLY 3.0 21.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 175 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C GLN* 3.2 25.5 - - - +
171C LYS* 3.0 35.9 + - - +
172C LEU* 3.6 29.2 - - - +
173C ASN 3.1 0.4 - - - -
174C LEU* 1.3 74.8 - - - +
176C LYS* 1.3 59.8 + - - +
178C GLY* 3.1 3.0 + - - +
179C VAL* 3.0 32.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 176 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61C GLU* 2.9 18.6 + - - +
62C ARG 3.7 10.3 - - - +
63C TYR* 3.5 18.8 - - - +
64C LYS 2.9 25.2 + - - +
65C HIS* 3.7 32.5 + - + +
172C LEU 3.0 13.7 + - - +
173C ASN* 3.1 7.8 + - - +
175C GLN* 1.3 73.4 - - - +
177C LEU* 1.3 65.4 + - - +
179C VAL* 3.2 10.3 + - + +
180C ALA* 3.0 22.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 177 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43C ILE* 4.0 13.5 - - + -
50C VAL* 4.0 16.2 - - + +
53C LEU* 3.6 34.8 - - + -
54C ILE* 3.6 32.3 - - + -
63C TYR* 3.6 28.1 - - + +
145C VAL* 4.1 7.6 - - + -
173C ASN 2.8 16.5 + - - +
174C LEU* 3.4 22.2 - - + +
176C LYS* 1.3 73.1 - - - +
178C GLY* 1.3 56.0 + - - +
180C ALA* 3.3 3.3 + - - +
181C ALA* 2.9 28.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 178 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C GLN* 5.5 1.6 - - - -
43C ILE* 3.6 28.9 - - - -
174C LEU 3.0 12.0 + - - -
175C GLN* 3.1 5.6 + - - -
177C LEU* 1.3 76.7 - - - +
179C VAL* 1.3 55.9 + - - +
181C ALA* 3.3 1.2 + - - +
182C THR* 2.9 37.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 179 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175C GLN* 3.0 15.9 + - + +
176C LYS* 3.2 11.6 + - + +
178C GLY* 1.3 71.9 - - - +
180C ALA* 1.3 67.6 + - - +
182C THR* 3.6 5.8 - - - -
183C SER* 2.7 40.5 + - - +
184C ALA* 3.8 0.6 + - + +
----------------------------------------------------------
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
----------------------------------------------------------
53C LEU* 3.8 22.5 - - + +
62C ARG* 4.1 21.4 + - - +
176C LYS* 3.0 12.7 + - + +
177C LEU* 3.6 8.7 - - - +
179C VAL* 1.3 77.1 - - - +
181C ALA* 1.3 59.6 + - - +
184C ALA* 2.9 46.8 + - + +
185C PRO 5.3 0.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 181 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43C ILE* 4.1 7.0 - - + -
45C ALA* 3.6 10.3 - - + +
49C VAL* 3.4 23.5 - - + +
50C VAL* 3.7 32.1 - - + -
53C LEU* 3.8 15.9 - - + +
177C LEU 2.9 17.7 + - - +
178C GLY 3.9 3.6 - - - +
180C ALA* 1.3 76.3 - - - +
182C THR* 1.3 61.3 + - - +
183C SER 3.9 0.2 + - - -
184C ALA 4.9 1.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 182 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43C ILE* 3.9 17.5 - - + -
44C HIS* 3.7 30.1 - - + +
45C ALA* 4.5 2.0 - - - -
178C GLY 2.9 22.3 + - - +
179C VAL* 3.3 11.6 + - - -
181C ALA* 1.3 77.7 - - - +
183C SER* 1.3 63.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 183 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179C VAL* 2.7 31.6 + - - +
181C ALA 3.5 0.6 - - - -
182C THR* 1.3 85.5 + - - +
184C ALA* 1.3 61.2 + - - +
185C PRO* 4.4 2.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 184 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49C VAL* 5.9 1.6 - - - +
62C ARG* 3.5 22.4 - - - +
179C VAL* 4.6 0.9 - - + +
180C ALA* 2.9 30.2 + - + +
181C ALA 5.2 1.9 - - - +
183C SER* 1.3 82.7 + - - +
185C PRO* 1.3 73.7 - - + +
186C MET* 3.6 4.2 + - - +
----------------------------------------------------------
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